Psyllid ID: psy2646

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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-------17
Protein Sequence
MRLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC
Secondary Structure (PSIPRED)
cccccccccEEEEEEccEEEEEEEEEccccccHHHHHHHHHHccccEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcccccccccccHHHHHHHHHHccccEEEccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEEEEEEEEEcccEEEEEEEEEcccHHHHHHHHHHHccccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcHHHHHHccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHcccHHccccccccccccccEEcccccccccccccccc
Coil and Loop (DISEMBL)
mrlllpyqtlqnkkeERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKllvgnkndqtskkAVDYQVAKEYAdhlkipfletsakngaNVEQAFLTMATEIKKRvtkdekpssesdakklnlnsgkpvdaprsggcc
Flexible Loop (DISEMBL)
mrlllpyqtlqnkkeertrtliviwdtagqerfRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLlvgnkndqtskkAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKkrvtkdekpssesdakklnlnsgkpvdaprsggcc
Low Complexity Region (SEG)
MRLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC
Disordered region (IsUnstruct)
*****************TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA***************************************
Disordered Region (DISOPRED)
*RLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI*******************************SGGCC
Disordered Region (DISEMBL)
MRLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK***************KLNLNS*************
Disordered Region (DISPRO)
MRLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT*******************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC
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	168	2.2.26 [Sep-21-2011]
Q05974	205	Ras-related protein Rab-1	N/A	N/A	0.815	0.668	0.7	4e-55
P22125	202	Ras-related protein ORAB-	N/A	N/A	0.845	0.702	0.710	4e-53
Q9D1G1	201	Ras-related protein Rab-1	yes	N/A	0.839	0.701	0.682	1e-52
Q39571	203	GTP-binding protein YPTC1	N/A	N/A	0.851	0.704	0.675	1e-52
Q5RE13	201	Ras-related protein Rab-1	yes	N/A	0.839	0.701	0.682	2e-52
Q9H0U4	201	Ras-related protein Rab-1	yes	N/A	0.839	0.701	0.682	2e-52
P34139	202	Ras-related protein Rab-1	yes	N/A	0.845	0.702	0.668	5e-52
Q6NYB7	205	Ras-related protein Rab-1	no	N/A	0.845	0.692	0.682	7e-52
P62821	205	Ras-related protein Rab-1	no	N/A	0.845	0.692	0.682	7e-52
P62820	205	Ras-related protein Rab-1	no	N/A	0.845	0.692	0.682	7e-52

>sp|Q05974|RAB1A_LYMST Ras-related protein Rab-1A OS=Lymnaea stagnalis GN=RAB1A PE=2 SV=1

 Score =  213 bits (542), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 105/150 (70%), Positives = 117/150 (78%), Gaps = 13/150 (8%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 64  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 123

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV-----TK 138
           NK+D T+KK VD+  AKEYAD L IPFLETSAKN  NVEQAF+TMA EIK R+       
Sbjct: 124 NKSDLTTKKVVDFTTAKEYADQLGIPFLETSAKNATNVEQAFMTMAAEIKNRMGPITAAS 183

Query: 139 DEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
           D KPS       + +NS  PV A + GGCC
Sbjct: 184 DSKPS-------VKINSSTPVSANK-GGCC 205

Probably required for transit of protein from the ER through Golgi compartment.
Lymnaea stagnalis (taxid: 6523)

>sp|P22125|RAB1_DIPOM Ras-related protein ORAB-1 OS=Diplobatis ommata PE=2 SV=1

 Score =  206 bits (525), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 103/145 (71%), Positives = 115/145 (79%), Gaps = 3/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 61  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 120

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQAF+TMA EIKKR+      S
Sbjct: 121 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRMGPG-ATS 179

Query: 144 SESDAKKLNLNSGKPVDAPRSGGCC 168
             S+   +N+ S  PV +   GGCC
Sbjct: 180 GGSEKSNVNIQS-TPVKSS-GGGCC 202

Protein transport. Probably involved in vesicular traffic.

Discopyge ommata (taxid: 7785)

>sp|Q9D1G1|RAB1B_MOUSE Ras-related protein Rab-1B OS=Mus musculus GN=Rab1b PE=1 SV=1

 Score =  205 bits (522), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 99/145 (68%), Positives = 113/145 (77%), Gaps = 4/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE++ N+KQWL+EIDRYA +NVNKLLVG
Sbjct: 61  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVG 120

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D T+KK VD   AKE+AD L +PFLETSAKN  NVEQAF+TMA EIKKR+     P 
Sbjct: 121 NKSDLTTKKVVDNTTAKEFADSLGVPFLETSAKNATNVEQAFMTMAAEIKKRM----GPG 176

Query: 144 SESDAKKLNLNSGKPVDAPRSGGCC 168
           + S  ++ NL        P SGGCC
Sbjct: 177 AASGGERPNLKIDSTPVKPASGGCC 201

Protein transport. Regulates vesicular transport between the endoplasmic reticulum and successive Golgi compartments.

Mus musculus (taxid: 10090)

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

 Score =  205 bits (522), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 98/145 (67%), Positives = 115/145 (79%), Gaps = 2/145 (1%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL EIDRYA +NVNKLLVG
Sbjct: 61  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVG 120

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D TSKK V+Y VAK +AD + IPFLETSAKN  NVEQAF+TMA EIK R+     P 
Sbjct: 121 NKSDLTSKKVVEYSVAKAFADEIGIPFLETSAKNATNVEQAFMTMAAEIKNRMASQPIP- 179

Query: 144 SESDAKKLNLNSGKPVDAPRSGGCC 168
           +++    +    GKP+++ +S  CC
Sbjct: 180 TKAGGPVVRPQEGKPINS-KSSSCC 203

Protein transport. Probably involved in vesicular traffic.

Chlamydomonas reinhardtii (taxid: 3055)

>sp|Q5RE13|RAB1B_PONAB Ras-related protein Rab-1B OS=Pongo abelii GN=RAB1B PE=2 SV=1

 Score =  204 bits (519), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 99/145 (68%), Positives = 112/145 (77%), Gaps = 4/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE++ N+KQWL+EIDRYA +NVNKLLVG
Sbjct: 61  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVG 120

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D T+KK VD   AKE+AD L IPFLETSAKN  NVEQAF+TMA EIKKR+     P 
Sbjct: 121 NKSDLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRM----GPG 176

Query: 144 SESDAKKLNLNSGKPVDAPRSGGCC 168
           + S  ++ NL        P  GGCC
Sbjct: 177 AASGGERPNLKIDSTPVKPAGGGCC 201

Protein transport. Regulates vesicular transport between the endoplasmic reticulum and successive Golgi compartments.

Pongo abelii (taxid: 9601)

>sp|Q9H0U4|RAB1B_HUMAN Ras-related protein Rab-1B OS=Homo sapiens GN=RAB1B PE=1 SV=1

 Score =  204 bits (519), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 99/145 (68%), Positives = 112/145 (77%), Gaps = 4/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE++ N+KQWL+EIDRYA +NVNKLLVG
Sbjct: 61  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVG 120

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D T+KK VD   AKE+AD L IPFLETSAKN  NVEQAF+TMA EIKKR+     P 
Sbjct: 121 NKSDLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRM----GPG 176

Query: 144 SESDAKKLNLNSGKPVDAPRSGGCC 168
           + S  ++ NL        P  GGCC
Sbjct: 177 AASGGERPNLKIDSTPVKPAGGGCC 201

Protein transport. Regulates vesicular transport between the endoplasmic reticulum and successive Golgi compartments.

Homo sapiens (taxid: 9606)

>sp|P34139|RAB1A_DICDI Ras-related protein Rab-1A OS=Dictyostelium discoideum GN=rab1A PE=2 SV=2

 Score =  203 bits (516), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 97/145 (66%), Positives = 116/145 (80%), Gaps = 3/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TD+ TF N++QWL+EIDR+AC+NVNKLLVG
Sbjct: 61  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDKLTFENVRQWLQEIDRFACENVNKLLVG 120

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D  +KK VD+  AK +AD L+IPFLETSAK   NVEQAF+TMATEIK R+T  + P+
Sbjct: 121 NKSDLVAKKVVDFNTAKAFADSLQIPFLETSAKQSTNVEQAFMTMATEIKNRLTASQ-PT 179

Query: 144 SESDAKKLNLNSGKPVDAPRSGGCC 168
              D  K+   S  P+ +P+S GCC
Sbjct: 180 QTVDKNKVVPGSSAPI-SPKS-GCC 202

Dictyostelium discoideum (taxid: 44689)

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

 Score =  202 bits (515), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 99/145 (68%), Positives = 112/145 (77%), Gaps = 3/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 64  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 123

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+      +
Sbjct: 124 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPG---A 180

Query: 144 SESDAKKLNLNSGKPVDAPRSGGCC 168
           +   A+K N+           GGCC
Sbjct: 181 TAGGAEKSNVKIQSTPVKQSGGGCC 205

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

Rattus norvegicus (taxid: 10116)

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

 Score =  202 bits (515), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 99/145 (68%), Positives = 112/145 (77%), Gaps = 3/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 64  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 123

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+      +
Sbjct: 124 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPG---A 180

Query: 144 SESDAKKLNLNSGKPVDAPRSGGCC 168
           +   A+K N+           GGCC
Sbjct: 181 TAGGAEKSNVKIQSTPVKQSGGGCC 205

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

Mus musculus (taxid: 10090)

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

 Score =  202 bits (515), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 99/145 (68%), Positives = 112/145 (77%), Gaps = 3/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 64  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 123

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+      +
Sbjct: 124 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPG---A 180

Query: 144 SESDAKKLNLNSGKPVDAPRSGGCC 168
           +   A+K N+           GGCC
Sbjct: 181 TAGGAEKSNVKIQSTPVKQSGGGCC 205

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

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	168
91087113	202	PREDICTED: similar to Rab-protein 1 CG33	0.839	0.698	0.744	1e-57
307198018	206	Ras-related protein Rab-1A [Harpegnathos	0.851	0.694	0.736	2e-56
332027975	208	Ras-related protein Rab-1A [Acromyrmex e	0.851	0.687	0.736	4e-56
307187151	208	Ras-related protein Rab-1A [Camponotus f	0.851	0.687	0.736	5e-56
322786717	206	hypothetical protein SINV_00792 [Solenop	0.851	0.694	0.736	5e-56
340713998	206	PREDICTED: ras-related protein Rab-1A-li	0.851	0.694	0.736	7e-56
195053856	205	GH18937 [Drosophila grimshawi] gi|193895	0.839	0.687	0.724	3e-55
125773595	205	GA17362 [Drosophila pseudoobscura pseudo	0.839	0.687	0.724	4e-55
195113911	205	GI10837 [Drosophila mojavensis] gi|19391	0.839	0.687	0.724	8e-55
194741692	205	GF17263 [Drosophila ananassae] gi|190626	0.839	0.687	0.724	9e-55

>gi|91087113|ref|XP_975150.1| PREDICTED: similar to Rab-protein 1 CG3320-PA [Tribolium castaneum] gi|270010550|gb|EFA06998.1| hypothetical protein TcasGA2_TC009965 [Tribolium castaneum]

 Score =  227 bits (579), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 108/145 (74%), Positives = 123/145 (84%), Gaps = 4/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ++FNN+KQWLEEIDRYACDNVNKLLVG
Sbjct: 61  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQDSFNNVKQWLEEIDRYACDNVNKLLVG 120

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D T+KK VDY  AKEYAD L IPFLETSAKN +NVEQAF+TMA EIK RV     PS
Sbjct: 121 NKSDLTTKKVVDYTTAKEYADQLGIPFLETSAKNASNVEQAFMTMAAEIKNRVG---PPS 177

Query: 144 SESD-AKKLNLNSGKPVDAPRSGGC 167
           S +D A K+ ++ G+P++  +SG C
Sbjct: 178 SAADQASKVKIDQGRPIETTKSGCC 202

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307198018|gb|EFN79078.1| Ras-related protein Rab-1A [Harpegnathos saltator]

 Score =  223 bits (569), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 106/144 (73%), Positives = 119/144 (82%), Gaps = 1/144 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN+KQWLEEIDRYACDNVNKLLVG
Sbjct: 64  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNVKQWLEEIDRYACDNVNKLLVG 123

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK D  +KK VDY +AKEYAD L IPFLETSAKN  NVEQAF+TMA EIK RV      +
Sbjct: 124 NKCDLHTKKVVDYTIAKEYADQLGIPFLETSAKNAMNVEQAFMTMAAEIKLRVGPPSSGA 183

Query: 144 SESDAKKLNLNSGKPVDAPRSGGC 167
           S+  A K+ +  G+P+++ +SG C
Sbjct: 184 SDP-ANKVKIEHGRPIESSKSGCC 206

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332027975|gb|EGI68026.1| Ras-related protein Rab-1A [Acromyrmex echinatior]

 Score =  222 bits (566), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 106/144 (73%), Positives = 118/144 (81%), Gaps = 1/144 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN+KQWLEEIDRYACDNVNKLLVG
Sbjct: 66  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNVKQWLEEIDRYACDNVNKLLVG 125

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK D  +KK VDY  AKEYAD L IPFLETSAKN  NVEQAF+TMA EIK RV      +
Sbjct: 126 NKCDLHTKKVVDYTTAKEYADQLGIPFLETSAKNAMNVEQAFMTMAAEIKLRVGPPSSGA 185

Query: 144 SESDAKKLNLNSGKPVDAPRSGGC 167
           S+  A K+ +  G+P+++ +SG C
Sbjct: 186 SDP-ANKVKIEHGRPIESSKSGCC 208

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307187151|gb|EFN72394.1| Ras-related protein Rab-1A [Camponotus floridanus]

 Score =  222 bits (565), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 106/144 (73%), Positives = 118/144 (81%), Gaps = 1/144 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN+KQWLEEIDRYACDNVNKLLVG
Sbjct: 66  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNVKQWLEEIDRYACDNVNKLLVG 125

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK D  +KK VDY  AKEYAD L IPFLETSAKN  NVEQAF+TMA EIK RV      +
Sbjct: 126 NKCDLHTKKVVDYTTAKEYADQLGIPFLETSAKNAMNVEQAFMTMAAEIKLRVGPPSSGA 185

Query: 144 SESDAKKLNLNSGKPVDAPRSGGC 167
           S+  A K+ +  G+P+++ +SG C
Sbjct: 186 SDP-ANKVKIEHGRPIESSKSGCC 208

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322786717|gb|EFZ13086.1| hypothetical protein SINV_00792 [Solenopsis invicta]

 Score =  222 bits (565), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 106/144 (73%), Positives = 118/144 (81%), Gaps = 1/144 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN+KQWLEEIDRYACDNVNKLLVG
Sbjct: 64  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNVKQWLEEIDRYACDNVNKLLVG 123

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK D  +KK VDY  AKEYAD L IPFLETSAKN  NVEQAF+TMA EIK RV      +
Sbjct: 124 NKCDLHTKKVVDYTTAKEYADQLGIPFLETSAKNAMNVEQAFMTMAAEIKLRVGPPSSGA 183

Query: 144 SESDAKKLNLNSGKPVDAPRSGGC 167
           S+  A K+ +  G+P+++ +SG C
Sbjct: 184 SDP-ANKVKIEHGRPIESSKSGCC 206

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340713998|ref|XP_003395520.1| PREDICTED: ras-related protein Rab-1A-like [Bombus terrestris] gi|350418865|ref|XP_003491994.1| PREDICTED: ras-related protein Rab-1A-like [Bombus impatiens] gi|380024902|ref|XP_003696227.1| PREDICTED: ras-related protein Rab-1A-like [Apis florea]

 Score =  221 bits (563), Expect = 7e-56,   Method: Compositional matrix adjust.
 Identities = 106/144 (73%), Positives = 118/144 (81%), Gaps = 1/144 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN+KQWLEEIDRYACDNVNKLLVG
Sbjct: 64  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNVKQWLEEIDRYACDNVNKLLVG 123

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK D  +KK VDY  AKEYAD L IPFLETSAKN  NVEQAF+TMA EIK RV      +
Sbjct: 124 NKCDLHTKKVVDYTTAKEYADQLGIPFLETSAKNAMNVEQAFMTMAAEIKLRVGPPSSGN 183

Query: 144 SESDAKKLNLNSGKPVDAPRSGGC 167
           S+  A K+ +  G+P+++ +SG C
Sbjct: 184 SDP-ANKVKIEHGRPIESSKSGCC 206

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195053856|ref|XP_001993842.1| GH18937 [Drosophila grimshawi] gi|193895712|gb|EDV94578.1| GH18937 [Drosophila grimshawi]

 Score =  219 bits (558), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 105/145 (72%), Positives = 122/145 (84%), Gaps = 4/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE+FNN+KQWLEEI+RYAC+NVNKLLVG
Sbjct: 64  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQESFNNVKQWLEEIERYACENVNKLLVG 123

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D T+KK VD+ +A EYA+ L IPFLETSAK+  NVEQAF+TMA EIK RV     PS
Sbjct: 124 NKSDLTTKKVVDHTIAAEYANQLGIPFLETSAKSATNVEQAFMTMAAEIKNRVG---PPS 180

Query: 144 SESD-AKKLNLNSGKPVDAPRSGGC 167
           S +D A K+ ++ G+PV+  RSG C
Sbjct: 181 SATDNASKVKIDQGRPVENNRSGCC 205

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|125773595|ref|XP_001358056.1| GA17362 [Drosophila pseudoobscura pseudoobscura] gi|195166166|ref|XP_002023906.1| GL27164 [Drosophila persimilis] gi|54637791|gb|EAL27193.1| GA17362 [Drosophila pseudoobscura pseudoobscura] gi|194106066|gb|EDW28109.1| GL27164 [Drosophila persimilis]

 Score =  219 bits (557), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 105/145 (72%), Positives = 120/145 (82%), Gaps = 4/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE+FNN+KQWLEEI+RYAC+NVNKLLVG
Sbjct: 64  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQESFNNVKQWLEEIERYACENVNKLLVG 123

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D T+KK VD+  A EYA  L IPFLETSAK+  NVEQAF+TMA EIK RV     PS
Sbjct: 124 NKSDLTTKKVVDHTTAAEYAAQLGIPFLETSAKSATNVEQAFMTMAAEIKNRVG---PPS 180

Query: 144 SESD-AKKLNLNSGKPVDAPRSGGC 167
           S +D A K+ ++ G+PV+ P SG C
Sbjct: 181 SATDNASKVKIDQGRPVEKPNSGCC 205

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195113911|ref|XP_002001511.1| GI10837 [Drosophila mojavensis] gi|193918105|gb|EDW16972.1| GI10837 [Drosophila mojavensis]

 Score =  218 bits (555), Expect = 8e-55,   Method: Compositional matrix adjust.
 Identities = 105/145 (72%), Positives = 120/145 (82%), Gaps = 4/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE+FNN+KQWLEEI+RYAC+NVNKLLVG
Sbjct: 64  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQESFNNVKQWLEEIERYACENVNKLLVG 123

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D T+KK VD+  A EYA  L IPFLETSAK+  NVEQAF+TMA EIK RV     PS
Sbjct: 124 NKSDLTTKKVVDHTTAAEYAHQLGIPFLETSAKSATNVEQAFMTMAAEIKNRVG---PPS 180

Query: 144 SESD-AKKLNLNSGKPVDAPRSGGC 167
           S +D A K+ ++ G+PV+  RSG C
Sbjct: 181 SATDNASKVKIDQGRPVENTRSGCC 205

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194741692|ref|XP_001953321.1| GF17263 [Drosophila ananassae] gi|190626380|gb|EDV41904.1| GF17263 [Drosophila ananassae]

 Score =  218 bits (554), Expect = 9e-55,   Method: Compositional matrix adjust.
 Identities = 105/145 (72%), Positives = 120/145 (82%), Gaps = 4/145 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE+FNN+KQWLEEI+RYAC+NVNKLLVG
Sbjct: 64  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQESFNNVKQWLEEIERYACENVNKLLVG 123

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D T+KK VD+  A EYA  L IPFLETSAK+  NVEQAF+TMA EIK RV     PS
Sbjct: 124 NKSDLTTKKVVDHTTAAEYAAQLGIPFLETSAKSATNVEQAFMTMAAEIKNRVG---PPS 180

Query: 144 SESD-AKKLNLNSGKPVDAPRSGGC 167
           S +D A K+ ++ G+PV+  RSG C
Sbjct: 181 SATDNASKVKIDQGRPVENTRSGCC 205

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

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	168
FB|FBgn0016700	205	Rab1 "Rab1" [Drosophila melano	0.839	0.687	0.719	9.2e-52
ZFIN|ZDB-GENE-090312-110	201	si:ch73-131e21.5 "si:ch73-131e	0.833	0.696	0.712	2e-49
ZFIN|ZDB-GENE-030616-564	201	rab1a "RAB1A, member RAS oncog	0.839	0.701	0.710	3.2e-49
WB|WBGene00004266	205	rab-1 [Caenorhabditis elegans	0.845	0.692	0.682	8.5e-49
UNIPROTKB|F1NNL7	205	RAB1A "Uncharacterized protein	0.839	0.687	0.698	2.3e-48
ZFIN|ZDB-GENE-040426-873	201	rab1ba "zRAB1B, member RAS onc	0.833	0.696	0.698	2.3e-48
ZFIN|ZDB-GENE-040625-133	201	rab1bb "RAB1B, member RAS onco	0.833	0.696	0.691	2.3e-48
MGI|MGI:1923558	201	Rab1b "RAB1B, member RAS oncog	0.833	0.696	0.691	2.9e-48
DICTYBASE|DDB_G0283757	202	rab1A "Rab GTPase" [Dictyostel	0.845	0.702	0.668	3.7e-48
UNIPROTKB|A1L528	205	RAB1A "RAB1A, member RAS oncog	0.839	0.687	0.691	6e-48

FB|FBgn0016700 Rab1 "Rab1" [Drosophila melanogaster (taxid:7227)]

 Score = 537 (194.1 bits), Expect = 9.2e-52, P = 9.2e-52
 Identities = 105/146 (71%), Positives = 121/146 (82%)

Query:    24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
             IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE+FNN+KQWLEEI+RYAC+NVNKLLVG
Sbjct:    64 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQESFNNVKQWLEEIERYACENVNKLLVG 123

Query:    84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
             NK+D T+KK VD+  A EYA  L IPFLETSAK+  NVEQAF+TMA EIK RV     PS
Sbjct:   124 NKSDLTTKKVVDHTTAAEYAAQLGIPFLETSAKSATNVEQAFMTMAAEIKNRVGP---PS 180

Query:   144 SESD-AKKLNLNSGKPVDAPRSGGCC 168
             S +D A K+ ++ G+PV+  +SG CC
Sbjct:   181 SATDNASKVKIDQGRPVENTKSG-CC 205

GO:0003924 "GTPase activity" evidence=ISS

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=TAS

GO:0008360 "regulation of cell shape" evidence=IMP

GO:0007015 "actin filament organization" evidence=IMP

GO:0007155 "cell adhesion" evidence=IMP

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

GO:0005525 "GTP binding" evidence=IEA

GO:0005811 "lipid particle" evidence=IDA

GO:0050774 "negative regulation of dendrite morphogenesis" evidence=IMP

GO:0031982 "vesicle" evidence=ISS

GO:0009306 "protein secretion" evidence=IMP

GO:0030334 "regulation of cell migration" evidence=IMP

ZFIN|ZDB-GENE-090312-110 si:ch73-131e21.5 "si:ch73-131e21.5" [Danio rerio (taxid:7955)]

 Score = 515 (186.3 bits), Expect = 2.0e-49, P = 2.0e-49
 Identities = 104/146 (71%), Positives = 116/146 (79%)

Query:    24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
             IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct:    61 IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 120

Query:    84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
             NK D T+KK VDY  AKE+AD L IPFLETSAK+  NVEQAF+TMA EIKKR+     P 
Sbjct:   121 NKCDLTTKKVVDYTAAKEFADSLSIPFLETSAKSSTNVEQAFMTMAAEIKKRMG----PG 176

Query:   144 SESDAKKLNLN-SGKPVDAPRSGGCC 168
             + + A+K NL     PV    SGGCC
Sbjct:   177 ATAGAEKSNLKIHSTPVKTS-SGGCC 201

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

ZFIN|ZDB-GENE-030616-564 rab1a "RAB1A, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 513 (185.6 bits), Expect = 3.2e-49, P = 3.2e-49
 Identities = 103/145 (71%), Positives = 115/145 (79%)

Query:    24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
             IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct:    61 IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 120

Query:    84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
             NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQAF+TMA EIKKR+      +
Sbjct:   121 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRMGPGA--T 178

Query:   144 SESDAKKLNLNSGKPVDAPRSGGCC 168
             +    K + + S  PV  P SGGCC
Sbjct:   179 AGGSEKTMKIES-TPVK-PASGGCC 201

GO:0005525 "GTP binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

WB|WBGene00004266 rab-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 509 (184.2 bits), Expect = 8.5e-49, P = 8.5e-49
 Identities = 99/145 (68%), Positives = 115/145 (79%)

Query:    24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
             IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQETFNN+KQWL+EIDRYAC+NVNKLLVG
Sbjct:    64 IWDTAGQERFRTITSSYYRGAHGIIVVYDITDQETFNNVKQWLQEIDRYACENVNKLLVG 123

Query:    84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
             NK D T+K+AV+ Q A++YA  L IPFLETSAK+  NVEQAFLTMA+EIK R+   +   
Sbjct:   124 NKCDLTAKRAVETQAAQDYAGQLGIPFLETSAKSSTNVEQAFLTMASEIKSRMGPVQ--- 180

Query:   144 SESDAKKLNLNSGKPVDAPRSGGCC 168
                 A  + +   +PV   +SGGCC
Sbjct:   181 GAGGAPGVRITGSQPVQDKKSGGCC 205

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0008340 "determination of adult lifespan" evidence=IMP

GO:0040011 "locomotion" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0018996 "molting cycle, collagen and cuticulin-based cuticle" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

GO:0048477 "oogenesis" evidence=IMP

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0006915 "apoptotic process" evidence=IMP

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

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/146 (69%), Positives = 115/146 (78%)

Query:    24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
             IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct:    64 IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 123

Query:    84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
             NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+      +
Sbjct:   124 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPG---A 180

Query:   144 SESDAKKLNLN-SGKPVDAPRSGGCC 168
             +   A+K N+     PV    SGGCC
Sbjct:   181 TAGGAEKSNVKIQSTPVKQS-SGGCC 205

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

ZFIN|ZDB-GENE-040426-873 rab1ba "zRAB1B, member RAS oncogene family a" [Danio rerio (taxid:7955)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/146 (69%), Positives = 113/146 (77%)

Query:    24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
             IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE++NN+KQWL+EIDRYA +NVNKLLVG
Sbjct:    61 IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYNNVKQWLQEIDRYASENVNKLLVG 120

Query:    84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
             NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQAF+TMA EIKKR+     P 
Sbjct:   121 NKCDLTTKKVVDYTTAKEFADSLAIPFLETSAKNATNVEQAFMTMAAEIKKRMG----PG 176

Query:   144 SESDAKKLNLN-SGKPVDAPRSGGCC 168
             + +   K NL     PV     GGCC
Sbjct:   177 ATTGGDKPNLKIESTPV-RQSGGGCC 201

GO:0005525 "GTP binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-040625-133 rab1bb "RAB1B, member RAS oncogene family b" [Danio rerio (taxid:7955)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 101/146 (69%), Positives = 115/146 (78%)

Query:    24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
             IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE++NN+KQWL+EIDRYA +NVNKLLVG
Sbjct:    61 IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYNNVKQWLKEIDRYASENVNKLLVG 120

Query:    84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
             NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQAF+TMA EIKKR+    +P 
Sbjct:   121 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAEEIKKRM----RPG 176

Query:   144 SESDAKKLNLN-SGKPVDAPRSGGCC 168
             +   ++K +L     PV     GGCC
Sbjct:   177 ASGGSEKPDLKIESTPVQQS-GGGCC 201

GO:0005525 "GTP binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

MGI|MGI:1923558 Rab1b "RAB1B, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 504 (182.5 bits), Expect = 2.9e-48, P = 2.9e-48
 Identities = 101/146 (69%), Positives = 115/146 (78%)

Query:    24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
             IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE++ N+KQWL+EIDRYA +NVNKLLVG
Sbjct:    61 IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVG 120

Query:    84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
             NK+D T+KK VD   AKE+AD L +PFLETSAKN  NVEQAF+TMA EIKKR+     P 
Sbjct:   121 NKSDLTTKKVVDNTTAKEFADSLGVPFLETSAKNATNVEQAFMTMAAEIKKRMG----PG 176

Query:   144 SESDAKKLNLN-SGKPVDAPRSGGCC 168
             + S  ++ NL     PV  P SGGCC
Sbjct:   177 AASGGERPNLKIDSTPVK-PASGGCC 201

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0006810 "transport" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

DICTYBASE|DDB_G0283757 rab1A "Rab GTPase" [Dictyostelium discoideum (taxid:44689)]

 Score = 503 (182.1 bits), Expect = 3.7e-48, P = 3.7e-48
 Identities = 97/145 (66%), Positives = 116/145 (80%)

Query:    24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
             IWDTAGQERFRTITSSYYRGAHGIIVVYD TD+ TF N++QWL+EIDR+AC+NVNKLLVG
Sbjct:    61 IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDKLTFENVRQWLQEIDRFACENVNKLLVG 120

Query:    84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
             NK+D  +KK VD+  AK +AD L+IPFLETSAK   NVEQAF+TMATEIK R+T  + P+
Sbjct:   121 NKSDLVAKKVVDFNTAKAFADSLQIPFLETSAKQSTNVEQAFMTMATEIKNRLTASQ-PT 179

Query:   144 SESDAKKLNLNSGKPVDAPRSGGCC 168
                D  K+   S  P+ +P+SG CC
Sbjct:   180 QTVDKNKVVPGSSAPI-SPKSG-CC 202

GO:0015031 "protein transport" evidence=IEA

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

GO:0005525 "GTP binding" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

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

 Score = 501 (181.4 bits), Expect = 6.0e-48, P = 6.0e-48
 Identities = 101/146 (69%), Positives = 114/146 (78%)

Query:    24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
             IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct:    64 IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 123

Query:    84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
             NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+      +
Sbjct:   124 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPG---A 180

Query:   144 SESDAKKLNLN-SGKPVDAPRSGGCC 168
             +   A+K N+     PV     GGCC
Sbjct:   181 TAGGAEKSNVKIQSTPVKQS-GGGCC 205

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

---

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)
Q9TVU5	RAB1_THEPA	No assigned EC number	0.4580	0.8988	0.6863	yes	N/A
Q9D1G1	RAB1B_MOUSE	No assigned EC number	0.6827	0.8392	0.7014	yes	N/A
Q92928	RAB1C_HUMAN	No assigned EC number	0.6482	0.8392	0.7014	yes	N/A
P28188	RAD2A_ARATH	No assigned EC number	0.6068	0.8392	0.6945	yes	N/A
Q9H0U4	RAB1B_HUMAN	No assigned EC number	0.6827	0.8392	0.7014	yes	N/A
P11620	YPT1_SCHPO	No assigned EC number	0.6344	0.8511	0.7044	yes	N/A
P01123	YPT1_YEAST	No assigned EC number	0.5878	0.8511	0.6941	yes	N/A
Q4UB16	RAB1_THEAN	No assigned EC number	0.4640	0.875	0.6681	yes	N/A
Q5RE13	RAB1B_PONAB	No assigned EC number	0.6827	0.8392	0.7014	yes	N/A
P34139	RAB1A_DICDI	No assigned EC number	0.6689	0.8452	0.7029	yes	N/A
P22125	RAB1_DIPOM	No assigned EC number	0.7103	0.8452	0.7029	N/A	N/A
Q2HJH2	RAB1B_BOVIN	No assigned EC number	0.6758	0.8392	0.7014	yes	N/A
Q52NJ2	RAB1A_PIG	No assigned EC number	0.6758	0.8452	0.6926	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	168
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	6e-77
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	2e-60
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	6e-60
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	1e-57
pfam00071	162	pfam00071, Ras, Ras family	7e-56
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	3e-47
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	1e-44
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	7e-44
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	3e-43
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	5e-41
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	1e-39
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	2e-39
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	7e-39
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	6e-37
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	8e-37
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	2e-36
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	1e-35
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	3e-35
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	3e-35
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	3e-35
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	3e-34
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	2e-33
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	2e-33
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	3e-32
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	5e-31
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	6e-31
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	7e-29
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	3e-27
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	2e-24
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	5e-24
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	1e-23
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	4e-23
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	5e-23
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	5e-23
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	5e-23
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	7e-23
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	2e-22
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	2e-22
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	1e-21
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	1e-21
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	2e-21
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	5e-21
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	8e-21
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	6e-20
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	1e-19
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	1e-19
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	2e-19
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	5e-19
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	5e-19
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	5e-18
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	3e-17
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	1e-16
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	5e-16
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	2e-15
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	3e-15
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	9e-15
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	1e-14
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	3e-14
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	6e-14
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	9e-14
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	1e-13
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	2e-13
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	6e-13
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	6e-12
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	1e-11
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	6e-11
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	6e-11
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	1e-10
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	2e-10
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	4e-10
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	7e-09
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	3e-08
pfam08477	116	pfam08477, Miro, Miro-like protein	3e-08
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	4e-08
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	5e-08
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	9e-08
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	2e-07
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	6e-07
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	1e-06
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	1e-06
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	2e-06
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	2e-06
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	3e-06
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	4e-06
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	5e-06
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	5e-06
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	6e-06
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	2e-05
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	2e-05
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	3e-05
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	4e-05
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	6e-05
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	8e-05
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	9e-05
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	9e-05
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	1e-04
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	1e-04
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	7e-04
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	0.001
PRK05291	449	PRK05291, trmE, tRNA modification GTPase TrmE; Rev	0.002
cd04163	168	cd04163, Era, E	0.004

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

 Score =  226 bits (578), Expect = 6e-77
 Identities = 91/112 (81%), Positives = 99/112 (88%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGII+VYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 55  IWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 114

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           NK D T KK VDY  AKE+AD L IPFLETSAKN  NVE+AF+TMA EIKKR
Sbjct: 115 NKCDLTDKKVVDYTEAKEFADELGIPFLETSAKNATNVEEAFMTMAREIKKR 166

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

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

 Score =  184 bits (469), Expect = 2e-60
 Identities = 65/127 (51%), Positives = 88/127 (69%), Gaps = 8/127 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           +T+T+ V        IWDTAGQERFR+ITSSYYRGA G ++VYD T++E+F NL+ WL+E
Sbjct: 38  KTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFENLENWLKE 97

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           +  YA  NV  +LVGNK+D   ++ V  + A+ +A+   +PF ETSAK   NVE+AF  +
Sbjct: 98  LREYASPNVVIMLVGNKSDLEEQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEEL 157

Query: 129 ATEIKKR 135
           A EI KR
Sbjct: 158 AREILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  183 bits (466), Expect = 6e-60
 Identities = 63/112 (56%), Positives = 82/112 (73%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTIT+SYYRGA GII+VYD TD+++F N+K W+  ID +A ++V ++LVG
Sbjct: 56  IWDTAGQERFRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVG 115

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           NK D   K+ V  +  +  A    I FLETSAK   NVE+AFLT+A +I K+
Sbjct: 116 NKCDMEEKRVVSKEEGEALAREYGIKFLETSAKANINVEEAFLTLAKDILKK 167

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

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

 Score =  177 bits (451), Expect = 1e-57
 Identities = 58/107 (54%), Positives = 79/107 (73%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFR+ITSSYYRGAHG I+VYD T++E+F NL +WL E+  YA  N+  +LVG
Sbjct: 53  IWDTAGQERFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVG 112

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMAT 130
           NK+D   ++ V  + A+++A    + F ETSAK G NV++AF ++A 
Sbjct: 113 NKSDLEDERQVSTEEAQQFAKENGLLFFETSAKTGENVDEAFESLAR 159

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

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

 Score =  172 bits (439), Expect = 7e-56
 Identities = 58/111 (52%), Positives = 77/111 (69%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFR +   YYRGA G ++VYD T +++F N+K+WLEEI R+A +NV  +LVG
Sbjct: 52  IWDTAGQERFRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVG 111

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D   ++ V  +  +  A  L +PF+ETSAK   NVE+AF  +A EI K
Sbjct: 112 NKCDLEDQRVVSTEEGEALAKELGLPFMETSAKTNENVEEAFEELAREILK 162

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

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

 Score =  150 bits (382), Expect = 3e-47
 Identities = 59/123 (47%), Positives = 84/123 (68%), Gaps = 8/123 (6%)

Query: 18  TRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI 69
           TRT+ +        IWDTAGQER+R ITS+YYRGA G ++VYD T + TF N+++WL+E+
Sbjct: 42  TRTIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKEL 101

Query: 70  DRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA 129
             +A  N+  +LVGNK+D    +AV  + AK +A+   + F+ETSA +G NVE+AF  + 
Sbjct: 102 RDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLL 161

Query: 130 TEI 132
           TEI
Sbjct: 162 TEI 164

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

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

 Score =  143 bits (364), Expect = 1e-44
 Identities = 55/116 (47%), Positives = 79/116 (68%), Gaps = 2/116 (1%)

Query: 18  TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC-DN 76
            +  + IWDTAGQERFRT+TSSYYRGA G+I+VYD T ++TF+NL  WL E+D Y+   +
Sbjct: 47  KKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPD 106

Query: 77  VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
             K+LVGNK D+ + + V  +  +++A    + F+ETSAK    V+QAF  +  +I
Sbjct: 107 AVKMLVGNKIDKEN-REVTREEGQKFARKHNMLFIETSAKTRIGVQQAFEELVEKI 161

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

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

 Score =  143 bits (362), Expect = 7e-44
 Identities = 68/142 (47%), Positives = 94/142 (66%), Gaps = 4/142 (2%)

Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + IWDTAGQERFRTITS+YYRG HG+IVVYD T+ E+F N+K+WL+EI++  CD+V 
Sbjct: 54  RVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQ-NCDDVC 112

Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI---KKR 135
           K+LVGNKND   +K V+ + A ++A  + I   ETSAK   NVE+ F  +   +   KK 
Sbjct: 113 KVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKKD 172

Query: 136 VTKDEKPSSESDAKKLNLNSGK 157
               ++   ++D  KL  NS +
Sbjct: 173 NLAKQQQQQQNDVVKLPKNSKR 194

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

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

 Score =  140 bits (355), Expect = 3e-43
 Identities = 58/110 (52%), Positives = 77/110 (70%), Gaps = 1/110 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTIT SYYR A+G I+ YD T + +F ++  W+EE+++Y   NV  LL+G
Sbjct: 56  IWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIG 115

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPF-LETSAKNGANVEQAFLTMATEI 132
           NK D   ++ V ++ A   A+H  I   LETSAK  +NVE+AFL MATE+
Sbjct: 116 NKCDLEEQREVLFEEACTLAEHYGILAVLETSAKESSNVEEAFLLMATEL 165

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

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

 Score =  135 bits (341), Expect = 5e-41
 Identities = 55/112 (49%), Positives = 78/112 (69%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQE FR+IT SYYRGA G ++VYD T +ETFN+L  WLE+  +++  N+  +L+G
Sbjct: 57  IWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIG 116

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           NK D  S++ V Y+  + +A    + F+ETSAK  +NVE+AF+  A EI  +
Sbjct: 117 NKCDLESRREVSYEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIYDK 168

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

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

 Score =  131 bits (332), Expect = 1e-39
 Identities = 55/109 (50%), Positives = 76/109 (69%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFR+IT SYYR A+ +I+ YD T +E+F  L +WL EI++YA + V  +LVG
Sbjct: 60  IWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVG 119

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D   ++ V  Q A+E++D   + +LETSAK   NVE+ FL +A  +
Sbjct: 120 NKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL 168

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

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

 Score =  131 bits (331), Expect = 2e-39
 Identities = 51/109 (46%), Positives = 70/109 (64%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+R++   YYRGA   IVVYD T +E+F   K W++E+  +   N+   L G
Sbjct: 54  IWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAG 113

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D  SK+ V  + A+EYAD   + F+ETSAK G NV + F  +A ++
Sbjct: 114 NKADLESKRQVSTEEAQEYADENGLLFMETSAKTGENVNELFTEIARKL 162

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

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

 Score =  131 bits (330), Expect = 7e-39
 Identities = 63/152 (41%), Positives = 90/152 (59%), Gaps = 7/152 (4%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQE FR+IT SYYRGA G ++VYD T +ETFN+L  WLE+  ++A  N+  +L+G
Sbjct: 59  IWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIG 118

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE-KP 142
           NK D   ++AV  +  +++A    + F+E SAK   NVE+AF+  A +I K++       
Sbjct: 119 NKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDGVFDV 178

Query: 143 SSESDAKKLNLNSGKPVDAPR------SGGCC 168
           S+ES   K+   +       R       GGCC
Sbjct: 179 SNESYGIKVGYGAIPGASGGRDGTSSQGGGCC 210

Length = 210

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

 Score =  126 bits (317), Expect = 6e-37
 Identities = 58/164 (35%), Positives = 90/164 (54%), Gaps = 10/164 (6%)

Query: 15  EERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-A 73
           E   R  + +WDTAGQERFR+IT SYYR + G+++V+D T++E+F ++  WLEE   +  
Sbjct: 47  EPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQ 106

Query: 74  CDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK 133
                 +LVG+K D  S++ V  + A++ A  L + ++ETSA+ G NVE+AF  +  EI 
Sbjct: 107 PHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIY 166

Query: 134 KRVTKDEKP---------SSESDAKKLNLNSGKPVDAPRSGGCC 168
           +R+ + E           S     +  +L    P  A     CC
Sbjct: 167 ERIKRGELCALDGWDGVKSGFPAGRAFSLEERSPTFASPEKSCC 210

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

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

 Score =  124 bits (313), Expect = 8e-37
 Identities = 55/109 (50%), Positives = 71/109 (65%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFR +T SYYRGA G ++VYD T + T+N+L  WL +       N    L+G
Sbjct: 55  IWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIG 114

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D  +++ V Y+ AK++AD   + FLE SAK G NVE AFL  A +I
Sbjct: 115 NKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKI 163

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

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

 Score =  123 bits (310), Expect = 2e-36
 Identities = 45/111 (40%), Positives = 71/111 (63%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + IWDTAGQER+  +   YYR A G I+VYD TD ++F  +K+W++E+ +   +N++ ++
Sbjct: 51  LAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVI 110

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           VGNK D   ++ V    A+EYA  +     ETSAK G  +E+ FL++A  +
Sbjct: 111 VGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM 161

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

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

 Score =  122 bits (307), Expect = 1e-35
 Identities = 53/118 (44%), Positives = 80/118 (67%)

Query: 18  TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNV 77
            +  + IWDTAGQERFR++T +YYR AH ++++YD T++ +F+N++ WL EI  YA  +V
Sbjct: 48  VKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDV 107

Query: 78  NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
             +L+GNK D + ++ V  +  +  A    +PF+ETSAK G NVE AF  +A E+K R
Sbjct: 108 VIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHR 165

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

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

 Score =  120 bits (303), Expect = 3e-35
 Identities = 43/109 (39%), Positives = 70/109 (64%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQERFR++  SY R +   +VVYD T++++F+N  +W++++     ++V  +LVG
Sbjct: 53  LWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVG 112

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D + K+ V  +  ++ A      F+ETSAK G NV+Q F  +A  +
Sbjct: 113 NKTDLSDKRQVSTEEGEKKAKENNAMFIETSAKAGHNVKQLFKKIAQAL 161

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

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

 Score =  122 bits (306), Expect = 3e-35
 Identities = 70/153 (45%), Positives = 93/153 (60%), Gaps = 6/153 (3%)

Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQ-WLEEIDRYACD-N 76
           R  + IWDTAGQERFRT+TSSYYR A GII+VYD T +ETF NL   W +E++ Y+ + +
Sbjct: 61  RLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQD 120

Query: 77  VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
             K+LVGNK D+ S++ V  +     A      FLE SAK   NVEQ F  +A +I +  
Sbjct: 121 CVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVP 180

Query: 137 TKDEKPSSESDAKKLNLNSGKPVD-APRSGGCC 168
           +  E+ S+   A K N+   KP    P +GGCC
Sbjct: 181 SLLEEGST---AVKRNILKQKPEHQPPPNGGCC 210

Length = 211

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

 Score =  120 bits (302), Expect = 3e-35
 Identities = 54/111 (48%), Positives = 70/111 (63%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + IWDTAGQERFR++T SYYRGA G ++VYD T +E+FN L  WL +    A  ++  +L
Sbjct: 51  LQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIIL 110

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           VGNK D    + V +  A  +A    + FLETSA  G NVE+AFL  A  I
Sbjct: 111 VGNKKDLEDDREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARSI 161

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

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

 Score =  118 bits (296), Expect = 3e-34
 Identities = 51/107 (47%), Positives = 71/107 (66%)

Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + IWDTAGQER+RTIT++YYRGA G I++YD T++E+FN ++ W  +I  Y+ DN  
Sbjct: 49  RIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQ 108

Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
            +LVGNK D   ++ V  +  ++ AD L   F E SAK   NV+Q F
Sbjct: 109 VILVGNKCDMEDERVVSAERGRQLADQLGFEFFEASAKENINVKQVF 155

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

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

 Score =  117 bits (293), Expect = 2e-33
 Identities = 54/117 (46%), Positives = 81/117 (69%), Gaps = 1/117 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERF +ITS+YYR A GII+VYD T +ETF++L +W++ ID+YA ++   LLVG
Sbjct: 53  IWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVG 112

Query: 84  NKNDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           NK D  + + +  Q  +++A  +  + F E SAK+  NV++ FL +  +I K++  D
Sbjct: 113 NKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKMPLD 169

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

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

 Score =  117 bits (294), Expect = 2e-33
 Identities = 64/152 (42%), Positives = 92/152 (60%), Gaps = 13/152 (8%)

Query: 15  EERTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWL 66
           E  TRTL V        IWDTAGQER+R ITS+YYRGA G ++VYD T ++TF+N+++WL
Sbjct: 48  EFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWL 107

Query: 67  EEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
            E+  +A  N+  ++ GNK+D    ++V  +  +  A+   + FLETSA    NVE+AF 
Sbjct: 108 RELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQ 167

Query: 127 TMATEIKKRVTKDEKPSSESDAKKLNLNSGKP 158
           T+  EI   ++K    + E+ A     NSG P
Sbjct: 168 TILLEIYHIISKKALAAQEAAA-----NSGLP 194

Length = 216

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

 Score =  113 bits (284), Expect = 3e-32
 Identities = 48/121 (39%), Positives = 81/121 (66%), Gaps = 1/121 (0%)

Query: 17  RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CD 75
             R  + +WDTAGQERFR++T++++R A G ++++D T +++F N++ W+ ++  +A C+
Sbjct: 60  AFRVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCE 119

Query: 76  NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           N + +L+GNK D   ++ V  + A+E AD   IP+ ETSA  G NVE+A  T+   I KR
Sbjct: 120 NPDIVLIGNKADLPDQREVSERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKR 179

Query: 136 V 136
           +
Sbjct: 180 M 180

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

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

 Score =  109 bits (275), Expect = 5e-31
 Identities = 45/112 (40%), Positives = 69/112 (61%), Gaps = 5/112 (4%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC----DNVNK 79
           IWDTAGQERF+++  ++YRGA   ++VYD T+ ++F +L  W +E    A     +N   
Sbjct: 53  IWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPF 112

Query: 80  LLVGNKNDQTSKKAVDYQVAKEY-ADHLKIPFLETSAKNGANVEQAFLTMAT 130
           +++GNK D   K+ V  + A+++      IP+ ETSAK   NV+QAF T+A 
Sbjct: 113 VVLGNKIDLEEKRQVSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFETIAR 164

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

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

 Score =  109 bits (274), Expect = 6e-31
 Identities = 43/110 (39%), Positives = 62/110 (56%), Gaps = 1/110 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
           I DTAGQE F  +   Y R   G I+VY  T +E+F  +K   E+I R    ++V  +LV
Sbjct: 51  ILDTAGQEEFSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLV 110

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           GNK D  +++ V  +  +  A+    PFLETSAK   N+++ F T+  EI
Sbjct: 111 GNKCDLENERQVSTEEGEALAEEWGCPFLETSAKTNINIDELFNTLVREI 160

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

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

 Score =  104 bits (261), Expect = 7e-29
 Identities = 50/130 (38%), Positives = 80/130 (61%), Gaps = 13/130 (10%)

Query: 17  RTRTLIV--------IWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
           R RT+ +        +WDTAGQERFR ++   YYR  H ++ VYD T+  +F++L  W+E
Sbjct: 40  RERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIE 99

Query: 68  EIDRYACDN-VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA---NVEQ 123
           E ++++  N V ++LVGNK D   +  V   +A+ +AD   +P  ETSAK+ +   +VE 
Sbjct: 100 ECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEA 159

Query: 124 AFLTMATEIK 133
            F+T+A ++K
Sbjct: 160 IFMTLAHKLK 169

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

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

 Score =  100 bits (249), Expect = 3e-27
 Identities = 43/108 (39%), Positives = 69/108 (63%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           I IWDTAGQER++TIT  YYR A GI +VYD + + ++ ++ +W+ ++D YA + V K+L
Sbjct: 51  IQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKIL 110

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA 129
           +GNK D+  K+ V  +   + A    + F ETSA    N++++F  + 
Sbjct: 111 IGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNKNIKESFTRLT 158

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

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

 Score = 92.2 bits (230), Expect = 2e-24
 Identities = 48/113 (42%), Positives = 68/113 (60%), Gaps = 1/113 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLLV 82
           I DTAGQE F  +   Y R   G ++VY  TD+++F  +K++ E+I R    D+V  +LV
Sbjct: 52  ILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLV 111

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           GNK D  S++ V  +  KE A     PFLETSAK   NV++AF  +  EI+K+
Sbjct: 112 GNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIRKK 164

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

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

 Score = 91.5 bits (228), Expect = 5e-24
 Identities = 46/113 (40%), Positives = 66/113 (58%), Gaps = 1/113 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLLV 82
           I DTAGQE F  +   Y R   G ++VY  TD+++F  + ++ E+I R    D+V  +LV
Sbjct: 54  ILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDDVPIVLV 113

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           GNK D  +++ V  +  KE A     PFLETSAK   NV++AF  +  EI+K 
Sbjct: 114 GNKCDLENERVVSTEEGKELARQWGCPFLETSAKERINVDEAFYDLVREIRKS 166

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

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

 Score = 91.5 bits (227), Expect = 1e-23
 Identities = 52/159 (32%), Positives = 73/159 (45%), Gaps = 16/159 (10%)

Query: 15  EERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC 74
            ER  TL  IWDTAG ER+  ++  YYRGA   IV YD TD  +F   K W++E+     
Sbjct: 46  GERVVTL-GIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQN--L 102

Query: 75  DNVNKL-LVGNKND----QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA 129
           +   K+ L G K+D      S + VD+   +++AD +K    ETS+K G NV++ F  +A
Sbjct: 103 EEHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVA 162

Query: 130 TEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
            +   R           D   L               CC
Sbjct: 163 EDFVSRANNQMNTEKGVD---LGQKKN-----SYFYSCC 193

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

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

 Score = 90.1 bits (224), Expect = 4e-23
 Identities = 47/154 (30%), Positives = 67/154 (43%), Gaps = 15/154 (9%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK---- 79
           +WD AGQERF  +T  YY+GA G I+V+D T   TF  + +W  ++D        +    
Sbjct: 54  LWDIAGQERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPA 113

Query: 80  LLVGNKNDQTSKKAVDYQVAKEYAD-----HLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           LL+ NK D    K        E  D     +  I + ETSAK   N+E+A   +   I K
Sbjct: 114 LLLANKCDL---KKERLAKDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLVKNILK 170

Query: 135 RVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
                   S E D   +     +   + +S  CC
Sbjct: 171 N--DKGLQSPEPDEDNVIDLKQETTTS-KSKSCC 201

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

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

 Score = 89.6 bits (222), Expect = 5e-23
 Identities = 45/111 (40%), Positives = 69/111 (62%), Gaps = 1/111 (0%)

Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + +WDT+GQ RF TI  SY RGA GII+VYD T++ +F+ + +W++EID +A   V 
Sbjct: 54  RVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHA-PGVP 112

Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA 129
           K+LVGN+     K+ V  + A+ YA+   + F E S     N+ ++F  +A
Sbjct: 113 KILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELA 163

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

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

 Score = 89.0 bits (221), Expect = 5e-23
 Identities = 39/117 (33%), Positives = 66/117 (56%), Gaps = 1/117 (0%)

Query: 14  KEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA 73
           ++      +++WDTAGQE F  IT +YYRGA   I+V+  TD+E+F  ++ W E+++   
Sbjct: 45  RQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEA-E 103

Query: 74  CDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMAT 130
           C ++  +LV  K D   +  +  + A+  A  L++P   TS K+  NV + F  +A 
Sbjct: 104 CGDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAE 160

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

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

 Score = 89.0 bits (221), Expect = 5e-23
 Identities = 45/115 (39%), Positives = 67/115 (58%), Gaps = 1/115 (0%)

Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNK 79
            + I DTAGQE +  I  +Y+R   G ++V+  TD E+F  L ++ E+I R    DNV  
Sbjct: 49  QLNILDTAGQEDYAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPL 108

Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           LLVGNK D   K+ V  + A   A+   + ++ETSAK  ANV++ F  +  EI++
Sbjct: 109 LLVGNKCDLEDKRQVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDLVREIRQ 163

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

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

 Score = 90.0 bits (223), Expect = 7e-23
 Identities = 51/162 (31%), Positives = 79/162 (48%), Gaps = 18/162 (11%)

Query: 11  QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEI 69
           +  +  R    + +WDTAGQE +R++   YYRGA+GI++VYD T +E +    ++WLEE+
Sbjct: 45  KTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEEL 104

Query: 70  DRYACDNVNKLLVGNKND------------QTSKKAVDYQVAKEYADHLKIP---FLETS 114
              A D+V  LLVGNK D                + V   V    A   ++     LETS
Sbjct: 105 RELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETS 164

Query: 115 AKN--GANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNLN 154
           AK+  G NV + F  +  ++ + + K    +      +LN  
Sbjct: 165 AKSLTGPNVNELFKELLRKLLEEIEKLVLKNELRQLDRLNNP 206

Length = 219

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

 Score = 87.5 bits (217), Expect = 2e-22
 Identities = 40/114 (35%), Positives = 64/114 (56%), Gaps = 2/114 (1%)

Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+    +++F ++  + E+I R    D+V  
Sbjct: 50  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPM 109

Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK 133
           +LVGNK D  ++  V  +  ++ A    IP++ETSAK    VE+AF T+  EI+
Sbjct: 110 VLVGNKCDLAART-VSTRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREIR 162

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

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

 Score = 87.5 bits (217), Expect = 2e-22
 Identities = 40/103 (38%), Positives = 60/103 (58%), Gaps = 1/103 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           I DTAGQE F  +   Y R   G ++V+  TD+ +F  + ++  +I R    D    +LV
Sbjct: 54  ILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILV 113

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
           GNK D   ++ V  +  +E A  LKIP++ETSAK+  NV++AF
Sbjct: 114 GNKADLEHQRQVSREEGQELARQLKIPYIETSAKDRVNVDKAF 156

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

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

 Score = 86.1 bits (213), Expect = 1e-21
 Identities = 49/134 (36%), Positives = 69/134 (51%), Gaps = 1/134 (0%)

Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + VY  T + +F  +  + E+I R    D V  
Sbjct: 54  LLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPM 113

Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           +LVGNK D  S++ V     +E A    IPFLETSAK   NV++AF  +  EI+K + +D
Sbjct: 114 ILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKYLKED 173

Query: 140 EKPSSESDAKKLNL 153
                +     L L
Sbjct: 174 MPSQKQKKKGGLCL 187

Length = 189

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

 Score = 85.5 bits (212), Expect = 1e-21
 Identities = 31/114 (27%), Positives = 58/114 (50%), Gaps = 5/114 (4%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK---- 79
            +D +G   +  + + +Y+   G+++VYD TD+++F  L  WL+E+ +    + N     
Sbjct: 53  FFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIV 112

Query: 80  -LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
            ++  NK D T  +AV     + +A+     + ETSA  G  V + F T+ + I
Sbjct: 113 VVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSI 166

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

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

 Score = 85.4 bits (212), Expect = 2e-21
 Identities = 42/112 (37%), Positives = 65/112 (58%), Gaps = 1/112 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI-DRYACDNVNKLLV 82
           I DTAGQ+ +  +   Y  G HG I+VY  T +++F  +K   ++I D    ++V  +LV
Sbjct: 53  IVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLV 112

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           GNK+D   ++ V  +  K+ A+     FLE+SAK   NVE+AF  +  EI+K
Sbjct: 113 GNKSDLHMERQVSAEEGKKLAESWGAAFLESSAKENENVEEAFELLIEEIEK 164

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

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

 Score = 83.8 bits (207), Expect = 5e-21
 Identities = 42/111 (37%), Positives = 61/111 (54%), Gaps = 5/111 (4%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE-IDRYACDNVNKLLV 82
           +WDTAGQERF+ I S+YYRGA  II+V+D TD  +  + +QWLE+ +      +V   LV
Sbjct: 53  LWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLV 112

Query: 83  GNKNDQTSKKAVDYQVAKE---YADHLKIPFLETSAKNGANVEQAFLTMAT 130
           G K D +S       + ++    A  +K  +   SA  G NV   F  +A+
Sbjct: 113 GTKKDLSSPAQY-ALMEQDAIKLAREMKAEYWAVSALTGENVRDFFFRVAS 162

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

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

 Score = 83.4 bits (206), Expect = 8e-21
 Identities = 40/105 (38%), Positives = 58/105 (55%), Gaps = 4/105 (3%)

Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL 80
           L+  WDTAGQERF+T+ +SYY  AH  I+V+D T + T+ NL +W EE+  Y    +  +
Sbjct: 50  LVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREY-RPEIPCI 108

Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
           +V NK D         Q    +A+   +P    SA +G NV + F
Sbjct: 109 VVANKIDLDPSVT---QKKFNFAEKHNLPLYYVSAADGTNVVKLF 150

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

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

 Score = 81.0 bits (200), Expect = 6e-20
 Identities = 38/109 (34%), Positives = 61/109 (55%), Gaps = 1/109 (0%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD-NVNKL 80
           + I+D+AGQE F  +  + +     + VVYD T++ +FNN  +W+  +  ++   +   +
Sbjct: 55  LFIFDSAGQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHSHGLHTPGV 114

Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA 129
           LVGNK D T ++ VD   A+  A    + F ETSAK G   E  FL++A
Sbjct: 115 LVGNKCDLTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLSLA 163

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

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

 Score = 80.3 bits (198), Expect = 1e-19
 Identities = 40/112 (35%), Positives = 59/112 (52%), Gaps = 1/112 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           I DTAG E+F  +   Y +   G ++VY  T Q TFN+L+   E+I R    ++V  +LV
Sbjct: 53  ILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILV 112

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           GNK D   ++ V  +  +  A      FLETSAK   NV + F  +  +I +
Sbjct: 113 GNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQINR 164

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

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

 Score = 80.6 bits (198), Expect = 1e-19
 Identities = 43/109 (39%), Positives = 64/109 (58%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQERFR++  SY R +   IVVYD T++++F N  +W+++I      +V   LVG
Sbjct: 33  LWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVG 92

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D    + V Y+   + A      F ETSAK G N++  F  +A ++
Sbjct: 93  NKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKL 141

Length = 176

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

 Score = 79.9 bits (197), Expect = 2e-19
 Identities = 38/110 (34%), Positives = 60/110 (54%), Gaps = 1/110 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
           I DTAG E+F ++   Y +   G IVVY   +Q+TF ++K   ++I R    + V  +LV
Sbjct: 53  ILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILV 112

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           GNK D  S++ V     +  A+    PF+ETSAK+   V + F  +  ++
Sbjct: 113 GNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM 162

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

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

 Score = 78.8 bits (194), Expect = 5e-19
 Identities = 37/106 (34%), Positives = 57/106 (53%), Gaps = 4/106 (3%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK--- 79
           IWDTAGQERFR++ + +YRG+   ++ +   D ++F NL  W +E   YA          
Sbjct: 58  IWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPF 117

Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
           +++GNK D   ++    +      D+   P+ ETSAK+  NV  AF
Sbjct: 118 VILGNKIDIPERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 163

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

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

 Score = 78.7 bits (194), Expect = 5e-19
 Identities = 35/115 (30%), Positives = 57/115 (49%), Gaps = 8/115 (6%)

Query: 22  IVIWDTAGQERF-----RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN 76
           +V+ DT G + F       +     RGA  I++V D TD+E+  + K  L  + R   + 
Sbjct: 49  LVLVDTPGLDEFGGLGREELARLLLRGADLILLVVDSTDRESEEDAK--LLILRRLRKEG 106

Query: 77  VNKLLVGNKNDQTSKKAVDYQV-AKEYADHLKIPFLETSAKNGANVEQAFLTMAT 130
           +  +LVGNK D   ++ V+  +  +E A  L +P  E SAK G  V++ F  +  
Sbjct: 107 IPIILVGNKIDLLEEREVEELLRLEELAKILGVPVFEVSAKTGEGVDELFEKLIE 161

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

 Score = 76.2 bits (188), Expect = 5e-18
 Identities = 35/110 (31%), Positives = 56/110 (50%), Gaps = 11/110 (10%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY      I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 53  VWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 111

Query: 84  NKND----QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA 129
           NK D    +   K + +   K         + E SAK+  N E+ FL +A
Sbjct: 112 NKVDIKDRKVKPKQITFHRKKNLQ------YYEISAKSNYNFEKPFLWLA 155

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

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

 Score = 74.1 bits (183), Expect = 3e-17
 Identities = 29/119 (24%), Positives = 51/119 (42%), Gaps = 14/119 (11%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQ-WLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N+K  W  EI  Y C NV  +LV
Sbjct: 52  LWDTAGQEEYDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHY-CPNVPIILV 110

Query: 83  GNKND-----------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMA 129
           G K D           +  +K +  +  ++ A  +  + ++E SA     +++ F    
Sbjct: 111 GTKIDLRDDGNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVFDEAI 169

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

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

 Score = 72.4 bits (178), Expect = 1e-16
 Identities = 34/108 (31%), Positives = 50/108 (46%), Gaps = 3/108 (2%)

Query: 20  TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCT--DQETFNNLKQWLEEIDRYACDNV 77
               + DTAGQE +  I   YYR     + V+D      +    L++  +EI  +A   V
Sbjct: 51  YKFNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGV 110

Query: 78  NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
             +LVGNK D    K +   VA  +A     P +  SA+ G N++ AF
Sbjct: 111 PIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAF 157

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

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

 Score = 70.7 bits (173), Expect = 5e-16
 Identities = 40/111 (36%), Positives = 61/111 (54%), Gaps = 2/111 (1%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           I DTAG E+F  +   Y +   G  +VY  T Q++FN+L+   E+I R    ++V  +LV
Sbjct: 53  ILDTAGTEQFTAMRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKDTEDVPMILV 112

Query: 83  GNKNDQTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEI 132
           GNK D   ++ V  +  +  A      PFLETSAK+  NV++ F  +  +I
Sbjct: 113 GNKCDLEDERVVSKEEGQNLARQWGNCPFLETSAKSKINVDEIFYDLVRQI 163

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

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

 Score = 69.9 bits (171), Expect = 2e-15
 Identities = 40/133 (30%), Positives = 69/133 (51%), Gaps = 3/133 (2%)

Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN---V 77
           ++ + DTAGQE +  +   + R   G I+VY  T + TF  ++++ E+I R   ++   V
Sbjct: 48  MLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADV 107

Query: 78  NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT 137
             ++VGNK D+  ++ V  +     A  L   F+E SAK   NVE+AF T+   ++++  
Sbjct: 108 PIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQRQ 167

Query: 138 KDEKPSSESDAKK 150
             + P      KK
Sbjct: 168 GGQGPKGGPTKKK 180

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

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

 Score = 70.1 bits (172), Expect = 3e-15
 Identities = 40/109 (36%), Positives = 61/109 (55%), Gaps = 9/109 (8%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY      I+++D T + T+ N+  W  +I R  C+N+  +LVG
Sbjct: 62  VWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVR-VCENIPIVLVG 120

Query: 84  NKNDQTSKKAVDYQV-AKEYADHLK--IPFLETSAKNGANVEQAFLTMA 129
           NK D       D QV A++   H K  + + + SAK+  N E+ FL +A
Sbjct: 121 NKVD-----VKDRQVKARQITFHRKKNLQYYDISAKSNYNFEKPFLWLA 164

Length = 215

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

 Score = 67.5 bits (165), Expect = 9e-15
 Identities = 36/111 (32%), Positives = 57/111 (51%), Gaps = 2/111 (1%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           I DTAG E+F  +   Y +   G ++VY  T + + N L +  E++ R    DNV  +LV
Sbjct: 53  ILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLV 112

Query: 83  GNKNDQTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEI 132
           GNK D    + V  +     +     +PF ETSA+   NV++ F+ +  +I
Sbjct: 113 GNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQI 163

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

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

 Score = 68.2 bits (167), Expect = 1e-14
 Identities = 38/120 (31%), Positives = 63/120 (52%), Gaps = 11/120 (9%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
            WDTAGQE+F  +   YY      I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 66  CWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCR-VCENIPIVLCG 124

Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEIKKRVTKDEK 141
           NK D  +++      AK+   H K  + + E SAK+  N E+ FL +A    +++  D  
Sbjct: 125 NKVDVKNRQV----KAKQVTFHRKKNLQYYEISAKSNYNFEKPFLYLA----RKLAGDPN 176

Length = 219

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

 Score = 66.1 bits (162), Expect = 3e-14
 Identities = 31/123 (25%), Positives = 51/123 (41%), Gaps = 16/123 (13%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N+K +W  E+  + C NV  +LV
Sbjct: 50  LWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHF-CPNVPIILV 108

Query: 83  GNKNDQ------------TSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMA 129
           G K D               ++ V Y+  +  A  +  + +LE SA     V + F   A
Sbjct: 109 GTKLDLRNDKSTLEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVF-EEA 167

Query: 130 TEI 132
              
Sbjct: 168 IRA 170

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

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

 Score = 65.6 bits (160), Expect = 6e-14
 Identities = 36/116 (31%), Positives = 57/116 (49%), Gaps = 1/116 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           I DTAGQ  F  +   Y R   G I+ Y  TD+ +F    ++ E I R    +++  +LV
Sbjct: 54  ILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKELITRVRLTEDIPLVLV 113

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
           GNK D   ++ V  +  +  A     PF ETSA     ++ AF  +  EI+++ + 
Sbjct: 114 GNKVDLEQQRQVTTEEGRNLAREFNCPFFETSAALRFYIDDAFHGLVREIRRKESM 169

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

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

 Score = 65.8 bits (160), Expect = 9e-14
 Identities = 34/109 (31%), Positives = 59/109 (54%), Gaps = 3/109 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY      I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 48  VWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVR-VCENIPIVLCG 106

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K     +      +L+  + + SAK+  N E+ FL +A ++
Sbjct: 107 NKVDVKDRKVKAKSITFHRKKNLQ--YYDISAKSNYNFEKPFLWLARKL 153

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

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

 Score = 65.4 bits (160), Expect = 1e-13
 Identities = 29/116 (25%), Positives = 52/116 (44%), Gaps = 15/116 (12%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y     I++ Y   +  + +N++ +W  E++ + C     +LV
Sbjct: 56  LWDTAGQEDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEVNHF-CPGTPIVLV 114

Query: 83  GNKNDQTSKKA------------VDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
           G K D    K             V  +  +  A  +  + ++E SAK   NV++ F
Sbjct: 115 GLKTDLRKDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVF 170

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

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

 Score = 64.1 bits (156), Expect = 2e-13
 Identities = 33/105 (31%), Positives = 48/105 (45%), Gaps = 3/105 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK---L 80
           I DT G  +F  +        H  I+VY  T +++   LK   E I     +N+ K   +
Sbjct: 53  ITDTTGSHQFPAMQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIM 112

Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
           LVGNK D++  + V        A      F+ETSAK   NV++ F
Sbjct: 113 LVGNKCDESPSREVSSSEGAALARTWNCAFMETSAKTNHNVQELF 157

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

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

 Score = 63.7 bits (155), Expect = 6e-13
 Identities = 33/112 (29%), Positives = 54/112 (48%), Gaps = 3/112 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK---L 80
           +WD  GQ+    +   Y  GA  + +VYD T+ ++F NL+ WL  + +   ++  K   +
Sbjct: 54  VWDIGGQQIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMV 113

Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           LVGNK D    + V  +    +A    +  +  SAK G  V   F  +A E+
Sbjct: 114 LVGNKTDLEHNRQVTAEKHARFAQENDMESIFVSAKTGDRVFLCFQRIAAEL 165

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

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

 Score = 61.1 bits (148), Expect = 6e-12
 Identities = 44/181 (24%), Positives = 72/181 (39%), Gaps = 40/181 (22%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           I IWDTAG+E+F  + S Y RGA  +I+ YD ++ ++   L+     +   A ++    +
Sbjct: 46  ISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAV 105

Query: 82  VGNKNDQTSKKAVDYQV-----------------------AKEYADHLKI---------- 108
           VGNK D T + A+  Q                         K    +  +          
Sbjct: 106 VGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEK 165

Query: 109 PFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRS-GGC 167
              ETSAK G NV++ F  +   +   +   ++  +      +NL + K     RS   C
Sbjct: 166 MCFETSAKTGYNVDELFEYLFNLVLPLILA-QRAEANRTQGTVNLPNPK-----RSKSKC 219

Query: 168 C 168
           C
Sbjct: 220 C 220

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

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

 Score = 59.2 bits (144), Expect = 1e-11
 Identities = 33/116 (28%), Positives = 53/116 (45%), Gaps = 5/116 (4%)

Query: 24  IWDTAGQERFRT--ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CD-NVNK 79
           I DT GQ++           R A G ++VY  TD+ +F+ + Q L+ I      D  +  
Sbjct: 51  IQDTPGQQQNEDPESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPV 110

Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGAN-VEQAFLTMATEIKK 134
           +LVGNK D    + V  +  ++ A  L   F E SA      V+  F  +  E+++
Sbjct: 111 ILVGNKADLLHSRQVSTEEGQKLALELGCLFFEVSAAENYLEVQNVFHELCREVRR 166

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

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

 Score = 57.4 bits (139), Expect = 6e-11
 Identities = 36/113 (31%), Positives = 50/113 (44%), Gaps = 10/113 (8%)

Query: 20  TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE-IDRYACDNVN 78
             ++ WD  GQE  R++   YY  +HG+I V D TD+E FN  K   E+ I+  A + V 
Sbjct: 51  ARLMFWDLGGQEELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEALEGVP 110

Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIP-------FLETSAKNGANVEQA 124
            L++ NK D     +V     KE  D                SA  G  VE+ 
Sbjct: 111 LLVLANKQDLPDALSVAE--IKEVFDDCIALIGRRDCLVQPVSALEGEGVEEG 161

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

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

 Score = 57.2 bits (139), Expect = 6e-11
 Identities = 25/112 (22%), Positives = 41/112 (36%), Gaps = 12/112 (10%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI---DRYACDNVN 78
             +WD  GQ++ R +   YY    G+I V D +D+E     K  L ++   +        
Sbjct: 45  FTVWDVGGQDKIRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEEL--KGAP 102

Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIP-----FLETSAKNGANVEQAF 125
            L++ NK D     A+      E      I          SA  G  +++  
Sbjct: 103 LLILANKQDL--PGALTESELIELLGLESIKGRRWHIQPCSAVTGDGLDEGL 152

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

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

 Score = 56.8 bits (137), Expect = 1e-10
 Identities = 36/116 (31%), Positives = 56/116 (48%), Gaps = 13/116 (11%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQ-WLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y  AH I++ +     ++  N++  W+EE+ RY C NV  +
Sbjct: 51  LALWDTAGQEEYERLRPLSYSKAHVILIGFAIDTPDSLENVRTKWIEEVRRY-CPNVPVI 109

Query: 81  LVGNKNDQTSK----------KAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAF 125
           LVG K D   +          + V  Q AK  A  +    ++E SA  G  V+  F
Sbjct: 110 LVGLKKDLRQEAVAKGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVF 165

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

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

 Score = 56.6 bits (137), Expect = 2e-10
 Identities = 31/113 (27%), Positives = 51/113 (45%), Gaps = 6/113 (5%)

Query: 18  TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNV 77
           T     IWD  GQ  F  +     + A  I+ ++D T + T N++K+W  +  R      
Sbjct: 47  TEITFSIWDLGGQREFINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQA-RGFNKTA 105

Query: 78  NKLLVGNKNDQTSKKAVDYQ-----VAKEYADHLKIPFLETSAKNGANVEQAF 125
             +LVG K D  +    + Q      A++YA  +K P +  S  +  NV++ F
Sbjct: 106 IPILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIF 158

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

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

 Score = 55.0 bits (133), Expect = 4e-10
 Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 1/84 (1%)

Query: 13  KKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE-IDR 71
           +K  +    I +WD  GQ RFR++   Y RG + I+ V D  D+E     K  L + +++
Sbjct: 37  RKVTKGNVTIKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADREKLEVAKNELHDLLEK 96

Query: 72  YACDNVNKLLVGNKNDQTSKKAVD 95
            + + +  L++GNKND     +VD
Sbjct: 97  PSLEGIPLLVLGNKNDLPGALSVD 120

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

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

 Score = 52.0 bits (125), Expect = 7e-09
 Identities = 26/118 (22%), Positives = 51/118 (43%), Gaps = 15/118 (12%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKL 80
           + + DTAGQ+ F  +    Y      ++ +   +  +F N+  +W+ EI ++       +
Sbjct: 50  LQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKH-NPKAPII 108

Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
           LVG + D            +  +K V    AK  A+ +    ++E SA    N+++ F
Sbjct: 109 LVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVF 166

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

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

 Score = 50.0 bits (120), Expect = 3e-08
 Identities = 26/132 (19%), Positives = 55/132 (41%), Gaps = 11/132 (8%)

Query: 8   QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGI-IVVYDCTDQETFNNLKQWL 66
           Q  +    ER +  + +WD  GQE +   T  ++  +  + ++V+D    +  + +  WL
Sbjct: 39  QDWKIPAPERKKIRLNVWDFGGQEIYHA-THQFFLTSRSLYLLVFDLRTGDEVSRVPYWL 97

Query: 67  EEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
            +I  +   +   +LVG   D++  + +  +   +    +       S KNG  +     
Sbjct: 98  RQIKAFGGVSP-VILVGTHIDESCDEDILKKALNKKFPAIINDIHFVSCKNGKGIA---- 152

Query: 127 TMATEIKKRVTK 138
               E+KK + K
Sbjct: 153 ----ELKKAIAK 160

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

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

 Score = 48.9 bits (117), Expect = 3e-08
 Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 4/70 (5%)

Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFN---NLKQWLEEIDRYACD 75
             L+ IWD  G+E  +     + + A  I++VYD TD+E+ N    L  WL  + +    
Sbjct: 47  TGLLNIWDFGGREELKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRKLG-G 105

Query: 76  NVNKLLVGNK 85
            +  +LVGNK
Sbjct: 106 KIPVILVGNK 115

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

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

 Score = 50.1 bits (120), Expect = 4e-08
 Identities = 32/121 (26%), Positives = 55/121 (45%), Gaps = 21/121 (17%)

Query: 24  IWDTAGQE---RFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQ-WLEEIDRYACDNVNK 79
           +WDTAGQE   R R ++   Y     I++ +     ++  N+ + W  E+ ++ C NV  
Sbjct: 53  LWDTAGQEDYDRLRPLS---YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPI 108

Query: 80  LLVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFL 126
           +LVGNK D            +  ++ V  +  +  A+ +    +LE SAK    V + F 
Sbjct: 109 ILVGNKKDLRNDEHTIRELAKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVFE 168

Query: 127 T 127
            
Sbjct: 169 M 169

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

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

 Score = 49.5 bits (118), Expect = 5e-08
 Identities = 34/116 (29%), Positives = 54/116 (46%), Gaps = 13/116 (11%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    YRGA   ++ +    + ++ N LK+W+ E+  YA   V  +LV
Sbjct: 53  LWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPELRHYA-PGVPIVLV 111

Query: 83  GNKNDQTSKKA--VDYQVA--------KEYADHLKIP-FLETSAKNGANVEQAFLT 127
           G K D    K    D+  A        +E    +    ++E S+K   NV+  F  
Sbjct: 112 GTKLDLRDDKQFFADHPGAVPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDA 167

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

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

 Score = 49.1 bits (117), Expect = 9e-08
 Identities = 38/135 (28%), Positives = 57/135 (42%), Gaps = 15/135 (11%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE F  + S  Y   H I++ +   + ++  N++ +WL EI  + C  V  +LV
Sbjct: 52  LWDTAGQEEFDRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIRHH-CPGVKLVLV 110

Query: 83  GNKND--------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIK 133
             K D              + Y+     A  +    +LE SAK    V +AF    TE  
Sbjct: 111 ALKCDLREPRNERDRGTHTISYEEGLAVAKRINACRYLECSAKLNRGVNEAF----TEAA 166

Query: 134 KRVTKDEKPSSESDA 148
           +       P   S A
Sbjct: 167 RVALNARPPHPHSRA 181

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

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

 Score = 47.7 bits (114), Expect = 2e-07
 Identities = 22/68 (32%), Positives = 38/68 (55%), Gaps = 5/68 (7%)

Query: 23  VIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK--- 79
           ++WD  GQE  R+  ++YY     +I+V D TD+E     K+ L ++   A +++ K   
Sbjct: 62  LMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKM--LAHEDLRKAVL 119

Query: 80  LLVGNKND 87
           L++ NK D
Sbjct: 120 LVLANKQD 127

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

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

 Score = 47.0 bits (112), Expect = 6e-07
 Identities = 33/115 (28%), Positives = 53/115 (46%), Gaps = 8/115 (6%)

Query: 14  KEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETF---NNLKQWLEEID 70
            EE T  +   W+   QE    +  S  +     ++VY  TD+ +F   + L+  L    
Sbjct: 46  GEEATLVVYDHWE---QEDGMWLEDSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRRA- 101

Query: 71  RYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
           R A +++  +LVGNK+D    + V  Q  +  A      F+ETSA    NV++ F
Sbjct: 102 RQA-EDIPIILVGNKSDLVRSREVSVQEGRACAVVFDCKFIETSAALQHNVDELF 155

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

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

 Score = 45.8 bits (109), Expect = 1e-06
 Identities = 34/121 (28%), Positives = 50/121 (41%), Gaps = 20/121 (16%)

Query: 16  ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYAC 74
           ER  T IV  DT+ + + R   ++  R A+ I +VY      T   ++ +WL  I R   
Sbjct: 47  ERVPTTIV--DTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLI-RRLG 103

Query: 75  DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPF----------LETSAKNGANVEQA 124
             V  +LVGNK+D           A    +   +P           +E SAK   NV + 
Sbjct: 104 VKVPIILVGNKSDLRD----GSSQAG--LEEEMLPIMNEFREIETCVECSAKTLINVSEV 157

Query: 125 F 125
           F
Sbjct: 158 F 158

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

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

 Score = 46.1 bits (109), Expect = 1e-06
 Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 3/66 (4%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI--DRYACDNVNKLL 81
           +WD  GQ++ R +   YY    G+I V D  D++  +  ++ L  +  +    D V  L+
Sbjct: 61  VWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAV-ILV 119

Query: 82  VGNKND 87
             NK D
Sbjct: 120 FANKQD 125

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

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

 Score = 45.4 bits (107), Expect = 2e-06
 Identities = 30/109 (27%), Positives = 53/109 (48%), Gaps = 9/109 (8%)

Query: 16  ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYAC 74
           +  R  + +WDT+G   +  +    Y  +  +++ +D +  ET ++ LK+W  EI  + C
Sbjct: 49  DTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-C 107

Query: 75  DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQ 123
            N   LLVG K+D  +    D     E ++H + P    S   GAN+ +
Sbjct: 108 PNTKMLLVGCKSDLRT----DVSTLVELSNHRQTP---VSYDQGANMAK 149

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

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

 Score = 45.2 bits (107), Expect = 2e-06
 Identities = 24/66 (36%), Positives = 34/66 (51%), Gaps = 3/66 (4%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN--VNKLL 81
            WD  GQE+ R +  SY R   GI+ V D  D E     K  L +I +++ +N  V  L+
Sbjct: 56  FWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITKFS-ENQGVPVLV 114

Query: 82  VGNKND 87
           + NK D
Sbjct: 115 LANKQD 120

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

>gnl|CDD|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 45.6 bits (108), Expect = 3e-06
 Identities = 15/46 (32%), Positives = 29/46 (63%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI 69
           +WD +G ER++   S +Y   +G+I V+D + + T  +L++W  E+
Sbjct: 87  LWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEV 132

Length = 334

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

 Score = 44.3 bits (105), Expect = 4e-06
 Identities = 33/129 (25%), Positives = 60/129 (46%), Gaps = 15/129 (11%)

Query: 16  ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYAC 74
           ++ R  + +WDT+G   +  +    Y  +  +++ +D +  ET ++ LK+W  E+  + C
Sbjct: 45  DKQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREF-C 103

Query: 75  DNVNKLLVGNKND---------QTSKK---AVDYQVAKEYADHL-KIPFLETSAKNGANV 121
            N   LLVG K+D         + S K    V ++  +  A  +    ++E SAK   N 
Sbjct: 104 PNTPVLLVGCKSDLRTDLSTLTELSNKRQIPVSHEQGRNLAKQIGAAAYVECSAKTSENS 163

Query: 122 EQAFLTMAT 130
            +    MAT
Sbjct: 164 VRDVFEMAT 172

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

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

 Score = 44.1 bits (105), Expect = 5e-06
 Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 5/69 (7%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI---DRYACDNVN 78
             +WD  GQE  R +  +Y+     +I V D  D++     K+ L  +   +  A  +  
Sbjct: 60  FTVWDVGGQESLRPLWRNYFPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELA--DAP 117

Query: 79  KLLVGNKND 87
            L++ NK D
Sbjct: 118 LLILANKQD 126

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

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

 Score = 44.0 bits (104), Expect = 5e-06
 Identities = 26/114 (22%), Positives = 44/114 (38%), Gaps = 14/114 (12%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETF----NNLKQWLEEIDRYACDNV 77
              +D +GQ ++R +   YY+   GII V D +D+       + L+  L   D      +
Sbjct: 47  FTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRMVVAKDELELLLNHPDIKHRR-I 105

Query: 78  NKLLVGNKND----QTSKKAVDYQVAKEYADHLKIPF--LETSAKNGANVEQAF 125
             L   NK D     T+ K       +   D    P+    +SA  G  +++  
Sbjct: 106 PILFYANKMDLPDALTAVKITQLLCLENIKDK---PWHIFASSALTGEGLDEGV 156

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 162

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

 Score = 44.1 bits (104), Expect = 6e-06
 Identities = 32/106 (30%), Positives = 49/106 (46%), Gaps = 2/106 (1%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN-VNKL 80
           I I DT+G   F  +     +      +VY   D E+F  +K+  EEI     D  V  +
Sbjct: 49  IDILDTSGSYSFPAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPIV 108

Query: 81  LVGNKNDQTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGANVEQAF 125
           +VGNK D  +++ V+   A    +      F+E SAK+  NV + F
Sbjct: 109 VVGNKIDSLAERQVEAADALSTVELDWNNGFVEASAKDNENVTEVF 154

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

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

 Score = 42.5 bits (100), Expect = 2e-05
 Identities = 25/67 (37%), Positives = 35/67 (52%), Gaps = 5/67 (7%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI--DRYACDNVNKLL 81
           +WD  GQ++ R +   YY G  G+I V D  D++  +  +Q L  I  DR   D +  LL
Sbjct: 57  VWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDAL--LL 114

Query: 82  V-GNKND 87
           V  NK D
Sbjct: 115 VFANKQD 121

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

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

 Score = 42.1 bits (99), Expect = 2e-05
 Identities = 15/46 (32%), Positives = 27/46 (58%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI 69
           +WD  GQ++ R +   YY+  +G+I V D  D+E   + ++ LE +
Sbjct: 65  MWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERM 110

Length = 182

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

 Score = 41.6 bits (98), Expect = 3e-05
 Identities = 13/46 (28%), Positives = 25/46 (54%)

Query: 24 IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI 69
          +WD  GQ++ R +   Y++   G+I V D  D+E     ++ L+ +
Sbjct: 48 VWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRM 93

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

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

 Score = 41.7 bits (98), Expect = 4e-05
 Identities = 23/105 (21%), Positives = 43/105 (40%), Gaps = 5/105 (4%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           ++ T GQERF+ +     RGA G IV+ D +   TF+  +  ++ +       +  ++  
Sbjct: 72  LFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAEEI-IDFLTSRNP--IPVVVAI 128

Query: 84  NKNDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLT 127
           NK D       + ++ +     L  +P +E  A  G         
Sbjct: 129 NKQDLFDALPPE-KIREALKLELLSVPVIEIDATEGEGARDQLDV 172

Length = 187

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

 Score = 41.7 bits (98), Expect = 6e-05
 Identities = 20/93 (21%), Positives = 40/93 (43%), Gaps = 10/93 (10%)

Query: 48  IVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL---------LVGNKNDQTSKKAVD-YQ 97
           I+V+   ++E+F  + +  E+I        NK          + GNK D+   + V   +
Sbjct: 76  ILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDE 135

Query: 98  VAKEYADHLKIPFLETSAKNGANVEQAFLTMAT 130
           V +         + E SAK  +N+++ F  + +
Sbjct: 136 VEQLVGGDENCAYFEVSAKKNSNLDEMFRALFS 168

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

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

 Score = 40.8 bits (95), Expect = 8e-05
 Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 2/65 (3%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  + +  Y   +  I+ +      ++ N++ +W  E+  + C NV  LLV
Sbjct: 55  LWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHH-CPNVPILLV 113

Query: 83  GNKND 87
           G K D
Sbjct: 114 GTKKD 118

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

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

 Score = 40.5 bits (95), Expect = 9e-05
 Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 1/83 (1%)

Query: 6   PYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQW 65
           P Q    K  +     + +WD  GQ + R    +Y+     +I V D  D++ F    Q 
Sbjct: 45  PTQGFNIKNVQADGFKLNVWDIGGQRKIRPYWRNYFENTDVLIYVIDSADRKRFEEAGQE 104

Query: 66  LEEI-DRYACDNVNKLLVGNKND 87
           L E+ +      V  L+  NK D
Sbjct: 105 LVELLEEEKLAGVPVLVFANKQD 127

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation. Length = 174

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

 Score = 40.7 bits (95), Expect = 9e-05
 Identities = 33/149 (22%), Positives = 62/149 (41%), Gaps = 26/149 (17%)

Query: 15  EERTRTLIVIWDTAGQ----ERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQW-LEEI 69
           EE+T   + +WD  G     E  ++  + +Y   +GII V+D T++++  NL +W LE +
Sbjct: 50  EEKT-FYVELWDVGGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRWSLEAL 108

Query: 70  DRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA 129
           +R   D     L+    D  S++               +P L    K    ++Q      
Sbjct: 109 NR---DTFPAGLLVTNGDYDSEQFAG----------NPVPLLVIGTK----LDQIPEAKR 151

Query: 130 TEIKKRVTKDEKPSSESDAKKLNLNSGKP 158
             +  R       S + +A+++NL+    
Sbjct: 152 NWVLTRTA---FLSEDFNAEEINLDCTNG 177

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

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

 Score = 40.1 bits (94), Expect = 1e-04
 Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           +WD  GQE+ RT+   Y     G++ V D +D+   +  ++ L+ I +      V  +L+
Sbjct: 48  VWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLL 107

Query: 83  GNKND 87
            NK D
Sbjct: 108 ANKQD 112

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in high-risk familial breast cancer. Length = 160

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

 Score = 40.4 bits (94), Expect = 1e-04
 Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 2/73 (2%)

Query: 16  ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYAC 74
           E  R  + +WDT+G   +  +    Y  +  +++ +D +  E F++ LK+W  EI  Y C
Sbjct: 57  EEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDY-C 115

Query: 75  DNVNKLLVGNKND 87
            +   LL+G K D
Sbjct: 116 PSTRILLIGCKTD 128

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

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

 Score = 38.0 bits (89), Expect = 7e-04
 Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 7/67 (10%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD----NVNKL 80
           +D  G E+ R +   Y+    GI+ + D  D E F   K   EE+D    D    NV  L
Sbjct: 68  FDLGGHEQARRVWKDYFPEVDGIVFLVDAADPERFQESK---EELDSLLNDEELANVPIL 124

Query: 81  LVGNKND 87
           ++GNK D
Sbjct: 125 ILGNKID 131

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

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

 Score = 37.3 bits (86), Expect = 0.001
 Identities = 21/87 (24%), Positives = 45/87 (51%), Gaps = 2/87 (2%)

Query: 16  ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYAC 74
           ++ R  + +WDT+G   +  +    Y  +  +++ +D +  ET ++ LK+W  E   + C
Sbjct: 45  DKHRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEF-C 103

Query: 75  DNVNKLLVGNKNDQTSKKAVDYQVAKE 101
            N   +LVG K D  +  +   +++K+
Sbjct: 104 PNAKLVLVGCKLDMRTDLSTLRELSKQ 130

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

>gnl|CDD|235392 PRK05291, trmE, tRNA modification GTPase TrmE; Reviewed

 Score = 37.4 bits (88), Expect = 0.002
 Identities = 27/140 (19%), Positives = 50/140 (35%), Gaps = 36/140 (25%)

Query: 21  LIVIWDTAG------------QER-FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
            + + DTAG             ER    I       A  +++V D ++  T  + +   E
Sbjct: 264 PLRLIDTAGIRETDDEVEKIGIERSREAI-----EEADLVLLVLDASEPLTEEDDEILEE 318

Query: 68  EIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLT 127
             D+        ++V NK D T +  ++ +  K        P +  SAK G  +++    
Sbjct: 319 LKDK------PVIVVLNKADLTGEIDLEEENGK--------PVIRISAKTGEGIDE---- 360

Query: 128 MATEIKKRVTKDEKPSSESD 147
           +   IK+        + E  
Sbjct: 361 LREAIKELAFGGFGGNQEGV 380

Length = 449

>gnl|CDD|206726 cd04163, Era, E

 Score = 35.9 bits (84), Expect = 0.004
 Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 10/67 (14%)

Query: 64  QWLEEIDRYACD-----NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLET---SA 115
           +W+ E D +  +         +LV NK D    K     + ++  +    PF E    SA
Sbjct: 94  EWIGEGDEFILELLKKSKTPVILVLNKIDLVKDKEDLLPLLEKLKE--LHPFAEIFPISA 151

Query: 116 KNGANVE 122
             G NV+
Sbjct: 152 LKGENVD 158

coli Ras-like protein (Era) is a multifunctional GTPase. 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. Length = 168

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	168
KOG0084|consensus	205		100.0
KOG0092|consensus	200		100.0
KOG0078|consensus	207		100.0
KOG0094|consensus	221		100.0
KOG0098|consensus	216		99.98
KOG0088|consensus	218		99.97
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.97
KOG0087|consensus	222		99.97
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.97
KOG0079|consensus	198		99.97
PTZ00099	176	rab6; Provisional	99.97
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.97
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.97
KOG0080|consensus	209		99.97
KOG0093|consensus	193		99.97
KOG0394|consensus	210		99.97
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.96
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.96
KOG0091|consensus	213		99.96
PLN03110	216	Rab GTPase; Provisional	99.96
KOG0083|consensus	192		99.96
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.96
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.96
KOG0095|consensus	213		99.96
KOG0086|consensus	214		99.95
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.95
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.95
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.95
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.95
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.95
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.95
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.95
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.95
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.95
KOG0081|consensus	219		99.95
PTZ00369	189	Ras-like protein; Provisional	99.95
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.95
PLN03108	210	Rab family protein; Provisional	99.94
KOG0097|consensus	215		99.94
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.94
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.94
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.94
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.94
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.94
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.94
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.94
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.94
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.94
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.94
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.94
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.94
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.94
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.93
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.93
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.93
PLN03118	211	Rab family protein; Provisional	99.93
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.93
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.93
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.93
KOG0395|consensus	196		99.93
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.93
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.93
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.92
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.92
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.92
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.92
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.92
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.92
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.92
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.92
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.92
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.92
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.92
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.92
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.92
KOG0393|consensus	198		99.92
PLN00223	181	ADP-ribosylation factor; Provisional	99.91
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.91
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.91
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.91
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.91
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.91
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.91
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.91
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.91
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.91
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.91
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.91
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.91
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.91
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.91
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.91
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.91
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.9
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.9
PTZ00133	182	ADP-ribosylation factor; Provisional	99.9
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.89
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.89
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.89
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.89
KOG0070|consensus	181		99.89
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.89
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.89
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.88
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.88
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.88
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.88
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.88
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.88
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.88
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.87
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.87
KOG0073|consensus	185		99.87
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.87
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.87
KOG0075|consensus	186		99.87
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.86
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.86
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.85
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.85
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.84
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.84
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.84
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.84
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.83
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.83
KOG0071|consensus	180		99.82
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.82
KOG4252|consensus	246		99.81
KOG0072|consensus	182		99.81
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.8
KOG0076|consensus	197		99.79
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.78
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.78
KOG3883|consensus	198		99.77
PLN00023	334	GTP-binding protein; Provisional	99.76
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.76
PRK12299	335	obgE GTPase CgtA; Reviewed	99.75
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.73
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.73
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.71
KOG4423|consensus	229		99.7
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.7
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.7
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.69
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.69
KOG1673|consensus	205		99.69
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.68
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.68
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.67
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.66
PRK05433	600	GTP-binding protein LepA; Provisional	99.64
COG1100	219	GTPase SAR1 and related small G proteins [General	99.64
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.64
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.64
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.63
COG2229	187	Predicted GTPase [General function prediction only	99.63
KOG0074|consensus	185		99.63
PRK04213	201	GTP-binding protein; Provisional	99.62
PRK03003	472	GTP-binding protein Der; Reviewed	99.62
cd00881	189	GTP_translation_factor GTP translation factor fami	99.61
KOG0096|consensus	216		99.6
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.6
PRK12297	424	obgE GTPase CgtA; Reviewed	99.6
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.59
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.59
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.59
PRK15494	339	era GTPase Era; Provisional	99.58
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.58
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.58
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.58
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.57
PRK12296	500	obgE GTPase CgtA; Reviewed	99.57
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.57
PRK03003	472	GTP-binding protein Der; Reviewed	99.57
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.56
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.56
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.55
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.54
PRK05306	787	infB translation initiation factor IF-2; Validated	99.54
CHL00189	742	infB translation initiation factor 2; Provisional	99.54
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.53
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.52
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.52
PRK11058	426	GTPase HflX; Provisional	99.52
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.5
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.48
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.47
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.47
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.47
PRK12317	425	elongation factor 1-alpha; Reviewed	99.47
PRK10218	607	GTP-binding protein; Provisional	99.46
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.46
PRK12298	390	obgE GTPase CgtA; Reviewed	99.46
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.45
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.45
PRK00093	435	GTP-binding protein Der; Reviewed	99.45
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.45
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.44
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.44
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.44
PRK00093	435	GTP-binding protein Der; Reviewed	99.43
KOG0462|consensus	650		99.42
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.42
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.42
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.4
PRK00089	292	era GTPase Era; Reviewed	99.4
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.39
PRK04004	586	translation initiation factor IF-2; Validated	99.36
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.36
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.35
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.35
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.32
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.31
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.31
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.3
PRK12736	394	elongation factor Tu; Reviewed	99.29
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.29
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.28
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.28
PLN00043	447	elongation factor 1-alpha; Provisional	99.27
PRK14845	1049	translation initiation factor IF-2; Provisional	99.27
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.27
KOG0077|consensus	193		99.25
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.23
KOG0082|consensus	354		99.22
PRK12735	396	elongation factor Tu; Reviewed	99.22
PRK09866	741	hypothetical protein; Provisional	99.21
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.21
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.2
COG1159	298	Era GTPase [General function prediction only]	99.19
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.19
KOG1489|consensus	366		99.19
PRK13351	687	elongation factor G; Reviewed	99.18
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.17
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.16
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.14
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.14
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.12
COG1160	444	Predicted GTPases [General function prediction onl	99.12
KOG1145|consensus	683		99.12
PRK12289	352	GTPase RsgA; Reviewed	99.11
COG1160	444	Predicted GTPases [General function prediction onl	99.1
PRK12740	668	elongation factor G; Reviewed	99.09
CHL00071	409	tufA elongation factor Tu	99.08
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.08
PRK00049	396	elongation factor Tu; Reviewed	99.08
PTZ00141	446	elongation factor 1- alpha; Provisional	99.07
PRK00098	298	GTPase RsgA; Reviewed	99.07
PLN03126	478	Elongation factor Tu; Provisional	99.06
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	99.06
PLN03127	447	Elongation factor Tu; Provisional	99.05
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.05
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.02
COG0486	454	ThdF Predicted GTPase [General function prediction	99.02
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.01
COG2262	411	HflX GTPases [General function prediction only]	99.0
PRK13768	253	GTPase; Provisional	98.99
KOG0090|consensus	238		98.99
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.99
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.97
PRK12288	347	GTPase RsgA; Reviewed	98.97
COG0536	369	Obg Predicted GTPase [General function prediction	98.96
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.93
PRK12739	691	elongation factor G; Reviewed	98.93
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.91
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	98.91
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.91
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.89
KOG1707|consensus	625		98.87
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.87
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	98.86
COG0218	200	Predicted GTPase [General function prediction only	98.85
COG1084	346	Predicted GTPase [General function prediction only	98.83
PF09439	181	SRPRB: Signal recognition particle receptor beta s	98.79
KOG1423|consensus	379		98.78
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.75
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.7
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.67
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.61
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.6
KOG1144|consensus	1064		98.6
PRK00007	693	elongation factor G; Reviewed	98.57
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	98.57
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.56
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.56
KOG0458|consensus	603		98.56
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.51
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.49
PRK01889	356	GTPase RsgA; Reviewed	98.49
COG1163	365	DRG Predicted GTPase [General function prediction	98.46
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.43
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.42
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.4
KOG1532|consensus	366		98.4
KOG0085|consensus	359		98.38
KOG1490|consensus	620		98.38
PRK13796	365	GTPase YqeH; Provisional	98.37
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.37
PRK09602	396	translation-associated GTPase; Reviewed	98.37
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	98.36
KOG1707|consensus	625		98.33
KOG0099|consensus	379		98.31
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.3
COG3596	296	Predicted GTPase [General function prediction only	98.27
KOG0705|consensus	749		98.26
COG1162	301	Predicted GTPases [General function prediction onl	98.24
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.22
PLN00116	843	translation elongation factor EF-2 subunit; Provis	98.2
PRK07560	731	elongation factor EF-2; Reviewed	98.17
PTZ00416	836	elongation factor 2; Provisional	98.15
KOG1191|consensus	531		98.14
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.14
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.12
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.12
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	98.1
KOG3886|consensus	295		98.1
KOG3905|consensus	473		97.94
KOG0461|consensus	522		97.93
KOG0468|consensus	971		97.91
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	97.91
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	97.91
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.84
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	97.74
COG5258	527	GTPBP1 GTPase [General function prediction only]	97.71
COG0050	394	TufB GTPases - translation elongation factors [Tra	97.64
cd03110	179	Fer4_NifH_child This protein family's function is	97.64
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.63
KOG0466|consensus	466		97.61
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	97.55
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	97.46
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	97.41
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	97.31
KOG0465|consensus	721		97.26
KOG0464|consensus	753		97.26
KOG1424|consensus	562		97.24
KOG3887|consensus	347		97.22
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.21
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.16
KOG1143|consensus	591		97.12
PTZ00258	390	GTP-binding protein; Provisional	97.07
KOG0467|consensus	887		96.96
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	96.94
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	96.92
KOG1954|consensus	532		96.88
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.78
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	96.76
KOG0460|consensus	449		96.66
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.57
KOG0459|consensus	501		96.57
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.49
PRK09601	364	GTP-binding protein YchF; Reviewed	96.34
KOG1486|consensus	364		96.27
COG1161	322	Predicted GTPases [General function prediction onl	96.22
KOG0448|consensus	749		96.14
PRK10416	318	signal recognition particle-docking protein FtsY;	96.13
KOG0463|consensus	641		96.08
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	96.03
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	95.85
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	95.81
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	95.73
KOG0410|consensus	410		95.52
PHA02518	211	ParA-like protein; Provisional	95.5
COG1149	284	MinD superfamily P-loop ATPase containing an inser	95.41
KOG2423|consensus	572		95.33
cd03111	106	CpaE_like This protein family consists of proteins	95.29
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	95.26
KOG2486|consensus	320		95.15
KOG2484|consensus	435		95.08
PRK14974	336	cell division protein FtsY; Provisional	95.07
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.05
cd02036	179	MinD Bacterial cell division requires the formatio	94.88
KOG0469|consensus	842		94.86
PF14331	266	ImcF-related_N: ImcF-related N-terminal domain	94.39
KOG0447|consensus	980		94.36
TIGR01968	261	minD_bact septum site-determining protein MinD. Th	93.79
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	93.77
TIGR01969	251	minD_arch cell division ATPase MinD, archaeal. Thi	93.73
PRK00771	437	signal recognition particle protein Srp54; Provisi	93.44
cd02117	212	NifH_like This family contains the NifH (iron prot	93.42
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	93.41
TIGR00959	428	ffh signal recognition particle protein. This mode	93.25
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	93.2
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	93.16
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	93.13
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	93.05
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	92.86
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	92.67
CHL00175	281	minD septum-site determining protein; Validated	92.58
KOG4273|consensus	418		92.56
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	92.54
PRK13849	231	putative crown gall tumor protein VirC1; Provision	92.11
KOG1547|consensus	336		91.9
cd03112	158	CobW_like The function of this protein family is u	91.87
COG5019	373	CDC3 Septin family protein [Cell division and chro	91.57
PRK10818	270	cell division inhibitor MinD; Provisional	91.15
PRK10867	433	signal recognition particle protein; Provisional	90.96
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	90.82
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	90.65
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	90.59
cd02032	267	Bchl_like This family of proteins contains bchL an	90.53
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	89.86
cd03115	173	SRP The signal recognition particle (SRP) mediates	89.54
cd03114	148	ArgK-like The function of this protein family is u	89.51
TIGR01007	204	eps_fam capsular exopolysaccharide family. This mo	89.42
COG0523	323	Putative GTPases (G3E family) [General function pr	88.13
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	87.98
cd02040	270	NifH NifH gene encodes component II (iron protein)	87.21
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	87.15
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	86.9
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	86.89
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	86.66
cd02033	329	BchX Chlorophyllide reductase converts chlorophyll	86.62
KOG2655|consensus	366		86.58
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	86.16
KOG3929|consensus	363		85.7
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	85.67
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	84.56
CHL00072	290	chlL photochlorophyllide reductase subunit L	83.95
PRK11670	369	antiporter inner membrane protein; Provisional	83.48
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	83.32
PF09419	168	PGP_phosphatase: Mitochondrial PGP phosphatase; In	83.25
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	82.99
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	82.77
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	82.08
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	82.07
PF01268	557	FTHFS: Formate--tetrahydrofolate ligase; InterPro:	81.25
cd00477	524	FTHFS Formyltetrahydrofolate synthetase (FTHFS) ca	81.13
KOG3022|consensus	300		80.07

>KOG0084|consensus

Probab=100.00  E-value=4.5e-36  Score=207.39  Aligned_cols=163  Identities=55%  Similarity=0.842  Sum_probs=141.3

Q ss_pred             ccccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc
Q psy2646           3 LLLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN   78 (168)
Q Consensus         3 ~~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p   78 (168)
                      .+..|+|    .+++.++++.+.||||||+||+||+.+...||++|+|+|+|||+++..||+.+..|+.++.++...++|
T Consensus        37 ~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~  116 (205)
T KOG0084|consen   37 SYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYASENVP  116 (205)
T ss_pred             hhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCC
Confidence            4566777    567778999999999999999999999999999999999999999999999999999999998877899


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCC-EEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCCCchhhhhhccCCCC
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIP-FLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNLNSGK  157 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~-~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (168)
                      .++||||+|+.+.+.++.++++.|+..++++ ++++||+++.|++++|..|...+..+.......+.  .....-+..++
T Consensus       117 ~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~la~~lk~~~~~~~~~~~--~~~~~~ql~~~  194 (205)
T KOG0084|consen  117 KLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVEDAFLTLAKELKQRKGLHVKWST--ASLESVQLKGT  194 (205)
T ss_pred             eEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHHHHHHHHHHHHHhcccCCCCCc--CCCCceeeCCC
Confidence            9999999999999999999999999999998 99999999999999999999999999887777664  22222233333


Q ss_pred             CCCCCCCCCCC
Q psy2646         158 PVDAPRSGGCC  168 (168)
Q Consensus       158 ~~~~~~~~~c~  168 (168)
                      +. ....++||
T Consensus       195 p~-~~~~~~~C  204 (205)
T KOG0084|consen  195 PV-KKSNGGCC  204 (205)
T ss_pred             Cc-ccccCCCC
Confidence            33 35666688

>KOG0092|consensus

Probab=100.00  E-value=5.7e-34  Score=196.32  Aligned_cols=161  Identities=36%  Similarity=0.661  Sum_probs=134.3

Q ss_pred             ccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE
Q psy2646           5 LPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         5 ~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii   80 (168)
                      -||++    ++.+.+++..++|.||||+|+++|+++.+.||++|+++|+|||+++.+||..+..|+..+.+...++.-+.
T Consensus        35 e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~via  114 (200)
T KOG0092|consen   35 EPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIA  114 (200)
T ss_pred             ccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEE
Confidence            57777    67777889999999999999999999999999999999999999999999999999999987766667788


Q ss_pred             EEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCCCchhhhhhccCCCCCCC
Q psy2646          81 LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNLNSGKPVD  160 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      ++|||+||.+.+.+..+++..+++..+..++|+||+++.|++++|..+.+.+......... +.+.++..+-.++.+  .
T Consensus       115 lvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~~~~~~-~~~~~~~g~~l~~~~--~  191 (200)
T KOG0092|consen  115 LVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQAIAEKLPCSDPQERQ-GLPNRRQGVDLNSNQ--E  191 (200)
T ss_pred             EecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHHHHHhccCccccccc-cccccccceecccCC--C
Confidence            8999999999899999999999999999999999999999999999999988776554433 112221333223222  3


Q ss_pred             CCCCCCCC
Q psy2646         161 APRSGGCC  168 (168)
Q Consensus       161 ~~~~~~c~  168 (168)
                      ..++++||
T Consensus       192 ~~~~~~~C  199 (200)
T KOG0092|consen  192 PARPSGCC  199 (200)
T ss_pred             CcCcCCcC
Confidence            35667777

>KOG0078|consensus

Probab=100.00  E-value=2.4e-32  Score=191.20  Aligned_cols=136  Identities=42%  Similarity=0.738  Sum_probs=127.4

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      ++.|++    .+.+.+++..+.+|+|||+||++|+.+...|+++|+++++|||+++..||+.+..|+..+.++....+|+
T Consensus        41 ~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~  120 (207)
T KOG0078|consen   41 FISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVK  120 (207)
T ss_pred             ccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcE
Confidence            556666    6778889999999999999999999999999999999999999999999999999999999987778999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ++||||+|+...++++.+.+++++..+|+.++|+||++|.||+++|-.|++.+..+....
T Consensus       121 ~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~eaF~~La~~i~~k~~~~  180 (207)
T KOG0078|consen  121 ILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIEEAFLSLARDILQKLEDA  180 (207)
T ss_pred             EEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHHHHHHHHHHHHHhhcchh
Confidence            999999999999999999999999999999999999999999999999999999866654

>KOG0094|consensus

Probab=100.00  E-value=2.3e-32  Score=188.70  Aligned_cols=136  Identities=35%  Similarity=0.544  Sum_probs=123.0

Q ss_pred             cccccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCC-C
Q psy2646           2 RLLLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD-N   76 (168)
Q Consensus         2 ~~~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~   76 (168)
                      ++|.+|+|    ++.+.+.+..+.||+|||+|||+|+.+.+.|++++.++|+|||+++.+||+.+.+|++.+...... .
T Consensus        49 ~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~  128 (221)
T KOG0094|consen   49 NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDD  128 (221)
T ss_pred             ccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCc
Confidence            46888998    455667899999999999999999999999999999999999999999999999999999776655 4


Q ss_pred             CcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          77 VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        77 ~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +-+++||||.||.+.+++..+++...+++++..|+++||+.|.|+.++|..+...+.....
T Consensus       129 viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lFrrIaa~l~~~~~  189 (221)
T KOG0094|consen  129 VIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLFRRIAAALPGMEV  189 (221)
T ss_pred             eEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHHHHHHHhccCccc
Confidence            7889999999999999999999999999999999999999999999999997777665544

>KOG0098|consensus

Probab=99.98  E-value=1.2e-31  Score=183.82  Aligned_cols=131  Identities=39%  Similarity=0.684  Sum_probs=124.1

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      +.+.+++|+++++|++|||+|+++|++....||+++-|+|||||+++.++|..+..|+..+.++..++.-++++|||+||
T Consensus        44 g~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL  123 (216)
T KOG0098|consen   44 GARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDL  123 (216)
T ss_pred             ceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhh
Confidence            36788999999999999999999999999999999999999999999999999999999998887788999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ...+.|+.+++++|++++++.++++||+++.|++++|......+.++....
T Consensus       124 ~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~nta~~Iy~~~q~g  174 (216)
T KOG0098|consen  124 EARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFINTAKEIYRKIQDG  174 (216)
T ss_pred             hccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999999876544

>KOG0088|consensus

Probab=99.97  E-value=1.1e-30  Score=174.85  Aligned_cols=128  Identities=34%  Similarity=0.636  Sum_probs=120.0

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++....+.||||+|+++|..+.+.||++++|+++|||++|.+||+.+..|..++.......+.+++||||+||.
T Consensus        52 ~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLE  131 (218)
T KOG0088|consen   52 NKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLE  131 (218)
T ss_pred             hcccccccceeeeeeeeccchHhhhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHH
Confidence            46677788899999999999999999999999999999999999999999999999999988777789999999999999


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ++++++.+++..+++..|..++++||+.+.||.++|+.+...+.+...
T Consensus       132 eeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe~Lt~~MiE~~s  179 (218)
T KOG0088|consen  132 EERQVTRQEAEAYAESVGALYMETSAKDNVGISELFESLTAKMIEHSS  179 (218)
T ss_pred             HhhhhhHHHHHHHHHhhchhheecccccccCHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999999988887653

>cd04121 Rab40 Rab40 subfamily

Probab=99.97  E-value=1.7e-29  Score=179.80  Aligned_cols=127  Identities=35%  Similarity=0.577  Sum_probs=116.4

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++..+.++||||+|+++|..+++.+++++|++|+|||++++.+|+.+..|+..+... .++.|++|||||.|+.
T Consensus        45 ~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~-~~~~piilVGNK~DL~  123 (189)
T cd04121          45 TTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEH-APGVPKILVGNRLHLA  123 (189)
T ss_pred             EEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHh-CCCCCEEEEEECccch
Confidence            355677888999999999999999999999999999999999999999999999999999766 3689999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ..+.++.++++.+++.++++++++||++|.|++++|+++++.+..+..
T Consensus       124 ~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~l~~~i~~~~~  171 (189)
T cd04121         124 FKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELARIVLMRHG  171 (189)
T ss_pred             hccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHhcC
Confidence            777888899999999999999999999999999999999998876555

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d

>KOG0087|consensus

Probab=99.97  E-value=4.8e-30  Score=179.24  Aligned_cols=130  Identities=45%  Similarity=0.673  Sum_probs=122.1

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ++.+.++++.+..+||||+||++|+.+...||++|.|+++|||++...+|+.+..|+.++..+..+++++|+||||+||.
T Consensus        53 t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~  132 (222)
T KOG0087|consen   53 TRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLN  132 (222)
T ss_pred             eeceeecCcEEEEeeecccchhhhccccchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhh
Confidence            55667899999999999999999999999999999999999999999999999999999999988899999999999999


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      .-+.+..+++..+++..++.++++||.+..|++.+|..++..+.+...++
T Consensus       133 ~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe~aF~~~l~~I~~~vs~k  182 (222)
T KOG0087|consen  133 HLRAVPTEDGKAFAEKEGLFFLETSALDATNVEKAFERVLTEIYKIVSKK  182 (222)
T ss_pred             hccccchhhhHhHHHhcCceEEEecccccccHHHHHHHHHHHHHHHHHHH
Confidence            88899999999999999999999999999999999999998888765544

>cd04120 Rab12 Rab12 subfamily

Probab=99.97  E-value=3.3e-29  Score=179.94  Aligned_cols=135  Identities=39%  Similarity=0.692  Sum_probs=119.2

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    .+.+.++++.+.+++|||+|+++|..+|..|++++|++|+|||++++++|+.+..|+..+......+.|+
T Consensus        29 ~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~pi  108 (202)
T cd04120          29 CKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAEL  108 (202)
T ss_pred             CCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcE
Confidence            456665    4567778889999999999999999999999999999999999999999999999999886665567999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhc-CCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      ++||||+|+...+.+...++.++++.+ ++.++++||++|.|++++|+++++.+.++...
T Consensus       109 ilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~~~~~~~~~  168 (202)
T cd04120         109 LLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKMPL  168 (202)
T ss_pred             EEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHhCcc
Confidence            999999999877788888888888775 78999999999999999999999988775443

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

>KOG0079|consensus

Probab=99.97  E-value=5.9e-30  Score=169.55  Aligned_cols=132  Identities=48%  Similarity=0.799  Sum_probs=122.9

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      |+-|+|    ++++.++|..+.++||||+|+++|+.+...|+++.+++++|||+++.+||..+..|++++..+ .+.+|-
T Consensus        37 YitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~n-cdsv~~  115 (198)
T KOG0079|consen   37 YITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNN-CDSVPK  115 (198)
T ss_pred             eEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEEEEECcchhhhHhHHHHHHHHHhc-Cccccc
Confidence            555555    667778899999999999999999999999999999999999999999999999999999777 457999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ++||||.|+++.+.+..++++.++..+++.+||+||++..|++..|.-+.++..+.+
T Consensus       116 vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~cit~qvl~~k  172 (198)
T KOG0079|consen  116 VLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHCITKQVLQAK  172 (198)
T ss_pred             eecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999988776

>PTZ00099 rab6; Provisional

Probab=99.97  E-value=3.7e-29  Score=176.24  Aligned_cols=134  Identities=32%  Similarity=0.493  Sum_probs=119.1

Q ss_pred             ccccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc
Q psy2646           3 LLLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN   78 (168)
Q Consensus         3 ~~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p   78 (168)
                      .+.||++.    +.+.++++.+.+.||||+|+++|..++..+++++|++|+|||++++++|+.+..|+..+........|
T Consensus         8 ~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~p   87 (176)
T PTZ00099          8 NYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVI   87 (176)
T ss_pred             CCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCe
Confidence            36788874    45677899999999999999999999999999999999999999999999999999998665445789


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      +++||||+|+...+.+...++..++..+++.++++||++|.|++++|++++..+.+..
T Consensus        88 iilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~  145 (176)
T PTZ00099         88 IALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLD  145 (176)
T ss_pred             EEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            9999999999876678888888888888899999999999999999999999886644

>cd04126 Rab20 Rab20 subfamily

Probab=99.97  E-value=5.7e-29  Score=180.69  Aligned_cols=160  Identities=24%  Similarity=0.348  Sum_probs=129.9

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG   83 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~   83 (168)
                      +.||++..........+.+.||||+|+++|..++..+++++|++|+|||++++++|+.+..|+..+......+.|+++||
T Consensus        28 ~~~Tig~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVg  107 (220)
T cd04126          28 TVSTVGGAFYLKQWGPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVG  107 (220)
T ss_pred             CCCccceEEEEEEeeEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEE
Confidence            56788776666666778999999999999999999999999999999999999999999988888766545578999999


Q ss_pred             ecCCCCC-------------------CcccCHHHHHHHHHhcC--------------CCEEEEeccCCCCHHHHHHHHHH
Q psy2646          84 NKNDQTS-------------------KKAVDYQVAKEYADHLK--------------IPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        84 nK~Dl~~-------------------~~~v~~~~~~~~~~~~~--------------~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      ||+|+.+                   .+.++.+++..+++..+              ++|+|+||++|.|++++|..+++
T Consensus       108 NK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~  187 (220)
T cd04126         108 NKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLFN  187 (220)
T ss_pred             ECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccccccccccccceEEEeeCCCCCCHHHHHHHHHH
Confidence            9999975                   56788899999998776              68999999999999999999998


Q ss_pred             HHHHHhccCCCCCCchhhhhhccCCCCCCCCCCCCCCC
Q psy2646         131 EIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC  168 (168)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~  168 (168)
                      .+.........+.+++    ...-.+.+++ .++++||
T Consensus       188 ~~~~~~~~~~~~~~~~----~~~~~~~~~~-~~~~~~~  220 (220)
T cd04126         188 LVLPLILAQRAEANRT----QGTVNLPNPK-RSKSKCC  220 (220)
T ss_pred             HHHHHHHhhhhhhhhh----hccccCCCcc-cCCCCCC
Confidence            8876554443332222    1123344455 7788999

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.97  E-value=6.6e-29  Score=178.52  Aligned_cols=163  Identities=29%  Similarity=0.475  Sum_probs=131.1

Q ss_pred             cccccc----eeeeeeC-CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc----C
Q psy2646           4 LLPYQT----LQNKKEE-RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----C   74 (168)
Q Consensus         4 ~~~t~~----~~~~~~~-~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~----~   74 (168)
                      +.||++    .+.+.++ +..+.+.+|||||+++|..++..+++++|++|+|||++++++|+.+..|+..+....    .
T Consensus        29 ~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~  108 (201)
T cd04107          29 YKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNG  108 (201)
T ss_pred             CCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCC
Confidence            567776    3455666 788999999999999999999999999999999999999999999999998885431    2


Q ss_pred             CCCcEEEEEecCCCCCCcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCCCchhhhhhcc
Q psy2646          75 DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNL  153 (168)
Q Consensus        75 ~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      .+.|+++|+||+|+...+.+..+++.++++.++ .+++++||++|.|++++|+++++.+.+......++...++.+.. .
T Consensus       109 ~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~~~~~~~~~~~~~~~~-~  187 (201)
T cd04107         109 EPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAMRFLVKNILANDKNLQQAETPEDGSVI-D  187 (201)
T ss_pred             CCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhchhhHhhcCCCccccc-c
Confidence            578999999999997656678888899999888 68999999999999999999999998775555555444433333 3


Q ss_pred             CCCCCCCCCCCCCCC
Q psy2646         154 NSGKPVDAPRSGGCC  168 (168)
Q Consensus       154 ~~~~~~~~~~~~~c~  168 (168)
                      ..+++.. .++.+||
T Consensus       188 ~~~~~~~-~~~~~~~  201 (201)
T cd04107         188 LKQTTTK-KKSKGCC  201 (201)
T ss_pred             cccceec-cccCCCC
Confidence            3333333 5666899

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=99.97  E-value=1.1e-29  Score=170.45  Aligned_cols=127  Identities=43%  Similarity=0.721  Sum_probs=119.3

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      ++.+.++++.+++.||||+|+++|+.+.+.||++|.|+|+|||++.+++|..+..|+.++..++ +++.-.|+||||+|.
T Consensus        50 vk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDk  129 (209)
T KOG0080|consen   50 VKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDK  129 (209)
T ss_pred             EEEEEEcCceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccc
Confidence            6788999999999999999999999999999999999999999999999999999999997776 556777999999998


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      .+++.++.+++..|++.+++-|+|+||++.+|+...|+.++.++.+-.
T Consensus       130 es~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~~FeelveKIi~tp  177 (209)
T KOG0080|consen  130 ESERVVDREEGLKFARKHRCLFIECSAKTRENVQCCFEELVEKIIETP  177 (209)
T ss_pred             hhcccccHHHHHHHHHhhCcEEEEcchhhhccHHHHHHHHHHHHhcCc
Confidence            888999999999999999999999999999999999999999888643

>KOG0093|consensus

Probab=99.97  E-value=8.9e-30  Score=168.50  Aligned_cols=136  Identities=39%  Similarity=0.707  Sum_probs=124.1

Q ss_pred             ccccccee----eeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTLQ----NKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~~----~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.+|+|++    ++.-..+.+.+|+|||+|+++|+.+...|+++++|+|+|||++|.+||..+..|...|..++..+.|+
T Consensus        50 fvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqv  129 (193)
T KOG0093|consen   50 FVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQV  129 (193)
T ss_pred             eeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceE
Confidence            45666643    33345678999999999999999999999999999999999999999999999999998888889999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      |+++||+|+..++.++.+.++.++.++|..+||+||+.+.|++++|+.++..+.+++..+
T Consensus       130 ilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk~~Fe~lv~~Ic~kmses  189 (193)
T KOG0093|consen  130 ILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVKQVFERLVDIICDKMSES  189 (193)
T ss_pred             EEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHHHHHHHHHHHHHHHhhhh
Confidence            999999999999999999999999999999999999999999999999999999887654

>KOG0394|consensus

Probab=99.97  E-value=7.5e-29  Score=169.76  Aligned_cols=129  Identities=32%  Similarity=0.567  Sum_probs=117.8

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEec
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CDNVNKLLVGNK   85 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~piivv~nK   85 (168)
                      .|.+.+|++-+.++||||+|+++|.++.-.+|+++|.++++||++++.||+.+..|..++....    ....|+||+|||
T Consensus        48 tKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNK  127 (210)
T KOG0394|consen   48 TKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNK  127 (210)
T ss_pred             eeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEccc
Confidence            6888999999999999999999999999999999999999999999999999999999985543    246999999999


Q ss_pred             CCCCC--CcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          86 NDQTS--KKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        86 ~Dl~~--~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      +|+.+  .++++...++.+|...+ +||||+||+...|+.++|..+.+.++.....
T Consensus       128 iD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~NV~~AFe~ia~~aL~~E~~  183 (210)
T KOG0394|consen  128 IDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEATNVDEAFEEIARRALANEDR  183 (210)
T ss_pred             ccCCCCccceeeHHHHHHHHHhcCCceeEEecccccccHHHHHHHHHHHHHhccch
Confidence            99976  37899999999998775 9999999999999999999999999877654

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.96  E-value=2.2e-28  Score=178.71  Aligned_cols=164  Identities=19%  Similarity=0.341  Sum_probs=129.8

Q ss_pred             ccccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCc
Q psy2646           3 LLLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVN   78 (168)
Q Consensus         3 ~~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p   78 (168)
                      .+.||++.   +.+.+++..+.++||||+|+++|..+++.|++++|++|+|||++++++|+.+ ..|+..+.... ++.|
T Consensus        41 ~y~pTi~~~~~~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~-~~~p  119 (232)
T cd04174          41 TYVPTVFENYTAGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYC-PSTR  119 (232)
T ss_pred             CcCCceeeeeEEEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhC-CCCC
Confidence            35677653   3356789999999999999999999999999999999999999999999984 79999997663 5789


Q ss_pred             EEEEEecCCCCC------------CcccCHHHHHHHHHhcCC-CEEEEeccCCC-CHHHHHHHHHHHHHHHhccCCCC--
Q psy2646          79 KLLVGNKNDQTS------------KKAVDYQVAKEYADHLKI-PFLETSAKNGA-NVEQAFLTMATEIKKRVTKDEKP--  142 (168)
Q Consensus        79 iivv~nK~Dl~~------------~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~-~i~~i~~~l~~~~~~~~~~~~~~--  142 (168)
                      +++||||+|+..            .+.++.+++.++++.+++ .|++|||++|. |++++|..++..+.++..+....  
T Consensus       120 iilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~~~~~~~~~~~~~  199 (232)
T cd04174         120 ILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLCLNKLSPPIKKSP  199 (232)
T ss_pred             EEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHHHHhccccccccc
Confidence            999999999864            256888999999999998 69999999998 89999999999888764333222  


Q ss_pred             -----CCchhhhhhccCCCCCCCCCCCCCC
Q psy2646         143 -----SSESDAKKLNLNSGKPVDAPRSGGC  167 (168)
Q Consensus       143 -----~~~~~~~~~~~~~~~~~~~~~~~~c  167 (168)
                           +...+-+.....+.-..++.++++|
T Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  229 (232)
T cd04174         200 VRSLSKRLLHLPSRSELISSTFKKEKAKSC  229 (232)
T ss_pred             ccccccccccCCCcccccccccccccCCcc
Confidence                 1122223334444445566777777

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.

>cd04144 Ras2 Ras2 subfamily

Probab=99.96  E-value=4.5e-28  Score=172.77  Aligned_cols=136  Identities=28%  Similarity=0.472  Sum_probs=117.8

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc---CCCC
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA---CDNV   77 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~   77 (168)
                      +.||++   .+...+++..+.++||||||+++|..++..+++++|++|+|||+++.++|+.+..|+..+....   ..+.
T Consensus        28 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~  107 (190)
T cd04144          28 YDPTIEDSYRKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADV  107 (190)
T ss_pred             CCCchHhhEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCC
Confidence            456655   3456678888999999999999999999999999999999999999999999999999886543   2478


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      |+++||||+|+...+.+...++..+++.++++++++||++|.|++++|+++++.+..+...+
T Consensus       108 piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~l~~~~~~~  169 (190)
T cd04144         108 PIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQRQGG  169 (190)
T ss_pred             CEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHHHHHhhccc
Confidence            99999999999877777777888888888999999999999999999999999887665554

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

>KOG0091|consensus

Probab=99.96  E-value=1.1e-28  Score=166.02  Aligned_cols=134  Identities=40%  Similarity=0.615  Sum_probs=118.8

Q ss_pred             ccccceeee----ee-CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCC-
Q psy2646           5 LPYQTLQNK----KE-ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC-DNV-   77 (168)
Q Consensus         5 ~~t~~~~~~----~~-~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~-   77 (168)
                      -||++..+.    .+ +|..+++++|||+||++|+++...||+++-|++++||++|..||+.+..|+.+...+.. +.. 
T Consensus        38 dptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~  117 (213)
T KOG0091|consen   38 DPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKV  117 (213)
T ss_pred             CCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCee
Confidence            366664433    23 58889999999999999999999999999999999999999999999999999866542 444 


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      -+.+||+|.||...++++.++++.+++.+++.|+|+||++|.|+++.|.-+.+.+..+..+
T Consensus       118 VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEAF~mlaqeIf~~i~q  178 (213)
T KOG0091|consen  118 VFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEAFDMLAQEIFQAIQQ  178 (213)
T ss_pred             EEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHHHHHHHHHHHHHHhc
Confidence            4478999999999999999999999999999999999999999999999999999987766

>PLN03110 Rab GTPase; Provisional

Probab=99.96  E-value=1.8e-27  Score=172.84  Aligned_cols=135  Identities=39%  Similarity=0.603  Sum_probs=119.2

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    .+.+.+++..+.++||||+|+++|..++..++++++++|+|||++++.+|+.+..|+..+......+.|+
T Consensus        41 ~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~pi  120 (216)
T PLN03110         41 SKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVI  120 (216)
T ss_pred             CCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeE
Confidence            456665    4556778888999999999999999999999999999999999999999999999999987765557999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      ++++||+|+...+.+..+++..++..++++++++||+++.|++++|++++..+.+....
T Consensus       121 iiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~~l~~~i~~~~~~  179 (216)
T PLN03110        121 MMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHIISK  179 (216)
T ss_pred             EEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhc
Confidence            99999999987777888888888888899999999999999999999999998875443

>KOG0083|consensus

Probab=99.96  E-value=9.6e-29  Score=161.37  Aligned_cols=135  Identities=39%  Similarity=0.690  Sum_probs=123.4

Q ss_pred             cccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +++|+++    +.+.++++++.+|+|||+||++|++....||+.+|+++++||+.+.-||+....|+.+|.++....+.+
T Consensus        27 fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydiankasfdn~~~wlsei~ey~k~~v~l  106 (192)
T KOG0083|consen   27 FISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIHEYAKEAVAL  106 (192)
T ss_pred             eeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecccchhHHHHHHHHHHHHHHHHhhHhH
Confidence            5677774    456778999999999999999999999999999999999999999999999999999998886667899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      +++|||+|+..++.+..+++..+++.+++|+.++||++|.|++-.|-.+...+.+.+-.
T Consensus       107 ~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~k~~~~  165 (192)
T KOG0083|consen  107 MLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELKKLKMG  165 (192)
T ss_pred             hhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHHHhccC
Confidence            99999999988888999999999999999999999999999999999999888776543

>cd04110 Rab35 Rab35 subfamily

Probab=99.96  E-value=2.7e-27  Score=169.90  Aligned_cols=160  Identities=41%  Similarity=0.688  Sum_probs=127.7

Q ss_pred             cccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++.    ..+.+++..+.+.|||+||++.|..++..++++++++++|||++++++|+.+..|+..+... ....|+
T Consensus        35 ~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~-~~~~pi  113 (199)
T cd04110          35 YITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQN-CDDVCK  113 (199)
T ss_pred             cCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHh-CCCCCE
Confidence            5677663    44556788889999999999999999999999999999999999999999999999998665 357899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCCCchhhhhhccCCCCCC
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNLNSGKPV  159 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      ++||||+|+...+.+...++..++..++++++++||++|.|++++|+++...+........+...+    ......+-..
T Consensus       114 ivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~l~~~~~~~~~~~~~~~~~----~~~~~~~~~~  189 (199)
T cd04110         114 VLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKKDNLAKQQQ----QQQNDVVKLP  189 (199)
T ss_pred             EEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHHHHHHHHHhhhccCccccc----CCccccCccc
Confidence            999999999877677778888888888899999999999999999999999988664444322111    1112222223


Q ss_pred             CC-CCCCCCC
Q psy2646         160 DA-PRSGGCC  168 (168)
Q Consensus       160 ~~-~~~~~c~  168 (168)
                      |+ +++++||
T Consensus       190 ~~~~~~~~~~  199 (199)
T cd04110         190 KNSKRKKRCC  199 (199)
T ss_pred             hhccccccCC
Confidence            33 6788899

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.96  E-value=4.9e-27  Score=167.53  Aligned_cols=158  Identities=36%  Similarity=0.664  Sum_probs=129.6

Q ss_pred             cccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+.    +.+.+++..+.+.||||||++++..++..+++++|++|+|||++++++|+.+..|+..+......+.|+
T Consensus        30 ~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~pi  109 (191)
T cd04112          30 FIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVI  109 (191)
T ss_pred             cCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcE
Confidence            4555543    346678888999999999999999999999999999999999999999999999999987765557899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCCCchhhhhhccCCCCCC
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNLNSGKPV  159 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      ++++||+|+...+.+...++..+++.++++++++||++|.|++++|.++.+.+......  .++...-     ..++=+.
T Consensus       110 iiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~~~~~~~~~--~~~~~~~-----~~~~~~~  182 (191)
T cd04112         110 MLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRKYE--QPDEGKF-----KISDYVT  182 (191)
T ss_pred             EEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhccc--cCCCCcE-----EeccccC
Confidence            99999999976667777788888888899999999999999999999999998766432  2211111     1444556


Q ss_pred             CCCCCCCCC
Q psy2646         160 DAPRSGGCC  168 (168)
Q Consensus       160 ~~~~~~~c~  168 (168)
                      +..+.++||
T Consensus       183 ~~~~~~~~~  191 (191)
T cd04112         183 KQKKISRCC  191 (191)
T ss_pred             cccccCCCC
Confidence            668889999

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.

>KOG0095|consensus

Probab=99.96  E-value=2.3e-28  Score=162.40  Aligned_cols=126  Identities=44%  Similarity=0.760  Sum_probs=117.0

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ++++.++++++++++|||+|+++|+++...||+.|+++|++||++..++|+.+.+|+.++..+...++--|+||||.|+.
T Consensus        46 iktvev~gekiklqiwdtagqerfrsitqsyyrsahalilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~  125 (213)
T KOG0095|consen   46 IKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLA  125 (213)
T ss_pred             EEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchh
Confidence            78889999999999999999999999999999999999999999999999999999999988766677789999999999


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +.++++...+++|.+....-++++||++..|++.+|..+.-.+...
T Consensus       126 drrevp~qigeefs~~qdmyfletsakea~nve~lf~~~a~rli~~  171 (213)
T KOG0095|consen  126 DRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLFLDLACRLISE  171 (213)
T ss_pred             hhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHHHHHHHHHHHH
Confidence            9889999999999988888899999999999999999988766643

>KOG0086|consensus

Probab=99.95  E-value=1.4e-27  Score=159.23  Aligned_cols=136  Identities=40%  Similarity=0.630  Sum_probs=125.6

Q ss_pred             ccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646           5 LPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus         5 ~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      --..+++.+.+.++.++++||||+||++|++..+.||++|.|.++|||+++.++|+.+..|+..+.....+.+-++++||
T Consensus        43 GveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~Gn  122 (214)
T KOG0086|consen   43 GVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGN  122 (214)
T ss_pred             eeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCC
Confidence            34456888999999999999999999999999999999999999999999999999999999999777667788899999


Q ss_pred             cCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCC
Q psy2646          85 KNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE  140 (168)
Q Consensus        85 K~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~  140 (168)
                      |.||.+.++++..++..|+.+..+.++++||.+|+|+++.|-...+.+..+....+
T Consensus       123 KkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEEaFl~c~~tIl~kIE~GE  178 (214)
T KOG0086|consen  123 KKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIESGE  178 (214)
T ss_pred             hhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHHHHHHHHHHHHHHHhhcC
Confidence            99999999999999999999888899999999999999999999999998876553

>cd01875 RhoG RhoG subfamily

Probab=99.95  E-value=4.7e-27  Score=167.66  Aligned_cols=131  Identities=24%  Similarity=0.443  Sum_probs=112.7

Q ss_pred             cccccccee---eeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCc
Q psy2646           3 LLLPYQTLQ---NKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVN   78 (168)
Q Consensus         3 ~~~~t~~~~---~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p   78 (168)
                      .+.||++..   .+.++++.+.+++|||+|+++|..+++.|++++|++|+|||++++++|+.+. .|+..+... .++.|
T Consensus        31 ~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~-~~~~p  109 (191)
T cd01875          31 EYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHH-CPNVP  109 (191)
T ss_pred             CCCCceEeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCC
Confidence            467787643   3467899999999999999999999999999999999999999999999996 588877655 35799


Q ss_pred             EEEEEecCCCCCCc------------ccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKK------------AVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        79 iivv~nK~Dl~~~~------------~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +++||||.|+.+..            .+..+++..+++.++ ++++++||++|.|++++|.++++.+..
T Consensus       110 iilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         110 ILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             EEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHhc
Confidence            99999999996532            366778888998888 689999999999999999999988754

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.95  E-value=2.8e-27  Score=167.53  Aligned_cols=130  Identities=23%  Similarity=0.452  Sum_probs=114.3

Q ss_pred             ccccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCc
Q psy2646           3 LLLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVN   78 (168)
Q Consensus         3 ~~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p   78 (168)
                      .+.||++   .+.+.+++..+.+++|||+|+++|..+++.+++++|++|+|||++++.+|+.+ ..|+..+.... ++.|
T Consensus        33 ~~~pT~~~~~~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~-~~~p  111 (182)
T cd04172          33 NYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTK  111 (182)
T ss_pred             ccCCceeeeeEEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCC
Confidence            3567765   34567789999999999999999999999999999999999999999999997 79999997763 5799


Q ss_pred             EEEEEecCCCCC------------CcccCHHHHHHHHHhcCC-CEEEEeccCCCC-HHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTS------------KKAVDYQVAKEYADHLKI-PFLETSAKNGAN-VEQAFLTMATEIK  133 (168)
Q Consensus        79 iivv~nK~Dl~~------------~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~-i~~i~~~l~~~~~  133 (168)
                      +++||||+|+..            .+.++.+++.++++.+++ +|+|+||++|.| ++++|..+++.+.
T Consensus       112 iilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         112 MLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             EEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECCcCCCCCCHHHHHHHHHHHHh
Confidence            999999999864            245888999999999995 899999999998 9999999998654

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>cd04133 Rop_like Rop subfamily

Probab=99.95  E-value=4.7e-27  Score=165.54  Aligned_cols=128  Identities=27%  Similarity=0.486  Sum_probs=112.6

Q ss_pred             cccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++.   +.+.+++..+.++||||+|+++|..++..+++++|++|+|||+++++||+.+ ..|+..+.... .+.|+
T Consensus        30 ~~~Ti~~~~~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~-~~~pi  108 (176)
T cd04133          30 YIPTVFDNFSANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYA-PNVPI  108 (176)
T ss_pred             CCCcceeeeEEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhC-CCCCE
Confidence            5677653   4456788999999999999999999999999999999999999999999998 68999987663 57999


Q ss_pred             EEEEecCCCCCCc----------ccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKK----------AVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++||||+|+.+.+          .++.+++..+++.+++ +++|+||++|.|++++|+.+++.+
T Consensus       109 ilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~  172 (176)
T cd04133         109 VLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVV  172 (176)
T ss_pred             EEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCcccCHHHHHHHHHHHH
Confidence            9999999996542          4788899999999987 599999999999999999999875

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,

>cd04125 RabA_like RabA-like subfamily

Probab=99.95  E-value=1.9e-26  Score=164.04  Aligned_cols=136  Identities=49%  Similarity=0.793  Sum_probs=119.4

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    .+.+.+++..+.+++|||+|+++|..++..+++++|++|+|||++++++|..+..|+..+........|+
T Consensus        29 ~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~  108 (188)
T cd04125          29 TKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIK  108 (188)
T ss_pred             CCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeE
Confidence            456665    4556778888999999999999999999999999999999999999999999999999987765556899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ++++||.|+.+.+.++..++..++...+++++++||+++.|++++|+++.+.+.++....
T Consensus       109 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~~~~~~~~~  168 (188)
T cd04125         109 VIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVKLIIKRLEEQ  168 (188)
T ss_pred             EEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHhhcC
Confidence            999999999877777878888888888899999999999999999999999998765444

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.

>cd04109 Rab28 Rab28 subfamily

Probab=99.95  E-value=1.3e-26  Score=168.28  Aligned_cols=132  Identities=25%  Similarity=0.377  Sum_probs=115.0

Q ss_pred             cccccce----eeeeeCC-eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC---C
Q psy2646           4 LLPYQTL----QNKKEER-TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC---D   75 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~-~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~   75 (168)
                      +.||++.    +.+.+++ ..+.++||||+|++.+..++..+++++|++|+|||++++++|+.+..|+..+.....   .
T Consensus        29 ~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~  108 (215)
T cd04109          29 YKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSET  108 (215)
T ss_pred             CCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCC
Confidence            5677763    4455554 578999999999999999999999999999999999999999999999999876532   3


Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +.|+++|+||+|+...+.+..+++..+++.++++++++||++|.|++++|++++..+...
T Consensus       109 ~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~l~~~l~~~  168 (215)
T cd04109         109 QPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQLAAELLGV  168 (215)
T ss_pred             CceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            568999999999987777888888899998899999999999999999999999988764

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.95  E-value=1.1e-26  Score=163.17  Aligned_cols=132  Identities=30%  Similarity=0.494  Sum_probs=116.7

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||++   .+.+.+++..+.++||||||+++|..++..+++++|++|+|||++++.+|+.+..|...+.+.. ..+.|+
T Consensus        31 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~pi  110 (172)
T cd04141          31 HDPTIEDAYKQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPL  110 (172)
T ss_pred             cCCcccceEEEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCE
Confidence            455654   3456778999999999999999999999999999999999999999999999999988886643 357999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ++|+||+|+...+.++.+++..+++.++++++++||++|.|++++|+++++.+..+
T Consensus       111 ilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~  166 (172)
T cd04141         111 VLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGLVREIRRK  166 (172)
T ss_pred             EEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            99999999987777888899999998999999999999999999999999887763

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.95  E-value=2e-26  Score=160.75  Aligned_cols=125  Identities=44%  Similarity=0.723  Sum_probs=113.1

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++..+.+.+|||||+++|..++..+++++|++|+|||++++++|+.+..|+..+.....++.|+++|+||+|+.
T Consensus        41 ~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~  120 (166)
T cd04122          41 TRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE  120 (166)
T ss_pred             EEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc
Confidence            34566788899999999999999999999999999999999999999999999999998866655678999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +.+.++.+++..+++..+++++++||++|.|++++|.+++..+.+
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~~~~~  165 (166)
T cd04122         121 AQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ  165 (166)
T ss_pred             cccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            877788888889998889999999999999999999999987754

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

>cd04131 Rnd Rnd subfamily

Probab=99.95  E-value=1.5e-26  Score=163.35  Aligned_cols=130  Identities=24%  Similarity=0.435  Sum_probs=113.3

Q ss_pred             ccccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCc
Q psy2646           3 LLLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVN   78 (168)
Q Consensus         3 ~~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p   78 (168)
                      .+.||++.   +.+.++++.+.+++|||+|+++|..+++.+++++|++|+|||+++++||+.+ ..|+..+.... ++.|
T Consensus        29 ~~~~t~~~~~~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~-~~~~  107 (178)
T cd04131          29 TYVPTVFENYTASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFC-PNTK  107 (178)
T ss_pred             CcCCceEEEEEEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHC-CCCC
Confidence            35677653   4467789999999999999999999999999999999999999999999996 78999987763 5799


Q ss_pred             EEEEEecCCCCC------------CcccCHHHHHHHHHhcCC-CEEEEeccCCCC-HHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTS------------KKAVDYQVAKEYADHLKI-PFLETSAKNGAN-VEQAFLTMATEIK  133 (168)
Q Consensus        79 iivv~nK~Dl~~------------~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~-i~~i~~~l~~~~~  133 (168)
                      +++||||.||.+            .+.++.+++.++++.+++ +|+++||++|.| ++++|..+++...
T Consensus       108 iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         108 VLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             EEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccCcCCcCHHHHHHHHHHHHh
Confidence            999999999964            245888999999999996 799999999995 9999999998644

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.95  E-value=2.9e-26  Score=166.66  Aligned_cols=136  Identities=20%  Similarity=0.409  Sum_probs=114.0

Q ss_pred             ccccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCc
Q psy2646           3 LLLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVN   78 (168)
Q Consensus         3 ~~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p   78 (168)
                      .+.||++.   ..+.+++..+.|.||||+|+++|..+++.+++++|++|+|||++++++|+.+ ..|...+... .++.|
T Consensus        29 ~y~pTi~~~~~~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~-~~~~p  107 (222)
T cd04173          29 SYVPTVFENYTASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEF-CPNAK  107 (222)
T ss_pred             ccCCccccceEEEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCC
Confidence            36777763   3457789999999999999999999999999999999999999999999998 4677666544 46799


Q ss_pred             EEEEEecCCCCCC------------cccCHHHHHHHHHhcCC-CEEEEeccCCCC-HHHHHHHHHHHHHHHhccC
Q psy2646          79 KLLVGNKNDQTSK------------KAVDYQVAKEYADHLKI-PFLETSAKNGAN-VEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        79 iivv~nK~Dl~~~------------~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~-i~~i~~~l~~~~~~~~~~~  139 (168)
                      +++||||+|+...            ..++.+++..+++..++ +|+||||+++.+ ++++|..++.....+....
T Consensus       108 iiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~~~~~~~  182 (222)
T cd04173         108 VVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRSSERSVRDVFHVATVASLGRGHRQ  182 (222)
T ss_pred             EEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHHHHhccCCc
Confidence            9999999998542            13677889999999985 899999999985 9999999999887755433

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

>KOG0081|consensus

Probab=99.95  E-value=6.2e-27  Score=157.02  Aligned_cols=122  Identities=37%  Similarity=0.714  Sum_probs=113.2

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCCCCCcccC
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl~~~~~v~   95 (168)
                      +..+.+++|||+|+++|+++...|+++|-+++++||+++..||..+++|+.++..+. ..+..|+++|||+||...++++
T Consensus        64 ~~rihLQlWDTAGQERFRSLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs  143 (219)
T KOG0081|consen   64 GQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVS  143 (219)
T ss_pred             ceEEEEeeeccccHHHHHHHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhh
Confidence            456899999999999999999999999999999999999999999999999996664 5678899999999999999999


Q ss_pred             HHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          96 YQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        96 ~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      ..++.+++..+++|||++||-+|.|+++..+-+.+.+.++...
T Consensus       144 ~~qa~~La~kyglPYfETSA~tg~Nv~kave~LldlvM~Rie~  186 (219)
T KOG0081|consen  144 EDQAAALADKYGLPYFETSACTGTNVEKAVELLLDLVMKRIEQ  186 (219)
T ss_pred             HHHHHHHHHHhCCCeeeeccccCcCHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999888887654

>PTZ00369 Ras-like protein; Provisional

Probab=99.95  E-value=3.1e-26  Score=163.14  Aligned_cols=134  Identities=35%  Similarity=0.525  Sum_probs=116.6

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||.+   .+.+.+++..+.+++|||||+++|..++..+++++|++++|||++++++|+.+..|+..+.... ..+.|+
T Consensus        34 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~pi  113 (189)
T PTZ00369         34 YDPTIEDSYRKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPM  113 (189)
T ss_pred             cCCchhhEEEEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE
Confidence            456654   3555788999999999999999999999999999999999999999999999999999886653 347899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ++++||+|+.+.+.+...++..+++.++++++++||++|.|++++|.++++.+.+..+
T Consensus       114 iiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~l~~~l~~~~~  171 (189)
T PTZ00369        114 ILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKYLK  171 (189)
T ss_pred             EEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            9999999997766677777888888888999999999999999999999998876544

>cd04111 Rab39 Rab39 subfamily

Probab=99.95  E-value=1.1e-25  Score=162.98  Aligned_cols=136  Identities=38%  Similarity=0.617  Sum_probs=116.6

Q ss_pred             ccccccee----eeee-CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCC
Q psy2646           4 LLPYQTLQ----NKKE-ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNV   77 (168)
Q Consensus         4 ~~~t~~~~----~~~~-~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~   77 (168)
                      +.||++..    .+.+ ++..+.+++|||+|+++|..++..+++++|++|+|||++++++|+.+..|+..+.... ....
T Consensus        31 ~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~  110 (211)
T cd04111          31 SDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRP  110 (211)
T ss_pred             CCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC
Confidence            45666533    3444 4667899999999999999999999999999999999999999999999999986654 3357


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      |+++++||.|+...+.+..+++..+++.++++++++||++|.|++++|+++++.+.++....
T Consensus       111 ~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~~~~~~~~  172 (211)
T cd04111         111 VFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIKRG  172 (211)
T ss_pred             eEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhcC
Confidence            88999999999877778888888999999999999999999999999999999888775443

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

>PLN03108 Rab family protein; Provisional

Probab=99.94  E-value=3e-25  Score=160.57  Aligned_cols=128  Identities=42%  Similarity=0.699  Sum_probs=115.5

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++..+.+.+|||+|+++|..++..+++++|++|+|||++++++|..+..|+..+........|+++++||+|+.
T Consensus        45 ~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~  124 (210)
T PLN03108         45 ARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLA  124 (210)
T ss_pred             EEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCc
Confidence            44567888889999999999999999999999999999999999999999999999988866545679999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ..+.+..+++.++++.++++++++||+++.|++++|.++++.+.++..
T Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~l~~~~~~~~~  172 (210)
T PLN03108        125 HRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQ  172 (210)
T ss_pred             cccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            777788888999999999999999999999999999999999987654

>KOG0097|consensus

Probab=99.94  E-value=9.2e-26  Score=148.90  Aligned_cols=136  Identities=41%  Similarity=0.654  Sum_probs=126.1

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG   83 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~   83 (168)
                      .-...+.+.+.+.+.++++++|||+|+++|+...+.|++++.+.+.|||++.+.++..+..|+........++.-++++|
T Consensus        44 igvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaagalmvyditrrstynhlsswl~dar~ltnpnt~i~lig  123 (215)
T KOG0097|consen   44 IGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIG  123 (215)
T ss_pred             cceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEec
Confidence            34456688999999999999999999999999999999999999999999999999999999999877777889999999


Q ss_pred             ecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ||.|+..++.++.+++.+|+++.|+.++++||++|.|+++.|-....++.+.....
T Consensus       124 nkadle~qrdv~yeeak~faeengl~fle~saktg~nvedafle~akkiyqniqdg  179 (215)
T KOG0097|consen  124 NKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAFLETAKKIYQNIQDG  179 (215)
T ss_pred             chhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHHHHHHHHHHHhhhcC
Confidence            99999999999999999999999999999999999999999999999998876654

>cd04136 Rap_like Rap-like subfamily

Probab=99.94  E-value=2.2e-25  Score=154.61  Aligned_cols=129  Identities=32%  Similarity=0.509  Sum_probs=112.3

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||.+   .+.+.+++..+.++||||||+++|..++..+++++|++++|||++++++|+.+..|+..+.... ..+.|+
T Consensus        30 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi  109 (163)
T cd04136          30 YDPTIEDSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPM  109 (163)
T ss_pred             cCCchhhhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE
Confidence            445543   5567778888999999999999999999999999999999999999999999999999886653 357999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++++||+|+.+.+.+...++..+++.++.+++++||+++.|+.++|+++++.+
T Consensus       110 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136         110 VLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             EEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence            99999999977666777777788888889999999999999999999998754

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>cd04134 Rho3 Rho3 subfamily

Probab=99.94  E-value=3.2e-25  Score=157.93  Aligned_cols=129  Identities=26%  Similarity=0.439  Sum_probs=108.8

Q ss_pred             cccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~pi   79 (168)
                      +.||++.   +.+.+++..+.+.||||+|+++|..++..+++++|++|+|||++++++|+.+. .|+..+... .++.|+
T Consensus        29 ~~~t~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~-~~~~pi  107 (189)
T cd04134          29 YEPTVFENYVHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREH-CPGVKL  107 (189)
T ss_pred             cCCcceeeeEEEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCE
Confidence            4566643   34556888899999999999999999999999999999999999999999886 588888665 357999


Q ss_pred             EEEEecCCCCCCc------------ccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKK------------AVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~~------------~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ++||||+|+...+            .+..+++..++...+ ++++++||++|.|++++|.++++.+.
T Consensus       108 ilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~~~~  174 (189)
T cd04134         108 VLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLNRGVNEAFTEAARVAL  174 (189)
T ss_pred             EEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcCCCHHHHHHHHHHHHh
Confidence            9999999996543            245566777877776 78999999999999999999998886

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.

>cd04118 Rab24 Rab24 subfamily

Probab=99.94  E-value=7.5e-25  Score=156.31  Aligned_cols=135  Identities=31%  Similarity=0.567  Sum_probs=114.7

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    .+.+.+++..+.+.+|||+|++++..++..+++++|++++|||++++++|+.+..|+..+... ..+.|+
T Consensus        30 ~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~-~~~~pi  108 (193)
T cd04118          30 YQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNL-EEHCKI  108 (193)
T ss_pred             cccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhc-CCCCCE
Confidence            456665    456777899999999999999999999999999999999999999999999999999988665 347899


Q ss_pred             EEEEecCCCCCC----cccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          80 LLVGNKNDQTSK----KAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        80 ivv~nK~Dl~~~----~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ++|+||+|+...    +.+...++..++..++++++++||+++.|++++|+++.+.+.++...+
T Consensus       109 ilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~~~~~  172 (193)
T cd04118         109 YLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAEDFVSRANNQ  172 (193)
T ss_pred             EEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhcccc
Confidence            999999998532    345556677788888899999999999999999999999998765443

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.94  E-value=2.3e-25  Score=154.95  Aligned_cols=130  Identities=32%  Similarity=0.495  Sum_probs=113.6

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||.+   .+.+.+++..+.+++|||||+++|..++..+++++|++++|||++++.+|+.+..|+..+.... ..+.|+
T Consensus        30 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi  109 (164)
T cd04175          30 YDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPM  109 (164)
T ss_pred             cCCcchheEEEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE
Confidence            445554   3567778889999999999999999999999999999999999999999999999999986543 457999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ++++||+|+...+.+...++..+++.++++++++||++|.|++++|.++...+.
T Consensus       110 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~l~  163 (164)
T cd04175         110 ILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQIN  163 (164)
T ss_pred             EEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHhh
Confidence            999999999877677777777888888899999999999999999999987653

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

>cd04117 Rab15 Rab15 subfamily

Probab=99.94  E-value=2.4e-25  Score=154.73  Aligned_cols=128  Identities=34%  Similarity=0.658  Sum_probs=114.1

Q ss_pred             cccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++.    +.+.+++..+.+++||++|+++|..++..+++++|++++|||++++++|+.+..|+..+......+.|+
T Consensus        29 ~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~i  108 (161)
T cd04117          29 HISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQK  108 (161)
T ss_pred             CCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeE
Confidence            4667663    456677888999999999999999999999999999999999999999999999999987664457999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ++||||.|+...+.+..+++..+++.++++++++||++|.|++++|.+|++.
T Consensus       109 ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117         109 ILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             EEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            9999999998777788888999998889999999999999999999999864

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.94  E-value=2.4e-25  Score=156.81  Aligned_cols=129  Identities=22%  Similarity=0.358  Sum_probs=110.1

Q ss_pred             ccccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCc
Q psy2646           3 LLLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVN   78 (168)
Q Consensus         3 ~~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p   78 (168)
                      .+.||++.   +.+.+++..+.++||||+|+++|..++..+++++|++|+|||++++++|+.+. .|+..+... .++.|
T Consensus        29 ~~~pt~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~-~~~~p  107 (175)
T cd01874          29 EYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTP  107 (175)
T ss_pred             CCCCceeeeeEEEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCC
Confidence            46678764   24466788899999999999999999999999999999999999999999996 588888655 35799


Q ss_pred             EEEEEecCCCCCC------------cccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSK------------KAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        79 iivv~nK~Dl~~~------------~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +++||||+|+...            +.+..+++.++++..+ +.++++||++|.|++++|+.++..+
T Consensus       108 iilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~~~~~  174 (175)
T cd01874         108 FLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA  174 (175)
T ss_pred             EEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCCCCCHHHHHHHHHHHh
Confidence            9999999998643            4567788888888877 7899999999999999999998754

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.94  E-value=3.6e-25  Score=154.25  Aligned_cols=131  Identities=68%  Similarity=1.025  Sum_probs=115.3

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+    .+.+.+++..+.+++||+||+++|..++..+++++|++|+|||++++++|..+..|+..+......+.|+
T Consensus        31 ~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~  110 (166)
T cd01869          31 YISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNK  110 (166)
T ss_pred             CCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcE
Confidence            345554    3456667888999999999999999999999999999999999999999999999999987764457899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ++++||+|+...+.+..+++..+++.++++++++||++|.|++++|.++.+.+.+
T Consensus       111 iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~~  165 (166)
T cd01869         111 LLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMAREIKK  165 (166)
T ss_pred             EEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHHHHHHh
Confidence            9999999998777788888888998889999999999999999999999988753

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.94  E-value=4e-25  Score=154.35  Aligned_cols=131  Identities=47%  Similarity=0.797  Sum_probs=115.3

Q ss_pred             cccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+.    +.+.+++..+.+++|||||++++..++..+++++|++|+|||++++++|..+..|+..+......+.|+
T Consensus        32 ~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~  111 (167)
T cd01867          32 FISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVER  111 (167)
T ss_pred             cccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcE
Confidence            4556553    445668888999999999999999999999999999999999999999999999999997765567999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +++|||+|+.+.+.+..+++..+++.++++++++||+++.|++++|+++.+.+..
T Consensus       112 iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~~  166 (167)
T cd01867         112 MLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTLAKDIKK  166 (167)
T ss_pred             EEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            9999999998766777788888888889999999999999999999999998764

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.94  E-value=4.4e-25  Score=153.83  Aligned_cols=132  Identities=39%  Similarity=0.685  Sum_probs=114.8

Q ss_pred             ccccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc
Q psy2646           3 LLLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN   78 (168)
Q Consensus         3 ~~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p   78 (168)
                      .+.||++.    +.+..+++.+.+++|||+|+++|..++..+++++|++++|||++++++++.+..|+..+........|
T Consensus        29 ~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p  108 (165)
T cd01865          29 AFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQ  108 (165)
T ss_pred             CCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCC
Confidence            35677663    34455777899999999999999999999999999999999999999999999999998766545789


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +++++||+|+.+.+.+..+++.++++.++++++++||+++.|++++|++++..+.+
T Consensus       109 iivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  164 (165)
T cd01865         109 VILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVDIICD  164 (165)
T ss_pred             EEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            99999999998776677778888888888999999999999999999999987654

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

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

Probab=99.94  E-value=3.2e-25  Score=159.08  Aligned_cols=129  Identities=26%  Similarity=0.495  Sum_probs=111.2

Q ss_pred             cccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++.    +.+.++++.+.+.||||+|+++|..++..|++++|++|+|||++++.+|+.+..|+..+.+. ..++|+
T Consensus        24 ~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~-~~~~pi  102 (200)
T smart00176       24 YVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRV-CENIPI  102 (200)
T ss_pred             CCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHh-CCCCCE
Confidence            5677764    34556788999999999999999999999999999999999999999999999999999776 357999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ++||||+|+.. +.+..+. ..+++..+++++++||++|.|+.++|.+++..+.+.
T Consensus       103 ilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176      103 VLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             EEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            99999999864 3444443 467777889999999999999999999999988764

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.94  E-value=4.6e-25  Score=155.60  Aligned_cols=119  Identities=39%  Similarity=0.745  Sum_probs=107.7

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCCCCCcccC
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl~~~~~v~   95 (168)
                      +..+.+.||||||+++|..++..+++++|++|+|||++++++|..+..|+..+.... ..+.|+++|+||+|+.+.+.+.
T Consensus        60 ~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~  139 (180)
T cd04127          60 GQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVS  139 (180)
T ss_pred             CCEEEEEEEeCCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccC
Confidence            456899999999999999999999999999999999999999999999999986653 3478999999999998777788


Q ss_pred             HHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          96 YQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        96 ~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      .+++..+++.++++++++||++|.|++++|+++.+.+.++
T Consensus       140 ~~~~~~~~~~~~~~~~e~Sak~~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         140 EEQAKALADKYGIPYFETSAATGTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             HHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            7888899999999999999999999999999999887654

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.94  E-value=2.9e-25  Score=158.79  Aligned_cols=115  Identities=22%  Similarity=0.367  Sum_probs=101.4

Q ss_pred             eeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCCCC--
Q psy2646          14 KEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQTS--   90 (168)
Q Consensus        14 ~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl~~--   90 (168)
                      .+++..+.++||||+|+++  .+...+++++|++|+|||++++.||+.+. .|+..+.... ++.|+++||||+|+..  
T Consensus        60 ~~~~~~v~l~iwDTaG~~~--~~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~  136 (195)
T cd01873          60 VVDGVSVSLRLWDTFGDHD--KDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYAD  136 (195)
T ss_pred             eeCCEEEEEEEEeCCCChh--hhhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccc
Confidence            5788999999999999975  34567899999999999999999999996 5988886653 5789999999999863  


Q ss_pred             -----------------CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          91 -----------------KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        91 -----------------~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                                       .+.++.+++..+++.++++|+||||++|.|++++|+.++++
T Consensus       137 ~~~~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         137 LDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             cchhhhcccccccccccCCccCHHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence                             36788899999999999999999999999999999999864

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.

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.94  E-value=7.9e-25  Score=155.40  Aligned_cols=134  Identities=27%  Similarity=0.457  Sum_probs=111.2

Q ss_pred             ccccccee---eeeeC-CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCc
Q psy2646           4 LLPYQTLQ---NKKEE-RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVN   78 (168)
Q Consensus         4 ~~~t~~~~---~~~~~-~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p   78 (168)
                      +.||++..   .+..+ +..+.+++|||||+++|..++..+++++|++|+|||++++++|+.+. .|+..+... .++.|
T Consensus        29 ~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p  107 (187)
T cd04132          29 YVPTVFENYVTNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHF-CPGTP  107 (187)
T ss_pred             CCCeeeeeeEEEEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCC
Confidence            45665533   33444 67789999999999999999999999999999999999999999986 588777554 35789


Q ss_pred             EEEEEecCCCCCC----cccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          79 KLLVGNKNDQTSK----KAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        79 iivv~nK~Dl~~~----~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      +++++||.|+...    +.+...++.+++..+++ +++++||++|.|+.++|..+++.+......
T Consensus       108 iilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~~  172 (187)
T cd04132         108 IMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEVFDTAIEEALKKEGK  172 (187)
T ss_pred             EEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHHHHHHHHHHHhhhhh
Confidence            9999999998643    24667788888888887 899999999999999999999998865443

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.

>cd04128 Spg1 Spg1p

Probab=99.93  E-value=5.3e-25  Score=155.98  Aligned_cols=130  Identities=22%  Similarity=0.390  Sum_probs=109.7

Q ss_pred             cccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++.    +.+.+++..+.+++|||+|+++|..++..+++++|++++|||++++++|+.+..|+..+........| 
T Consensus        29 ~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p-  107 (182)
T cd04128          29 YIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-  107 (182)
T ss_pred             CCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-
Confidence            6788764    45677888999999999999999999999999999999999999999999999999998765444566 


Q ss_pred             EEEEecCCCCC-----CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTS-----KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        80 ivv~nK~Dl~~-----~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ++||||+|+..     .......++..+++.++++++++||++|.|++++|+++++.+..
T Consensus       108 ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~  167 (182)
T cd04128         108 ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKIVLAKAFD  167 (182)
T ss_pred             EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            68899999852     11122356677888888999999999999999999999988865

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.93  E-value=8.7e-25  Score=151.80  Aligned_cols=129  Identities=30%  Similarity=0.491  Sum_probs=111.9

Q ss_pred             ccccc---ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQ---TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~---~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||.   ....+.+++..+.++||||||+++|..++..+++++|++++|||++++.+|+.+..|+..+.... ..+.|+
T Consensus        30 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~pi  109 (163)
T cd04176          30 YDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPI  109 (163)
T ss_pred             CCCchhheEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE
Confidence            44554   35667778888999999999999999999999999999999999999999999999999886653 357999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++++||+|+.....+...+...++..++++++++||+++.|++++|.++++.+
T Consensus       110 viv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176         110 ILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             EEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHhc
Confidence            99999999976666776777788887889999999999999999999998754

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

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.93  E-value=8.3e-25  Score=151.68  Aligned_cols=130  Identities=38%  Similarity=0.734  Sum_probs=118.7

Q ss_pred             ccccc----ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQ----TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~----~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.    ..+.+.+++..+.+++||++|+++|..++..+++++|++|+|||+++++||+.+..|+..+........|+
T Consensus        28 ~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~i  107 (162)
T PF00071_consen   28 YIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPI  107 (162)
T ss_dssp             SETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEE
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            45665    46667778999999999999999999999999999999999999999999999999999998875556999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +|+|||.|+...+.++.+++..+++.++++++++||+++.|+.++|..+++.+.
T Consensus       108 ivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen  108 IVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRKIL  161 (162)
T ss_dssp             EEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred             eeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            999999999887889999999999999999999999999999999999998875

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>PLN03118 Rab family protein; Provisional

Probab=99.93  E-value=2.2e-24  Score=156.12  Aligned_cols=133  Identities=45%  Similarity=0.665  Sum_probs=112.0

Q ss_pred             cccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHH-HHHHHHHhc-CCCC
Q psy2646           4 LLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQ-WLEEIDRYA-CDNV   77 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~-~~~~i~~~~-~~~~   77 (168)
                      +.||.+.    ..+.+++..+.+.||||||+++|..++..+++++|++|+|||++++++|..+.. |...+.... ..+.
T Consensus        42 ~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~  121 (211)
T PLN03118         42 LAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDC  121 (211)
T ss_pred             cCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCC
Confidence            3455543    445667888999999999999999999999999999999999999999999976 555554332 3468


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      |+++|+||+|+...+.+..++...++..++++++++||+++.|++++|+++...+....
T Consensus       122 ~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~~~~~~  180 (211)
T PLN03118        122 VKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVP  180 (211)
T ss_pred             CEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhhh
Confidence            99999999999877777777888888888999999999999999999999999997653

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.93  E-value=9.7e-25  Score=153.58  Aligned_cols=127  Identities=22%  Similarity=0.423  Sum_probs=108.5

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~pi   79 (168)
                      +.||++   .+.+.+++..+.+++|||+|+++|..++..+++++|++|+|||++++++|..+. .|+..+... .++.|+
T Consensus        30 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~-~~~~pi  108 (174)
T cd01871          30 YIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPI  108 (174)
T ss_pred             CCCcceeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCE
Confidence            455554   345577888899999999999999999999999999999999999999999996 688877554 357999


Q ss_pred             EEEEecCCCCCC------------cccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSK------------KAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        80 ivv~nK~Dl~~~------------~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ++||||+|+...            +.++.+++..+++.++ ++++++||++|.|++++|+.+++.
T Consensus       109 ilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         109 ILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             EEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccccCCHHHHHHHHHHh
Confidence            999999999642            2477888889999888 599999999999999999999864

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.93  E-value=2e-24  Score=150.18  Aligned_cols=130  Identities=25%  Similarity=0.510  Sum_probs=114.0

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-----
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC-----   74 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-----   74 (168)
                      +.||++    .+.+.+++..+.+++|||||++++..++..+++++|++|+|||++++++++.+..|+..+.....     
T Consensus        29 ~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~  108 (168)
T cd04119          29 YLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNM  108 (168)
T ss_pred             CCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccC
Confidence            566765    45667788899999999999999999999999999999999999999999999999999876542     


Q ss_pred             CCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          75 DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        75 ~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .+.|+++|+||+|+.+.+.+..++...++...+++++++||+++.|++++|+++.+.+.
T Consensus       109 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~  167 (168)
T cd04119         109 ENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSIV  167 (168)
T ss_pred             CCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            46899999999999765667777887888888899999999999999999999998764

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.

>cd01866 Rab2 Rab2 subfamily

Probab=99.93  E-value=3.1e-24  Score=150.04  Aligned_cols=125  Identities=44%  Similarity=0.732  Sum_probs=112.3

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++..+.+.+|||||+++|..++..+++++|++++|||++++++++.+..|+..+.....++.|+++++||.|+.
T Consensus        43 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~  122 (168)
T cd01866          43 ARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLE  122 (168)
T ss_pred             EEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc
Confidence            35567788889999999999999999999999999999999999999999999999999977655689999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ..+.+..+++..++...+++++++||.++.|++++|.++.+.+.+
T Consensus       123 ~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~~~~~~~  167 (168)
T cd01866         123 SRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFINTAKEIYE  167 (168)
T ss_pred             cccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            666777788888888889999999999999999999999988754

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

>KOG0395|consensus

Probab=99.93  E-value=3.8e-24  Score=152.70  Aligned_cols=135  Identities=32%  Similarity=0.443  Sum_probs=123.0

Q ss_pred             ccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEE
Q psy2646           5 LPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVG   83 (168)
Q Consensus         5 ~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~   83 (168)
                      +++.+.+.+.++++.+.+.|+||+|+++|..+...|++++||+++||++++..||+.+..++..+.+.. ...+|+++||
T Consensus        36 ied~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVG  115 (196)
T KOG0395|consen   36 IEDSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVG  115 (196)
T ss_pred             ccccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEE
Confidence            334478999999999999999999999999999999999999999999999999999999999995554 3468999999


Q ss_pred             ecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ||+|+...+.++.+++..++..++++|+|+||+...+++++|..+++.+.......
T Consensus       116 NK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L~r~~~~~~~~~  171 (196)
T KOG0395|consen  116 NKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYELVREIRLPREGS  171 (196)
T ss_pred             EcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHHHHHHHhhhccc
Confidence            99999988999999999999999999999999999999999999999998854443

>cd01868 Rab11_like Rab11-like

Probab=99.93  E-value=3.7e-24  Score=148.93  Aligned_cols=129  Identities=43%  Similarity=0.672  Sum_probs=113.0

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+    .+.+.+++..+.+++||+||++++..++..++++++++|+|||++++.++..+..|+..+......+.|+
T Consensus        32 ~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi  111 (165)
T cd01868          32 SKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADSNIVI  111 (165)
T ss_pred             CCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeE
Confidence            345655    4455667888899999999999999999999999999999999999999999999999987765456899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++|+||.|+...+.+..++...++...+++++++||++|.|++++|++++..+
T Consensus       112 ~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868         112 MLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             EEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            99999999987677777788888888889999999999999999999998764

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

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

Probab=99.93  E-value=4.6e-24  Score=148.03  Aligned_cols=123  Identities=33%  Similarity=0.553  Sum_probs=109.0

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      .+...+++..+.+++|||||++++..++..+++++|++++|||++++.+|+.+..|+..+.... ..+.|+++++||+|+
T Consensus        40 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl  119 (164)
T cd04145          40 TKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADL  119 (164)
T ss_pred             EEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccc
Confidence            4455688888999999999999999999999999999999999999999999999998886542 457899999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ...+.+..+++..+++.++++++++||++|.|++++|+++++.+
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145         120 EHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             cccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence            87666777778888888889999999999999999999998764

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.92  E-value=5.8e-24  Score=147.71  Aligned_cols=124  Identities=39%  Similarity=0.593  Sum_probs=110.1

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      .+...+++..+.+.+|||||+++|..++..+++++|++++|||++++++|+.+..|...+.... ..+.|+++++||+|+
T Consensus        38 ~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl  117 (164)
T smart00173       38 RKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDL  117 (164)
T ss_pred             EEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccc
Confidence            5666778888999999999999999999999999999999999999999999999988886543 347899999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ...+.+..+++..+++.++.+++++||+++.|++++|+++++.+.
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173      118 ESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIR  162 (164)
T ss_pred             cccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence            876667777788888888899999999999999999999998764

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.92  E-value=6e-24  Score=148.11  Aligned_cols=128  Identities=27%  Similarity=0.371  Sum_probs=109.5

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc---CCCC
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA---CDNV   77 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~   77 (168)
                      +.||.+   .+.+..+...+.+.+|||+|+++|..++..+++.+|++|+|||++++++++.+..|+..+....   ..+.
T Consensus        30 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~  109 (165)
T cd04140          30 YIPTIEDTYRQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKI  109 (165)
T ss_pred             cCCcchheEEEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCC
Confidence            455554   3445567888999999999999999999999999999999999999999999999988875542   2579


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      |+++|+||+|+...+.+...++..++..++++++++||++|.|++++|++++..
T Consensus       110 piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~l~~~  163 (165)
T cd04140         110 PIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQELLNL  163 (165)
T ss_pred             CEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHHHHhc
Confidence            999999999997766777777778888888999999999999999999999753

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.92  E-value=6.3e-24  Score=147.88  Aligned_cols=122  Identities=48%  Similarity=0.769  Sum_probs=108.3

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++..+.+.+|||||+++|..++..+++++|++++|||++++.+|+.+..|+..+......+.|+++|+||+|+.
T Consensus        42 ~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~  121 (165)
T cd01864          42 MKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLE  121 (165)
T ss_pred             EEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccc
Confidence            45566678788999999999999999999999999999999999999999999999999977655679999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ..+.+...++..+++.++. .++++||++|.|++++|+++.+.
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864         122 EQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             cccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHHHHHh
Confidence            7767777788888888775 78999999999999999999865

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.

>cd04113 Rab4 Rab4 subfamily

Probab=99.92  E-value=5.8e-24  Score=147.35  Aligned_cols=122  Identities=43%  Similarity=0.712  Sum_probs=110.3

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++..+.+++||+||+++|..++..+++++|++++|||+++++++..+..|+..+.....++.|+++++||.|+.
T Consensus        39 ~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~  118 (161)
T cd04113          39 SKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLA  118 (161)
T ss_pred             EEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcc
Confidence            44567788889999999999999999999999999999999999999999999999998876656689999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ..+.+..+++..++..++++++++||+++.|++++|+++++.
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113         119 DQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             hhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            777777888888898889999999999999999999999875

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

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=99.92  E-value=4.5e-24  Score=149.70  Aligned_cols=122  Identities=24%  Similarity=0.478  Sum_probs=106.3

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ..+.+++..+.+++|||||+++|..++..+++++|++|+|||++++++|+.+. .|+..+... .++.|+++++||+|+.
T Consensus        37 ~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~-~~~~piilv~nK~Dl~  115 (174)
T smart00174       37 ADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHF-CPNTPIILVGTKLDLR  115 (174)
T ss_pred             EEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEecChhhh
Confidence            34566888899999999999999999999999999999999999999999986 588888665 3579999999999986


Q ss_pred             CC------------cccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          90 SK------------KAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        90 ~~------------~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ..            ..++.+++..+++.++. +++++||+++.|++++|+.+++.+.
T Consensus       116 ~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~l~~~~~  172 (174)
T smart00174      116 EDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQEGVREVFEEAIRAAL  172 (174)
T ss_pred             hChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCCCHHHHHHHHHHHhc
Confidence            52            23677788889988885 8999999999999999999998764

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.92  E-value=6.1e-24  Score=154.61  Aligned_cols=130  Identities=27%  Similarity=0.486  Sum_probs=109.9

Q ss_pred             cccccceee----eeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTLQN----KKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~~~----~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++...    +.+++..+.+.+|||+|+++|..++..+++++|++|+|||++++++|+.+..|+..+... ..+.|+
T Consensus        42 ~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~-~~~~pi  120 (219)
T PLN03071         42 YEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRV-CENIPI  120 (219)
T ss_pred             cCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHh-CCCCcE
Confidence            567776443    334677899999999999999999999999999999999999999999999999999766 457999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ++||||+|+... .+..+++ .++...+++++++||++|.|++++|.+++..+....
T Consensus       121 ilvgNK~Dl~~~-~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~l~~~~~~~~  175 (219)
T PLN03071        121 VLCGNKVDVKNR-QVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLYLARKLAGDP  175 (219)
T ss_pred             EEEEEchhhhhc-cCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHHHHHHHHcCc
Confidence            999999999643 3444444 677777899999999999999999999999887543

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.92  E-value=1.6e-23  Score=150.16  Aligned_cols=156  Identities=21%  Similarity=0.283  Sum_probs=122.5

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      ...+.+++..+.+.+||++|+++|..++..++.++|++|+|||++++.+++.+..|+..+.... ..+.|+++++||+|+
T Consensus        37 ~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl  116 (198)
T cd04147          37 RKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADS  116 (198)
T ss_pred             eEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEcccc
Confidence            4556677888899999999999999899999999999999999999999999999998886654 347999999999998


Q ss_pred             CC-CcccCHHHHHHHHH-hcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCCCchhhhhhccCCCCCCCCCCCCC
Q psy2646          89 TS-KKAVDYQVAKEYAD-HLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGG  166 (168)
Q Consensus        89 ~~-~~~v~~~~~~~~~~-~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (168)
                      .. ...+......+... .++.+++++||++|.|++++|+++.+.+..  .....+..+...+..+...|++++.++..+
T Consensus       117 ~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
T cd04147         117 LEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELLRQANL--PYNLSPALRRRRESLPSEIQRRPPMNKTNS  194 (198)
T ss_pred             ccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHHHHhhc--ccccchhhHHHHhhccHhhhcCCCCCCCCc
Confidence            65 34455444444433 456789999999999999999999987753  222233333344444555899999999888


Q ss_pred             C
Q psy2646         167 C  167 (168)
Q Consensus       167 c  167 (168)
                      |
T Consensus       195 ~  195 (198)
T cd04147         195 C  195 (198)
T ss_pred             c
Confidence            8

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.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.92  E-value=9.6e-24  Score=146.25  Aligned_cols=127  Identities=31%  Similarity=0.562  Sum_probs=110.3

Q ss_pred             ccccccee----eeeeC--CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC
Q psy2646           4 LLPYQTLQ----NKKEE--RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNV   77 (168)
Q Consensus         4 ~~~t~~~~----~~~~~--~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   77 (168)
                      +.||++..    .+.+.  +..+.+++|||||+++|..++..+++++|++++|||+++++++..+..|+..+... ..+.
T Consensus        29 ~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~-~~~~  107 (162)
T cd04106          29 YKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAE-CGDI  107 (162)
T ss_pred             CCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHh-CCCC
Confidence            45666643    34455  67789999999999999999999999999999999999999999999999988654 3579


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      |+++++||.|+..+..+..+++..+++.++++++++||+++.|++++|+++...
T Consensus       108 p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~  161 (162)
T cd04106         108 PMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAEK  161 (162)
T ss_pred             CEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            999999999998776777788888999899999999999999999999998753

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.92  E-value=1.3e-23  Score=145.94  Aligned_cols=124  Identities=35%  Similarity=0.552  Sum_probs=105.7

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      +......+++..+.+.+|||+|+++|..++..+++++|++|+|||++++.+++.+..|+..+... .++.|+++++||+|
T Consensus        37 ~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~p~ivv~nK~D  115 (161)
T cd04124          37 LYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREY-RPEIPCIVVANKID  115 (161)
T ss_pred             EEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHh-CCCCcEEEEEECcc
Confidence            33455667888999999999999999999999999999999999999999999999999998665 35689999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +...  . ..+...+++..+++++++||++|.|++++|+.+++.+.++
T Consensus       116 l~~~--~-~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  160 (161)
T cd04124         116 LDPS--V-TQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKLAVSY  160 (161)
T ss_pred             Cchh--H-HHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            8532  1 2345566677788999999999999999999999887654

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.92  E-value=1.7e-23  Score=146.77  Aligned_cols=132  Identities=33%  Similarity=0.473  Sum_probs=110.4

Q ss_pred             ccccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCC
Q psy2646           3 LLLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNV   77 (168)
Q Consensus         3 ~~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~   77 (168)
                      .+.||++.    +.+.+++..+.+++|||||+++|..++..+++++|++++|||+++++++..+..|+..+.+.. ....
T Consensus        28 ~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~  107 (170)
T cd04108          28 NYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSV  107 (170)
T ss_pred             CCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC
Confidence            35677753    445667888999999999999999999999999999999999999999999999999885543 3357


Q ss_pred             cEEEEEecCCCCCCcc--cCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          78 NKLLVGNKNDQTSKKA--VDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        78 piivv~nK~Dl~~~~~--v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      |+++|+||.|+.....  +...++..+++.++.+++++||++|.|++++|+.++..+.+
T Consensus       108 ~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~  166 (170)
T cd04108         108 LLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVAALTFE  166 (170)
T ss_pred             eEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            8999999999865433  34556777888888899999999999999999999988753

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

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=99.92  E-value=1.7e-23  Score=144.59  Aligned_cols=128  Identities=32%  Similarity=0.537  Sum_probs=109.6

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||.+   .+.+.+++..+.+.+|||+|+++|..++..+++++|++++|||+++..+|..+..|+..+.+.. ..+.|+
T Consensus        30 ~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~pi  109 (162)
T cd04138          30 YDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPM  109 (162)
T ss_pred             cCCcchheEEEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE
Confidence            345544   4556678888899999999999999999999999999999999999999999999998886653 347899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++++||+|+.+ +.+...++..+++.++++++++||++|.|++++|+++++.+
T Consensus       110 ivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138         110 VLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             EEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence            99999999876 35566777788888889999999999999999999998654

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.92  E-value=1.7e-23  Score=145.15  Aligned_cols=125  Identities=50%  Similarity=0.812  Sum_probs=111.6

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++..+.+.+||+||++++..++..+++.+|++|+|||++++.+++.+..|+..+..+..++.|+++++||+|+.
T Consensus        39 ~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~  118 (164)
T smart00175       39 TKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLE  118 (164)
T ss_pred             EEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcc
Confidence            34566678888999999999999999999999999999999999999999999999999877655689999999999997


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +...+..+.+..+++.++++++++||.++.|++++|+++...+.+
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~~~~  163 (164)
T smart00175      119 DQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILK  163 (164)
T ss_pred             cccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            766677778888888889999999999999999999999988754

Rab GTPases are implicated in vesicle trafficking.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.92  E-value=2.2e-23  Score=145.91  Aligned_cols=129  Identities=36%  Similarity=0.650  Sum_probs=112.1

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhc-ccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCC
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNV   77 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~-~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~   77 (168)
                      +.||++    .+.+.+++..+.+.+|||+|+++|. .++..+++++|++++|||++++.+|..+..|+..+.... ..+.
T Consensus        31 ~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~  110 (170)
T cd04115          31 TEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEV  110 (170)
T ss_pred             cccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCC
Confidence            445554    3456678888999999999999886 578899999999999999999999999999999886653 3579


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccC---CCCHHHHHHHHHHHH
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKN---GANVEQAFLTMATEI  132 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~---~~~i~~i~~~l~~~~  132 (168)
                      |+++++||+|+...+.+...++..+++.++++++++||++   +.+++++|..+++.+
T Consensus       111 p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f~~l~~~~  168 (170)
T cd04115         111 PRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKL  168 (170)
T ss_pred             CEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence            9999999999988777888888889988889999999999   889999999998765

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

>KOG0393|consensus

Probab=99.92  E-value=9.1e-24  Score=148.54  Aligned_cols=134  Identities=25%  Similarity=0.438  Sum_probs=118.7

Q ss_pred             ccccccc---eeeeeeC-CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCC
Q psy2646           3 LLLPYQT---LQNKKEE-RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNV   77 (168)
Q Consensus         3 ~~~~t~~---~~~~~~~-~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~   77 (168)
                      .|+||++   +..+.++ ++.+.+.+|||+||++|..+++..|.++|.++++|+++++.||+.+ ..|+.++..+ .++.
T Consensus        32 ~yvPTVFdnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~-cp~v  110 (198)
T KOG0393|consen   32 EYVPTVFDNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFLLCFSVVSPESFENVKSKWIPEIKHH-CPNV  110 (198)
T ss_pred             cccCeEEccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHHHhh-CCCC
Confidence            4778876   6778885 9999999999999999999999999999999999999999999996 5799999888 4889


Q ss_pred             cEEEEEecCCCCC------------CcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          78 NKLLVGNKNDQTS------------KKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        78 piivv~nK~Dl~~------------~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      |+|+||+|.||..            ...++.+++..+++..| ..|+||||++..|+.++|+..++.+.....
T Consensus       111 piiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~l~~~~  183 (198)
T KOG0393|consen  111 PIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECSALTQKGVKEVFDEAIRAALRPPQ  183 (198)
T ss_pred             CEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeehhhhhCCcHHHHHHHHHHHhcccc
Confidence            9999999999863            23477788999999998 789999999999999999999998876554

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.91  E-value=8.5e-24  Score=149.69  Aligned_cols=130  Identities=17%  Similarity=0.291  Sum_probs=103.3

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      +.||++.....++...+.+++||+||++++..+|..+++++|++|+|||+++++++..+..++..+... ...+.|++|+
T Consensus        45 ~~pt~g~~~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv  124 (181)
T PLN00223         45 TIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVF  124 (181)
T ss_pred             ccCCcceeEEEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEE
Confidence            568988888778777899999999999999999999999999999999999999999888777766322 1347899999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHhc-----CCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADHL-----KIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~~-----~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +||+|+....  ..++........     .+.++++||++|+|+.++|+||.+.+.++
T Consensus       125 ~NK~Dl~~~~--~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~~~~  180 (181)
T PLN00223        125 ANKQDLPNAM--NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  180 (181)
T ss_pred             EECCCCCCCC--CHHHHHHHhCccccCCCceEEEeccCCCCCCHHHHHHHHHHHHhhc
Confidence            9999997542  333333322111     12466899999999999999999887654

>cd04116 Rab9 Rab9 subfamily

Probab=99.91  E-value=3.2e-23  Score=144.92  Aligned_cols=127  Identities=31%  Similarity=0.576  Sum_probs=109.0

Q ss_pred             cccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc----CC
Q psy2646           4 LLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CD   75 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~----~~   75 (168)
                      +.||++.    +.+.++++.+.++|||+||++++..++..+++++|++++|||++++++++.+..|...+....    ..
T Consensus        34 ~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~  113 (170)
T cd04116          34 LFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPE  113 (170)
T ss_pred             cCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCC
Confidence            3456553    456678999999999999999999999999999999999999999999999999998875543    24


Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +.|+++++||+|+. .+.+..+++.++++.++ .+++++||++|.|+.++|+++++.
T Consensus       114 ~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116         114 SFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             CCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence            68999999999986 44567788888888887 589999999999999999999865

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.91  E-value=4.9e-23  Score=143.90  Aligned_cols=124  Identities=29%  Similarity=0.502  Sum_probs=109.9

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      .+.+.+++..+.+++|||||+++|..+++.++++++++++|||++++++++.+..|...+.... ..+.|+++++||.|+
T Consensus        39 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~  118 (168)
T cd04177          39 RKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADL  118 (168)
T ss_pred             EEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhc
Confidence            4556678888999999999999999999999999999999999999999999999999886543 457999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .+.+.+..++...+++.++ ++++++||+++.|+.++|++++.++.
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~~~~~  164 (168)
T cd04177         119 EDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQII  164 (168)
T ss_pred             cccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            8777777777778888887 89999999999999999999997664

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.91  E-value=2.8e-23  Score=144.59  Aligned_cols=125  Identities=26%  Similarity=0.350  Sum_probs=107.9

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchh-hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEec
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQER-FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA--CDNVNKLLVGNK   85 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~piivv~nK   85 (168)
                      ..+.+.++++.+.+++|||||+++ +...+..+++++|++|+|||++++++|+.+..|+..+....  ..+.|+++|+||
T Consensus        36 ~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK  115 (165)
T cd04146          36 YSRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNK  115 (165)
T ss_pred             ceEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEC
Confidence            455677889999999999999985 34556788999999999999999999999999998886653  347999999999


Q ss_pred             CCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCC-CHHHHHHHHHHHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA-NVEQAFLTMATEIK  133 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~-~i~~i~~~l~~~~~  133 (168)
                      +|+...+.+..+++..+++.++++++++||+++. |++++|..+++.+.
T Consensus       116 ~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l~~~~~  164 (165)
T cd04146         116 ADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHELCREVR  164 (165)
T ss_pred             CchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHHHHHHh
Confidence            9997766778788888998889999999999995 99999999998764

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.91  E-value=5.3e-23  Score=142.67  Aligned_cols=123  Identities=46%  Similarity=0.722  Sum_probs=111.1

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++..+.+.+||+||++++...+..+++++|++++|+|+++++++..+..|+..+........|+++++||+|+.
T Consensus        40 ~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~  119 (163)
T cd01860          40 TQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLE  119 (163)
T ss_pred             EEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc
Confidence            56778889999999999999999999999999999999999999999999999999999877655679999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ..+.+...+...++..++++++++||++|.|+.++|+++++.+
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860         120 SKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             ccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            6666777778888888889999999999999999999999875

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

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.91  E-value=4.6e-23  Score=143.96  Aligned_cols=128  Identities=27%  Similarity=0.515  Sum_probs=107.4

Q ss_pred             cccccceeee----eeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTLQNK----KEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~~~~----~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++....    ..+++.+.+.+|||+|++++..++..++..+|++|+|||+++++++..+..|+..+.... .+.|+
T Consensus        29 ~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~pi  107 (166)
T cd00877          29 YVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-GNIPI  107 (166)
T ss_pred             CCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCcE
Confidence            5567664433    335778999999999999999999999999999999999999999999999999997764 37999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ++||||+|+... .+. .+..++++..+++++++||++|.|++++|++|++.+.+
T Consensus       108 iiv~nK~Dl~~~-~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  160 (166)
T cd00877         108 VLCGNKVDIKDR-KVK-AKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLG  160 (166)
T ss_pred             EEEEEchhcccc-cCC-HHHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHHHHh
Confidence            999999999743 333 33445667777899999999999999999999988864

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.91  E-value=4e-23  Score=142.97  Aligned_cols=122  Identities=36%  Similarity=0.614  Sum_probs=107.9

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++..+++++|||||++++..++..+++++|++++|||++++++|..+..|+..+......+.|+++++||+|+.
T Consensus        39 ~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~  118 (161)
T cd01861          39 SKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLS  118 (161)
T ss_pred             EEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhcc
Confidence            45566778888999999999999999999999999999999999999999999999998865544469999999999997


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +.+.+..++...+++..+++++++||+++.|++++|.++.+.
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861         119 DKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             ccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            666677777888888888999999999999999999999864

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.91  E-value=5.4e-23  Score=151.95  Aligned_cols=130  Identities=18%  Similarity=0.247  Sum_probs=110.3

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh--------
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY--------   72 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~--------   72 (168)
                      +.||++   .+.+.+++..+.+.||||+|++.|..++..++.++|++|+|||+++.++|+.+..|+..+...        
T Consensus        29 y~pTi~d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~  108 (247)
T cd04143          29 YTPTIEDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKT  108 (247)
T ss_pred             CCCChhHhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhccccccc
Confidence            456664   566778899999999999999999888888999999999999999999999999999988553        


Q ss_pred             -cCCCCcEEEEEecCCCCCCcccCHHHHHHHHHh-cCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          73 -ACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADH-LKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        73 -~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~-~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                       ...+.|+++++||+|+...+.+..+++.+++.. .++.++++||+++.|++++|++++..+.
T Consensus       109 ~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI~elf~~L~~~~~  171 (247)
T cd04143         109 KENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFSLAK  171 (247)
T ss_pred             ccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHhc
Confidence             124789999999999976566777777776653 4678999999999999999999998653

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.91  E-value=6.5e-23  Score=142.43  Aligned_cols=128  Identities=27%  Similarity=0.482  Sum_probs=108.8

Q ss_pred             cccccce----eeeeeC-CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc
Q psy2646           4 LLPYQTL----QNKKEE-RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN   78 (168)
Q Consensus         4 ~~~t~~~----~~~~~~-~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p   78 (168)
                      +.||.+.    +...++ +..+.+.+|||||++.+..++..+++++|++++|||+++++++..+..|+..+.... .+.|
T Consensus        31 ~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p  109 (164)
T cd04101          31 YLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTAS-KHMP  109 (164)
T ss_pred             CCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCC
Confidence            4556553    334454 677999999999999999999999999999999999999999999999999886653 5689


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +++|+||+|+.+...+.......+....+++++++||+++.|++++|+.+.+.+
T Consensus       110 ~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101         110 GVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             EEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHHHHHh
Confidence            999999999977666776666677777788999999999999999999998764

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.

>cd04123 Rab21 Rab21 subfamily

Probab=99.91  E-value=1.1e-22  Score=140.58  Aligned_cols=125  Identities=37%  Similarity=0.658  Sum_probs=110.0

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      .....+.+.+..+.+.+||+||++.+..+++.+++++|++++|||++++++++.+..|+..+......+.|+++++||+|
T Consensus        37 ~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D  116 (162)
T cd04123          37 FFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKID  116 (162)
T ss_pred             EEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcc
Confidence            33455666778889999999999999999999999999999999999999999999999988776545789999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +...+.+..++..++.+..+++++++||+++.|++++|+++.+.+
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123         117 LERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             cccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            987667777777788888899999999999999999999998764

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

>cd04158 ARD1 ARD1 subfamily

Probab=99.91  E-value=2.5e-23  Score=145.62  Aligned_cols=130  Identities=16%  Similarity=0.268  Sum_probs=107.5

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....++...+.+.+|||||++++..+|..+++++|++++|||+++++++..+..|+..+.... ..+.|++++
T Consensus        27 ~~~T~~~~~~~~~~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv  106 (169)
T cd04158          27 PIPTIGFNVETVEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIF  106 (169)
T ss_pred             cCCcCceeEEEEEECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEE
Confidence            5788887777777778999999999999999999999999999999999999999999999988885432 345899999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHhcC------CCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADHLK------IPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~~~------~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +||+|+..  .++.+++..+....+      +.++++||++|.|++++|+|+.+.+...
T Consensus       107 ~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~~~~  163 (169)
T cd04158         107 ANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLSRQLVAA  163 (169)
T ss_pred             EeCcCccc--CCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHHHHHHhhc
Confidence            99999964  355566666554222      3688999999999999999998876553

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.91  E-value=4.7e-24  Score=148.72  Aligned_cols=127  Identities=17%  Similarity=0.246  Sum_probs=106.5

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLV   82 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv   82 (168)
                      .+.||++.....++++++.+.+||+||+++|..+|..+++++|++|+|||.+++.++..+..|+..+... .++.|++++
T Consensus        27 ~~~pt~g~~~~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~-~~~~piilv  105 (164)
T cd04162          27 SVVPTTGFNSVAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQH-PPDLPLVVL  105 (164)
T ss_pred             cccccCCcceEEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhC-CCCCcEEEE
Confidence            3678988888888888899999999999999999999999999999999999999999999888887544 257999999


Q ss_pred             EecCCCCCCcccCH----HHHHHHHHhcCCCEEEEeccC------CCCHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDY----QVAKEYADHLKIPFLETSAKN------GANVEQAFLTMAT  130 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~----~~~~~~~~~~~~~~~~vSa~~------~~~i~~i~~~l~~  130 (168)
                      +||+|+...+.+..    ..+..+++..++.++++||++      ++|++++|+.++.
T Consensus       106 ~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~~  163 (164)
T cd04162         106 ANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLIN  163 (164)
T ss_pred             EeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHHHHHHHHhc
Confidence            99999976554331    123445566678899999999      9999999998863

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>cd04149 Arf6 Arf6 subfamily

Probab=99.91  E-value=1.7e-23  Score=146.39  Aligned_cols=125  Identities=19%  Similarity=0.321  Sum_probs=101.2

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      +.||++.....+....+.+++|||||++++..+|..+++++|++|+|||++++.++..+..|+..+... ...+.|++++
T Consensus        37 ~~~t~g~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv  116 (168)
T cd04149          37 TIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVF  116 (168)
T ss_pred             ccCCcccceEEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEE
Confidence            467887776666667789999999999999999999999999999999999999999988877766432 1346899999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHh-----cCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADH-----LKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~-----~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      +||+|+...  +..+++..+...     ..++++++||++|.|++++|+||.+
T Consensus       117 ~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         117 ANKQDLPDA--MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             EECcCCccC--CCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence            999998653  445555554421     2357899999999999999999864

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.91  E-value=8.5e-23  Score=141.58  Aligned_cols=116  Identities=19%  Similarity=0.398  Sum_probs=100.4

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCCC
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQT   89 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl~   89 (168)
                      +.+.+++..+.+++|||+|++.     ..+++++|++++|||++++++|+.+..|+..+.... ..+.|+++||||.|+.
T Consensus        38 ~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~  112 (158)
T cd04103          38 KEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAIS  112 (158)
T ss_pred             EEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhh
Confidence            5577889889999999999975     347789999999999999999999999999997664 3578999999999985


Q ss_pred             --CCcccCHHHHHHHHHhc-CCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          90 --SKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        90 --~~~~v~~~~~~~~~~~~-~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                        ..+.++.+++.++++.. ++.|++|||+++.|++++|..+++.
T Consensus       113 ~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103         113 ESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             hcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence              35678888888888776 5899999999999999999999854

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.

>cd04148 RGK RGK subfamily

Probab=99.91  E-value=5e-23  Score=150.03  Aligned_cols=130  Identities=24%  Similarity=0.310  Sum_probs=110.5

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhc-CCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYR-GAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKN   86 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~-~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~   86 (168)
                      ..+.+.+++..+.+.+|||+|++.  .+...++. ++|++++|||++++.+|+.+..|+..+.... ..+.|+++|+||+
T Consensus        39 ~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~  116 (221)
T cd04148          39 YERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKS  116 (221)
T ss_pred             eEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECh
Confidence            467778889999999999999983  33455677 9999999999999999999999999886653 3579999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCC
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE  140 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~  140 (168)
                      |+...+.+..+++..++...+++++++||+++.|++++|++++..+..+....+
T Consensus       117 Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l~~~~~~~~~~~~  170 (221)
T cd04148         117 DLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGIVRQIRLRRDSKE  170 (221)
T ss_pred             hccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHhhhcccc
Confidence            998777778777888888888999999999999999999999999986554433

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.91  E-value=1.2e-22  Score=142.59  Aligned_cols=119  Identities=23%  Similarity=0.394  Sum_probs=103.5

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ..+.+++..+.+++|||||+++|..++..+++++|++|+|||++++++|+.+. .|+..+... .++.|+++++||.|+.
T Consensus        39 ~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~  117 (173)
T cd04130          39 VVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKH-NPKAPIILVGTQADLR  117 (173)
T ss_pred             EEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeeChhhc
Confidence            45677888899999999999999999999999999999999999999999985 688877653 3468999999999986


Q ss_pred             C------------CcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHH
Q psy2646          90 S------------KKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        90 ~------------~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      .            .+.+..+++..+++..+. +++++||++|.|++++|+.++.
T Consensus       118 ~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~~~~v~~lf~~~~~  171 (173)
T cd04130         118 TDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVFDTAIL  171 (173)
T ss_pred             cChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHh
Confidence            3            345677788889988886 8999999999999999998864

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,

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.91  E-value=9e-24  Score=148.76  Aligned_cols=127  Identities=17%  Similarity=0.302  Sum_probs=100.7

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      +.||++.....+..+.+.+++|||||++++..+|..|++++|++|+|||++++++++.+..|+..+... ...+.|++|+
T Consensus        41 ~~~t~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv  120 (175)
T smart00177       41 TIPTIGFNVETVTYKNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVF  120 (175)
T ss_pred             cCCccccceEEEEECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEE
Confidence            568888777666667789999999999999999999999999999999999999999998888877432 2346899999


Q ss_pred             EecCCCCCCcccCHHHHHHHHH-----hcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYAD-----HLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +||+|+....  ..++......     ...+.++++||++|.|++++|+||..++
T Consensus       121 ~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177      121 ANKQDLPDAM--KAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             EeCcCcccCC--CHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            9999996532  2223222221     1234577899999999999999998765

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).

>cd04142 RRP22 RRP22 subfamily

Probab=99.90  E-value=1.8e-22  Score=144.75  Aligned_cols=135  Identities=20%  Similarity=0.217  Sum_probs=107.5

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhccc--------chhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHH
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTI--------TSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR   71 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~--------~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~   71 (168)
                      +.||.+    ...+.+++..+.+.||||||.+.+...        ...+++++|++|+|||++++++|+.+..|+..+..
T Consensus        29 ~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~  108 (198)
T cd04142          29 YIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILE  108 (198)
T ss_pred             cCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            456654    245667888899999999997654321        23457899999999999999999999999988866


Q ss_pred             hc---CCCCcEEEEEecCCCCCCcccCHHHHHHHHH-hcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          72 YA---CDNVNKLLVGNKNDQTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        72 ~~---~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      ..   ..+.|+++++||+|+...+.+..+++..++. .++++++++||++|.|++++|+.++..+..+.+.
T Consensus       109 ~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~v~~lf~~i~~~~~~~~~~  179 (198)
T cd04142         109 TRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELLISATTRGRS  179 (198)
T ss_pred             hcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCCCHHHHHHHHHHHhhccCCC
Confidence            53   3579999999999997766667666666654 5689999999999999999999999887755443

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.90  E-value=1e-23  Score=146.30  Aligned_cols=125  Identities=18%  Similarity=0.317  Sum_probs=98.1

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      +.||++.....+..+.+.+.+|||||++++..+|..+++++|++|||||++++.+++.+..|+..+... ...+.|++++
T Consensus        28 ~~pt~g~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv  107 (159)
T cd04150          28 TIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVF  107 (159)
T ss_pred             cCCCCCcceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEE
Confidence            568888766666667789999999999999999999999999999999999999999998877776432 2346899999


Q ss_pred             EecCCCCCCcccCHHHH-HHHH----HhcCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVA-KEYA----DHLKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~-~~~~----~~~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      +||+|+...  ....+. ..+.    ...++.++++||++|.|++++|+||..
T Consensus       108 ~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150         108 ANKQDLPNA--MSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             EECCCCCCC--CCHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHHHHHhc
Confidence            999999653  222222 2221    112346789999999999999999863

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.90  E-value=2.4e-23  Score=147.51  Aligned_cols=131  Identities=20%  Similarity=0.319  Sum_probs=102.5

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      +.||++.....++...+.+.+|||||++++..+|..+++++|++|+|||+++++++..+..++..+... ...+.|++++
T Consensus        45 ~~~T~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv  124 (182)
T PTZ00133         45 TIPTIGFNVETVEYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVF  124 (182)
T ss_pred             cCCccccceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEE
Confidence            568888777777777899999999999999999999999999999999999999999988777766332 1346899999


Q ss_pred             EecCCCCCCcccCHHHHHHHH-----HhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYA-----DHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      +||.|+...  ....+.....     ....+.++++||++|.|++++|+++...+.++.
T Consensus       125 ~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~~~~l~~~i~~~~  181 (182)
T PTZ00133        125 ANKQDLPNA--MSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEGLDWLSANIKKSM  181 (182)
T ss_pred             EeCCCCCCC--CCHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHHHHHHHHHHHHHhc
Confidence            999998653  2222222221     112245779999999999999999998877653

>cd01863 Rab18 Rab18 subfamily

Probab=99.89  E-value=1e-21  Score=135.98  Aligned_cols=127  Identities=43%  Similarity=0.745  Sum_probs=108.3

Q ss_pred             cccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCc
Q psy2646           4 LLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVN   78 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p   78 (168)
                      +.||.+.    ..+.+++..+.+.+||+||++.+..++..+++++|++++|||++++++++.+..|+..+.... ..+.|
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~  108 (161)
T cd01863          29 LAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIV  108 (161)
T ss_pred             cCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCc
Confidence            3455543    445567788999999999999999999999999999999999999999999999999887664 45799


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +++++||+|+... .+..++...++...+++++++||++|.|++++|+++...
T Consensus       109 ~~iv~nK~D~~~~-~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863         109 KMLVGNKIDKENR-EVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             EEEEEECCccccc-ccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHh
Confidence            9999999999743 456677778888889999999999999999999998865

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.89  E-value=1.2e-21  Score=135.76  Aligned_cols=124  Identities=37%  Similarity=0.538  Sum_probs=109.1

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      .+...+++..+.+.+|||||++++..++..+++.+++++++||++++.++..+..|+..+.... ..+.|+++|+||+|+
T Consensus        38 ~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~  117 (164)
T cd04139          38 RKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDL  117 (164)
T ss_pred             EEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEcccc
Confidence            4556778888999999999999999999999999999999999999999999999999886653 347999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .+.+.....+...+++.++++++++||+++.|++++|+++.+.+.
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  162 (164)
T cd04139         118 EDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVREIR  162 (164)
T ss_pred             ccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            765556667777788888899999999999999999999998765

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.89  E-value=1.4e-21  Score=136.59  Aligned_cols=126  Identities=37%  Similarity=0.605  Sum_probs=108.7

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEec
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CDNVNKLLVGNK   85 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~piivv~nK   85 (168)
                      .+.+.+++..+.+.+||+||++.+..++..+++++|++|++||++++.+++.+..|...+....    ..+.|+++++||
T Consensus        39 ~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK  118 (172)
T cd01862          39 TKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNK  118 (172)
T ss_pred             EEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEEC
Confidence            3556778888999999999999999999999999999999999999999999988888764442    236899999999


Q ss_pred             CCCCCCcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +|+..++.+..++...+++..+ ++++++||.+|.|++++|+++.+.+.++
T Consensus       119 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~  169 (172)
T cd01862         119 IDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFETIARKALEQ  169 (172)
T ss_pred             cccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            9997655666677777888887 7999999999999999999999888765

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-

>cd04135 Tc10 TC10 subfamily

Probab=99.89  E-value=9.1e-22  Score=137.96  Aligned_cols=128  Identities=23%  Similarity=0.400  Sum_probs=107.7

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~pi   79 (168)
                      +.||..   ...+.+++..+.+.+|||||++.|..++..+++++|++++|||++++.+|+.+. .|+..+... .++.|+
T Consensus        29 ~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~-~~~~pi  107 (174)
T cd04135          29 YVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPY  107 (174)
T ss_pred             CCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCE
Confidence            445543   335667888899999999999999999999999999999999999999999885 577777554 568999


Q ss_pred             EEEEecCCCCCC------------cccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSK------------KAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~~------------~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++++||+|+.+.            +.++.+++..+++..+. +++++||++|.|++++|+.++..+
T Consensus       108 ivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~~~~~  173 (174)
T cd04135         108 LLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALTQKGLKTVFDEAILAI  173 (174)
T ss_pred             EEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCcCCCHHHHHHHHHHHh
Confidence            999999998542            25667778888888885 799999999999999999998775

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

>KOG0070|consensus

Probab=99.89  E-value=1.6e-22  Score=139.19  Aligned_cols=132  Identities=21%  Similarity=0.313  Sum_probs=111.2

Q ss_pred             cccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEE
Q psy2646           2 RLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKL   80 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pii   80 (168)
                      -+++||++.....+..+++.+.+||.+|+++++++|+.|+.+.+++|||+|.+|.+.+.++...+..+.... ....|++
T Consensus        43 vttvPTiGfnVE~v~ykn~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~ll  122 (181)
T KOG0070|consen   43 VTTVPTIGFNVETVEYKNISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLL  122 (181)
T ss_pred             ccCCCccccceeEEEEcceEEEEEecCCCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEE
Confidence            356999999999999999999999999999999999999999999999999999999999988777775543 3579999


Q ss_pred             EEEecCCCCCCcccCHHHHHHHH-----HhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTSKKAVDYQVAKEYA-----DHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +++||+|+++..  +..++.+..     ......+..++|.+|+|+.+.++|+...+..+
T Consensus       123 v~aNKqD~~~al--s~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~egl~wl~~~~~~~  180 (181)
T KOG0070|consen  123 VFANKQDLPGAL--SAAEITNKLGLHSLRSRNWHIQSTCAISGEGLYEGLDWLSNNLKKR  180 (181)
T ss_pred             EEechhhccccC--CHHHHHhHhhhhccCCCCcEEeeccccccccHHHHHHHHHHHHhcc
Confidence            999999998743  333333222     22446788999999999999999999887653

>cd04114 Rab30 Rab30 subfamily

Probab=99.89  E-value=1.8e-21  Score=135.74  Aligned_cols=122  Identities=45%  Similarity=0.750  Sum_probs=106.7

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      +.+.+++..+.+.+||+||++.|...+..+++.+|++++|||+++.++++.+..|+..+......+.|+++++||+|+..
T Consensus        47 ~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~  126 (169)
T cd04114          47 KTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAE  126 (169)
T ss_pred             EEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence            34667888899999999999999998899999999999999999999999999999888666555799999999999987


Q ss_pred             CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      .+.+.......+.+....+++++||++|.|++++|+++.+.+
T Consensus       127 ~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114         127 RREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             ccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHh
Confidence            667776666777776678899999999999999999998764

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.

>cd01892 Miro2 Miro2 subfamily

Probab=99.89  E-value=9.9e-22  Score=137.62  Aligned_cols=129  Identities=16%  Similarity=0.207  Sum_probs=107.0

Q ss_pred             ccccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc
Q psy2646           3 LLLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN   78 (168)
Q Consensus         3 ~~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p   78 (168)
                      .+.||++.    +.+.+++..+.+.+||++|++++..++..+++++|++++|||++++++|+.+..|+..+...  .+.|
T Consensus        33 ~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~--~~~p  110 (169)
T cd01892          33 AYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFML--GEIP  110 (169)
T ss_pred             cCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccC--CCCe
Confidence            35677763    45677888899999999999999999999999999999999999999999998888866322  3689


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +++|+||+|+.+.+.+...+..++++.+++ .++++||+++.|++++|+.+++.+.
T Consensus       111 ~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~~  166 (169)
T cd01892         111 CLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELFTKLATAAQ  166 (169)
T ss_pred             EEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHHHHHHHHhh
Confidence            999999999975544433455667777776 4799999999999999999998765

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.

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.88  E-value=2.7e-21  Score=135.70  Aligned_cols=128  Identities=23%  Similarity=0.493  Sum_probs=104.7

Q ss_pred             cccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~pi   79 (168)
                      +.||++.   ..+.+++..+.+.+|||+|+++|..++..+++++|++++|||++++++|+.+. .|+..+... ..+.|+
T Consensus        30 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~-~~~~pi  108 (175)
T cd01870          30 YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPI  108 (175)
T ss_pred             CCCccccceEEEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCE
Confidence            4556543   45567888899999999999999999888999999999999999999998885 577777554 357899


Q ss_pred             EEEEecCCCCCC------------cccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSK------------KAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~~------------~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++++||+|+...            ..+...++.++++.++ .+++++||++|.|++++|+++.+.+
T Consensus       109 ilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         109 ILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKTKEGVREVFEMATRAA  174 (175)
T ss_pred             EEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccccCcCHHHHHHHHHHHh
Confidence            999999998642            2244566777777776 4899999999999999999998764

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

>cd00154 Rab Rab family

Probab=99.88  E-value=1.8e-21  Score=133.55  Aligned_cols=122  Identities=47%  Similarity=0.785  Sum_probs=107.0

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      .....+.+++..+.+.+||+||++.+...+..+++++|++++|+|+++++++..+..|+..+........|+++++||+|
T Consensus        37 ~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  116 (159)
T cd00154          37 FKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKID  116 (159)
T ss_pred             eEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEccc
Confidence            33455566677899999999999999999999999999999999999999999999999998776445799999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA  129 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~  129 (168)
                      +........++...+...++++++++||+++.|++++|.++.
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154         117 LEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             ccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            975556677888888888899999999999999999999986

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

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.88  E-value=6.5e-21  Score=134.42  Aligned_cols=127  Identities=32%  Similarity=0.461  Sum_probs=110.4

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      .....+++..+.+++|||||+++|..++..++..+++++++||+++.++++.+..|+..+.+.. ..+.|+++++||+|+
T Consensus        39 ~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl  118 (180)
T cd04137          39 SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDL  118 (180)
T ss_pred             EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhh
Confidence            5666777888899999999999999999999999999999999999999999999988886543 357899999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ...+.+...+...++..++.+++++||+++.|+.++|.++.+.+....
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~  166 (180)
T cd04137         119 HTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLIEEIEKVE  166 (180)
T ss_pred             hhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            766666666677777878889999999999999999999998886553

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.88  E-value=1.7e-21  Score=138.12  Aligned_cols=131  Identities=24%  Similarity=0.362  Sum_probs=101.1

Q ss_pred             ccccceeee--ee---CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCc
Q psy2646           5 LPYQTLQNK--KE---ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVN   78 (168)
Q Consensus         5 ~~t~~~~~~--~~---~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p   78 (168)
                      .||.+....  .+   ++..+.+.+|||||++++..+|..+++++|++++|||+++++++..+..|+..+.... ..+.|
T Consensus        32 ~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p  111 (183)
T cd04152          32 VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVP  111 (183)
T ss_pred             CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCc
Confidence            466653332  22   3467899999999999999999999999999999999999999998888888775432 34799


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHh------cCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADH------LKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~------~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +++++||+|+.+.  +..++...+...      .+++++++||+++.|++++|+++.+.+.+..+
T Consensus       112 ~iiv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~l~~~~~  174 (183)
T cd04152         112 VLVLANKQDLPNA--LSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQEGLEKLYEMILKRRK  174 (183)
T ss_pred             EEEEEECcCcccc--CCHHHHHHHhCccccCCCCceEEEEeecccCCCHHHHHHHHHHHHHHHHh
Confidence            9999999998642  333444443321      12468999999999999999999988865443

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.88  E-value=1.6e-22  Score=141.39  Aligned_cols=128  Identities=20%  Similarity=0.283  Sum_probs=101.9

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLL   81 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piiv   81 (168)
                      .+.||++.....++.+.+.+++||+||++++..+|..|++++|++|+|||+++..++..+..|+..+.... ..+.|+++
T Consensus        26 ~~~~t~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~pili  105 (167)
T cd04161          26 KVAPTVGFTPTKLRLDKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILV  105 (167)
T ss_pred             cccCcccceEEEEEECCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEE
Confidence            36788887777777778899999999999999999999999999999999999999999999998885542 34789999


Q ss_pred             EEecCCCCCCcccCH-HH---HHHHHHhc--CCCEEEEeccCC------CCHHHHHHHHHH
Q psy2646          82 VGNKNDQTSKKAVDY-QV---AKEYADHL--KIPFLETSAKNG------ANVEQAFLTMAT  130 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~-~~---~~~~~~~~--~~~~~~vSa~~~------~~i~~i~~~l~~  130 (168)
                      ++||+|+...+.... ..   +..+++..  .+.++++||++|      .|+.+.|+||..
T Consensus       106 v~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~~~wl~~  166 (167)
T cd04161         106 LANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPSIVEGLRWLLA  166 (167)
T ss_pred             EEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCccccCHHHHHHHHhc
Confidence            999999976542111 11   11233222  357888999998      899999999974

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.88  E-value=8.4e-22  Score=138.30  Aligned_cols=125  Identities=22%  Similarity=0.277  Sum_probs=98.9

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      +.||++.....+..+.+.+.+|||||++.+..+|..+++++|++++|||++++.++.....|+..+... ...+.|++++
T Consensus        42 ~~~t~g~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv  121 (173)
T cd04154          42 ISPTLGFQIKTLEYEGYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLIL  121 (173)
T ss_pred             cCCccccceEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEE
Confidence            567776544444444688999999999999999999999999999999999999999988888777432 2357999999


Q ss_pred             EecCCCCCCcccCHHHHHHHHH-----hcCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYAD-----HLKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      +||+|+.+..  ..++...+.+     ..+++++++||++|.|++++|+++..
T Consensus       122 ~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154         122 ANKQDLPGAL--SEEEIREALELDKISSHHWRIQPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             EECcccccCC--CHHHHHHHhCccccCCCceEEEeccCCCCcCHHHHHHHHhc
Confidence            9999996532  3344444442     23578999999999999999999864

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.88  E-value=3.2e-22  Score=138.52  Aligned_cols=126  Identities=19%  Similarity=0.281  Sum_probs=99.2

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc---CCCCcE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA---CDNVNK   79 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~pi   79 (168)
                      .+.||++.....++...+.+++|||||++++..+|..+++++|++|+|+|++++.++..+..|+..+....   ..+.|+
T Consensus        28 ~~~~t~g~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  107 (162)
T cd04157          28 IIVPTVGFNVESFEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPI  107 (162)
T ss_pred             eecCccccceEEEEECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCE
Confidence            35788887766666677899999999999999999999999999999999999999988888887774431   247999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHH-----hcCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYAD-----HLKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      ++++||+|+.+...  ..+......     ...++++++||++|.|++++|++|.+
T Consensus       108 iiv~NK~Dl~~~~~--~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~~~l~~  161 (162)
T cd04157         108 LFFANKMDLPDALT--AVKITQLLGLENIKDKPWHIFASNALTGEGLDEGVQWLQA  161 (162)
T ss_pred             EEEEeCccccCCCC--HHHHHHHhCCccccCceEEEEEeeCCCCCchHHHHHHHhc
Confidence            99999999865322  222222211     12346899999999999999999864

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.87  E-value=7.8e-21  Score=135.10  Aligned_cols=125  Identities=28%  Similarity=0.527  Sum_probs=104.9

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ..+.+++..+.+.+||++|++.+......+++++|+++++||+++.++|+.+. .|+..+... .++.|+++||||+|+.
T Consensus        40 ~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~-~~~~piilvgnK~Dl~  118 (187)
T cd04129          40 TDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRY-CPNVPVILVGLKKDLR  118 (187)
T ss_pred             EEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEeeChhhh
Confidence            34566788889999999999988887778899999999999999999999986 588888655 3469999999999985


Q ss_pred             C----------CcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          90 S----------KKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        90 ~----------~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      .          .+.+..+++..+++.++. +++++||++|.|++++|+++.+.+....
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~  176 (187)
T cd04129         119 QDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGEGVDDVFEAATRAALLVR  176 (187)
T ss_pred             hCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCCCHHHHHHHHHHHHhccc
Confidence            3          234556777788888884 8999999999999999999998775443

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).

>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=99.87  E-value=2.7e-21  Score=136.20  Aligned_cols=128  Identities=27%  Similarity=0.423  Sum_probs=106.7

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLL   81 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piiv   81 (168)
                      .+.||.+.....+...++.+.+||.+|+..++.+|+.|+.++|++|||+|.++.+.+.+....+..+... ...+.|+++
T Consensus        41 ~~~pT~g~~~~~i~~~~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLI  120 (175)
T PF00025_consen   41 ETIPTIGFNIEEIKYKGYSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILI  120 (175)
T ss_dssp             EEEEESSEEEEEEEETTEEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEE
T ss_pred             ccCcccccccceeeeCcEEEEEEeccccccccccceeeccccceeEEEEecccceeecccccchhhhcchhhcccceEEE
Confidence            4689999999998888899999999999999999999999999999999999998899888877777443 245799999


Q ss_pred             EEecCCCCCCcccCHHHHHHHHH------hcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          82 VGNKNDQTSKKAVDYQVAKEYAD------HLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~~~~~~~~~------~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++||+|+++.  +..++......      ...+.++.+||.+|+|+.++|+||..++
T Consensus       121 l~NK~D~~~~--~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  121 LANKQDLPDA--MSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             EEESTTSTTS--STHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             EeccccccCc--chhhHHHhhhhhhhcccCCceEEEeeeccCCcCHHHHHHHHHhcC
Confidence            9999998763  44444443322      2346799999999999999999999764

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 ....

>KOG0073|consensus

Probab=99.87  E-value=4.8e-21  Score=129.17  Aligned_cols=132  Identities=23%  Similarity=0.330  Sum_probs=111.0

Q ss_pred             cccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHH-HHhcCCCCcEE
Q psy2646           2 RLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI-DRYACDNVNKL   80 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i-~~~~~~~~pii   80 (168)
                      .++.||.+...-++..+.+++.+||++|+..++++|+.|+..+||+|+|||.+++..+++....+..+ .+....+.|++
T Consensus        42 ~~i~pt~gf~Iktl~~~~~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~L  121 (185)
T KOG0073|consen   42 DTISPTLGFQIKTLEYKGYTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLL  121 (185)
T ss_pred             cccCCccceeeEEEEecceEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceE
Confidence            45789999999999999999999999999999999999999999999999999999988887766665 22224468999


Q ss_pred             EEEecCCCCCCcccCHHH------HHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTSKKAVDYQV------AKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~~------~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      |++||+|+++.  +..+.      ...+++.+.++++-|||.+|+++.+.++|+.+.+..+
T Consensus       122 vlank~dl~~~--l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  122 VLANKQDLPGA--LSLEEISKALDLEELAKSHHWRLVKCSAVTGEDLLEGIDWLCDDLMSR  180 (185)
T ss_pred             EEEecCcCccc--cCHHHHHHhhCHHHhccccCceEEEEeccccccHHHHHHHHHHHHHHH
Confidence            99999999742  22222      2344566779999999999999999999999998874

>cd00876 Ras Ras family

Probab=99.87  E-value=8.6e-21  Score=130.80  Aligned_cols=122  Identities=34%  Similarity=0.522  Sum_probs=107.9

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC-DNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~Dl   88 (168)
                      .....+++..+.+++||+||++.+..++..+++.+|++++|||+++++++..+..|...+..... ...|+++++||+|+
T Consensus        37 ~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~  116 (160)
T cd00876          37 RKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDL  116 (160)
T ss_pred             EEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcc
Confidence            45556677789999999999999988899999999999999999999999999999988866543 57999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ...+.+..+++..+...++++++++||+++.|++++|+++.+.
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876         117 ENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             cccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHhh
Confidence            8766777788888888888999999999999999999999875

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.87  E-value=7e-22  Score=136.68  Aligned_cols=125  Identities=20%  Similarity=0.280  Sum_probs=95.6

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHH-hcCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~piivv   82 (168)
                      +.||++.....+++.++.+++|||||++++..+|..+++++|++|+|+|++++.++.....++..+.. ....+.|++++
T Consensus        27 ~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv  106 (158)
T cd04151          27 TIPTIGFNVETVTYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVF  106 (158)
T ss_pred             cCCccCcCeEEEEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEE
Confidence            45777766666777778999999999999999999999999999999999998888776666655422 22347899999


Q ss_pred             EecCCCCCCcccCHHHHHH-HH----HhcCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKE-YA----DHLKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~-~~----~~~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      +||+|+.+..  ...+... +.    ...+.+++++||++|.|++++|+++++
T Consensus       107 ~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151         107 ANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             EeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHHHHhc
Confidence            9999986532  1222211 11    112357999999999999999999874

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.

>KOG0075|consensus

Probab=99.87  E-value=8.9e-22  Score=130.56  Aligned_cols=129  Identities=22%  Similarity=0.370  Sum_probs=105.7

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHH-HHhcCCCCcEEE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI-DRYACDNVNKLL   81 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i-~~~~~~~~piiv   81 (168)
                      -++||+|.+...++.+.+.+.+||.||+.+|+.+|+.|.+.++++++|+|+.+++.....+.-+..+ .+....+.|++|
T Consensus        48 dmiptvGfnmrk~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LV  127 (186)
T KOG0075|consen   48 DMIPTVGFNMRKVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLV  127 (186)
T ss_pred             hhcccccceeEEeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEE
Confidence            3689999999999999999999999999999999999999999999999999998877776655555 444467899999


Q ss_pred             EEecCCCCCCcccCHHHHHHH-----HHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          82 VGNKNDQTSKKAVDYQVAKEY-----ADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~~~~~~~-----~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +|||.|+++.  +....+..-     ..+..+.+|.+|+++..|++.+.+|++++-.
T Consensus       128 LGnK~d~~~A--L~~~~li~rmgL~sitdREvcC~siScke~~Nid~~~~Wli~hsk  182 (186)
T KOG0075|consen  128 LGNKIDLPGA--LSKIALIERMGLSSITDREVCCFSISCKEKVNIDITLDWLIEHSK  182 (186)
T ss_pred             ecccccCccc--ccHHHHHHHhCccccccceEEEEEEEEcCCccHHHHHHHHHHHhh
Confidence            9999998763  332222111     1223367999999999999999999998754

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.86  E-value=6.2e-21  Score=134.13  Aligned_cols=125  Identities=19%  Similarity=0.242  Sum_probs=98.6

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....+..+.+.+.+||+||++++...|..+++++|++++|||+++++++.....++..+.... ..+.|++++
T Consensus        43 ~~~t~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv  122 (174)
T cd04153          43 TSPTIGSNVEEIVYKNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVL  122 (174)
T ss_pred             cCCccccceEEEEECCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEE
Confidence            4677777666666667899999999999999999999999999999999999999988877777664332 346899999


Q ss_pred             EecCCCCCCcccCHHHH-HHHH----HhcCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVA-KEYA----DHLKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~-~~~~----~~~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      +||+|+...  +..++. ..+.    +..+++++++||++|.|++++|++|.+
T Consensus       123 ~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153         123 ANKQDLKGA--MTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             EECCCCCCC--CCHHHHHHHhCcccccCCceEEEecccCCCCCHHHHHHHHhc
Confidence            999998652  233332 2221    234567999999999999999999864

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.86  E-value=6.1e-21  Score=132.83  Aligned_cols=125  Identities=29%  Similarity=0.397  Sum_probs=100.1

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....+...+..+.+|||||++.+..++..+++++|++++|||+++++++.....|+..+.... ..+.|++++
T Consensus        34 ~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv  113 (167)
T cd04160          34 ITPTVGLNIGTIEVGNARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLIL  113 (167)
T ss_pred             cCCccccceEEEEECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEE
Confidence            4667776666666667899999999999999999999999999999999999988998888888775432 347999999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHh-------cCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADH-------LKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~-------~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      +||+|+...  ....+...+.+.       .+++++++||++|.|++++++||.+
T Consensus       114 ~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         114 ANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             EEccccccC--CCHHHHHHHhccccccccCCceEEEEeeCCCCcCHHHHHHHHhc
Confidence            999998653  333444444322       2468999999999999999999864

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

>cd00879 Sar1 Sar1 subfamily

Probab=99.85  E-value=1.6e-20  Score=133.51  Aligned_cols=126  Identities=21%  Similarity=0.261  Sum_probs=101.0

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....+....+.+.+||+||++++...|..+++++|++++|+|+++.+++.....|+..+.... ..+.|++++
T Consensus        47 ~~~T~~~~~~~i~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv  126 (190)
T cd00879          47 HVPTLHPTSEELTIGNIKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLIL  126 (190)
T ss_pred             cCCccCcceEEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEE
Confidence            5667776665665556789999999999998899999999999999999999989988888888775432 346999999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHh----------------cCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADH----------------LKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~----------------~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +||+|+..  .+..++...+...                ..++++++||++|.|++++|+|+...
T Consensus       127 ~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         127 GNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             EeCCCCCC--CcCHHHHHHHhCcccccccccccccccCceeEEEEEeEecCCCChHHHHHHHHhh
Confidence            99999864  4555666555532                12468999999999999999999865

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.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.85  E-value=1.4e-20  Score=129.95  Aligned_cols=125  Identities=22%  Similarity=0.324  Sum_probs=100.2

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||.+.....+....+.+.+||+||++.+...+..+++++|++++|||+++++++..+..|+..+.... ..+.|++++
T Consensus        27 ~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv  106 (158)
T cd00878          27 TIPTIGFNVETVEYKNVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIF  106 (158)
T ss_pred             CCCCcCcceEEEEECCEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEE
Confidence            5667776666666667899999999999999999999999999999999999999999988888775432 357999999


Q ss_pred             EecCCCCCCcccCHHHHHHHHH-----hcCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYAD-----HLKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      +||+|+....  ..++......     ...++++++||++|.|++++|++|..
T Consensus       107 ~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878         107 ANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             eeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence            9999987543  2233333222     23468999999999999999999874

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

>cd00157 Rho Rho (Ras homology) family

Probab=99.84  E-value=1.2e-19  Score=126.62  Aligned_cols=120  Identities=24%  Similarity=0.483  Sum_probs=99.9

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      .....+++..+.+++||+||++++..+...+++.+|++++|||++++.+|.... .|+..+... ..+.|+++|+||+|+
T Consensus        38 ~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl  116 (171)
T cd00157          38 SATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHY-CPNVPIILVGTKIDL  116 (171)
T ss_pred             EEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEEccHHh
Confidence            445566788899999999999998888888899999999999999999988765 477766554 347999999999998


Q ss_pred             CCCc-----------ccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHH
Q psy2646          89 TSKK-----------AVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        89 ~~~~-----------~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      ....           .+...++..+...++. +++++||++|.|++++|+++++
T Consensus       117 ~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         117 RDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             hhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCCCCHHHHHHHHhh
Confidence            7543           2355677778888886 9999999999999999999875

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.84  E-value=7.8e-20  Score=127.49  Aligned_cols=121  Identities=24%  Similarity=0.298  Sum_probs=95.7

Q ss_pred             eeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          13 KKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        13 ~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      ..+++..+.+.+|||||.+.+...+..+++.+|++++|||++++++++.+. .|+..+.... .+.|+++++||+|+.+.
T Consensus        40 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~~~  118 (166)
T cd01893          40 ADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNKSDLRDG  118 (166)
T ss_pred             eeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhcccc
Confidence            345678899999999999988877788899999999999999999999975 6777776553 47999999999999764


Q ss_pred             cccC--HHHHHHHHHhcC--CCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          92 KAVD--YQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        92 ~~v~--~~~~~~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ....  .+++..+...++  .+++++||+++.|++++|+.+...+.+
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~~~  165 (166)
T cd01893         119 SSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFYYAQKAVLH  165 (166)
T ss_pred             cchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHHHHHHHhcC
Confidence            4321  233333333332  379999999999999999999887653

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.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.84  E-value=4.9e-20  Score=130.70  Aligned_cols=126  Identities=18%  Similarity=0.212  Sum_probs=99.1

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      +.||.+.....+..+++++.+||+||++++..+|..++.++|++++|+|+++++++.....++..+... ...+.|++++
T Consensus        45 ~~~t~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv  124 (184)
T smart00178       45 HQPTQHPTSEELAIGNIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLIL  124 (184)
T ss_pred             cCCccccceEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEE
Confidence            456777666666556688999999999999999999999999999999999999998888877776432 1347899999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHh------------cCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADH------------LKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~------------~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +||+|+..  .++.+++......            ....++++||+++.|++++++||..+
T Consensus       125 ~NK~Dl~~--~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      125 GNKIDAPY--AASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             EeCccccC--CCCHHHHHHHcCCCcccccccccCCceeEEEEeecccCCChHHHHHHHHhh
Confidence            99999864  3444444433211            12469999999999999999999764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.84  E-value=3.5e-20  Score=128.13  Aligned_cols=124  Identities=21%  Similarity=0.361  Sum_probs=94.7

Q ss_pred             ccccceeeeeeC-CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           5 LPYQTLQNKKEE-RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         5 ~~t~~~~~~~~~-~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      .||++.....+. +..+.+.+||+||++++..+|..+++++|++|+|+|++++.++..+..|+..+.... ..+.|++++
T Consensus        28 ~~t~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv  107 (160)
T cd04156          28 IPTVGFNVEMLQLEKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLL  107 (160)
T ss_pred             cCccCcceEEEEeCCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEE
Confidence            566654443343 345789999999999999999999999999999999999999999888888774432 247999999


Q ss_pred             EecCCCCCCcccCHHHHHHH------HHhcCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEY------ADHLKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~------~~~~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      +||+|+...  ....+....      +...+++++++||++|.|++++|+++.+
T Consensus       108 ~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156         108 ANKQDLPGA--LTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             EECcccccC--cCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHHHHHhc
Confidence            999998642  222222221      2223457999999999999999999864

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.83  E-value=4.4e-19  Score=127.36  Aligned_cols=116  Identities=21%  Similarity=0.336  Sum_probs=92.9

Q ss_pred             cccccc----eeeeeeC-----CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-
Q psy2646           4 LLPYQT----LQNKKEE-----RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-   73 (168)
Q Consensus         4 ~~~t~~----~~~~~~~-----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-   73 (168)
                      +.||++    .+.+.++     ++.+.++||||+|+++|..++..+++++|++|+|||+++++||+.+..|+..+.... 
T Consensus        29 ~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~  108 (202)
T cd04102          29 PSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDT  108 (202)
T ss_pred             CCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhc
Confidence            457776    3344443     567899999999999999999999999999999999999999999999999985531 


Q ss_pred             ------------------CCCCcEEEEEecCCCCCCcccCHHH----HHHHHHhcCCCEEEEeccCCC
Q psy2646          74 ------------------CDNVNKLLVGNKNDQTSKKAVDYQV----AKEYADHLKIPFLETSAKNGA  119 (168)
Q Consensus        74 ------------------~~~~piivv~nK~Dl~~~~~v~~~~----~~~~~~~~~~~~~~vSa~~~~  119 (168)
                                        ..+.|+++||||.|+..++.+....    ...++++.+++.++.++..+.
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia~~~~~~~i~~~c~~~~  176 (202)
T cd04102         109 FPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVAEQGNAEEINLNCTNGR  176 (202)
T ss_pred             cccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhHHHhcCCceEEEecCCcc
Confidence                              2468999999999997655444432    234677889999999887653

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.83  E-value=8.3e-19  Score=127.26  Aligned_cols=130  Identities=28%  Similarity=0.526  Sum_probs=107.5

Q ss_pred             cccccceeee----eeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTLQNK----KEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~~~~----~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++....    ..+++.+.+.+|||+|+++|..++..++.+++++++|||+++..+|..+..|+..+... ..+.|+
T Consensus        38 ~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~i  116 (215)
T PTZ00132         38 YIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRV-CENIPI  116 (215)
T ss_pred             CCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHh-CCCCCE
Confidence            4566664443    34778899999999999999999999999999999999999999999999999998765 357899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ++++||+|+... .+... ...+....++.++++||++|.|++++|.++++.+....
T Consensus       117 ~lv~nK~Dl~~~-~~~~~-~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~ia~~l~~~p  171 (215)
T PTZ00132        117 VLVGNKVDVKDR-QVKAR-QITFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTNDP  171 (215)
T ss_pred             EEEEECccCccc-cCCHH-HHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhhcc
Confidence            999999998643 33322 33566677889999999999999999999999887643

>KOG0071|consensus

Probab=99.82  E-value=2.6e-20  Score=122.72  Aligned_cols=129  Identities=18%  Similarity=0.316  Sum_probs=108.1

Q ss_pred             cccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEE
Q psy2646           2 RLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKL   80 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pii   80 (168)
                      .+++||+|....++..+++.|.+||.+|+++.+++|++|+.+..++|||+|..+.+.+++++.-+..+.... ....|++
T Consensus        43 ~~~ipTvGFnvetVtykN~kfNvwdvGGqd~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~L  122 (180)
T KOG0071|consen   43 VTTIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIIL  122 (180)
T ss_pred             cccccccceeEEEEEeeeeEEeeeeccCchhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEE
Confidence            368999999999999999999999999999999999999999999999999999988998887666663322 3478999


Q ss_pred             EEEecCCCCCCcccCHHHHHHHH-----HhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTSKKAVDYQVAKEYA-----DHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      |.+||+|++..  ...+++..+.     +...+.+.++||.+|.|+.+.|.|+...+
T Consensus       123 vlANkQDlp~A--~~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~eglswlsnn~  177 (180)
T KOG0071|consen  123 ILANKQDLPDA--MKPQEIQDKLELERIRDRNWYVQPSCALSGDGLKEGLSWLSNNL  177 (180)
T ss_pred             EEecCcccccc--cCHHHHHHHhccccccCCccEeeccccccchhHHHHHHHHHhhc
Confidence            99999999864  3445554433     23346788999999999999999998654

>cd01890 LepA LepA subfamily

Probab=99.82  E-value=2.9e-19  Score=125.76  Aligned_cols=111  Identities=23%  Similarity=0.287  Sum_probs=87.7

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~   95 (168)
                      +++.+.+.||||||+++|...+..+++++|++|+|||+++..++.....|....    ..+.|+++++||+|+.+..  .
T Consensus        63 ~~~~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~----~~~~~iiiv~NK~Dl~~~~--~  136 (179)
T cd01890          63 DGQEYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL----ENNLEIIPVINKIDLPSAD--P  136 (179)
T ss_pred             CCCcEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH----HcCCCEEEEEECCCCCcCC--H
Confidence            667889999999999999999999999999999999999876666665554332    2368999999999986432  1


Q ss_pred             HHHHHHHHHhcCC---CEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          96 YQVAKEYADHLKI---PFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        96 ~~~~~~~~~~~~~---~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      .....++++.+++   +++++||++|.|++++|+++...+
T Consensus       137 ~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         137 ERVKQQIEDVLGLDPSEAILVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             HHHHHHHHHHhCCCcccEEEeeccCCCCHHHHHHHHHhhC
Confidence            2233455555565   489999999999999999998764

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.

>KOG4252|consensus

Probab=99.81  E-value=4.5e-21  Score=131.32  Aligned_cols=126  Identities=28%  Similarity=0.478  Sum_probs=113.8

Q ss_pred             eeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCc
Q psy2646          13 KKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        13 ~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~   92 (168)
                      +.++++.+.+++|||+|+++|..+...||++|.+.++||+.+|..||+.+..|++.+... ...+|.++|-||+|+.+..
T Consensus        62 i~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e-~~~IPtV~vqNKIDlveds  140 (246)
T KOG4252|consen   62 IKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKE-TERIPTVFVQNKIDLVEDS  140 (246)
T ss_pred             HHhhHHHHHHHHHHhccchhHHHHHHHHhccccceEEEEecccHHHHHHHHHHHHHHHHH-hccCCeEEeeccchhhHhh
Confidence            344566678899999999999999999999999999999999999999999999999665 4579999999999999888


Q ss_pred             ccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          93 AVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        93 ~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      .+...+.+.+++.+.+.++.+|++...|+.++|..|+..+.++...+
T Consensus       141 ~~~~~evE~lak~l~~RlyRtSvked~NV~~vF~YLaeK~~q~~kq~  187 (246)
T KOG4252|consen  141 QMDKGEVEGLAKKLHKRLYRTSVKEDFNVMHVFAYLAEKLTQQKKQS  187 (246)
T ss_pred             hcchHHHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            88888999999999999999999999999999999999888766553

>KOG0072|consensus

Probab=99.81  E-value=8.8e-20  Score=120.72  Aligned_cols=131  Identities=18%  Similarity=0.236  Sum_probs=104.7

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHH-HHhcCCCCcEEE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI-DRYACDNVNKLL   81 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i-~~~~~~~~piiv   81 (168)
                      ++.||++.....+..++.++++||.+|+-..+++|+.|+.+.|++|+|+|.+|.+...-....+..+ .+....+..++|
T Consensus        45 ttkPtigfnve~v~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv  124 (182)
T KOG0072|consen   45 TTKPTIGFNVETVPYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLV  124 (182)
T ss_pred             ccCCCCCcCccccccccccceeeEccCcccccHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEE
Confidence            5789999999999999999999999999999999999999999999999999987766665544444 333345788999


Q ss_pred             EEecCCCCCCcccCHHHHH-----HHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          82 VGNKNDQTSKKAVDYQVAK-----EYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~~~~~-----~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ++||+|.+....  ..+..     ...++.-+.+|++||.+|+|++++.+|+.+.+..+
T Consensus       125 ~anKqD~~~~~t--~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~DWL~~~l~~~  181 (182)
T KOG0072|consen  125 FANKQDYSGALT--RSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAMDWLQRPLKSR  181 (182)
T ss_pred             Eeccccchhhhh--HHHHHHHhChHHHhhheeEEEeeccccccCCcHHHHHHHHHHhcc
Confidence            999999876422  12221     11223337899999999999999999999887653

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.80  E-value=4e-19  Score=121.90  Aligned_cols=126  Identities=23%  Similarity=0.379  Sum_probs=98.1

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLL   81 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piiv   81 (168)
                      .+.||++.....++...+.+.+||+||++.+..++..+++++|++++|+|+++.+++.....|+..+... ...+.|+++
T Consensus        27 ~~~~t~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ii  106 (159)
T cd04159          27 DTIPTVGFNMRKVTKGNVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLV  106 (159)
T ss_pred             CccCCCCcceEEEEECCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEE
Confidence            3577887776666656689999999999999999999999999999999999998888887777776432 134789999


Q ss_pred             EEecCCCCCCcccCHHHHHHHH-----HhcCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          82 VGNKNDQTSKKAVDYQVAKEYA-----DHLKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      ++||+|+.+....  .+.....     ...+++++++|++++.|++++++++.+
T Consensus       107 v~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159         107 LGNKNDLPGALSV--DELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             EEeCccccCCcCH--HHHHHHhCcccccCCceEEEEEEeccCCChHHHHHHHhh
Confidence            9999998654322  2221111     122367899999999999999999874

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.

>KOG0076|consensus

Probab=99.79  E-value=2.9e-19  Score=121.74  Aligned_cols=133  Identities=28%  Similarity=0.380  Sum_probs=109.0

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      .+||++..+.+++=....+.|||.+|++..+++|..||..++++|+++|+++++.|+.....+..+..+. ..++|+++.
T Consensus        53 i~~tvgLnig~i~v~~~~l~fwdlgGQe~lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~l  132 (197)
T KOG0076|consen   53 ITPTVGLNIGTIEVCNAPLSFWDLGGQESLRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVL  132 (197)
T ss_pred             eecccceeecceeeccceeEEEEcCChHHHHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhh
Confidence            5789999988888668899999999999999999999999999999999999999998887777774443 468999999


Q ss_pred             EecCCCCCCcccCHHH-HHHHHHh---cCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          83 GNKNDQTSKKAVDYQV-AKEYADH---LKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~-~~~~~~~---~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      +||.|+.+...+..-. ....++.   ...++.+|||.+|.|+++...|++..+.++.
T Consensus       133 ankqd~q~~~~~~El~~~~~~~e~~~~rd~~~~pvSal~gegv~egi~w~v~~~~kn~  190 (197)
T KOG0076|consen  133 ANKQDLQNAMEAAELDGVFGLAELIPRRDNPFQPVSALTGEGVKEGIEWLVKKLEKNV  190 (197)
T ss_pred             cchhhhhhhhhHHHHHHHhhhhhhcCCccCccccchhhhcccHHHHHHHHHHHHhhcc
Confidence            9999998754332111 1122222   2478999999999999999999999888773

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.78  E-value=6.9e-18  Score=117.51  Aligned_cols=122  Identities=14%  Similarity=0.083  Sum_probs=86.3

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccc----------hhhhcCCcEEEEEEeCCChhh--HHHHHHHHHHHHHhcC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTIT----------SSYYRGAHGIIVVYDCTDQET--FNNLKQWLEEIDRYAC   74 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~----------~~~~~~~d~~i~v~d~~~~~s--~~~~~~~~~~i~~~~~   74 (168)
                      |.......++.+.+.++||||||+.... .+          ......+|++|+|+|+++..+  ++....|+..+... .
T Consensus        34 t~~~~~~~~~~~~~~~~i~Dt~G~~~~~-~~~~~~~~~~~~~~~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~-~  111 (168)
T cd01897          34 TKSLFVGHFDYKYLRWQVIDTPGLLDRP-LEERNTIEMQAITALAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPL-F  111 (168)
T ss_pred             ccceeEEEEccCceEEEEEECCCcCCcc-ccCCchHHHHHHHHHHhccCcEEEEEeCCcccccchHHHHHHHHHHHhh-c
Confidence            4444444455566899999999984311 11          111233689999999998754  35566777777544 2


Q ss_pred             CCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          75 DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        75 ~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      .+.|+++++||+|+.....+..  ...+....+.+++++||++|.|++++|+++.+.+
T Consensus       112 ~~~pvilv~NK~Dl~~~~~~~~--~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  167 (168)
T cd01897         112 KNKPVIVVLNKIDLLTFEDLSE--IEEEEELEGEEVLKISTLTEEGVDEVKNKACELL  167 (168)
T ss_pred             CcCCeEEEEEccccCchhhHHH--HHHhhhhccCceEEEEecccCCHHHHHHHHHHHh
Confidence            4789999999999976544332  4445555568999999999999999999998875

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.78  E-value=6.1e-18  Score=118.40  Aligned_cols=122  Identities=21%  Similarity=0.305  Sum_probs=93.6

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      +.||.+.....++..+..+.+||+||+..+...+..+++++|++++|+|+++..++.....++..+... ...+.|++++
T Consensus        42 ~~~t~g~~~~~i~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv  121 (173)
T cd04155          42 ITPTQGFNIKTVQSDGFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVF  121 (173)
T ss_pred             cCCCCCcceEEEEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEE
Confidence            557777655555555678999999999988888899999999999999999988888877777666332 2346999999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHhcC--------CCEEEEeccCCCCHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADHLK--------IPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~~~--------~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      +||+|+.....  .++   +.+.++        .+++++||++|.|++++|+|+.+
T Consensus       122 ~nK~D~~~~~~--~~~---i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         122 ANKQDLATAAP--AEE---IAEALNLHDLRDRTWHIQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             EECCCCccCCC--HHH---HHHHcCCcccCCCeEEEEEeECCCCCCHHHHHHHHhc
Confidence            99999865322  122   222222        24789999999999999999975

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.

>KOG3883|consensus

Probab=99.77  E-value=1.7e-17  Score=111.04  Aligned_cols=126  Identities=25%  Similarity=0.423  Sum_probs=110.2

Q ss_pred             CeEEEEEEEeCCCchhh-cccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCCCCCccc
Q psy2646          17 RTRTLIVIWDTAGQERF-RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQTSKKAV   94 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~-~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl~~~~~v   94 (168)
                      +-.-++.|+||.|...+ ..+-+.|+.-+|++++|||..+++||+.+..+...|.... ...+||+|++||+|+.+++.+
T Consensus        57 garE~l~lyDTaGlq~~~~eLprhy~q~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~v  136 (198)
T KOG3883|consen   57 GAREQLRLYDTAGLQGGQQELPRHYFQFADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREV  136 (198)
T ss_pred             ChhheEEEeecccccCchhhhhHhHhccCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhc
Confidence            44458999999998877 5677889999999999999999999999988888887665 457999999999999988899


Q ss_pred             CHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCC
Q psy2646          95 DYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP  142 (168)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~  142 (168)
                      ..+-+..+++.-.+..++++|.+...+-+.|..+...+..-..++.+|
T Consensus       137 d~d~A~~Wa~rEkvkl~eVta~dR~sL~epf~~l~~rl~~pqskS~Fp  184 (198)
T KOG3883|consen  137 DMDVAQIWAKREKVKLWEVTAMDRPSLYEPFTYLASRLHQPQSKSTFP  184 (198)
T ss_pred             CHHHHHHHHhhhheeEEEEEeccchhhhhHHHHHHHhccCCcccccCc
Confidence            989999999988999999999999999999999988877666666555

>PLN00023 GTP-binding protein; Provisional

Probab=99.76  E-value=1.8e-17  Score=125.38  Aligned_cols=90  Identities=24%  Similarity=0.504  Sum_probs=78.1

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC------------CCCcEEEEEec
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC------------DNVNKLLVGNK   85 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~------------~~~piivv~nK   85 (168)
                      +.+.++||||+|+++|..++..|+++++++|+|||+++..+|+.+..|+..+.....            .++|++|||||
T Consensus        81 k~v~LqIWDTAGqErfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK  160 (334)
T PLN00023         81 RDFFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNK  160 (334)
T ss_pred             ceEEEEEEECCCChhhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEEC
Confidence            568899999999999999999999999999999999999999999999999976521            25899999999


Q ss_pred             CCCCCCc---c---cCHHHHHHHHHhcC
Q psy2646          86 NDQTSKK---A---VDYQVAKEYADHLK  107 (168)
Q Consensus        86 ~Dl~~~~---~---v~~~~~~~~~~~~~  107 (168)
                      +||...+   .   +..+++.++++.++
T Consensus       161 ~DL~~~~~~r~~s~~~~e~a~~~A~~~g  188 (334)
T PLN00023        161 ADIAPKEGTRGSSGNLVDAARQWVEKQG  188 (334)
T ss_pred             ccccccccccccccccHHHHHHHHHHcC
Confidence            9996542   2   35688889998877

>cd01898 Obg Obg subfamily

Probab=99.76  E-value=1.6e-17  Score=115.79  Aligned_cols=111  Identities=17%  Similarity=0.231  Sum_probs=84.2

Q ss_pred             EEEEEEeCCCch----hhcccchhhh---cCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhc--CCCCcEEEEEecCCCC
Q psy2646          20 TLIVIWDTAGQE----RFRTITSSYY---RGAHGIIVVYDCTDQ-ETFNNLKQWLEEIDRYA--CDNVNKLLVGNKNDQT   89 (168)
Q Consensus        20 ~~l~l~Dt~G~~----~~~~~~~~~~---~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~--~~~~piivv~nK~Dl~   89 (168)
                      ..+.+|||||+.    .+..+...++   ..+|++++|+|++++ ++++.+..|...+....  ....|+++|+||+|+.
T Consensus        48 ~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~  127 (170)
T cd01898          48 RSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLL  127 (170)
T ss_pred             CeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcC
Confidence            489999999963    2223344444   459999999999998 78998888988886553  1368999999999986


Q ss_pred             CCcccCHHHHHHHHHh-cCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADH-LKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~-~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ....+. .....+... .+.+++++||+++.|++++|+++.+.
T Consensus       128 ~~~~~~-~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  169 (170)
T cd01898         128 DEEELF-ELLKELLKELWGKPVFPISALTGEGLDELLRKLAEL  169 (170)
T ss_pred             CchhhH-HHHHHHHhhCCCCCEEEEecCCCCCHHHHHHHHHhh
Confidence            654432 333344444 36889999999999999999999864

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.75  E-value=3.1e-17  Score=125.94  Aligned_cols=117  Identities=16%  Similarity=0.154  Sum_probs=89.2

Q ss_pred             eEEEEEEEeCCCchhh----cccch---hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEecCCC
Q psy2646          18 TRTLIVIWDTAGQERF----RTITS---SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC--DNVNKLLVGNKNDQ   88 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~----~~~~~---~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~Dl   88 (168)
                      +...+.+||+||..+-    ..+..   .+++.++++|+|||+++.++++.+..|...+..+..  .+.|+++|+||+|+
T Consensus       204 ~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL  283 (335)
T PRK12299        204 DYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDL  283 (335)
T ss_pred             CCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECccc
Confidence            3456899999997421    12222   345679999999999988789999999988866532  36899999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      .....+.......+....+.+++++||+++.|++++++++...+.+
T Consensus       284 ~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~eL~~~L~~~l~~  329 (335)
T PRK12299        284 LDEEEEREKRAALELAALGGPVFLISAVTGEGLDELLRALWELLEE  329 (335)
T ss_pred             CCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            7654443334444555567899999999999999999999988765

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

Probab=99.73  E-value=8.5e-17  Score=110.71  Aligned_cols=107  Identities=18%  Similarity=0.199  Sum_probs=81.0

Q ss_pred             EEEEEEEeCCCchhhccc------chhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTI------TSSYYR--GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~------~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      +..+.+|||||++.+...      +..++.  ++|++++|+|+++++..   ..|...+...   +.|+++++||+|+..
T Consensus        42 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~---~~~~~~~~~~---~~~~iiv~NK~Dl~~  115 (158)
T cd01879          42 GKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNLERN---LYLTLQLLEL---GLPVVVALNMIDEAE  115 (158)
T ss_pred             CeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcchhH---HHHHHHHHHc---CCCEEEEEehhhhcc
Confidence            357899999999876643      455664  99999999999986442   2344444333   689999999999976


Q ss_pred             CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ...+.. ....+...++.+++++||.++.|+.++++++...+
T Consensus       116 ~~~~~~-~~~~~~~~~~~~~~~iSa~~~~~~~~l~~~l~~~~  156 (158)
T cd01879         116 KRGIKI-DLDKLSELLGVPVVPTSARKGEGIDELKDAIAELA  156 (158)
T ss_pred             cccchh-hHHHHHHhhCCCeEEEEccCCCCHHHHHHHHHHHh
Confidence            544432 24466677789999999999999999999998763

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.

>cd04171 SelB SelB subfamily

Probab=99.73  E-value=7.5e-17  Score=111.57  Aligned_cols=106  Identities=18%  Similarity=0.183  Sum_probs=75.3

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCccc-
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD---QETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAV-   94 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v-   94 (168)
                      ...+.+|||||+++|......+++++|++++|+|+++   .++.+.+    ..+...  ...|+++++||+|+.+.... 
T Consensus        50 ~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~~~~~~~~~~----~~~~~~--~~~~~ilv~NK~Dl~~~~~~~  123 (164)
T cd04171          50 GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEGIMPQTREHL----EILELL--GIKRGLVVLTKADLVDEDWLE  123 (164)
T ss_pred             CcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCCccHhHHHHH----HHHHHh--CCCcEEEEEECccccCHHHHH
Confidence            4689999999999887666677889999999999987   3333322    222222  12489999999999754211 


Q ss_pred             -CHHHHHHHHHh---cCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          95 -DYQVAKEYADH---LKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        95 -~~~~~~~~~~~---~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                       ...+..+..+.   .+.+++++||+++.|++++|+.+..
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         124 LVEEEIRELLAGTFLADAPIFPVSAVTGEGIEELKEYLDE  163 (164)
T ss_pred             HHHHHHHHHHHhcCcCCCcEEEEeCCCCcCHHHHHHHHhh
Confidence             12233333333   3579999999999999999998753

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

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

Probab=99.71  E-value=9.2e-17  Score=114.78  Aligned_cols=125  Identities=20%  Similarity=0.193  Sum_probs=87.4

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      ...+...++++.+.+.+|||||+++|...+..+++++|++++|||+++.. +.....++..+..   .+.|+++++||+|
T Consensus        53 ~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~d~~~~~-~~~~~~~~~~~~~---~~~p~iiv~NK~D  128 (194)
T cd01891          53 ILAKNTAVTYKDTKINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKID  128 (194)
T ss_pred             cccceeEEEECCEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEEECCCCc-cHHHHHHHHHHHH---cCCCEEEEEECCC
Confidence            34455566777889999999999999999999999999999999998742 2333334444333   2689999999999


Q ss_pred             CCCCcc-cCHHHHHHHHH-------hcCCCEEEEeccCCCCHHH------HHHHHHHHHHHHh
Q psy2646          88 QTSKKA-VDYQVAKEYAD-------HLKIPFLETSAKNGANVEQ------AFLTMATEIKKRV  136 (168)
Q Consensus        88 l~~~~~-v~~~~~~~~~~-------~~~~~~~~vSa~~~~~i~~------i~~~l~~~~~~~~  136 (168)
                      +..... ...++...+..       ..+++++++||++|.|+.+      -+.+|...+....
T Consensus       129 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~Sa~~g~~~~~~~~~~~~~~~l~~~~~~~~  191 (194)
T cd01891         129 RPDARPEEVVDEVFDLFIELGATEEQLDFPVLYASAKNGWASLNLEDPSEDLEPLFDTIIEHV  191 (194)
T ss_pred             CCCCCHHHHHHHHHHHHHHhCCccccCccCEEEeehhccccccccccchhhHHHHHHHHHhcC
Confidence            964322 11233333332       2367999999999988743      3556666665543

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

>KOG4423|consensus

Probab=99.70  E-value=1e-17  Score=115.42  Aligned_cols=150  Identities=27%  Similarity=0.380  Sum_probs=117.6

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh----cCCCCcEEEEEecCCCCCCccc
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY----ACDNVNKLLVGNKNDQTSKKAV   94 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~----~~~~~piivv~nK~Dl~~~~~v   94 (168)
                      .+++++||++||++|..|..-|++.+++..+|||++++-+|+.+..|.+.+..-    .+...|+++++||+|.......
T Consensus        74 ~vRlqLwdIagQerfg~mtrVyykea~~~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~  153 (229)
T KOG4423|consen   74 IVRLQLWDIAGQERFGNMTRVYYKEAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKN  153 (229)
T ss_pred             HHHHHHhcchhhhhhcceEEEEecCCcceEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhh
Confidence            367899999999999999999999999999999999999999999999998321    1457899999999998643221


Q ss_pred             -CHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCCCchhhhhhccCCCCCCCCCCCCCCC
Q psy2646          95 -DYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC  168 (168)
Q Consensus        95 -~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~  168 (168)
                       .......+.+++|+ ..+++|++.+.++.|+-..++.++..+.....+.+.-.....+....+....+..-..||
T Consensus       154 ~~~~~~d~f~kengf~gwtets~Kenkni~Ea~r~lVe~~lvnd~q~~~s~~~~~~~~~l~~~~~s~~~g~~~~~c  229 (229)
T KOG4423|consen  154 EATRQFDNFKKENGFEGWTETSAKENKNIPEAQRELVEKILVNDEQPIKSSAVDGDKINLRLMQPSEAAGRVKSMC  229 (229)
T ss_pred             hhHHHHHHHHhccCccceeeeccccccChhHHHHHHHHHHHhhccCCcccccccccccCccccCcchhhhhhcccC
Confidence             13455678888884 799999999999999999999999988766666666555555544444444444444555

>cd01878 HflX HflX subfamily

Probab=99.70  E-value=1.9e-16  Score=113.89  Aligned_cols=105  Identities=19%  Similarity=0.237  Sum_probs=79.5

Q ss_pred             EEEEEeCCCchh---------hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          21 LIVIWDTAGQER---------FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        21 ~l~l~Dt~G~~~---------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      .+.||||||..+         +...+ ..+..+|++++|+|++++.++.....|...+......+.|+++|+||+|+.+.
T Consensus        90 ~~~i~Dt~G~~~~~~~~~~~~~~~~~-~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~  168 (204)
T cd01878          90 EVLLTDTVGFIRDLPHQLVEAFRSTL-EEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDD  168 (204)
T ss_pred             eEEEeCCCccccCCCHHHHHHHHHHH-HHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCCh
Confidence            799999999732         11111 23678999999999999888877777777665544446899999999998654


Q ss_pred             cccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          92 KAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        92 ~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ....     ......+.+++++||+++.|+.++++++...
T Consensus       169 ~~~~-----~~~~~~~~~~~~~Sa~~~~gi~~l~~~L~~~  203 (204)
T cd01878         169 EELE-----ERLEAGRPDAVFISAKTGEGLDELLEAIEEL  203 (204)
T ss_pred             HHHH-----HHhhcCCCceEEEEcCCCCCHHHHHHHHHhh
Confidence            3321     3344456789999999999999999999865

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.70  E-value=1.9e-15  Score=102.02  Aligned_cols=119  Identities=45%  Similarity=0.762  Sum_probs=91.9

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHH-HHhcCCCCcEEEEEecCCCC
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI-DRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i-~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...........+.+||+||...+...+..+++.+|++++|+|++++.++.....|.... ......+.|+++++||+|+.
T Consensus        36 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~  115 (157)
T cd00882          36 KTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLP  115 (157)
T ss_pred             EEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccc
Confidence            33344456889999999999988888888999999999999999998888888773222 22335579999999999987


Q ss_pred             CCcccCHHH-HHHHHHhcCCCEEEEeccCCCCHHHHHHHHH
Q psy2646          90 SKKAVDYQV-AKEYADHLKIPFLETSAKNGANVEQAFLTMA  129 (168)
Q Consensus        90 ~~~~v~~~~-~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~  129 (168)
                      ......... ........+.+++++|+.++.|++++++++.
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882         116 EERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             cccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            544332222 3334455568999999999999999999985

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

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.69  E-value=4.2e-16  Score=127.69  Aligned_cols=111  Identities=19%  Similarity=0.268  Sum_probs=87.3

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~   95 (168)
                      ++..+.+.||||||+.+|...+..+++.+|++|+|||+++..+......|...+.    .+.|+++++||+|+....  .
T Consensus        66 ~g~~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~~~--~  139 (595)
T TIGR01393        66 DGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPSAD--P  139 (595)
T ss_pred             CCCEEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCccC--H
Confidence            5667899999999999999989999999999999999998766666666554432    268999999999986432  1


Q ss_pred             HHHHHHHHHhcCC---CEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          96 YQVAKEYADHLKI---PFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        96 ~~~~~~~~~~~~~---~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      .....++.+.+++   +++++||++|.|++++|+++.+.+
T Consensus       140 ~~~~~el~~~lg~~~~~vi~vSAktG~GI~~Lle~I~~~l  179 (595)
T TIGR01393       140 ERVKKEIEEVIGLDASEAILASAKTGIGIEEILEAIVKRV  179 (595)
T ss_pred             HHHHHHHHHHhCCCcceEEEeeccCCCCHHHHHHHHHHhC
Confidence            2223345555554   489999999999999999998765

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.69  E-value=2.1e-16  Score=107.32  Aligned_cols=98  Identities=20%  Similarity=0.155  Sum_probs=74.3

Q ss_pred             EEEeCCCch-----hhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHH
Q psy2646          23 VIWDTAGQE-----RFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQ   97 (168)
Q Consensus        23 ~l~Dt~G~~-----~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~   97 (168)
                      .+|||||+.     .|..+.. .++++|++++|||++++.++.. ..|...+      ..|+++++||+|+.+. ....+
T Consensus        38 ~~iDt~G~~~~~~~~~~~~~~-~~~~ad~vilv~d~~~~~s~~~-~~~~~~~------~~p~ilv~NK~Dl~~~-~~~~~  108 (142)
T TIGR02528        38 GAIDTPGEYVENRRLYSALIV-TAADADVIALVQSATDPESRFP-PGFASIF------VKPVIGLVTKIDLAEA-DVDIE  108 (142)
T ss_pred             eeecCchhhhhhHHHHHHHHH-HhhcCCEEEEEecCCCCCcCCC-hhHHHhc------cCCeEEEEEeeccCCc-ccCHH
Confidence            689999983     3343333 5889999999999999988755 2343322      2499999999998653 34455


Q ss_pred             HHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHH
Q psy2646          98 VAKEYADHLKI-PFLETSAKNGANVEQAFLTMA  129 (168)
Q Consensus        98 ~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~  129 (168)
                      ++.++++..+. +++++||+++.|++++|+++.
T Consensus       109 ~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528       109 RAKELLETAGAEPIFEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             HHHHHHHHcCCCcEEEEecCCCCCHHHHHHHHh
Confidence            66677777765 899999999999999999874

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.

>KOG1673|consensus

Probab=99.69  E-value=6e-16  Score=103.92  Aligned_cols=123  Identities=21%  Similarity=0.380  Sum_probs=104.3

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      -+.+.+.+..+.+.+||.+|++++..+.+..-+++-+++|+||++.+.++..+..|+.+........+| |++|+|.|+.
T Consensus        59 dkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlFmFDLt~r~TLnSi~~WY~QAr~~NktAiP-ilvGTKyD~f  137 (205)
T KOG1673|consen   59 DKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAILFMFDLTRRSTLNSIKEWYRQARGLNKTAIP-ILVGTKYDLF  137 (205)
T ss_pred             eeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEEEEEEecCchHHHHHHHHHHHHHhccCCccce-EEeccchHhh
Confidence            456677888899999999999999999999999999999999999999999999999999777666777 7889999964


Q ss_pred             CC------cccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          90 SK------KAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        90 ~~------~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      -.      ..+ ..+++.+++-++.+.+++|+.+..|+..+|.-+...+.+
T Consensus       138 i~lp~e~Q~~I-~~qar~YAk~mnAsL~F~Sts~sINv~KIFK~vlAklFn  187 (205)
T KOG1673|consen  138 IDLPPELQETI-SRQARKYAKVMNASLFFCSTSHSINVQKIFKIVLAKLFN  187 (205)
T ss_pred             hcCCHHHHHHH-HHHHHHHHHHhCCcEEEeeccccccHHHHHHHHHHHHhC
Confidence            21      111 134567888889999999999999999999998877764

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.68  E-value=4.6e-16  Score=108.86  Aligned_cols=113  Identities=18%  Similarity=0.187  Sum_probs=82.8

Q ss_pred             EEEEEEEeCCCchh----hcccc---hhhhcCCcEEEEEEeCCCh------hhHHHHHHHHHHHHHhcC-------CCCc
Q psy2646          19 RTLIVIWDTAGQER----FRTIT---SSYYRGAHGIIVVYDCTDQ------ETFNNLKQWLEEIDRYAC-------DNVN   78 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~----~~~~~---~~~~~~~d~~i~v~d~~~~------~s~~~~~~~~~~i~~~~~-------~~~p   78 (168)
                      ...+.+|||||...    ...++   ..+++++|++++|+|+++.      .++.....|...+.....       .+.|
T Consensus        43 ~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p  122 (176)
T cd01881          43 GARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKP  122 (176)
T ss_pred             CCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCC
Confidence            56789999999732    22232   2357789999999999987      577777777777744321       3689


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +++++||+|+..................+.+++++||+++.|++++++++...
T Consensus       123 ~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         123 VIYVLNKIDLDDAEELEEELVRELALEEGAEVVPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             eEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEehhhhcCHHHHHHHHHhh
Confidence            99999999997654443332233444456789999999999999999998764

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

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

Probab=99.68  E-value=9.6e-16  Score=106.54  Aligned_cols=112  Identities=18%  Similarity=0.124  Sum_probs=78.6

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC-H
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD-Y   96 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~-~   96 (168)
                      ....+.+|||||++.|..++..++..+|++++|+|+++..... ....+..+..   .+.|+++++||+|+....... .
T Consensus        48 ~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~~~~-~~~~~~~~~~---~~~p~ivv~NK~Dl~~~~~~~~~  123 (168)
T cd01887          48 KIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDGVMPQ-TIEAIKLAKA---ANVPFIVALNKIDKPNANPERVK  123 (168)
T ss_pred             CcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCCccHH-HHHHHHHHHH---cCCCEEEEEEceecccccHHHHH
Confidence            3678999999999999888888999999999999998743211 1112222322   368999999999986432110 0


Q ss_pred             HHHHHHHH------hcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          97 QVAKEYAD------HLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        97 ~~~~~~~~------~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .....+..      ...++++++||.++.|+.++++++..+..
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  166 (168)
T cd01887         124 NELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLLEAILLLAE  166 (168)
T ss_pred             HHHHHhhccccccccCcCcEEEeecccCCCHHHHHHHHHHhhh
Confidence            11111111      11368999999999999999999987653

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.67  E-value=1.1e-15  Score=117.27  Aligned_cols=112  Identities=17%  Similarity=0.242  Sum_probs=84.6

Q ss_pred             EEEEEEeCCCchhhc----ccchhh---hcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHhc--CCCCcEEEEEecCC
Q psy2646          20 TLIVIWDTAGQERFR----TITSSY---YRGAHGIIVVYDCTDQ---ETFNNLKQWLEEIDRYA--CDNVNKLLVGNKND   87 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~----~~~~~~---~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~--~~~~piivv~nK~D   87 (168)
                      ..++||||||..+..    .+...+   +..++++++|+|+++.   ++++.+..|..++..+.  ....|+++|+||+|
T Consensus       205 ~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~D  284 (329)
T TIGR02729       205 RSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKID  284 (329)
T ss_pred             eEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCcc
Confidence            678999999975321    233334   4579999999999976   67888888888775542  24689999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +..... ..+....+.+.++.+++++||+++.|++++++++.+.+
T Consensus       285 L~~~~~-~~~~~~~l~~~~~~~vi~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       285 LLDEEE-LAELLKELKKALGKPVFPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             CCChHH-HHHHHHHHHHHcCCcEEEEEccCCcCHHHHHHHHHHHh
Confidence            975432 22344456666678999999999999999999998754

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.66  E-value=3.5e-15  Score=101.78  Aligned_cols=116  Identities=31%  Similarity=0.391  Sum_probs=89.5

Q ss_pred             eeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh-hhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          13 KKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ-ETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        13 ~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~-~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      +.+++..+.+.+||+||+.++..++..+.+.++++++++|.... .++.... .|...+......+.|+++++||+|+..
T Consensus        43 ~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  122 (161)
T TIGR00231        43 IEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRD  122 (161)
T ss_pred             EEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEEEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCc
Confidence            44556668899999999999999999999999999999999877 6666655 666666554333789999999999965


Q ss_pred             CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHH
Q psy2646          91 KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA  129 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~  129 (168)
                      .. +.......+......+++++||.++.|+.++|+++-
T Consensus       123 ~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l~  160 (161)
T TIGR00231       123 AK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIVE  160 (161)
T ss_pred             ch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHhh
Confidence            43 333333334444457899999999999999999863

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.64  E-value=3.7e-15  Score=122.31  Aligned_cols=112  Identities=21%  Similarity=0.271  Sum_probs=85.9

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~   95 (168)
                      +++.+.+.||||||+.+|...+..+++.+|++|+|+|+++.........|.... .   .+.|+++++||+|+....  .
T Consensus        70 dg~~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~-~---~~lpiIvViNKiDl~~a~--~  143 (600)
T PRK05433         70 DGETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL-E---NDLEIIPVLNKIDLPAAD--P  143 (600)
T ss_pred             CCCcEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH-H---CCCCEEEEEECCCCCccc--H
Confidence            566799999999999999988999999999999999999865555554554332 2   368999999999986432  1


Q ss_pred             HHHHHHHHHhcCC---CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          96 YQVAKEYADHLKI---PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        96 ~~~~~~~~~~~~~---~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .....++.+.+++   .++++||++|.|+.++++++.+.+.
T Consensus       144 ~~v~~ei~~~lg~~~~~vi~iSAktG~GI~~Ll~~I~~~lp  184 (600)
T PRK05433        144 ERVKQEIEDVIGIDASDAVLVSAKTGIGIEEVLEAIVERIP  184 (600)
T ss_pred             HHHHHHHHHHhCCCcceEEEEecCCCCCHHHHHHHHHHhCc
Confidence            1222344444554   3899999999999999999987763

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.64  E-value=8e-15  Score=106.36  Aligned_cols=133  Identities=36%  Similarity=0.542  Sum_probs=99.8

Q ss_pred             cccccceeeeee----CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC-hhhHHHHHHHHHHHHHhcCCCCc
Q psy2646           4 LLPYQTLQNKKE----ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD-QETFNNLKQWLEEIDRYACDNVN   78 (168)
Q Consensus         4 ~~~t~~~~~~~~----~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~-~~s~~~~~~~~~~i~~~~~~~~p   78 (168)
                      +.||++......    .+..+.+.+|||+|+++|+.++..|+.++++++++||..+ ..+++....|...+........|
T Consensus        34 ~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~  113 (219)
T COG1100          34 YPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVP  113 (219)
T ss_pred             CCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCce
Confidence            445655444333    2336789999999999999999999999999999999998 45566678899888776445699


Q ss_pred             EEEEEecCCCCCCcc------------cCHHHHHHHHHhc---CCCEEEEecc--CCCCHHHHHHHHHHHHHHHh
Q psy2646          79 KLLVGNKNDQTSKKA------------VDYQVAKEYADHL---KIPFLETSAK--NGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        79 iivv~nK~Dl~~~~~------------v~~~~~~~~~~~~---~~~~~~vSa~--~~~~i~~i~~~l~~~~~~~~  136 (168)
                      +++++||+|+.....            .............   ...++++|+.  .+.++.++|..+...+.+..
T Consensus       114 iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~~~~~~~~~~~~~  188 (219)
T COG1100         114 ILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLLEEI  188 (219)
T ss_pred             EEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEeecccCCCcCHHHHHHHHHHHHHHhh
Confidence            999999999976532            2222222222222   3348999999  99999999999999987654

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.64  E-value=2.6e-15  Score=116.16  Aligned_cols=119  Identities=18%  Similarity=0.204  Sum_probs=82.5

Q ss_pred             cccceeeeeeCC-eEEEEEEEeCCCch---------hhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCC
Q psy2646           6 PYQTLQNKKEER-TRTLIVIWDTAGQE---------RFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD   75 (168)
Q Consensus         6 ~t~~~~~~~~~~-~~~~l~l~Dt~G~~---------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~   75 (168)
                      +|.......+.. .+..+.||||+|..         .|...+ ..+.++|++++|+|++++.+++....|...+......
T Consensus       222 tT~d~~~~~i~~~~~~~i~l~DT~G~~~~l~~~lie~f~~tl-e~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~  300 (351)
T TIGR03156       222 ATLDPTTRRLDLPDGGEVLLTDTVGFIRDLPHELVAAFRATL-EEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAE  300 (351)
T ss_pred             cccCCEEEEEEeCCCceEEEEecCcccccCCHHHHHHHHHHH-HHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccC
Confidence            444444333332 23589999999972         222222 2478999999999999988877776666666554334


Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +.|+++|+||+|+.....+     .... ....+++++||++|.|++++++++...
T Consensus       301 ~~piIlV~NK~Dl~~~~~v-----~~~~-~~~~~~i~iSAktg~GI~eL~~~I~~~  350 (351)
T TIGR03156       301 DIPQLLVYNKIDLLDEPRI-----ERLE-EGYPEAVFVSAKTGEGLDLLLEAIAER  350 (351)
T ss_pred             CCCEEEEEEeecCCChHhH-----HHHH-hCCCCEEEEEccCCCCHHHHHHHHHhh
Confidence            6899999999998643221     1121 123468999999999999999998754

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).

>cd01894 EngA1 EngA1 subfamily

Probab=99.64  E-value=3.3e-15  Score=102.52  Aligned_cols=106  Identities=17%  Similarity=0.094  Sum_probs=75.6

Q ss_pred             CeEEEEEEEeCCCchhhcc--------cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          17 RTRTLIVIWDTAGQERFRT--------ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~--------~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ..+..+.+|||||...+..        .+..+++.+|++++|+|..+..+.... .+...+...   +.|+++++||+|+
T Consensus        42 ~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~-~~~~~~~~~---~~piiiv~nK~D~  117 (157)
T cd01894          42 WGGREFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREGLTPADE-EIAKYLRKS---KKPVILVVNKVDN  117 (157)
T ss_pred             ECCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEeccccCCccHH-HHHHHHHhc---CCCEEEEEECccc
Confidence            3446799999999877543        334567899999999999875443332 222333322   5899999999998


Q ss_pred             CCCcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ......     ......++. +++++|++++.|++++|+++.++
T Consensus       118 ~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  156 (157)
T cd01894         118 IKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGDLLDAILEL  156 (157)
T ss_pred             CChHHH-----HHHHHhcCCCCeEEEecccCCCHHHHHHHHHhh
Confidence            754322     222333555 78999999999999999999875

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.

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

Probab=99.63  E-value=2.1e-15  Score=108.57  Aligned_cols=111  Identities=15%  Similarity=0.188  Sum_probs=75.8

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--HH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--YQ   97 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--~~   97 (168)
                      .++.||||||+++|...+...+..+|++++|+|++++.........+..+...  ...|+++++||+|+.+.....  .+
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~--~~~~iiivvNK~Dl~~~~~~~~~~~  160 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM--GLKHIIIVQNKIDLVKEEQALENYE  160 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc--CCCcEEEEEEchhccCHHHHHHHHH
Confidence            68999999999988777777788899999999998741111111222222222  125799999999986532211  12


Q ss_pred             HHHHHHHhc---CCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          98 VAKEYADHL---KIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        98 ~~~~~~~~~---~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ....+...+   +++++++||++|.|++++|+++...+
T Consensus       161 ~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l  198 (203)
T cd01888         161 QIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKI  198 (203)
T ss_pred             HHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence            233333322   57899999999999999999987644

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

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.63  E-value=6.1e-15  Score=101.78  Aligned_cols=107  Identities=22%  Similarity=0.328  Sum_probs=86.7

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVA   99 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~   99 (168)
                      ..+.++|||||+||..+|+.+.+++.++|+++|.+.+..+ ....++..+...  ...|++|++||+|+...  .+.++.
T Consensus        68 ~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~--~~ip~vVa~NK~DL~~a--~ppe~i  142 (187)
T COG2229          68 TGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSR--NPIPVVVAINKQDLFDA--LPPEKI  142 (187)
T ss_pred             ceEEEecCCCcHHHHHHHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhc--cCCCEEEEeeccccCCC--CCHHHH
Confidence            6788999999999999999999999999999999999888 455555555332  13999999999999874  344555


Q ss_pred             HHHHHhc--CCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646         100 KEYADHL--KIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus       100 ~~~~~~~--~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      .++.+..  .+++++++|.++.+..+.++.+...
T Consensus       143 ~e~l~~~~~~~~vi~~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         143 REALKLELLSVPVIEIDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             HHHHHhccCCCceeeeecccchhHHHHHHHHHhh
Confidence            5554443  7899999999999999988887754

>KOG0074|consensus

Probab=99.63  E-value=6.9e-16  Score=102.10  Aligned_cols=128  Identities=26%  Similarity=0.339  Sum_probs=99.4

Q ss_pred             cccccccceeeeeeCCeE-EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHH-HHhcCCCCcE
Q psy2646           2 RLLLPYQTLQNKKEERTR-TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI-DRYACDNVNK   79 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~~~-~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i-~~~~~~~~pi   79 (168)
                      |-+.||.++....+...+ +++.+||++|+...+++|..||.+.|++|||+|.+|..-|+++..-+-++ .+.....+|+
T Consensus        43 ~hltpT~GFn~k~v~~~g~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpv  122 (185)
T KOG0074|consen   43 RHLTPTNGFNTKKVEYDGTFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPV  122 (185)
T ss_pred             hhccccCCcceEEEeecCcEEEEEEecCCccccchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccce
Confidence            447899999999987554 89999999999999999999999999999999999988888876555544 3344568999


Q ss_pred             EEEEecCCCCCCcccCHHHHHH----HHHhcCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKE----YADHLKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~----~~~~~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      .+.+||+|+.....++ +.+..    ......+.+-++||.+++|+.+..+|+..
T Consensus       123 lIfankQdlltaa~~e-eia~klnl~~lrdRswhIq~csals~eg~~dg~~wv~s  176 (185)
T KOG0074|consen  123 LIFANKQDLLTAAKVE-EIALKLNLAGLRDRSWHIQECSALSLEGSTDGSDWVQS  176 (185)
T ss_pred             eehhhhhHHHhhcchH-HHHHhcchhhhhhceEEeeeCccccccCccCcchhhhc
Confidence            9999999986543322 11111    11222367889999999999999888864

>PRK04213 GTP-binding protein; Provisional

Probab=99.62  E-value=2.2e-15  Score=108.11  Aligned_cols=107  Identities=18%  Similarity=0.222  Sum_probs=72.8

Q ss_pred             EEEEEeCCC-----------chhhcccchhhhc----CCcEEEEEEeCCChhhH-H---------HHHHHHHHHHHhcCC
Q psy2646          21 LIVIWDTAG-----------QERFRTITSSYYR----GAHGIIVVYDCTDQETF-N---------NLKQWLEEIDRYACD   75 (168)
Q Consensus        21 ~l~l~Dt~G-----------~~~~~~~~~~~~~----~~d~~i~v~d~~~~~s~-~---------~~~~~~~~i~~~~~~   75 (168)
                      .+.+|||||           +++++.++..++.    .++++++|+|.++...+ +         ....++..+.   ..
T Consensus        53 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~  129 (201)
T PRK04213         53 DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLR---EL  129 (201)
T ss_pred             ceEEEeCCccccccccCHHHHHHHHHHHHHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHH---Hc
Confidence            589999999           5677776666664    35788888888653211 0         0111222222   23


Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHHhcCC---------CEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKI---------PFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~---------~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +.|+++|+||+|+.+..   .+...++.+.+++         +++++||++| |++++|+++.+.+..
T Consensus       130 ~~p~iiv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~  193 (201)
T PRK04213        130 GIPPIVAVNKMDKIKNR---DEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHE  193 (201)
T ss_pred             CCCeEEEEECccccCcH---HHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcC
Confidence            68999999999986543   2334455555553         5899999999 999999999987654

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.62  E-value=4.2e-15  Score=119.35  Aligned_cols=120  Identities=18%  Similarity=0.147  Sum_probs=81.2

Q ss_pred             eeeCCeEEEEEEEeCCCc----------hhhcccc-hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEE
Q psy2646          13 KKEERTRTLIVIWDTAGQ----------ERFRTIT-SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL   81 (168)
Q Consensus        13 ~~~~~~~~~l~l~Dt~G~----------~~~~~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiv   81 (168)
                      +.+++.  .+.||||||.          +.|..+. ..+++++|++|+|+|+++..++.+.. ++..+..   .+.|+++
T Consensus       254 ~~~~~~--~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~---~~~piIi  327 (472)
T PRK03003        254 IELGGK--TWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE---AGRALVL  327 (472)
T ss_pred             EEECCE--EEEEEECCCccccccccchHHHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEE
Confidence            344454  5679999995          3333332 23678999999999999987777664 3444433   3689999


Q ss_pred             EEecCCCCCCcccC--HHHHHH-HHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          82 VGNKNDQTSKKAVD--YQVAKE-YADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        82 v~nK~Dl~~~~~v~--~~~~~~-~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      |+||+|+.+.....  ..+... +......+++++||++|.|++++|+.+.+.+.....+
T Consensus       328 V~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~SAk~g~gv~~lf~~i~~~~~~~~~~  387 (472)
T PRK03003        328 AFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNISAKTGRAVDKLVPALETALESWDTR  387 (472)
T ss_pred             EEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhccc
Confidence            99999996532110  111111 2222236899999999999999999999887654443

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.61  E-value=1.1e-14  Score=102.91  Aligned_cols=115  Identities=20%  Similarity=0.259  Sum_probs=83.7

Q ss_pred             eeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc
Q psy2646          14 KEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA   93 (168)
Q Consensus        14 ~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~   93 (168)
                      .++.....+.||||||...+...+..+++.+|++++|+|+.+...... ..++..+..   .+.|+++++||+|+.....
T Consensus        56 ~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~~i~iv~nK~D~~~~~~  131 (189)
T cd00881          56 TFEWPDRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEGVQPQT-REHLRIARE---GGLPIIVAINKIDRVGEED  131 (189)
T ss_pred             EEeeCCEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCCCcHHH-HHHHHHHHH---CCCCeEEEEECCCCcchhc
Confidence            334445789999999999888888899999999999999987654332 233333332   3789999999999875322


Q ss_pred             cC--HHHHHHHHHh--------------cCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          94 VD--YQVAKEYADH--------------LKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        94 v~--~~~~~~~~~~--------------~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ..  .....+..+.              ...+++++||++|.|+++++.++...+
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         132 LEEVLREIKELLGLIGFISTKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             HHHHHHHHHHHHccccccchhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence            21  1222223222              357899999999999999999998775

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.

>KOG0096|consensus

Probab=99.60  E-value=2.1e-15  Score=104.39  Aligned_cols=131  Identities=25%  Similarity=0.442  Sum_probs=108.1

Q ss_pred             cccccccceeeeee----CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC
Q psy2646           2 RLLLPYQTLQNKKE----ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNV   77 (168)
Q Consensus         2 ~~~~~t~~~~~~~~----~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   77 (168)
                      +++.||++.....+    +.+.+.+..|||+|++.+..+...|+-.+.+.|++||+...-++..+..|...+.+.+ .++
T Consensus        37 ~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~rv~-~Ni  115 (216)
T KOG0096|consen   37 KTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLVRVR-ENI  115 (216)
T ss_pred             ecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeEEEeeeeehhhhhcchHHHHHHHHHh-cCC
Confidence            35778888665555    2345899999999999999999999999999999999999999999999999997774 469


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ||++.|||.|..+.+.  ..+...+....++.+|++||+++.|.+.-|.|+.+.+...
T Consensus       116 Piv~cGNKvDi~~r~~--k~k~v~~~rkknl~y~~iSaksn~NfekPFl~LarKl~G~  171 (216)
T KOG0096|consen  116 PIVLCGNKVDIKARKV--KAKPVSFHRKKNLQYYEISAKSNYNFERPFLWLARKLTGD  171 (216)
T ss_pred             Ceeeeccceecccccc--ccccceeeecccceeEEeecccccccccchHHHhhhhcCC
Confidence            9999999999876541  1223345566679999999999999999999999887643

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.60  E-value=7.6e-15  Score=101.69  Aligned_cols=103  Identities=18%  Similarity=0.121  Sum_probs=74.8

Q ss_pred             EEeCCCchhhcccc----hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHH
Q psy2646          24 IWDTAGQERFRTIT----SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVA   99 (168)
Q Consensus        24 l~Dt~G~~~~~~~~----~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~   99 (168)
                      +|||||.......+    ...++++|++++|+|+++..++..  .|+..+    ..+.|+++++||+|+..   ...+..
T Consensus        41 ~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d~~~~~s~~~--~~~~~~----~~~~~ii~v~nK~Dl~~---~~~~~~  111 (158)
T PRK15467         41 DIDTPGEYFSHPRWYHALITTLQDVDMLIYVHGANDPESRLP--AGLLDI----GVSKRQIAVISKTDMPD---ADVAAT  111 (158)
T ss_pred             cccCCccccCCHHHHHHHHHHHhcCCEEEEEEeCCCcccccC--HHHHhc----cCCCCeEEEEEccccCc---ccHHHH
Confidence            69999973222111    224789999999999998766532  333332    23579999999999854   234555


Q ss_pred             HHHHHhcC--CCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646         100 KEYADHLK--IPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus       100 ~~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      .++++..+  .+++++||+++.|++++|+++.+.+.+.
T Consensus       112 ~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l~~~~~~~  149 (158)
T PRK15467        112 RKLLLETGFEEPIFELNSHDPQSVQQLVDYLASLTKQE  149 (158)
T ss_pred             HHHHHHcCCCCCEEEEECCCccCHHHHHHHHHHhchhh
Confidence            66666666  4999999999999999999998776543

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.60  E-value=3.6e-14  Score=111.83  Aligned_cols=114  Identities=16%  Similarity=0.221  Sum_probs=85.5

Q ss_pred             EEEEEEEeCCCchh----hcccchhh---hcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHhc--CCCCcEEEEEecC
Q psy2646          19 RTLIVIWDTAGQER----FRTITSSY---YRGAHGIIVVYDCTDQ---ETFNNLKQWLEEIDRYA--CDNVNKLLVGNKN   86 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~----~~~~~~~~---~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~--~~~~piivv~nK~   86 (168)
                      ...+.||||||..+    ...+...|   +.+++++|+|+|+++.   +++++...|...+..+.  ....|++||+||+
T Consensus       205 ~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~  284 (424)
T PRK12297        205 GRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKM  284 (424)
T ss_pred             CceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCC
Confidence            46799999999743    22233344   4569999999999864   67777777877776543  2368999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      |+...    .+....+.+.++.+++++||+++.|++++++++...+....
T Consensus       285 DL~~~----~e~l~~l~~~l~~~i~~iSA~tgeGI~eL~~~L~~~l~~~~  330 (424)
T PRK12297        285 DLPEA----EENLEEFKEKLGPKVFPISALTGQGLDELLYAVAELLEETP  330 (424)
T ss_pred             CCcCC----HHHHHHHHHHhCCcEEEEeCCCCCCHHHHHHHHHHHHHhCc
Confidence            98432    23445566666688999999999999999999998876543

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.59  E-value=2.5e-14  Score=113.63  Aligned_cols=112  Identities=21%  Similarity=0.175  Sum_probs=77.4

Q ss_pred             EEEEEEEeCCCchhhcccc-----------hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646          19 RTLIVIWDTAGQERFRTIT-----------SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~-----------~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      +..+.+|||||..++....           ..+++.+|++|+|+|++++.+..+.. ++..+..   .+.|+++++||+|
T Consensus       219 ~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~~---~~~~iiiv~NK~D  294 (429)
T TIGR03594       219 GKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDLR-IAGLILE---AGKALVIVVNKWD  294 (429)
T ss_pred             CcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEEEEECCCCccHHHHH-HHHHHHH---cCCcEEEEEECcc
Confidence            3478999999976543321           23678999999999999876665543 3333333   3689999999999


Q ss_pred             CCCCcccCHHHHH-HHHHh----cCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAK-EYADH----LKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        88 l~~~~~v~~~~~~-~~~~~----~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +..... ...+.. .+...    ..++++++||++|.|++++|+++...+...
T Consensus       295 l~~~~~-~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~~v~~l~~~i~~~~~~~  346 (429)
T TIGR03594       295 LVKDEK-TREEFKKELRRKLPFLDFAPIVFISALTGQGVDKLLDAIDEVYENA  346 (429)
T ss_pred             cCCCHH-HHHHHHHHHHHhcccCCCCceEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            862111 111221 12222    237899999999999999999999876654

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.59  E-value=1.5e-14  Score=118.56  Aligned_cols=116  Identities=20%  Similarity=0.190  Sum_probs=84.2

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhccc------chhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEE
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTI------TSSYYR--GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL   81 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~------~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiv   81 (168)
                      .+...++.++..+.+|||||+.++...      ...++.  .+|++++|+|+++.+.   ...+..++.+   .+.|+++
T Consensus        31 ~~~~~i~~~~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~ler---~l~l~~ql~~---~~~PiII  104 (591)
T TIGR00437        31 KKEGKLGFQGEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNLER---NLYLTLQLLE---LGIPMIL  104 (591)
T ss_pred             EEEEEEEECCeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcchh---hHHHHHHHHh---cCCCEEE
Confidence            333334334456899999999877654      334443  7899999999987532   2233333333   3689999


Q ss_pred             EEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          82 VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++||+|+.+.+.+. .+...+.+..+++++++||++|.|++++++++.+.+
T Consensus       105 VlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~~~~  154 (591)
T TIGR00437       105 ALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAIRKAI  154 (591)
T ss_pred             EEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            99999987655544 345678888899999999999999999999998754

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.59  E-value=2.4e-14  Score=113.79  Aligned_cols=107  Identities=19%  Similarity=0.183  Sum_probs=81.5

Q ss_pred             eEEEEEEEeCCCchhhcccc--------hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTIT--------SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~--------~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ++..+.+|||||+.++...+        ..+++++|++++|||++++.+++..  |+..+..   .+.|+++|+||+|+.
T Consensus       249 ~g~~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~  323 (442)
T TIGR00450       249 NGILIKLLDTAGIREHADFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLK  323 (442)
T ss_pred             CCEEEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCC
Confidence            34567999999986543322        3578899999999999988777664  6555532   368999999999986


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ..      ....+++.++.+++++||++ .|++++|+.+...+.+..
T Consensus       324 ~~------~~~~~~~~~~~~~~~vSak~-~gI~~~~~~L~~~i~~~~  363 (442)
T TIGR00450       324 IN------SLEFFVSSKVLNSSNLSAKQ-LKIKALVDLLTQKINAFY  363 (442)
T ss_pred             Cc------chhhhhhhcCCceEEEEEec-CCHHHHHHHHHHHHHHHh
Confidence            43      12345566678899999997 699999999999887654

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.58  E-value=2.3e-14  Score=110.57  Aligned_cols=121  Identities=17%  Similarity=0.259  Sum_probs=80.1

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchh-hcccch-------hhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCC
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQER-FRTITS-------SYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDN   76 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~-~~~~~~-------~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~   76 (168)
                      +|+......+..++.++.||||||+.+ +..+..       .++.++|++++|+|..+  ++.... .|+..+...   +
T Consensus        86 tTr~~~~~~~~~~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~~---~  160 (339)
T PRK15494         86 TTRSIITGIITLKDTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLK--SFDDITHNILDKLRSL---N  160 (339)
T ss_pred             CccCcEEEEEEeCCeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCC--CCCHHHHHHHHHHHhc---C
Confidence            344433333334446789999999843 322221       24779999999999875  344443 344444433   4


Q ss_pred             CcEEEEEecCCCCCCcccCHHHHHHHHHhcC--CCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          77 VNKLLVGNKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        77 ~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      .|+++|+||+|+... .  ..+..++....+  ..++++||++|.|++++|+++...+..
T Consensus       161 ~p~IlViNKiDl~~~-~--~~~~~~~l~~~~~~~~i~~iSAktg~gv~eL~~~L~~~l~~  217 (339)
T PRK15494        161 IVPIFLLNKIDIESK-Y--LNDIKAFLTENHPDSLLFPISALSGKNIDGLLEYITSKAKI  217 (339)
T ss_pred             CCEEEEEEhhcCccc-c--HHHHHHHHHhcCCCcEEEEEeccCccCHHHHHHHHHHhCCC
Confidence            677899999998643 1  234444544443  579999999999999999999876543

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.58  E-value=3.9e-14  Score=97.05  Aligned_cols=105  Identities=16%  Similarity=0.107  Sum_probs=77.7

Q ss_pred             eCCeEEEEEEEeCCCchhhccc--------chhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          15 EERTRTLIVIWDTAGQERFRTI--------TSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        15 ~~~~~~~l~l~Dt~G~~~~~~~--------~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      +...+..+.+|||||..++...        ...++.++|++++|+|++++.+......+..      ....|+++++||+
T Consensus        44 ~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~  117 (157)
T cd04164          44 IDIGGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKS  117 (157)
T ss_pred             EEeCCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEch
Confidence            3334567899999997654321        2246779999999999998776665543332      2368999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      |+......       .....+.+++++||.++.|++++++++...+
T Consensus       118 D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  156 (157)
T cd04164         118 DLLPDSEL-------LSLLAGKPIIAISAKTGEGLDELKEALLELA  156 (157)
T ss_pred             hcCCcccc-------ccccCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            98764332       3344467999999999999999999988754

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.

>TIGR00436 era GTP-binding protein Era

Probab=99.58  E-value=2.9e-14  Score=106.93  Aligned_cols=109  Identities=19%  Similarity=0.182  Sum_probs=77.1

Q ss_pred             EEEEEEEeCCCchhhc-c-------cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          19 RTLIVIWDTAGQERFR-T-------ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~-~-------~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      ..++.||||||..... .       ....+++++|++++|+|+++..+..  ..++..+...   +.|+++|+||+|+..
T Consensus        47 ~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~--~~i~~~l~~~---~~p~ilV~NK~Dl~~  121 (270)
T TIGR00436        47 ASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDG--EFVLTKLQNL---KRPVVLTRNKLDNKF  121 (270)
T ss_pred             CcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCchH--HHHHHHHHhc---CCCEEEEEECeeCCC
Confidence            3579999999975421 1       1234678999999999999876554  3344444332   689999999999864


Q ss_pred             CcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ...+ ......+....+. +++++||++|.|++++++++...+.
T Consensus       122 ~~~~-~~~~~~~~~~~~~~~v~~iSA~~g~gi~~L~~~l~~~l~  164 (270)
T TIGR00436       122 KDKL-LPLIDKYAILEDFKDIVPISALTGDNTSFLAAFIEVHLP  164 (270)
T ss_pred             HHHH-HHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHhCC
Confidence            3222 2233344444443 7999999999999999999987763

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.58  E-value=1.7e-14  Score=114.98  Aligned_cols=103  Identities=18%  Similarity=0.173  Sum_probs=78.2

Q ss_pred             eEEEEEEEeCCCchhhccc--------chhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTI--------TSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~--------~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+..+.+|||||.+++...        ...+++++|++++|||++++.+++....|..      ..+.|+++|+||+|+.
T Consensus       261 ~g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~  334 (449)
T PRK05291        261 DGIPLRLIDTAGIRETDDEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLT  334 (449)
T ss_pred             CCeEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhcc
Confidence            3467899999998754432        1236889999999999998877765444333      2368999999999996


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ......        ...+.+++++||++|.|++++++++...+..
T Consensus       335 ~~~~~~--------~~~~~~~i~iSAktg~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        335 GEIDLE--------EENGKPVIRISAKTGEGIDELREAIKELAFG  371 (449)
T ss_pred             ccchhh--------hccCCceEEEEeeCCCCHHHHHHHHHHHHhh
Confidence            543221        3345789999999999999999999988764

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.57  E-value=4.7e-14  Score=115.34  Aligned_cols=114  Identities=18%  Similarity=0.232  Sum_probs=80.0

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEE
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ---ETFNNLKQWLEEIDRYACDNVNKLLVG   83 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~piivv~   83 (168)
                      +++...+.+++. ..+.||||||++.|..++...+..+|++|+|||+++.   ++.+.    +....   ..+.|+++++
T Consensus       123 ~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~dgv~~qT~e~----i~~~~---~~~vPiIVvi  194 (587)
T TIGR00487       123 HIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEA----ISHAK---AANVPIIVAI  194 (587)
T ss_pred             cceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEEEEEEECCCCCCHhHHHH----HHHHH---HcCCCEEEEE
Confidence            334444444332 2789999999999999999899999999999999864   33322    22222   2368999999


Q ss_pred             ecCCCCCCcccCHHHHHHHHH-------hcC--CCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          84 NKNDQTSKKAVDYQVAKEYAD-------HLK--IPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~~-------~~~--~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ||+|+.+.   ..+.......       .++  .+++++||++|.|++++|+++...
T Consensus       195 NKiDl~~~---~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~~  248 (587)
T TIGR00487       195 NKIDKPEA---NPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDGIDELLDMILLQ  248 (587)
T ss_pred             ECcccccC---CHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCChHHHHHhhhhh
Confidence            99998642   2222222222       222  579999999999999999998743

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.57  E-value=4.3e-14  Score=112.94  Aligned_cols=131  Identities=15%  Similarity=0.167  Sum_probs=89.1

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhh----ccc---chhhhcCCcEEEEEEeCCCh----hhHHHHHHHHHHHHHhc-
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERF----RTI---TSSYYRGAHGIIVVYDCTDQ----ETFNNLKQWLEEIDRYA-   73 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~----~~~---~~~~~~~~d~~i~v~d~~~~----~s~~~~~~~~~~i~~~~-   73 (168)
                      .|+......++.....+.||||||....    ..+   .-..+.++|++|+|+|+++.    +.+.++..|..++..+. 
T Consensus       192 TTl~P~lGvv~~~~~~f~laDtPGliegas~g~gLg~~fLrhieradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~  271 (500)
T PRK12296        192 TTLVPNLGVVQAGDTRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAP  271 (500)
T ss_pred             ccccceEEEEEECCeEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhh
Confidence            4555555556555578999999996321    111   12246789999999999753    35555555555553331 


Q ss_pred             ----------CCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          74 ----------CDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        74 ----------~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                                ....|++||+||+|+.....+. +.........+++++++||+++.|+++++.+|...+.....
T Consensus       272 ~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~-e~l~~~l~~~g~~Vf~ISA~tgeGLdEL~~~L~ell~~~r~  344 (500)
T PRK12296        272 ALDGDLGLGDLAERPRLVVLNKIDVPDARELA-EFVRPELEARGWPVFEVSAASREGLRELSFALAELVEEARA  344 (500)
T ss_pred             cccccchhhhhcCCCEEEEEECccchhhHHHH-HHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHhhhc
Confidence                      2368999999999997543322 22222334457899999999999999999999988876543

>cd01889 SelB_euk SelB subfamily

Probab=99.57  E-value=3e-14  Score=101.59  Aligned_cols=113  Identities=16%  Similarity=0.097  Sum_probs=74.8

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCccc--
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAV--   94 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v--   94 (168)
                      ++...+.+|||||+..+..........+|++++|+|+++.........+.  +...  .+.|+++++||+|+......  
T Consensus        65 ~~~~~~~i~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~--~~~~~iiv~NK~Dl~~~~~~~~  140 (192)
T cd01889          65 EENLQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV--IGEI--LCKKLIVVLNKIDLIPEEERER  140 (192)
T ss_pred             ccCceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH--HHHH--cCCCEEEEEECcccCCHHHHHH
Confidence            34678999999998765332223456789999999998754333322222  1121  25799999999998643221  


Q ss_pred             CHHHHHHH-HH------hcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          95 DYQVAKEY-AD------HLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        95 ~~~~~~~~-~~------~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ..++..+. ..      ..+++++++||++|.|++++++++.+++.
T Consensus       141 ~~~~~~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         141 KIEKMKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             HHHHHHHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence            11222221 11      23578999999999999999999988764

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.57  E-value=2.8e-14  Score=114.58  Aligned_cols=108  Identities=19%  Similarity=0.174  Sum_probs=75.8

Q ss_pred             EEEEEEEeCCCchh--------hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          19 RTLIVIWDTAGQER--------FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~--------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      +..+.||||||.+.        +...+..+++.+|++|+|||+++..++.+ ..+...+..   .+.|+++|+||+|+..
T Consensus        85 ~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~  160 (472)
T PRK03003         85 GRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDER  160 (472)
T ss_pred             CcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCc
Confidence            35688999999762        33345667899999999999998755433 234444432   3689999999999864


Q ss_pred             CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ..   .+....+....+ ..+++||++|.|++++|++++..+..
T Consensus       161 ~~---~~~~~~~~~g~~-~~~~iSA~~g~gi~eL~~~i~~~l~~  200 (472)
T PRK03003        161 GE---ADAAALWSLGLG-EPHPVSALHGRGVGDLLDAVLAALPE  200 (472)
T ss_pred             cc---hhhHHHHhcCCC-CeEEEEcCCCCCcHHHHHHHHhhccc
Confidence            21   112212222223 35799999999999999999988754

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.56  E-value=4.3e-14  Score=115.81  Aligned_cols=114  Identities=17%  Similarity=0.219  Sum_probs=83.5

Q ss_pred             eCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCc-EEEEEecCCCCC
Q psy2646          15 EERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD---QETFNNLKQWLEEIDRYACDNVN-KLLVGNKNDQTS   90 (168)
Q Consensus        15 ~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~Dl~~   90 (168)
                      ++.....+.|||+||+++|......++.++|++++|+|+++   +++++.+    ..+...   +.| +++++||+|+.+
T Consensus        45 ~~~~~~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G~~~qT~ehl----~il~~l---gi~~iIVVlNK~Dlv~  117 (581)
T TIGR00475        45 FPLPDYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHL----AVLDLL---GIPHTIVVITKADRVN  117 (581)
T ss_pred             EEeCCEEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCcHHHHHHH----HHHHHc---CCCeEEEEEECCCCCC
Confidence            33333789999999999998877788899999999999997   3444333    222222   567 999999999975


Q ss_pred             CcccC--HHHHHHHHHhc----CCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          91 KKAVD--YQVAKEYADHL----KIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        91 ~~~v~--~~~~~~~~~~~----~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ...+.  .+++..+.+..    +++++++||++|.|+++++.++...+...
T Consensus       118 ~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG~GI~eL~~~L~~l~~~~  168 (581)
T TIGR00475       118 EEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTGQGIGELKKELKNLLESL  168 (581)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCCCCchhHHHHHHHHHHhC
Confidence            43321  23344454443    47899999999999999999888766543

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.56  E-value=3e-14  Score=105.29  Aligned_cols=96  Identities=21%  Similarity=0.303  Sum_probs=79.1

Q ss_pred             hhhcccchhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCC
Q psy2646          31 ERFRTITSSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIP  109 (168)
Q Consensus        31 ~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~  109 (168)
                      ++|+.+.+.+++++|++++|||+++++ ++..+..|+..+..   .+.|+++|+||+||...+.+..+....+. .++++
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~~~~~~~~~-~~g~~   99 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDMEKEQLDIYR-NIGYQ   99 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHHHHHH-HCCCe
Confidence            678888899999999999999999887 89999999987643   37899999999999755444434444444 47899


Q ss_pred             EEEEeccCCCCHHHHHHHHHH
Q psy2646         110 FLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus       110 ~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      ++++||+++.|++++|+.+..
T Consensus       100 v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157       100 VLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             EEEEecCCchhHHHHHhhhcC
Confidence            999999999999999988763

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>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=99.55  E-value=5.6e-14  Score=99.95  Aligned_cols=121  Identities=21%  Similarity=0.230  Sum_probs=84.4

Q ss_pred             ccceeeeeeC--CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646           7 YQTLQNKKEE--RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus         7 t~~~~~~~~~--~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      |+......+.  .....+.|+||||+..|.......++.+|++|+|+|+.+..... ....+..+...   +.|+++++|
T Consensus        55 ti~~~~~~~~~~~~~~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~-~~~~l~~~~~~---~~p~ivvlN  130 (188)
T PF00009_consen   55 TIDLSFISFEKNENNRKITLIDTPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQ-TEEHLKILREL---GIPIIVVLN  130 (188)
T ss_dssp             SSSSEEEEEEBTESSEEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHH-HHHHHHHHHHT---T-SEEEEEE
T ss_pred             ccccccccccccccccceeecccccccceeecccceecccccceeeeecccccccc-ccccccccccc---ccceEEeee
Confidence            3344445554  66789999999999988877777899999999999998753322 23333444443   688999999


Q ss_pred             cCCCCCCcccC--HHHHH-HHHHhc------CCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          85 KNDQTSKKAVD--YQVAK-EYADHL------KIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        85 K~Dl~~~~~v~--~~~~~-~~~~~~------~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      |+|+... .+.  .++.. .+.+..      .++++++||.+|.|+.++++.+.+.+
T Consensus       131 K~D~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~  186 (188)
T PF00009_consen  131 KMDLIEK-ELEEIIEEIKEKLLKEYGENGEEIVPVIPISALTGDGIDELLEALVELL  186 (188)
T ss_dssp             TCTSSHH-HHHHHHHHHHHHHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred             eccchhh-hHHHHHHHHHHHhccccccCccccceEEEEecCCCCCHHHHHHHHHHhC
Confidence            9998721 111  11111 333333      25799999999999999999998764

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 ....

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.54  E-value=4.7e-14  Score=115.60  Aligned_cols=123  Identities=18%  Similarity=0.219  Sum_probs=92.3

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      -|+..+...++++++.+.||||||+.+|...+..+++.+|++++|+|+.+. .......|+..+...   ++|+++++||
T Consensus        50 iTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~~~l~~aD~alLVVDa~~G-~~~qT~~~l~~a~~~---~ip~IVviNK  125 (594)
T TIGR01394        50 ITILAKNTAIRYNGTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEG-PMPQTRFVLKKALEL---GLKPIVVINK  125 (594)
T ss_pred             ccEEeeeEEEEECCEEEEEEECCCHHHHHHHHHHHHHhCCEEEEEEeCCCC-CcHHHHHHHHHHHHC---CCCEEEEEEC
Confidence            466677777888889999999999999988889999999999999999864 244455666666544   6899999999


Q ss_pred             CCCCCCccc-CHHHHHHHH-------HhcCCCEEEEeccCCC----------CHHHHHHHHHHHH
Q psy2646          86 NDQTSKKAV-DYQVAKEYA-------DHLKIPFLETSAKNGA----------NVEQAFLTMATEI  132 (168)
Q Consensus        86 ~Dl~~~~~v-~~~~~~~~~-------~~~~~~~~~vSa~~~~----------~i~~i~~~l~~~~  132 (168)
                      +|+...+.. ...+...+.       +...++++++||++|.          |+..+|+.+...+
T Consensus       126 iD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~l  190 (594)
T TIGR01394       126 IDRPSARPDEVVDEVFDLFAELGADDEQLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHV  190 (594)
T ss_pred             CCCCCcCHHHHHHHHHHHHHhhccccccccCcEEechhhcCcccccCcccccCHHHHHHHHHHhC
Confidence            998653211 112233332       2235789999999996          7888888877665

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.54  E-value=5.7e-14  Score=117.67  Aligned_cols=105  Identities=19%  Similarity=0.267  Sum_probs=77.1

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc--
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ---ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA--   93 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~--   93 (168)
                      +..+.||||||++.|..++..++..+|++|||||+++.   ++.+.+    ....   ..++|+||++||+|+.+...  
T Consensus       336 ~~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~qT~e~i----~~a~---~~~vPiIVviNKiDl~~a~~e~  408 (787)
T PRK05306        336 GGKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMPQTIEAI----NHAK---AAGVPIIVAINKIDKPGANPDR  408 (787)
T ss_pred             CEEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCHhHHHHH----HHHH---hcCCcEEEEEECccccccCHHH
Confidence            36789999999999999999899999999999999873   333322    2222   23689999999999965311  


Q ss_pred             cCHHHHH---HHHHhcC--CCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          94 VDYQVAK---EYADHLK--IPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        94 v~~~~~~---~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +. .++.   .+...++  ++++++||++|.|++++|+++...
T Consensus       409 V~-~eL~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~~  450 (787)
T PRK05306        409 VK-QELSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLEAILLQ  450 (787)
T ss_pred             HH-HHHHHhcccHHHhCCCceEEEEeCCCCCCchHHHHhhhhh
Confidence            11 1111   1223343  789999999999999999998754

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.54  E-value=1.3e-13  Score=114.70  Aligned_cols=106  Identities=23%  Similarity=0.310  Sum_probs=79.8

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ---ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA   93 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~   93 (168)
                      +....+.||||||++.|..++..++..+|++|+|||+++.   .+++.+.    .+.   ..+.|+++++||+|+.... 
T Consensus       292 ~~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~----~~k---~~~iPiIVViNKiDl~~~~-  363 (742)
T CHL00189        292 DENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAIN----YIQ---AANVPIIVAINKIDKANAN-  363 (742)
T ss_pred             CCceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCCChhhHHHHH----HHH---hcCceEEEEEECCCccccC-
Confidence            4568899999999999999999999999999999999874   3333322    222   2368999999999986532 


Q ss_pred             cCHHHHHH-H------HHhcC--CCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          94 VDYQVAKE-Y------ADHLK--IPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        94 v~~~~~~~-~------~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                        ...... +      ...++  ++++++||++|.|++++|+++....
T Consensus       364 --~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG~GIdeLle~I~~l~  409 (742)
T CHL00189        364 --TERIKQQLAKYNLIPEKWGGDTPMIPISASQGTNIDKLLETILLLA  409 (742)
T ss_pred             --HHHHHHHHHHhccchHhhCCCceEEEEECCCCCCHHHHHHhhhhhh
Confidence              121111 1      22333  6899999999999999999998764

>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=99.53  E-value=1.4e-13  Score=90.66  Aligned_cols=82  Identities=30%  Similarity=0.455  Sum_probs=66.4

Q ss_pred             ccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHH---HHHhcCCCCcEEE
Q psy2646           5 LPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE---IDRYACDNVNKLL   81 (168)
Q Consensus         5 ~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~---i~~~~~~~~piiv   81 (168)
                      .++.......++.....+.+||++|++.+...+..++.++|++++|||++++.+++.+..++..   +... ..+.|+++
T Consensus        35 ~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~-~~~~piil  113 (119)
T PF08477_consen   35 EITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKR-DKNIPIIL  113 (119)
T ss_dssp             TSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHH-SSCSEEEE
T ss_pred             CCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHcc-CCCCCEEE
Confidence            3455556677778887899999999999998888889999999999999999999998655444   4433 45699999


Q ss_pred             EEecCC
Q psy2646          82 VGNKND   87 (168)
Q Consensus        82 v~nK~D   87 (168)
                      |+||.|
T Consensus       114 v~nK~D  119 (119)
T PF08477_consen  114 VGNKSD  119 (119)
T ss_dssp             EEE-TC
T ss_pred             EEeccC
Confidence            999998

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.

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

Probab=99.52  E-value=8.2e-14  Score=110.69  Aligned_cols=117  Identities=18%  Similarity=0.116  Sum_probs=79.4

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHH--HHHHHHHHHHhcCCCCcEEEEEe
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN--LKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      |+......+......+.||||||+++|.......+..+|++++|||+++.+++..  ...++......  ...|+++++|
T Consensus        72 Tid~~~~~~~~~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~--~~~~iIVviN  149 (426)
T TIGR00483        72 TIDVAHWKFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTL--GINQLIVAIN  149 (426)
T ss_pred             eEEEEEEEEccCCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHc--CCCeEEEEEE
Confidence            4555566677777899999999999886655556789999999999998743211  11111112222  2357999999


Q ss_pred             cCCCCCCcc----cCHHHHHHHHHhcC-----CCEEEEeccCCCCHHHHH
Q psy2646          85 KNDQTSKKA----VDYQVAKEYADHLK-----IPFLETSAKNGANVEQAF  125 (168)
Q Consensus        85 K~Dl~~~~~----v~~~~~~~~~~~~~-----~~~~~vSa~~~~~i~~i~  125 (168)
                      |+|+.+...    ....++..+.+..+     ++++++||++|.|+.+.+
T Consensus       150 K~Dl~~~~~~~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       150 KMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             ChhccCccHHHHHHHHHHHHHHHHHcCCCcccceEEEeeccccccccccc
Confidence            999964211    11234445555554     579999999999998744

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.

>cd00066 G-alpha G protein alpha subunit

Probab=99.52  E-value=1.6e-13  Score=104.93  Aligned_cols=136  Identities=18%  Similarity=0.178  Sum_probs=104.5

Q ss_pred             CcccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHH
Q psy2646           1 MRLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ----------ETFNNLKQWLEEID   70 (168)
Q Consensus         1 ~~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i~   70 (168)
                      +++..||.|+....+..+.+.+.+||++|+...+..|..++.+++++|||+|+++.          +.+.+....+..+.
T Consensus       142 l~~r~~T~Gi~~~~f~~~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~  221 (317)
T cd00066         142 LRARVKTTGIVETKFTIKNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSIC  221 (317)
T ss_pred             eeeecccCCeeEEEEEecceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHH
Confidence            36678999999999998899999999999999999999999999999999999874          45666666666664


Q ss_pred             Hhc-CCCCcEEEEEecCCCCCCc----------------ccCHHHHHHHHHh----------cCCCEEEEeccCCCCHHH
Q psy2646          71 RYA-CDNVNKLLVGNKNDQTSKK----------------AVDYQVAKEYADH----------LKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        71 ~~~-~~~~piivv~nK~Dl~~~~----------------~v~~~~~~~~~~~----------~~~~~~~vSa~~~~~i~~  123 (168)
                      ... ..+.|+++++||.|+..++                .-....+..+...          ..+..+.++|.+..++..
T Consensus       222 ~~~~~~~~pill~~NK~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~  301 (317)
T cd00066         222 NSRWFANTSIILFLNKKDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRF  301 (317)
T ss_pred             hCccccCCCEEEEccChHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHH
Confidence            433 3579999999999963211                1122333333211          235567889999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2646         124 AFLTMATEIKKRV  136 (168)
Q Consensus       124 i~~~l~~~~~~~~  136 (168)
                      +|+.+.+.+....
T Consensus       302 vf~~v~~~i~~~~  314 (317)
T cd00066         302 VFDAVKDIILQNN  314 (317)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999888754

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.

>PRK11058 GTPase HflX; Provisional

Probab=99.52  E-value=2.3e-13  Score=107.71  Aligned_cols=109  Identities=22%  Similarity=0.231  Sum_probs=77.3

Q ss_pred             EEEEEeCCCchhh--cccch------hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCc
Q psy2646          21 LIVIWDTAGQERF--RTITS------SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        21 ~l~l~Dt~G~~~~--~~~~~------~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~   92 (168)
                      .+.+|||+|..+.  ..++.      ..++.+|++|+|+|++++.+++.+..|...+......+.|+++|+||+|+....
T Consensus       246 ~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~  325 (426)
T PRK11058        246 ETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDF  325 (426)
T ss_pred             eEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCch
Confidence            6789999998432  22222      236889999999999998877776555554444433468999999999986431


Q ss_pred             ccCHHHHHHHHHhcCCC-EEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          93 AVDYQVAKEYADHLKIP-FLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        93 ~v~~~~~~~~~~~~~~~-~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      . .  .. .. ...+.+ ++++||++|.|++++++++...+..
T Consensus       326 ~-~--~~-~~-~~~~~~~~v~ISAktG~GIdeL~e~I~~~l~~  363 (426)
T PRK11058        326 E-P--RI-DR-DEENKPIRVWLSAQTGAGIPLLFQALTERLSG  363 (426)
T ss_pred             h-H--HH-HH-HhcCCCceEEEeCCCCCCHHHHHHHHHHHhhh
Confidence            1 1  11 11 123445 5899999999999999999988754

>cd00880 Era_like Era (E

Probab=99.50  E-value=2.9e-13  Score=92.27  Aligned_cols=109  Identities=20%  Similarity=0.172  Sum_probs=78.0

Q ss_pred             EEEEEEEeCCCchhhccc-------chhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTI-------TSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~-------~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      ...+.+|||||...+...       +..++..+|++++++|.++........ +......   ...|+++++||+|+...
T Consensus        44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~~~~~~~~~~-~~~~~~~---~~~~~ivv~nK~D~~~~  119 (163)
T cd00880          44 LGPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDADLRADEEEEK-LLELLRE---RGKPVLLVLNKIDLLPE  119 (163)
T ss_pred             CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHH-HHHHHHh---cCCeEEEEEEccccCCh
Confidence            457999999998765433       334788999999999999876655544 3333322   37899999999998754


Q ss_pred             cccCHHH---HHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          92 KAVDYQV---AKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        92 ~~v~~~~---~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      .......   ........+.+++++||.++.|+.++++++.+.
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l~~~l~~~  162 (163)
T cd00880         120 EEEEELLELRLLILLLLLGLPVIAVSALTGEGIDELREALIEA  162 (163)
T ss_pred             hhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHHHHHHHhh
Confidence            3322111   112223345899999999999999999998865

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

>smart00275 G_alpha G protein alpha subunit

Probab=99.48  E-value=1.1e-12  Score=101.18  Aligned_cols=136  Identities=20%  Similarity=0.211  Sum_probs=104.0

Q ss_pred             CcccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHH
Q psy2646           1 MRLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ----------ETFNNLKQWLEEID   70 (168)
Q Consensus         1 ~~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i~   70 (168)
                      +|+..||.|.....+..+++.+.+||.+|+...+..|..++.+++++|||+|+++.          +.+.+....+..+.
T Consensus       165 l~~r~~T~Gi~~~~f~~~~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~  244 (342)
T smart00275      165 LRSRVPTTGIQETAFIVKKLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESIC  244 (342)
T ss_pred             hheeCCccceEEEEEEECCeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHH
Confidence            36788999999999988889999999999999999999999999999999999973          45666666677665


Q ss_pred             Hhc-CCCCcEEEEEecCCCCCCc---------------ccCHHHHHHHHH-----h------cCCCEEEEeccCCCCHHH
Q psy2646          71 RYA-CDNVNKLLVGNKNDQTSKK---------------AVDYQVAKEYAD-----H------LKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        71 ~~~-~~~~piivv~nK~Dl~~~~---------------~v~~~~~~~~~~-----~------~~~~~~~vSa~~~~~i~~  123 (168)
                      ... ..+.|+++++||.|+..++               ..+...+..+..     .      ..+..+.++|.+..++..
T Consensus       245 ~~~~~~~~piil~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~  324 (342)
T smart00275      245 NSRWFANTSIILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRV  324 (342)
T ss_pred             cCccccCCcEEEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHH
Confidence            432 3579999999999973211               012233333221     1      124567889999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2646         124 AFLTMATEIKKRV  136 (168)
Q Consensus       124 i~~~l~~~~~~~~  136 (168)
                      +|+.+.+.+.++.
T Consensus       325 v~~~v~~~I~~~~  337 (342)
T smart00275      325 VFDAVKDIILQRN  337 (342)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998888764

Subunit of G proteins that contains the guanine nucleotide binding site

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

Probab=99.47  E-value=5e-13  Score=109.31  Aligned_cols=106  Identities=16%  Similarity=0.186  Sum_probs=75.1

Q ss_pred             EEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc----
Q psy2646          21 LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD---QETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA----   93 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~----   93 (168)
                      .+.||||||++.|..++..+++.+|++++|||+++   +.+++.+.    .+..   .+.|+++++||+|+.....    
T Consensus        70 ~l~~iDTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~----~l~~---~~vpiIVv~NK~Dl~~~~~~~~~  142 (590)
T TIGR00491        70 GLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALN----ILRM---YKTPFVVAANKIDRIPGWRSHEG  142 (590)
T ss_pred             cEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHH----HHHH---cCCCEEEEEECCCccchhhhccC
Confidence            38899999999999999999999999999999987   44444432    2222   2689999999999863210    


Q ss_pred             cCH--------HH------------HHHHHH------------hc--CCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          94 VDY--------QV------------AKEYAD------------HL--KIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        94 v~~--------~~------------~~~~~~------------~~--~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ...        ..            ...+.+            .+  .++++++||++|+|+++++.++.....
T Consensus       143 ~~f~e~sak~~~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~  216 (590)
T TIGR00491       143 RPFMESFSKQEIQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQ  216 (590)
T ss_pred             chHHHHHHhhhHHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHH
Confidence            000        00            001110            12  268999999999999999998875443

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.

>cd01895 EngA2 EngA2 subfamily

Probab=99.47  E-value=1.6e-12  Score=90.28  Aligned_cols=108  Identities=25%  Similarity=0.230  Sum_probs=72.3

Q ss_pred             EEEEEEeCCCchhhcc----------c-chhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          20 TLIVIWDTAGQERFRT----------I-TSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~----------~-~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ..+.+|||||..+...          . ...++..+|++++|+|++++.+.... .++..+..   .+.|+++++||+|+
T Consensus        50 ~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~-~~~~~~~~---~~~~~iiv~nK~Dl  125 (174)
T cd01895          50 KKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDATEGITEQDL-RIAGLILE---EGKALVIVVNKWDL  125 (174)
T ss_pred             eeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCCCCcchhHH-HHHHHHHh---cCCCEEEEEecccc
Confidence            4578999999743311          1 12346789999999999988665443 23333322   36899999999998


Q ss_pred             CCCcccCHHHHH-HHHHhc----CCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAK-EYADHL----KIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        89 ~~~~~v~~~~~~-~~~~~~----~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ............ .+.+.+    ..+++++||+++.|+.++++++.+.
T Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         126 VEKDSKTMKEFKKEIRRKLPFLDYAPIVFISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             CCccHHHHHHHHHHHHhhcccccCCceEEEeccCCCCHHHHHHHHHHh
Confidence            764322222222 222333    3689999999999999999998753

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.

>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=99.47  E-value=1.7e-13  Score=94.19  Aligned_cols=116  Identities=18%  Similarity=0.245  Sum_probs=78.7

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhcc------cchhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRT------ITSSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNV   77 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~------~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   77 (168)
                      .|+..+...+......+.++|+||...+..      ++..++  ...|++++|+|+++.+   .-..+..++.+.   +.
T Consensus        33 ~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~l~---r~l~l~~ql~e~---g~  106 (156)
T PF02421_consen   33 TTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATNLE---RNLYLTLQLLEL---GI  106 (156)
T ss_dssp             SSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGGHH---HHHHHHHHHHHT---TS
T ss_pred             CCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCCHH---HHHHHHHHHHHc---CC
Confidence            355556555654447899999999654432      223444  5799999999999753   333444555544   69


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHH
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM  128 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l  128 (168)
                      |+++++||+|....+.+.. ....+.+.+++|++++||.++.|++++++++
T Consensus       107 P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~pvi~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen  107 PVVVVLNKMDEAERKGIEI-DAEKLSERLGVPVIPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             SEEEEEETHHHHHHTTEEE--HHHHHHHHTS-EEEEBTTTTBTHHHHHHHH
T ss_pred             CEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCCEEEEEeCCCcCHHHHHhhC
Confidence            9999999999865544432 3456777789999999999999999998865

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 ....

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.47  E-value=3.7e-13  Score=106.92  Aligned_cols=117  Identities=19%  Similarity=0.155  Sum_probs=77.1

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhH-HHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETF-NNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~-~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      |+......++.+++.+.||||||+++|.......+..+|++++|+|+++...+ .....++..+...  ...|+++++||
T Consensus        71 T~d~~~~~~~~~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~--~~~~iivviNK  148 (425)
T PRK12317         71 TIDLAHKKFETDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL--GINQLIVAINK  148 (425)
T ss_pred             cceeeeEEEecCCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc--CCCeEEEEEEc
Confidence            55566667777788999999999988765444557899999999999872111 1112222222222  12469999999


Q ss_pred             CCCCCCcc----cCHHHHHHHHHhcC-----CCEEEEeccCCCCHHHHH
Q psy2646          86 NDQTSKKA----VDYQVAKEYADHLK-----IPFLETSAKNGANVEQAF  125 (168)
Q Consensus        86 ~Dl~~~~~----v~~~~~~~~~~~~~-----~~~~~vSa~~~~~i~~i~  125 (168)
                      +|+.....    ...+++..+.+..+     ++++++||++|.|+.+.+
T Consensus       149 ~Dl~~~~~~~~~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~  197 (425)
T PRK12317        149 MDAVNYDEKRYEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKS  197 (425)
T ss_pred             cccccccHHHHHHHHHHHHHHHHhhCCCcCcceEEEeecccCCCccccc
Confidence            99864211    11233444444444     579999999999998754

>PRK10218 GTP-binding protein; Provisional

Probab=99.46  E-value=7.6e-13  Score=108.56  Aligned_cols=122  Identities=17%  Similarity=0.183  Sum_probs=86.2

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+..+...++.+++.+.+|||||+..|...+..+++.+|++|+|||+.+.... ....++..+...   +.|+++++||+
T Consensus        55 Ti~~~~~~i~~~~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G~~~-qt~~~l~~a~~~---gip~IVviNKi  130 (607)
T PRK10218         55 TILAKNTAIKWNDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMP-QTRFVTKKAFAY---GLKPIVVINKV  130 (607)
T ss_pred             EEEEEEEEEecCCEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccCccH-HHHHHHHHHHHc---CCCEEEEEECc
Confidence            55566777788889999999999999999999999999999999999875322 233333333333   68999999999


Q ss_pred             CCCCCccc-CHHHHHHHHH-------hcCCCEEEEeccCCC----------CHHHHHHHHHHHH
Q psy2646          87 DQTSKKAV-DYQVAKEYAD-------HLKIPFLETSAKNGA----------NVEQAFLTMATEI  132 (168)
Q Consensus        87 Dl~~~~~v-~~~~~~~~~~-------~~~~~~~~vSa~~~~----------~i~~i~~~l~~~~  132 (168)
                      |+...+.- ..++...+..       ...+|++.+||.+|.          |+..+++.+...+
T Consensus       131 D~~~a~~~~vl~ei~~l~~~l~~~~~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~i  194 (607)
T PRK10218        131 DRPGARPDWVVDQVFDLFVNLDATDEQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHV  194 (607)
T ss_pred             CCCCCchhHHHHHHHHHHhccCccccccCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhC
Confidence            98643211 1122223321       234789999999998          4666766665554

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.46  E-value=3.9e-13  Score=106.17  Aligned_cols=112  Identities=21%  Similarity=0.251  Sum_probs=77.9

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCccc--CH
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAV--DY   96 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v--~~   96 (168)
                      ...+.+|||||+++|...+...+..+|++++|+|+++..........+..+...  ...|+++++||+|+.+....  ..
T Consensus        79 ~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~--gi~~iIVvvNK~Dl~~~~~~~~~~  156 (406)
T TIGR03680        79 LRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEII--GIKNIVIVQNKIDLVSKEKALENY  156 (406)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHc--CCCeEEEEEEccccCCHHHHHHHH
Confidence            467999999999999887777788899999999999642112222222323222  12478999999998753221  11


Q ss_pred             HHHHHHHHhc---CCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          97 QVAKEYADHL---KIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        97 ~~~~~~~~~~---~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      .++..+....   +++++++||++|.|+++++++|...+
T Consensus       157 ~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l  195 (406)
T TIGR03680       157 EEIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFI  195 (406)
T ss_pred             HHHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhC
Confidence            2333333332   57899999999999999999998654

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

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.46  E-value=1.3e-12  Score=102.28  Aligned_cols=115  Identities=19%  Similarity=0.223  Sum_probs=83.1

Q ss_pred             EEEEEEeCCCchhhcc----cc---hhhhcCCcEEEEEEeCC---ChhhHHHHHHHHHHHHHhc--CCCCcEEEEEecCC
Q psy2646          20 TLIVIWDTAGQERFRT----IT---SSYYRGAHGIIVVYDCT---DQETFNNLKQWLEEIDRYA--CDNVNKLLVGNKND   87 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~----~~---~~~~~~~d~~i~v~d~~---~~~s~~~~~~~~~~i~~~~--~~~~piivv~nK~D   87 (168)
                      ..+.|+||||..+-..    +.   ...+..+|++++|+|++   +.+.++....|+..+..+.  ....|+++|+||+|
T Consensus       207 ~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiD  286 (390)
T PRK12298        207 RSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKID  286 (390)
T ss_pred             cEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCc
Confidence            4589999999753211    11   23578899999999998   4556777777777775542  23689999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcC--CCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +.....+ .+....+.+..+  .+++.+||+++.|++++++++...+...
T Consensus       287 l~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~tg~GIdeLl~~I~~~L~~~  335 (390)
T PRK12298        287 LLDEEEA-EERAKAIVEALGWEGPVYLISAASGLGVKELCWDLMTFIEEN  335 (390)
T ss_pred             cCChHHH-HHHHHHHHHHhCCCCCEEEEECCCCcCHHHHHHHHHHHhhhC
Confidence            8654333 233334444444  4799999999999999999999887654

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.45  E-value=1.6e-12  Score=109.38  Aligned_cols=120  Identities=16%  Similarity=0.151  Sum_probs=90.9

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhccc----------chhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTI----------TSSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA   73 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~----------~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~   73 (168)
                      .|+..+...++.++.++.+|||||..++...          ...++  ..+|++++|+|+++.+..   ..+..++.+. 
T Consensus        36 vTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~ler~---l~l~~ql~e~-  111 (772)
T PRK09554         36 VTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERN---LYLTLQLLEL-  111 (772)
T ss_pred             ceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcchhh---HHHHHHHHHc-
Confidence            3566677777777889999999999776432          22343  379999999999986442   2344444443 


Q ss_pred             CCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          74 CDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        74 ~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                        +.|+++++||+|+.+.+.+. ....++.+.++++++++||.++.|++++.+.+....
T Consensus       112 --giPvIvVlNK~Dl~~~~~i~-id~~~L~~~LG~pVvpiSA~~g~GIdeL~~~I~~~~  167 (772)
T PRK09554        112 --GIPCIVALNMLDIAEKQNIR-IDIDALSARLGCPVIPLVSTRGRGIEALKLAIDRHQ  167 (772)
T ss_pred             --CCCEEEEEEchhhhhccCcH-HHHHHHHHHhCCCEEEEEeecCCCHHHHHHHHHHhh
Confidence              68999999999987655553 455677888899999999999999999999888664

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.45  E-value=6.6e-13  Score=95.94  Aligned_cols=114  Identities=18%  Similarity=0.116  Sum_probs=73.6

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......+..++.++.||||||+++|...+...++.+|++|+|+|+++...-. .......+...  ...++|+++||+
T Consensus        64 T~~~~~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~-~~~~~~~~~~~--~~~~iIvviNK~  140 (208)
T cd04166          64 TIDVAYRYFSTPKRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQ-TRRHSYILSLL--GIRHVVVAVNKM  140 (208)
T ss_pred             CeecceeEEecCCceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHh-HHHHHHHHHHc--CCCcEEEEEEch
Confidence            344444555556678999999999888665666789999999999998753211 11222222222  124578899999


Q ss_pred             CCCCCcccC----HHHHHHHHHhcC---CCEEEEeccCCCCHHH
Q psy2646          87 DQTSKKAVD----YQVAKEYADHLK---IPFLETSAKNGANVEQ  123 (168)
Q Consensus        87 Dl~~~~~v~----~~~~~~~~~~~~---~~~~~vSa~~~~~i~~  123 (168)
                      |+.+.....    ..+...+.+.++   .+++++||++|.|+.+
T Consensus       141 D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~  184 (208)
T cd04166         141 DLVDYSEEVFEEIVADYLAFAAKLGIEDITFIPISALDGDNVVS  184 (208)
T ss_pred             hcccCCHHHHHHHHHHHHHHHHHcCCCCceEEEEeCCCCCCCcc
Confidence            986422111    123334445555   4589999999999875

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.45  E-value=1.1e-12  Score=104.48  Aligned_cols=101  Identities=23%  Similarity=0.212  Sum_probs=72.0

Q ss_pred             EEEEEEEeCCCchh--------hcccchhhhcCCcEEEEEEeCCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          19 RTLIVIWDTAGQER--------FRTITSSYYRGAHGIIVVYDCTDQETFN--NLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~--------~~~~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      +..+.+|||||.+.        +......++..+|++|+|+|+++..+..  .+..|+..   .   +.|+++++||+|+
T Consensus        48 ~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~---~---~~piilv~NK~D~  121 (435)
T PRK00093         48 GREFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAGLTPADEEIAKILRK---S---NKPVILVVNKVDG  121 (435)
T ss_pred             CcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHH---c---CCcEEEEEECccC
Confidence            37899999999876        2223455788999999999998753322  23333332   2   6899999999997


Q ss_pred             CCCcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      ....    ....++ ..+++ .++++||.+|.|+.++|+++..
T Consensus       122 ~~~~----~~~~~~-~~lg~~~~~~iSa~~g~gv~~l~~~I~~  159 (435)
T PRK00093        122 PDEE----ADAYEF-YSLGLGEPYPISAEHGRGIGDLLDAILE  159 (435)
T ss_pred             ccch----hhHHHH-HhcCCCCCEEEEeeCCCCHHHHHHHHHh
Confidence            5421    122223 23455 4899999999999999999987

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.45  E-value=1.3e-12  Score=103.85  Aligned_cols=114  Identities=20%  Similarity=0.217  Sum_probs=78.5

Q ss_pred             eeeeCCeEEEEEEEeCCCc--------hhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEE
Q psy2646          12 NKKEERTRTLIVIWDTAGQ--------ERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG   83 (168)
Q Consensus        12 ~~~~~~~~~~l~l~Dt~G~--------~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~   83 (168)
                      ...+...+..+.+|||||.        +.+......+++.+|++++|+|+.+..+..+ ..+...+.+.   +.|+++|+
T Consensus        39 ~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~~~~~d-~~i~~~l~~~---~~piilVv  114 (429)
T TIGR03594        39 YGDAEWGGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREGLTPED-EEIAKWLRKS---GKPVILVA  114 (429)
T ss_pred             EEEEEECCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHH-HHHHHHHHHh---CCCEEEEE
Confidence            3333334457999999996        3344445667899999999999987533332 1222233322   68999999


Q ss_pred             ecCCCCCCcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          84 NKNDQTSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ||+|+......    ..++ ..++. +++++||.+|.|+.++++++...+..
T Consensus       115 NK~D~~~~~~~----~~~~-~~lg~~~~~~vSa~~g~gv~~ll~~i~~~l~~  161 (429)
T TIGR03594       115 NKIDGKKEDAV----AAEF-YSLGFGEPIPISAEHGRGIGDLLDAILELLPE  161 (429)
T ss_pred             ECccCCccccc----HHHH-HhcCCCCeEEEeCCcCCChHHHHHHHHHhcCc
Confidence            99998654321    1222 34565 79999999999999999999877643

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.

>cd04163 Era Era subfamily

Probab=99.44  E-value=2.5e-12  Score=88.59  Aligned_cols=113  Identities=18%  Similarity=0.139  Sum_probs=75.8

Q ss_pred             eCCeEEEEEEEeCCCchhhc--------ccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          15 EERTRTLIVIWDTAGQERFR--------TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        15 ~~~~~~~l~l~Dt~G~~~~~--------~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      +......+.+|||||.....        ......+..+|++++|+|++++.+.. ...+...+...   +.|+++++||+
T Consensus        46 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~-~~~~~~~~~~~---~~~~iiv~nK~  121 (168)
T cd04163          46 YTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEPIGEG-DEFILELLKKS---KTPVILVLNKI  121 (168)
T ss_pred             EEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCccCch-HHHHHHHHHHh---CCCEEEEEEch
Confidence            34445789999999975332        22344688899999999999862211 12223333332   58999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhc-CCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~-~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      |+.............+.... ..+++++|++++.|++++++++.+.
T Consensus       122 Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~l~~~l~~~  167 (168)
T cd04163         122 DLVKDKEDLLPLLEKLKELGPFAEIFPISALKGENVDELLEEIVKY  167 (168)
T ss_pred             hccccHHHHHHHHHHHHhccCCCceEEEEeccCCChHHHHHHHHhh
Confidence            98742222222333344444 3689999999999999999998764

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.44  E-value=1.4e-12  Score=109.52  Aligned_cols=115  Identities=17%  Similarity=0.148  Sum_probs=77.6

Q ss_pred             eeCCeEEEEEEEeCCCchh----------hcccc-hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEE
Q psy2646          14 KEERTRTLIVIWDTAGQER----------FRTIT-SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLV   82 (168)
Q Consensus        14 ~~~~~~~~l~l~Dt~G~~~----------~~~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv   82 (168)
                      .+++.  .+.||||||..+          |..+. ..+++.+|++++|+|+++..++.+.. ++..+..   .+.|+++|
T Consensus       494 ~~~~~--~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDat~~~s~~~~~-i~~~~~~---~~~piIiV  567 (712)
T PRK09518        494 EIDGE--DWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDASQPISEQDLK-VMSMAVD---AGRALVLV  567 (712)
T ss_pred             EECCC--EEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEE
Confidence            34444  567999999632          22221 23478899999999999887777654 3333433   36899999


Q ss_pred             EecCCCCCCcccCHHHHHH-HHHhc----CCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          83 GNKNDQTSKKAVDYQVAKE-YADHL----KIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~-~~~~~----~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      +||+|+.+...  .+.... +...+    ..+++++||++|.|++++|+.+.+.+....
T Consensus       568 ~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~~L~~~i~~~~~~~~  624 (712)
T PRK09518        568 FNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVNLSAKTGWHTNRLAPAMQEALESWD  624 (712)
T ss_pred             EEchhcCChhH--HHHHHHHHHHhccCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            99999965322  111111 11111    257899999999999999999998876543

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

Probab=99.44  E-value=8.2e-13  Score=104.39  Aligned_cols=111  Identities=23%  Similarity=0.258  Sum_probs=73.3

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--HH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--YQ   97 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--~~   97 (168)
                      ..+.||||||+++|..........+|++++|+|++++.........+..+...  ...|+++++||+|+.+.....  .+
T Consensus        85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~--~i~~iiVVlNK~Dl~~~~~~~~~~~  162 (411)
T PRK04000         85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDII--GIKNIVIVQNKIDLVSKERALENYE  162 (411)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHc--CCCcEEEEEEeeccccchhHHHHHH
Confidence            57999999999887654444455679999999999642111111112222222  124689999999986532221  12


Q ss_pred             HHHHHHHhc---CCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          98 VAKEYADHL---KIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        98 ~~~~~~~~~---~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +...+.+..   +++++++||+++.|++++++++...+
T Consensus       163 ~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l  200 (411)
T PRK04000        163 QIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEI  200 (411)
T ss_pred             HHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhC
Confidence            333343322   47899999999999999999988765

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.43  E-value=1.5e-12  Score=103.72  Aligned_cols=114  Identities=21%  Similarity=0.187  Sum_probs=76.6

Q ss_pred             CeEEEEEEEeCCCchhhccc----------c-hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646          17 RTRTLIVIWDTAGQERFRTI----------T-SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~----------~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      ..+..+.+|||||..+....          . ..+++.+|++|+|+|++++.+..+.. +...+...   +.|+++++||
T Consensus       218 ~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~~---~~~~ivv~NK  293 (435)
T PRK00093        218 RDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVLLVIDATEGITEQDLR-IAGLALEA---GRALVIVVNK  293 (435)
T ss_pred             ECCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHHc---CCcEEEEEEC
Confidence            34456889999996432211          1 23678999999999999876655543 33333332   6899999999


Q ss_pred             CCCCCCcccCHHHHHHHHHh----cCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADH----LKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~----~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +|+...... .+....+...    ..++++++||++|.|++++|+.+.......
T Consensus       294 ~Dl~~~~~~-~~~~~~~~~~l~~~~~~~i~~~SA~~~~gv~~l~~~i~~~~~~~  346 (435)
T PRK00093        294 WDLVDEKTM-EEFKKELRRRLPFLDYAPIVFISALTGQGVDKLLEAIDEAYENA  346 (435)
T ss_pred             ccCCCHHHH-HHHHHHHHHhcccccCCCEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            998643211 1111112222    247999999999999999999998766544

>KOG0462|consensus

Probab=99.42  E-value=1.8e-12  Score=102.65  Aligned_cols=121  Identities=21%  Similarity=0.197  Sum_probs=88.5

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      +....++.+++.+.|.+.||||+-+|..-....+..++|+|+|+|++...--+...+++..+.    .+..+|.|+||+|
T Consensus       113 Qtasify~~~~~ylLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe----~~L~iIpVlNKID  188 (650)
T KOG0462|consen  113 QTASIFYKDGQSYLLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFE----AGLAIIPVLNKID  188 (650)
T ss_pred             eeeEEEEEcCCceEEEeecCCCcccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHH----cCCeEEEeeeccC
Confidence            334444556777999999999999998888888999999999999997654444555444442    3578999999999


Q ss_pred             CCCCcccC-HHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          88 QTSKKAVD-YQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        88 l~~~~~v~-~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++..+.-. ..+...+......+++.+||++|.|++++|+++++.+
T Consensus       189 lp~adpe~V~~q~~~lF~~~~~~~i~vSAK~G~~v~~lL~AII~rV  234 (650)
T KOG0462|consen  189 LPSADPERVENQLFELFDIPPAEVIYVSAKTGLNVEELLEAIIRRV  234 (650)
T ss_pred             CCCCCHHHHHHHHHHHhcCCccceEEEEeccCccHHHHHHHHHhhC
Confidence            98643210 1122233333345899999999999999998888765

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

Probab=99.42  E-value=7.1e-13  Score=96.50  Aligned_cols=114  Identities=18%  Similarity=0.202  Sum_probs=73.0

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhh---HH---HHHHHHHHHHHhcCCCCcEE
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQET---FN---NLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~~---~~~~~~~~i~~~~~~~~pii   80 (168)
                      |+......+......+.+|||||+..|...+...++.+|++|+|+|+++...   |.   .....+......  ...|++
T Consensus        64 T~d~~~~~~~~~~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~ii  141 (219)
T cd01883          64 TIDVGLAKFETEKYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTL--GVKQLI  141 (219)
T ss_pred             CeecceEEEeeCCeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHc--CCCeEE
Confidence            4445556666677899999999998776656666788999999999987410   11   111112222222  236899


Q ss_pred             EEEecCCCCCCc--ccCHH----HHHHHHHhc-----CCCEEEEeccCCCCHH
Q psy2646          81 LVGNKNDQTSKK--AVDYQ----VAKEYADHL-----KIPFLETSAKNGANVE  122 (168)
Q Consensus        81 vv~nK~Dl~~~~--~v~~~----~~~~~~~~~-----~~~~~~vSa~~~~~i~  122 (168)
                      +++||+|+....  .....    ++..+....     +++++++||++|.|++
T Consensus       142 ivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         142 VAVNKMDDVTVNWSEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             EEEEccccccccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            999999997321  11111    222223333     3679999999999986

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

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.42  E-value=2.7e-12  Score=105.78  Aligned_cols=109  Identities=14%  Similarity=0.165  Sum_probs=75.2

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEecCCCCCCcccC--H
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNKNDQTSKKAVD--Y   96 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~Dl~~~~~v~--~   96 (168)
                      ..+.||||||+++|.......+.++|++++|+|+++... ....+.+..+...   +.| ++||+||+|+.+...+.  .
T Consensus        51 ~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda~eg~~-~qT~ehl~il~~l---gi~~iIVVlNKiDlv~~~~~~~v~  126 (614)
T PRK10512         51 RVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVM-AQTREHLAILQLT---GNPMLTVALTKADRVDEARIAEVR  126 (614)
T ss_pred             cEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCeEEEEEECCccCCHHHHHHHH
Confidence            458999999999987666667889999999999987311 1122222223222   345 58999999986532222  1


Q ss_pred             HHHHHHHHhcC---CCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          97 QVAKEYADHLK---IPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        97 ~~~~~~~~~~~---~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++...+....+   .+++++||.+|.|++++++.+....
T Consensus       127 ~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L~~~L~~~~  165 (614)
T PRK10512        127 RQVKAVLREYGFAEAKLFVTAATEGRGIDALREHLLQLP  165 (614)
T ss_pred             HHHHHHHHhcCCCCCcEEEEeCCCCCCCHHHHHHHHHhh
Confidence            23334444333   6899999999999999999987654

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.40  E-value=5.7e-12  Score=89.82  Aligned_cols=110  Identities=15%  Similarity=0.207  Sum_probs=72.4

Q ss_pred             EEEEEEeCCCc----------hhhcccchhhhcCC---cEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          20 TLIVIWDTAGQ----------ERFRTITSSYYRGA---HGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        20 ~~l~l~Dt~G~----------~~~~~~~~~~~~~~---d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      ..+.||||||.          +++..+...+++.+   +++++++|.+++.+.... .+...+..   .+.|+++++||+
T Consensus        70 ~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~~---~~~~~iiv~nK~  145 (196)
T PRK00454         70 DKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLKE---YGIPVLIVLTKA  145 (196)
T ss_pred             CeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEEecCCCCCHHHH-HHHHHHHH---cCCcEEEEEECc
Confidence            67999999994          34444555566544   678888998875433221 11222222   268999999999


Q ss_pred             CCCCCcccC--HHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          87 DQTSKKAVD--YQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        87 Dl~~~~~v~--~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      |+.+.....  ...+..+......+++++||+++.|++++++.+...+.
T Consensus       146 Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  194 (196)
T PRK00454        146 DKLKKGERKKQLKKVRKALKFGDDEVILFSSLKKQGIDELRAAIAKWLA  194 (196)
T ss_pred             ccCCHHHHHHHHHHHHHHHHhcCCceEEEEcCCCCCHHHHHHHHHHHhc
Confidence            986532211  12233333333678999999999999999999987654

>PRK00089 era GTPase Era; Reviewed

Probab=99.40  E-value=5.2e-12  Score=95.71  Aligned_cols=112  Identities=20%  Similarity=0.199  Sum_probs=75.8

Q ss_pred             eEEEEEEEeCCCchhhc--------ccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          18 TRTLIVIWDTAGQERFR--------TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~--------~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...++.||||||.....        ......+.++|++++|+|+++..+. ....++..+.   ..+.|+++|+||+|+.
T Consensus        51 ~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~-~~~~i~~~l~---~~~~pvilVlNKiDl~  126 (292)
T PRK00089         51 DDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGP-GDEFILEKLK---KVKTPVILVLNKIDLV  126 (292)
T ss_pred             CCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCCh-hHHHHHHHHh---hcCCCEEEEEECCcCC
Confidence            44789999999975422        2233467889999999999983211 1122223332   2268999999999997


Q ss_pred             CCcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ............+.+..+ .+++++||+++.|++++++++...+.
T Consensus       127 ~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~~L~~~L~~~l~  171 (292)
T PRK00089        127 KDKEELLPLLEELSELMDFAEIVPISALKGDNVDELLDVIAKYLP  171 (292)
T ss_pred             CCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCHHHHHHHHHHhCC
Confidence            432222233344444444 67999999999999999999988764

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.39  E-value=4.8e-12  Score=106.24  Aligned_cols=107  Identities=21%  Similarity=0.135  Sum_probs=73.1

Q ss_pred             EEEEEEEeCCCchh--------hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          19 RTLIVIWDTAGQER--------FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~--------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      +..+.+|||||.+.        +......+++.+|++|+|+|+++.-...+ ..|...+..   .+.|+++|+||+|+..
T Consensus       322 ~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~~~~~~d-~~i~~~Lr~---~~~pvIlV~NK~D~~~  397 (712)
T PRK09518        322 GTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVVDGQVGLTSTD-ERIVRMLRR---AGKPVVLAVNKIDDQA  397 (712)
T ss_pred             CEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHh---cCCCEEEEEECccccc
Confidence            45789999999763        23334557889999999999986422111 134444433   3789999999999854


Q ss_pred             CcccCHHHHHHH-HHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKEY-ADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        91 ~~~v~~~~~~~~-~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ...    ....+ ...++ ..+++||.+|.|+.++|+++...+..
T Consensus       398 ~~~----~~~~~~~lg~~-~~~~iSA~~g~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        398 SEY----DAAEFWKLGLG-EPYPISAMHGRGVGDLLDEALDSLKV  437 (712)
T ss_pred             chh----hHHHHHHcCCC-CeEEEECCCCCCchHHHHHHHHhccc
Confidence            211    11222 22222 46799999999999999999988754

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.36  E-value=9.7e-12  Score=102.00  Aligned_cols=104  Identities=19%  Similarity=0.265  Sum_probs=73.5

Q ss_pred             EEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc----c
Q psy2646          22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD---QETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA----V   94 (168)
Q Consensus        22 l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~----v   94 (168)
                      +.||||||++.|..++...++.+|++++|||+++   ++++..+..    +..   .+.|+++++||+|+.....    .
T Consensus        73 i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~----~~~---~~vpiIvviNK~D~~~~~~~~~~~  145 (586)
T PRK04004         73 LLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINI----LKR---RKTPFVVAANKIDRIPGWKSTEDA  145 (586)
T ss_pred             EEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHH----HHH---cCCCEEEEEECcCCchhhhhhcCc
Confidence            6899999999999888888999999999999997   455554432    222   3689999999999852100    0


Q ss_pred             CH--------H-----------HHHHHHHh-------------c--CCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          95 DY--------Q-----------VAKEYADH-------------L--KIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        95 ~~--------~-----------~~~~~~~~-------------~--~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ..        .           +.......             +  .++++++||.+|.|+.++++.+...+
T Consensus       146 ~~~e~~~~~~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        146 PFLESIEKQSQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             hHHHHHhhhhHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence            00        0           00001111             1  26799999999999999998886544

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.36  E-value=4.4e-12  Score=91.32  Aligned_cols=74  Identities=18%  Similarity=0.289  Sum_probs=60.7

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCC-cEEEEEEeCCCh-hhHHHHHHHHHHHHHh---cCCCCcEEEEEecCCCCC
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGA-HGIIVVYDCTDQ-ETFNNLKQWLEEIDRY---ACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~-d~~i~v~d~~~~-~s~~~~~~~~~~i~~~---~~~~~piivv~nK~Dl~~   90 (168)
                      +....+.+||+||+.+++..+..+++.+ +++|||+|+++. .++..+..|+..+...   ...+.|+++++||+|+..
T Consensus        45 ~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~  123 (203)
T cd04105          45 GKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFT  123 (203)
T ss_pred             CCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcc
Confidence            3457799999999999998888899998 999999999987 6777777776665322   135799999999999864

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

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.35  E-value=1.5e-11  Score=90.55  Aligned_cols=79  Identities=15%  Similarity=0.131  Sum_probs=61.5

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......++.++.++.+|||||+.+|...+..+++.+|++++|+|+++.... ....++..+...   +.|+++++||+
T Consensus        51 ti~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~~---~~P~iivvNK~  126 (237)
T cd04168          51 TIFSAVASFQWEDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQA-QTRILWRLLRKL---NIPTIIFVNKI  126 (237)
T ss_pred             ceeeeeEEEEECCEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHHc---CCCEEEEEECc
Confidence            34455666677778999999999999888888899999999999999876433 334444544433   68999999999


Q ss_pred             CCC
Q psy2646          87 DQT   89 (168)
Q Consensus        87 Dl~   89 (168)
                      |+.
T Consensus       127 D~~  129 (237)
T cd04168         127 DRA  129 (237)
T ss_pred             ccc
Confidence            975

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.35  E-value=8.7e-12  Score=87.95  Aligned_cols=98  Identities=15%  Similarity=0.204  Sum_probs=63.2

Q ss_pred             EEEEEeCCCch----------hhcccchhhhcC---CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646          21 LIVIWDTAGQE----------RFRTITSSYYRG---AHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus        21 ~l~l~Dt~G~~----------~~~~~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      .+.+|||||..          .+..+...|++.   ++++++|+|++++-+..+. .++..+..   .+.|+++++||+|
T Consensus        65 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D  140 (179)
T TIGR03598        65 GFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKAD  140 (179)
T ss_pred             cEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcc
Confidence            58999999942          333344455554   5799999999875443333 22333332   2689999999999


Q ss_pred             CCCCccc--CHHHHHHHHHhcC--CCEEEEeccCCCCHH
Q psy2646          88 QTSKKAV--DYQVAKEYADHLK--IPFLETSAKNGANVE  122 (168)
Q Consensus        88 l~~~~~v--~~~~~~~~~~~~~--~~~~~vSa~~~~~i~  122 (168)
                      +......  ..+++.......+  .+++++||++|+|++
T Consensus       141 ~~~~~~~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       141 KLKKSELNKQLKKIKKALKKDADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             cCCHHHHHHHHHHHHHHHhhccCCCceEEEECCCCCCCC
Confidence            8643221  1233334444433  589999999999973

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.32  E-value=1.8e-11  Score=89.13  Aligned_cols=69  Identities=25%  Similarity=0.307  Sum_probs=54.3

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ++.+.+.||||||++.|......+++.+|++++|||+.+....... ..+.....   .+.|+++++||+|+.
T Consensus        70 ~~~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~-~~l~~~~~---~~~p~ilviNKiD~~  138 (222)
T cd01885          70 GNEYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTE-TVLRQALK---ERVKPVLVINKIDRL  138 (222)
T ss_pred             CCceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHHH-HHHHHHHH---cCCCEEEEEECCCcc
Confidence            4478999999999999988888899999999999999986554432 22222222   257999999999975

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

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.31  E-value=4.7e-11  Score=85.44  Aligned_cols=111  Identities=15%  Similarity=0.118  Sum_probs=73.6

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEecC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNKN   86 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~   86 (168)
                      +......++.++.++.|.||||+..|.......+..+|++++|+|++.... ......+..+...   +.| +|+++||+
T Consensus        53 i~~~~~~~~~~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g~~-~~~~~~~~~~~~~---~~~~iIvviNK~  128 (195)
T cd01884          53 INTAHVEYETANRHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPM-PQTREHLLLARQV---GVPYIVVFLNKA  128 (195)
T ss_pred             EEeeeeEecCCCeEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCcEEEEEeCC
Confidence            334445556667789999999998876666667889999999999986422 1222333334333   466 78999999


Q ss_pred             CCCCCcccC---HHHHHHHHHhc-----CCCEEEEeccCCCCHH
Q psy2646          87 DQTSKKAVD---YQVAKEYADHL-----KIPFLETSAKNGANVE  122 (168)
Q Consensus        87 Dl~~~~~v~---~~~~~~~~~~~-----~~~~~~vSa~~~~~i~  122 (168)
                      |+.......   ..++..+....     +++++++||.+|.|+.
T Consensus       129 D~~~~~~~~~~~~~~i~~~l~~~g~~~~~v~iipiSa~~g~n~~  172 (195)
T cd01884         129 DMVDDEELLELVEMEVRELLSKYGFDGDNTPIVRGSALKALEGD  172 (195)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHHhcccccCCeEEEeeCccccCCC
Confidence            986422211   12333444333     3689999999999853

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.

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.31  E-value=5.1e-11  Score=87.55  Aligned_cols=114  Identities=23%  Similarity=0.135  Sum_probs=75.6

Q ss_pred             eeeeCCeEEEEEEEeCCCchhhc----c---cchhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHH--------------
Q psy2646          12 NKKEERTRTLIVIWDTAGQERFR----T---ITSSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEI--------------   69 (168)
Q Consensus        12 ~~~~~~~~~~l~l~Dt~G~~~~~----~---~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i--------------   69 (168)
                      ...+...+..+++|||||..+..    .   ....+++++|++++|+|++++. ....+.+.+...              
T Consensus        39 ~g~~~~~~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~il~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~  118 (233)
T cd01896          39 PGVLEYKGAKIQLLDLPGIIEGAADGKGRGRQVIAVARTADLILMVLDATKPEGHREILERELEGVGIRLNKRPPNITIK  118 (233)
T ss_pred             EEEEEECCeEEEEEECCCcccccccchhHHHHHHHhhccCCEEEEEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEE
Confidence            33333445789999999985432    1   2234788999999999998764 333333333211              


Q ss_pred             ---------------------------HHh----------------------c--CCCCcEEEEEecCCCCCCcccCHHH
Q psy2646          70 ---------------------------DRY----------------------A--CDNVNKLLVGNKNDQTSKKAVDYQV   98 (168)
Q Consensus        70 ---------------------------~~~----------------------~--~~~~piivv~nK~Dl~~~~~v~~~~   98 (168)
                                                 .++                      .  ..-.|+++|+||+|+..     .++
T Consensus       119 ~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl~~-----~~~  193 (233)
T cd01896         119 KKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIREDITVDDLIDVIEGNRVYIPCLYVYNKIDLIS-----IEE  193 (233)
T ss_pred             EEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEccCCCHHHHHHHHhCCceEeeEEEEEECccCCC-----HHH
Confidence                                       000                      0  12369999999999853     234


Q ss_pred             HHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          99 AKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        99 ~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ...++..  .+++++||.++.|++++|+.+.+.+
T Consensus       194 ~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         194 LDLLARQ--PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             HHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence            4445443  4689999999999999999998765

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.

>cd04167 Snu114p Snu114p subfamily

Probab=99.30  E-value=2.3e-11  Score=88.16  Aligned_cols=70  Identities=24%  Similarity=0.293  Sum_probs=54.7

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      +++.+.+.+|||||+.+|...+..++..+|++++|+|+++..++.. ..++.....   .+.|+++++||+|+.
T Consensus        67 ~~~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          67 KGKSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             CCCEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence            3567899999999999888778888999999999999987655432 333333322   258999999999975

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.

>PRK12736 elongation factor Tu; Reviewed

Probab=99.29  E-value=4.1e-11  Score=94.37  Aligned_cols=109  Identities=16%  Similarity=0.119  Sum_probs=70.5

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEec
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNK   85 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK   85 (168)
                      |+......++.+...+.|+||||+++|.......+..+|++++|+|++.... ......+..+...   +.| +|+++||
T Consensus        62 T~~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~g~~-~~t~~~~~~~~~~---g~~~~IvviNK  137 (394)
T PRK12736         62 TINTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPM-PQTREHILLARQV---GVPYLVVFLNK  137 (394)
T ss_pred             cEEEEeeEecCCCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCc-hhHHHHHHHHHHc---CCCEEEEEEEe
Confidence            3444445555566788999999998886655555678999999999986422 1222333333333   577 6789999


Q ss_pred             CCCCCCcccC---HHHHHHHHHhcC-----CCEEEEeccCCC
Q psy2646          86 NDQTSKKAVD---YQVAKEYADHLK-----IPFLETSAKNGA  119 (168)
Q Consensus        86 ~Dl~~~~~v~---~~~~~~~~~~~~-----~~~~~vSa~~~~  119 (168)
                      +|+.+.....   .++...+....+     ++++++||.+|.
T Consensus       138 ~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T PRK12736        138 VDLVDDEELLELVEMEVRELLSEYDFPGDDIPVIRGSALKAL  179 (394)
T ss_pred             cCCcchHHHHHHHHHHHHHHHHHhCCCcCCccEEEeeccccc
Confidence            9986432221   123344444443     589999999983

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.29  E-value=4.5e-11  Score=87.30  Aligned_cols=108  Identities=17%  Similarity=0.160  Sum_probs=70.9

Q ss_pred             eEEEEEEEeCCCchhhcccchhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~   95 (168)
                      ....+.|.||||+++|.......+  ..+|++++|+|++.... .....++..+...   +.|+++++||+|+.+...+.
T Consensus        82 ~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~-~~d~~~l~~l~~~---~ip~ivvvNK~D~~~~~~~~  157 (224)
T cd04165          82 SSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGII-GMTKEHLGLALAL---NIPVFVVVTKIDLAPANILQ  157 (224)
T ss_pred             CCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEECccccCHHHHH
Confidence            345789999999988855333334  36899999999986533 2223344444333   68999999999986432221


Q ss_pred             H--HHHHHHHH--------------------------hcCCCEEEEeccCCCCHHHHHHHHH
Q psy2646          96 Y--QVAKEYAD--------------------------HLKIPFLETSAKNGANVEQAFLTMA  129 (168)
Q Consensus        96 ~--~~~~~~~~--------------------------~~~~~~~~vSa~~~~~i~~i~~~l~  129 (168)
                      .  .+...+..                          ...+|++.+||.+|.|++++...|.
T Consensus       158 ~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~  219 (224)
T cd04165         158 ETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLN  219 (224)
T ss_pred             HHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHH
Confidence            1  11112211                          0124899999999999999887764

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

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.28  E-value=5.2e-11  Score=93.81  Aligned_cols=109  Identities=15%  Similarity=0.100  Sum_probs=71.6

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEec
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL-LVGNK   85 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii-vv~nK   85 (168)
                      |+......++.++.++.||||||+++|.......+..+|++++|+|++...... ....+..+...   +.|.+ +++||
T Consensus        62 Ti~~~~~~~~~~~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~q-t~e~l~~~~~~---gi~~iIvvvNK  137 (394)
T TIGR00485        62 TINTAHVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQ-TREHILLARQV---GVPYIVVFLNK  137 (394)
T ss_pred             ceeeEEEEEcCCCEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCCCCcHH-HHHHHHHHHHc---CCCEEEEEEEe
Confidence            444555666666778999999999988654445567789999999998742211 22233333333   56655 68999


Q ss_pred             CCCCCCcccC---HHHHHHHHHhcC-----CCEEEEeccCCC
Q psy2646          86 NDQTSKKAVD---YQVAKEYADHLK-----IPFLETSAKNGA  119 (168)
Q Consensus        86 ~Dl~~~~~v~---~~~~~~~~~~~~-----~~~~~vSa~~~~  119 (168)
                      +|+.+.....   ..+...+.+.++     ++++++||.++.
T Consensus       138 ~Dl~~~~~~~~~~~~~i~~~l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       138 CDMVDDEELLELVEMEVRELLSEYDFPGDDTPIIRGSALKAL  179 (394)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHhcCCCccCccEEECcccccc
Confidence            9986532221   123445555554     789999999885

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.

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

Probab=99.28  E-value=1.2e-10  Score=92.35  Aligned_cols=108  Identities=19%  Similarity=0.235  Sum_probs=79.5

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ---ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~   95 (168)
                      .-.+.|.||||++.|..|+..-..=+|.+|||+++++.   ++.+.+.+    .+   ..++|++|++||+|.++...  
T Consensus        54 ~~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDGv~pQTiEAI~h----ak---~a~vP~iVAiNKiDk~~~np--  124 (509)
T COG0532          54 IPGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAINH----AK---AAGVPIVVAINKIDKPEANP--  124 (509)
T ss_pred             CceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCCcchhHHHHHHH----HH---HCCCCEEEEEecccCCCCCH--
Confidence            34688999999999999988888889999999999984   44443322    22   34899999999999874221  


Q ss_pred             HHHHHHH------HHhcC--CCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          96 YQVAKEY------ADHLK--IPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        96 ~~~~~~~------~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      .....++      .+.|+  ..++++||++|.|+.+++..+.-.....
T Consensus       125 ~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill~aev~  172 (509)
T COG0532         125 DKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELILLLAEVL  172 (509)
T ss_pred             HHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHHHHHHHHHHH
Confidence            1111111      22333  5799999999999999999888665544

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.27  E-value=4.9e-11  Score=95.18  Aligned_cols=113  Identities=20%  Similarity=0.201  Sum_probs=78.5

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHH-------HHHHHHHHHHHhcCCCC-c
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFN-------NLKQWLEEIDRYACDNV-N   78 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~-------~~~~~~~~i~~~~~~~~-p   78 (168)
                      |+......+..+...+.|.|+||+++|.......+..+|++|+|+|+++. .|+       .+...+......   ++ +
T Consensus        72 Ti~~~~~~~~~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~~~~~~---gi~~  147 (447)
T PLN00043         72 TIDIALWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHALLAFTL---GVKQ  147 (447)
T ss_pred             eEEEEEEEecCCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHHHHHHc---CCCc
Confidence            44555666677788999999999999988778889999999999999862 232       333322222222   55 5


Q ss_pred             EEEEEecCCCCCCc--c--c--CHHHHHHHHHhcC-----CCEEEEeccCCCCHHH
Q psy2646          79 KLLVGNKNDQTSKK--A--V--DYQVAKEYADHLK-----IPFLETSAKNGANVEQ  123 (168)
Q Consensus        79 iivv~nK~Dl~~~~--~--v--~~~~~~~~~~~~~-----~~~~~vSa~~~~~i~~  123 (168)
                      +|+++||+|+....  .  .  ..+++..+.+..+     ++++++||.+|.|+.+
T Consensus       148 iIV~vNKmD~~~~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        148 MICCCNKMDATTPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             EEEEEEcccCCchhhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            78899999976211  0  0  1234455555555     6799999999999854

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.27  E-value=7.4e-11  Score=101.40  Aligned_cols=104  Identities=18%  Similarity=0.281  Sum_probs=72.9

Q ss_pred             EEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC---
Q psy2646          22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD---QETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD---   95 (168)
Q Consensus        22 l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~---   95 (168)
                      +.||||||++.|..+....+..+|++++|+|+++   +++++.+.    .+...   +.|+++++||+|+.......   
T Consensus       528 i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I~----~lk~~---~iPiIVViNKiDL~~~~~~~~~~  600 (1049)
T PRK14845        528 LLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAIN----ILRQY---KTPFVVAANKIDLIPGWNISEDE  600 (1049)
T ss_pred             EEEEECCCcHHHHHHHHhhcccCCEEEEEEECcccCCHhHHHHHH----HHHHc---CCCEEEEEECCCCccccccccch
Confidence            8999999999998887778889999999999986   34444332    22222   68999999999985321110   


Q ss_pred             -------------HHHHH----H----HH------------Hhc--CCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          96 -------------YQVAK----E----YA------------DHL--KIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        96 -------------~~~~~----~----~~------------~~~--~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                                   ..+..    .    +.            +.+  .++++++||++|.|+++++.++....
T Consensus       601 ~~~~~~~~q~~~~~~el~~~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~  672 (1049)
T PRK14845        601 PFLLNFNEQDQHALTELEIKLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLA  672 (1049)
T ss_pred             hhhhhhhhhHHHHHHHHHHHHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhh
Confidence                         00110    0    11            111  26899999999999999998876543

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

Probab=99.27  E-value=8.4e-11  Score=92.11  Aligned_cols=112  Identities=21%  Similarity=0.282  Sum_probs=86.4

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~   95 (168)
                      +|+.+.|.+.||||+=.|.--....+..|.|.++++|++..-.-+.+.+.+..+.    .+..++-|.||+||+....  
T Consensus        72 ~g~~Y~lnlIDTPGHVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle----~~LeIiPViNKIDLP~Adp--  145 (603)
T COG0481          72 DGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE----NNLEIIPVLNKIDLPAADP--  145 (603)
T ss_pred             CCCEEEEEEcCCCCccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHH----cCcEEEEeeecccCCCCCH--
Confidence            5788999999999998887666677889999999999998755566666666553    3578999999999986432  


Q ss_pred             HHHHHHHHHhcCC---CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          96 YQVAKEYADHLKI---PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        96 ~~~~~~~~~~~~~---~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ..-..++..-.|+   ..+.+||++|.|++++++++++.+.
T Consensus       146 ervk~eIe~~iGid~~dav~~SAKtG~gI~~iLe~Iv~~iP  186 (603)
T COG0481         146 ERVKQEIEDIIGIDASDAVLVSAKTGIGIEDVLEAIVEKIP  186 (603)
T ss_pred             HHHHHHHHHHhCCCcchheeEecccCCCHHHHHHHHHhhCC
Confidence            1222334444554   5789999999999999999887653

>KOG0077|consensus

Probab=99.25  E-value=1.3e-11  Score=84.01  Aligned_cols=127  Identities=17%  Similarity=0.191  Sum_probs=100.3

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLL   81 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piiv   81 (168)
                      .++||.......+.-.++.++.+|.+|+..-+..|..|+..+|++++.||+-+.+.|.+...-++.+... .....|+++
T Consensus        47 qhvPTlHPTSE~l~Ig~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~li  126 (193)
T KOG0077|consen   47 QHVPTLHPTSEELSIGGMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLI  126 (193)
T ss_pred             ccCCCcCCChHHheecCceEEEEccccHHHHHHHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCccee
Confidence            4789999988888888899999999999988899999999999999999999999988887766665322 235799999


Q ss_pred             EEecCCCCCCcccCHHHHHH------HHHhc--------C---CCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          82 VGNKNDQTSKKAVDYQVAKE------YADHL--------K---IPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~~~~~~------~~~~~--------~---~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ++||+|.+..  .+.++..-      +....        +   +.++.||...+.+.-+.|.|+...
T Consensus       127 lgnKId~p~a--~se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfmcsi~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  127 LGNKIDIPYA--ASEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFMCSIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             ecccccCCCc--ccHHHHHHHHHHHHHhcccccccccCCCCCeEEEEEEEEEccCccceeeeehhhh
Confidence            9999998764  23333221      11111        1   368899999999988888888654

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.23  E-value=1.8e-10  Score=79.38  Aligned_cols=105  Identities=17%  Similarity=0.294  Sum_probs=68.4

Q ss_pred             EEEEEeCCCch----------hhcccchhhhc---CCcEEEEEEeCCChh--hHHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646          21 LIVIWDTAGQE----------RFRTITSSYYR---GAHGIIVVYDCTDQE--TFNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus        21 ~l~l~Dt~G~~----------~~~~~~~~~~~---~~d~~i~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      .+.+|||||..          .+...+..|+.   +.+++++++|.+...  ....+..|+..   .   +.|+++++||
T Consensus        46 ~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~---~---~~~vi~v~nK  119 (170)
T cd01876          46 KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRENLKGVVLLIDSRHGPTEIDLEMLDWLEE---L---GIPFLVVLTK  119 (170)
T ss_pred             eEEEecCCCccccccCHHHHHHHHHHHHHHHHhChhhhEEEEEEEcCcCCCHhHHHHHHHHHH---c---CCCEEEEEEc
Confidence            78999999942          34444455554   457889999998652  22223333332   2   5899999999


Q ss_pred             CCCCCCcccC--HHHHHHHHH--hcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          86 NDQTSKKAVD--YQVAKEYAD--HLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        86 ~Dl~~~~~v~--~~~~~~~~~--~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +|+.......  ........+  ....+++++||+++.|+.++++++.+.
T Consensus       120 ~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         120 ADKLKKSELAKALKEIKKELKLFEIDPPIILFSSLKGQGIDELRALIEKW  169 (170)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhccCCCceEEEecCCCCCHHHHHHHHHHh
Confidence            9985432211  112222222  234689999999999999999999865

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.

>KOG0082|consensus

Probab=99.22  E-value=8.3e-11  Score=89.95  Aligned_cols=137  Identities=19%  Similarity=0.190  Sum_probs=103.7

Q ss_pred             CcccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHH
Q psy2646           1 MRLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ----------ETFNNLKQWLEEID   70 (168)
Q Consensus         1 ~~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i~   70 (168)
                      +|+.+||.|+..+.+..++..+.++|+|||..-+.-|-+++.+++++|||+++++-          +.+.+...++..+.
T Consensus       176 L~~R~~T~GI~e~~F~~k~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~  255 (354)
T KOG0082|consen  176 LRSRVPTTGIVEVEFTIKGLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESIC  255 (354)
T ss_pred             HhhccCcCCeeEEEEEeCCCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHh
Confidence            36789999999999999999999999999998888999999999999999999863          23344455666665


Q ss_pred             Hhc-CCCCcEEEEEecCCCCCCcc---------------cCHHHHHHHHH-----h-----cCCCEEEEeccCCCCHHHH
Q psy2646          71 RYA-CDNVNKLLVGNKNDQTSKKA---------------VDYQVAKEYAD-----H-----LKIPFLETSAKNGANVEQA  124 (168)
Q Consensus        71 ~~~-~~~~piivv~nK~Dl~~~~~---------------v~~~~~~~~~~-----~-----~~~~~~~vSa~~~~~i~~i  124 (168)
                      .+. -.+.++|++.||.||..++.               -+.+++..+..     .     ..+-+..++|.+..+|+.+
T Consensus       256 n~~~F~~tsiiLFLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~v  335 (354)
T KOG0082|consen  256 NNKWFANTSIILFLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFV  335 (354)
T ss_pred             cCcccccCcEEEEeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHH
Confidence            443 34799999999999843221               12233333321     1     1245677799999999999


Q ss_pred             HHHHHHHHHHHhc
Q psy2646         125 FLTMATEIKKRVT  137 (168)
Q Consensus       125 ~~~l~~~~~~~~~  137 (168)
                      |+++.+.+....-
T Consensus       336 f~av~d~Ii~~nl  348 (354)
T KOG0082|consen  336 FDAVTDTIIQNNL  348 (354)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999887643

>PRK12735 elongation factor Tu; Reviewed

Probab=99.22  E-value=1.5e-10  Score=91.31  Aligned_cols=108  Identities=14%  Similarity=0.123  Sum_probs=69.4

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEecCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL-LVGNKND   87 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii-vv~nK~D   87 (168)
                      ......+..+..++.|+||||+++|.......+..+|++++|+|+.+... .....++..+...   +.|.+ +++||+|
T Consensus        64 ~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g~~-~qt~e~l~~~~~~---gi~~iivvvNK~D  139 (396)
T PRK12735         64 NTSHVEYETANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQV---GVPYIVVFLNKCD  139 (396)
T ss_pred             EEeeeEEcCCCcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCc-hhHHHHHHHHHHc---CCCeEEEEEEecC
Confidence            33444455556688999999998876655566778999999999987422 2222333333322   57755 6799999


Q ss_pred             CCCCcccC---HHHHHHHHHhcC-----CCEEEEeccCCCC
Q psy2646          88 QTSKKAVD---YQVAKEYADHLK-----IPFLETSAKNGAN  120 (168)
Q Consensus        88 l~~~~~v~---~~~~~~~~~~~~-----~~~~~vSa~~~~~  120 (168)
                      +.+.....   ..++..+...++     ++++++||.++.|
T Consensus       140 l~~~~~~~~~~~~ei~~~l~~~~~~~~~~~ii~~Sa~~g~n  180 (396)
T PRK12735        140 MVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALE  180 (396)
T ss_pred             CcchHHHHHHHHHHHHHHHHHcCCCcCceeEEecchhcccc
Confidence            86432211   123444444432     6899999999853

>PRK09866 hypothetical protein; Provisional

Probab=99.21  E-value=3.2e-10  Score=92.39  Aligned_cols=124  Identities=16%  Similarity=0.152  Sum_probs=82.5

Q ss_pred             ccccceeeeeeCC---eEEEEEEEeCCCchhh-----cccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCC
Q psy2646           5 LPYQTLQNKKEER---TRTLIVIWDTAGQERF-----RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN   76 (168)
Q Consensus         5 ~~t~~~~~~~~~~---~~~~l~l~Dt~G~~~~-----~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~   76 (168)
                      +|-+.+.+.++.+   ...++.|.||||....     .......+..+|+++||+|.+...+..+ ..++..+... ...
T Consensus       212 ~p~iev~f~hl~g~l~~~~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~-~K~  289 (741)
T PRK09866        212 IPVIEVEFVHLAGLESYPGQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAV-GQS  289 (741)
T ss_pred             CceeeeeeeeccccccccCCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhc-CCC
Confidence            4667777777754   2357899999998542     2233457899999999999987533333 2233444333 223


Q ss_pred             CcEEEEEecCCCCCCcccCHHHHHHHHHh----cC---CCEEEEeccCCCCHHHHHHHHHH
Q psy2646          77 VNKLLVGNKNDQTSKKAVDYQVAKEYADH----LK---IPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        77 ~piivv~nK~Dl~~~~~v~~~~~~~~~~~----~~---~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      .|+++|+||+|+.....-..+....+...    .+   ..+|++||+.|.|++++++.+..
T Consensus       290 ~PVILVVNKIDl~dreeddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        290 VPLYVLVNKFDQQDRNSDDADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             CCEEEEEEcccCCCcccchHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            59999999999854322223344444321    12   36999999999999999998875

>cd04169 RF3 RF3 subfamily

Probab=99.21  E-value=2.7e-10  Score=85.26  Aligned_cols=81  Identities=19%  Similarity=0.160  Sum_probs=60.6

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      ++......++.+++.+.+|||||+.+|......+++.+|++|+|+|+++.... ....++.....   .+.|+++++||+
T Consensus        58 si~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~~---~~~P~iivvNK~  133 (267)
T cd04169          58 SVTSSVMQFEYRDCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEP-QTRKLFEVCRL---RGIPIITFINKL  133 (267)
T ss_pred             CeEEEEEEEeeCCEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCccH-HHHHHHHHHHh---cCCCEEEEEECC
Confidence            44556667788889999999999998877667788999999999999875322 22333333322   368999999999


Q ss_pred             CCCCC
Q psy2646          87 DQTSK   91 (168)
Q Consensus        87 Dl~~~   91 (168)
                      |+...
T Consensus       134 D~~~a  138 (267)
T cd04169         134 DREGR  138 (267)
T ss_pred             ccCCC
Confidence            98653

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.20  E-value=1.5e-10  Score=91.55  Aligned_cols=114  Identities=16%  Similarity=0.139  Sum_probs=73.1

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......+..++.++.||||||+++|.......+..+|++++|+|+.....-..... +..+...  ...++++++||+
T Consensus        67 Tid~~~~~~~~~~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~-~~~~~~~--~~~~iivviNK~  143 (406)
T TIGR02034        67 TIDVAYRYFSTDKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRH-SYIASLL--GIRHVVLAVNKM  143 (406)
T ss_pred             CeEeeeEEEccCCeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHH-HHHHHHc--CCCcEEEEEEec
Confidence            3445555565666789999999999886655567889999999999986422111111 2222222  124689999999


Q ss_pred             CCCCCcccCH----HHHHHHHHhcC---CCEEEEeccCCCCHHH
Q psy2646          87 DQTSKKAVDY----QVAKEYADHLK---IPFLETSAKNGANVEQ  123 (168)
Q Consensus        87 Dl~~~~~v~~----~~~~~~~~~~~---~~~~~vSa~~~~~i~~  123 (168)
                      |+.....-..    ++...+.+..+   ++++++||.+|.|+.+
T Consensus       144 D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       144 DLVDYDEEVFENIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             ccccchHHHHHHHHHHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence            9864221111    12222333333   5799999999999875

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).

>COG1159 Era GTPase [General function prediction only]

Probab=99.19  E-value=2.6e-10  Score=84.79  Aligned_cols=118  Identities=19%  Similarity=0.182  Sum_probs=78.3

Q ss_pred             eeeCCeEEEEEEEeCCCchhhcc--------cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646          13 KKEERTRTLIVIWDTAGQERFRT--------ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus        13 ~~~~~~~~~l~l~Dt~G~~~~~~--------~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      .-+..++.++.|.||||..+-..        .....+..+|+++||+|++..-.- .....++.+..   .+.|+++++|
T Consensus        47 GI~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~-~d~~il~~lk~---~~~pvil~iN  122 (298)
T COG1159          47 GIVTTDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEGWGP-GDEFILEQLKK---TKTPVILVVN  122 (298)
T ss_pred             EEEEcCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEeccccCCc-cHHHHHHHHhh---cCCCeEEEEE
Confidence            33445578999999999764322        224457889999999999974221 22233444433   3689999999


Q ss_pred             cCCCCCCcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          85 KNDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        85 K~Dl~~~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      |+|....+..-......+...+. ..++++||++|.|++.+.+.+...+.+
T Consensus       123 KID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~~L~~~i~~~Lpe  173 (298)
T COG1159         123 KIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDNVDTLLEIIKEYLPE  173 (298)
T ss_pred             ccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCCHHHHHHHHHHhCCC
Confidence            99987655421122222222222 489999999999999888887766543

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.19  E-value=3.4e-10  Score=91.97  Aligned_cols=79  Identities=19%  Similarity=0.137  Sum_probs=59.0

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......++.+++.+.+|||||+.+|......+++.+|++|+|+|+++.... ....++.....   .+.|+++++||+
T Consensus        66 Si~~~~~~~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~~---~~iPiiv~iNK~  141 (526)
T PRK00741         66 SVTSSVMQFPYRDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVCRL---RDTPIFTFINKL  141 (526)
T ss_pred             ceeeeeEEEEECCEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHHHh---cCCCEEEEEECC
Confidence            34455566777788999999999998887667789999999999999875321 23334433332   378999999999


Q ss_pred             CCC
Q psy2646          87 DQT   89 (168)
Q Consensus        87 Dl~   89 (168)
                      |+.
T Consensus       142 D~~  144 (526)
T PRK00741        142 DRD  144 (526)
T ss_pred             ccc
Confidence            974

>KOG1489|consensus

Probab=99.19  E-value=3.5e-10  Score=84.69  Aligned_cols=122  Identities=20%  Similarity=0.271  Sum_probs=85.2

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcc----cchh---hhcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHh
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRT----ITSS---YYRGAHGIIVVYDCTDQ---ETFNNLKQWLEEIDRY   72 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~----~~~~---~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~   72 (168)
                      |+.|+++  ++.+++. .++.+-|+||.-+-.+    +.-.   .+..++.++||+|++..   +.++.+..+..++..+
T Consensus       230 TL~P~iG--~v~yddf-~q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~y  306 (366)
T KOG1489|consen  230 TLRPHIG--TVNYDDF-SQITVADIPGIIEGAHMNKGLGYKFLRHIERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELY  306 (366)
T ss_pred             eeccccc--eeecccc-ceeEeccCccccccccccCcccHHHHHHHHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHH
Confidence            4566666  2333322 3499999999754322    2222   35689999999999988   7788777777776444


Q ss_pred             c--CCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHH
Q psy2646          73 A--CDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        73 ~--~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      .  ..+.|.++|+||+|+++...   ..+.++++.+. -.++++||++++|+.+++..|.+
T Consensus       307 ek~L~~rp~liVaNKiD~~eae~---~~l~~L~~~lq~~~V~pvsA~~~egl~~ll~~lr~  364 (366)
T KOG1489|consen  307 EKGLADRPALIVANKIDLPEAEK---NLLSSLAKRLQNPHVVPVSAKSGEGLEELLNGLRE  364 (366)
T ss_pred             hhhhccCceEEEEeccCchhHHH---HHHHHHHHHcCCCcEEEeeeccccchHHHHHHHhh
Confidence            3  45789999999999863211   22345666554 34999999999999999887754

>PRK13351 elongation factor G; Reviewed

Probab=99.18  E-value=3.1e-10  Score=95.27  Aligned_cols=83  Identities=22%  Similarity=0.264  Sum_probs=65.2

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG   83 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~   83 (168)
                      ..+|+......+...+..+.||||||+.+|...+..+++.+|++++|+|+++.........| ..+...   +.|+++++
T Consensus        57 r~~ti~~~~~~~~~~~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~~---~~p~iivi  132 (687)
T PRK13351         57 RGITIESAATSCDWDNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADRY---GIPRLIFI  132 (687)
T ss_pred             cCCCcccceEEEEECCEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHhc---CCCEEEEE
Confidence            34566666677777788999999999999888888999999999999999987665544333 333332   68999999


Q ss_pred             ecCCCCC
Q psy2646          84 NKNDQTS   90 (168)
Q Consensus        84 nK~Dl~~   90 (168)
                      ||+|+..
T Consensus       133 NK~D~~~  139 (687)
T PRK13351        133 NKMDRVG  139 (687)
T ss_pred             ECCCCCC
Confidence            9999753

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.17  E-value=2e-10  Score=92.30  Aligned_cols=115  Identities=17%  Similarity=0.119  Sum_probs=72.4

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......+..+..++.||||||+++|.......+..+|++++|+|++....-..... +..+... . ..|+++++||+
T Consensus        94 Tid~~~~~~~~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~-~~l~~~l-g-~~~iIvvvNKi  170 (474)
T PRK05124         94 TIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRH-SFIATLL-G-IKHLVVAVNKM  170 (474)
T ss_pred             CeEeeEEEeccCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHH-HHHHHHh-C-CCceEEEEEee
Confidence            3444455566667789999999998886544555789999999999986421111111 1112222 1 24789999999


Q ss_pred             CCCCCcccCHH----HHHHHHHhc----CCCEEEEeccCCCCHHHH
Q psy2646          87 DQTSKKAVDYQ----VAKEYADHL----KIPFLETSAKNGANVEQA  124 (168)
Q Consensus        87 Dl~~~~~v~~~----~~~~~~~~~----~~~~~~vSa~~~~~i~~i  124 (168)
                      |+.+...-...    +...+....    ..+++++||++|.|+.+.
T Consensus       171 D~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        171 DLVDYSEEVFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             ccccchhHHHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            98642221111    122223332    368999999999998764

>cd01859 MJ1464 MJ1464

Probab=99.16  E-value=1.5e-10  Score=79.86  Aligned_cols=95  Identities=19%  Similarity=0.168  Sum_probs=65.3

Q ss_pred             hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEE
Q psy2646          33 FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLE  112 (168)
Q Consensus        33 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~  112 (168)
                      |+.+++..++++|++++|+|++++....+ ..+...+.   ..+.|+++++||+|+......  .....+....+.++++
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~---~~~~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~   75 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVL---ELGKKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVVY   75 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHH---hCCCcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEEE
Confidence            34566778889999999999987643222 12222222   226899999999998543221  1111233445678999


Q ss_pred             EeccCCCCHHHHHHHHHHHHH
Q psy2646         113 TSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus       113 vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +||+++.|++++++.+...+.
T Consensus        76 iSa~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          76 VSAKERLGTKILRRTIKELAK   96 (156)
T ss_pred             EEccccccHHHHHHHHHHHHh
Confidence            999999999999999987765

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.

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

Probab=99.14  E-value=3.7e-10  Score=88.39  Aligned_cols=124  Identities=19%  Similarity=0.263  Sum_probs=90.8

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+-.|...+..+++.+.|.||||+..|..-.+..++..|++++++|+.+. .+-..++.+......   +.+.|||+||+
T Consensus        55 TILaKnTav~~~~~~INIvDTPGHADFGGEVERvl~MVDgvlLlVDA~EG-pMPQTrFVlkKAl~~---gL~PIVVvNKi  130 (603)
T COG1217          55 TILAKNTAVNYNGTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEG-PMPQTRFVLKKALAL---GLKPIVVINKI  130 (603)
T ss_pred             EEEeccceeecCCeEEEEecCCCcCCccchhhhhhhhcceEEEEEEcccC-CCCchhhhHHHHHHc---CCCcEEEEeCC
Confidence            66788888999999999999999999998889999999999999999864 233445555554443   56779999999


Q ss_pred             CCCCCcccC-HHHHHHHH-------HhcCCCEEEEeccCCC----------CHHHHHHHHHHHHHH
Q psy2646          87 DQTSKKAVD-YQVAKEYA-------DHLKIPFLETSAKNGA----------NVEQAFLTMATEIKK  134 (168)
Q Consensus        87 Dl~~~~~v~-~~~~~~~~-------~~~~~~~~~vSa~~~~----------~i~~i~~~l~~~~~~  134 (168)
                      |.+..+.-. ..+...+.       .++++|+++.|+..|.          ++.-+|+.+++++..
T Consensus       131 Drp~Arp~~Vvd~vfDLf~~L~A~deQLdFPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~  196 (603)
T COG1217         131 DRPDARPDEVVDEVFDLFVELGATDEQLDFPIVYASARNGTASLDPEDEADDMAPLFETILDHVPA  196 (603)
T ss_pred             CCCCCCHHHHHHHHHHHHHHhCCChhhCCCcEEEeeccCceeccCccccccchhHHHHHHHHhCCC
Confidence            987643211 12222322       2356899999999883          466677777766543

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.14  E-value=3.5e-10  Score=90.32  Aligned_cols=111  Identities=12%  Similarity=0.173  Sum_probs=73.3

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--HH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--YQ   97 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--~~   97 (168)
                      ..+.|.|+||++.|.......+..+|++++|+|++.........+.+..+...  .-.+++++.||+|+.....+.  .+
T Consensus       117 ~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~l--gi~~iIVvlNKiDlv~~~~~~~~~~  194 (460)
T PTZ00327        117 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIM--KLKHIIILQNKIDLVKEAQAQDQYE  194 (460)
T ss_pred             ceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHc--CCCcEEEEEecccccCHHHHHHHHH
Confidence            36899999999988765556678999999999998631111122222222222  124689999999986532221  12


Q ss_pred             HHHHHHHh---cCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          98 VAKEYADH---LKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        98 ~~~~~~~~---~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +...+...   .+.+++++||.+|.|++.+++.|...+
T Consensus       195 ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~l  232 (460)
T PTZ00327        195 EIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQI  232 (460)
T ss_pred             HHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence            22233222   257999999999999998888887543

>cd01855 YqeH YqeH

Probab=99.12  E-value=5.4e-10  Score=79.58  Aligned_cols=94  Identities=23%  Similarity=0.207  Sum_probs=65.4

Q ss_pred             hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHH-----HhcC
Q psy2646          33 FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYA-----DHLK  107 (168)
Q Consensus        33 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~-----~~~~  107 (168)
                      +..++..+++++|++++|+|++++..-     |...+... ..+.|+++|+||+|+.... ........+.     +..+
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~~-----~~~~l~~~-~~~~~~ilV~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~   96 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPGS-----LIPRLRLF-GGNNPVILVGNKIDLLPKD-KNLVRIKNWLRAKAAAGLG   96 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCCc-----cchhHHHh-cCCCcEEEEEEchhcCCCC-CCHHHHHHHHHHHHHhhcC
Confidence            466778899999999999999875421     11222111 2368999999999986532 2223333333     2233


Q ss_pred             C---CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646         108 I---PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus       108 ~---~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .   +++++||+++.|++++++++...+.
T Consensus        97 ~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          97 LKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            2   6899999999999999999988764

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.12  E-value=6.6e-10  Score=86.92  Aligned_cols=113  Identities=17%  Similarity=0.075  Sum_probs=75.3

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhc--c-------cchhhhcCCcEEEEEEeCCChhh--HHHHHHHHHHHHHhcCCCCc
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFR--T-------ITSSYYRGAHGIIVVYDCTDQET--FNNLKQWLEEIDRYACDNVN   78 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~--~-------~~~~~~~~~d~~i~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~p   78 (168)
                      .......-.+..+.+.||+|.+...  .       .....+..||++|||+|....-+  .+.+..|+.    .  .+.|
T Consensus        41 r~y~~~~~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia~~Lr----~--~~kp  114 (444)
T COG1160          41 RIYGDAEWLGREFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILR----R--SKKP  114 (444)
T ss_pred             CccceeEEcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH----h--cCCC
Confidence            3333333334469999999987432  1       12445778999999999987422  233333333    1  2689


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +++|+||+|-...     +....-...+|+ ..+.+||.+|.|+.+++++++..+.
T Consensus       115 viLvvNK~D~~~~-----e~~~~efyslG~g~~~~ISA~Hg~Gi~dLld~v~~~l~  165 (444)
T COG1160         115 VILVVNKIDNLKA-----EELAYEFYSLGFGEPVPISAEHGRGIGDLLDAVLELLP  165 (444)
T ss_pred             EEEEEEcccCchh-----hhhHHHHHhcCCCCceEeehhhccCHHHHHHHHHhhcC
Confidence            9999999996421     111122223453 7899999999999999999998873

>KOG1145|consensus

Probab=99.12  E-value=1.5e-09  Score=86.54  Aligned_cols=111  Identities=18%  Similarity=0.211  Sum_probs=81.6

Q ss_pred             eeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          12 NKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ---ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        12 ~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      .+.+. .+-.+.|.||||+..|..|+..-..-+|.+++|+.++|.   ++.+.       |......++|+||.+||+|.
T Consensus       194 ~V~~p-~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvVLVVAadDGVmpQT~Ea-------IkhAk~A~VpiVvAinKiDk  265 (683)
T KOG1145|consen  194 TVTLP-SGKSITFLDTPGHAAFSAMRARGANVTDIVVLVVAADDGVMPQTLEA-------IKHAKSANVPIVVAINKIDK  265 (683)
T ss_pred             EEecC-CCCEEEEecCCcHHHHHHHHhccCccccEEEEEEEccCCccHhHHHH-------HHHHHhcCCCEEEEEeccCC
Confidence            34444 336789999999999999999989999999999999885   33333       32222347999999999997


Q ss_pred             CCCcccCHHHH-HHH------HHhcC--CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVA-KEY------ADHLK--IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        89 ~~~~~v~~~~~-~~~------~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ++..   .+.. .++      .+.+|  ++++++||++|.|++.+-++++-.+.
T Consensus       266 p~a~---pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~nl~~L~eaill~Ae  316 (683)
T KOG1145|consen  266 PGAN---PEKVKRELLSQGIVVEDLGGDVQVIPISALTGENLDLLEEAILLLAE  316 (683)
T ss_pred             CCCC---HHHHHHHHHHcCccHHHcCCceeEEEeecccCCChHHHHHHHHHHHH
Confidence            7532   2222 222      23444  68999999999999999988875554

>PRK12289 GTPase RsgA; Reviewed

Probab=99.11  E-value=6e-10  Score=86.24  Aligned_cols=93  Identities=16%  Similarity=0.178  Sum_probs=68.3

Q ss_pred             cccchhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEE
Q psy2646          34 RTITSSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLE  112 (168)
Q Consensus        34 ~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~  112 (168)
                      +.+.+..++++|.+++|+|+.+++ +...+..|+..+..   .+.|+++|+||+||......  .........+++++++
T Consensus        80 ~~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv~~~~~--~~~~~~~~~~g~~v~~  154 (352)
T PRK12289         80 TELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLVSPTEQ--QQWQDRLQQWGYQPLF  154 (352)
T ss_pred             cceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcCChHHH--HHHHHHHHhcCCeEEE
Confidence            345566799999999999998765 44456677665532   36899999999999643221  1222333467889999


Q ss_pred             EeccCCCCHHHHHHHHHHH
Q psy2646         113 TSAKNGANVEQAFLTMATE  131 (168)
Q Consensus       113 vSa~~~~~i~~i~~~l~~~  131 (168)
                      +||.++.|++++++.+...
T Consensus       155 iSA~tg~GI~eL~~~L~~k  173 (352)
T PRK12289        155 ISVETGIGLEALLEQLRNK  173 (352)
T ss_pred             EEcCCCCCHHHHhhhhccc
Confidence            9999999999999988653

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.10  E-value=2.4e-09  Score=83.80  Aligned_cols=129  Identities=19%  Similarity=0.165  Sum_probs=86.0

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcc----------cc-hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRT----------IT-SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD   75 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~----------~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~   75 (168)
                      |+..-...++.+.-.+.+.||+|..+-..          .. ...+..++.+++|+|++.+-+-++. .....+.+.   
T Consensus       213 TRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~-~ia~~i~~~---  288 (444)
T COG1160         213 TRDSIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDL-RIAGLIEEA---  288 (444)
T ss_pred             cccceeeeEEECCeEEEEEECCCCCcccccccceEEEeehhhHhHHhhcCEEEEEEECCCCchHHHH-HHHHHHHHc---
Confidence            44455555555566788999999654221          11 2356789999999999987554443 233333333   


Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHH----HhcC-CCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYA----DHLK-IPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~----~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      +.++++++||+|+.+......++...-.    ...+ .+++++||.++.++.++|+++.........+-
T Consensus       289 g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~~~~~~~~ri  357 (444)
T COG1160         289 GRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKEIYECATRRI  357 (444)
T ss_pred             CCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEEEecCCCChHHHHHHHHHHHHHhcccc
Confidence            7899999999998765434444433221    2222 68999999999999999999887766544433

>PRK12740 elongation factor G; Reviewed

Probab=99.09  E-value=9.9e-10  Score=91.98  Aligned_cols=80  Identities=20%  Similarity=0.196  Sum_probs=61.5

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      .|+......+..+++.+.+|||||+.+|...+..++..+|++++++|++..........| ..+..   .+.|+++++||
T Consensus        46 iTi~~~~~~~~~~~~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~-~~~~~---~~~p~iiv~NK  121 (668)
T PRK12740         46 ISITSAATTCEWKGHKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVW-RQAEK---YGVPRIIFVNK  121 (668)
T ss_pred             CCeeeceEEEEECCEEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHH-HHHHH---cCCCEEEEEEC
Confidence            456666667777778999999999988877778889999999999999876554433322 33332   36899999999


Q ss_pred             CCCC
Q psy2646          86 NDQT   89 (168)
Q Consensus        86 ~Dl~   89 (168)
                      +|+.
T Consensus       122 ~D~~  125 (668)
T PRK12740        122 MDRA  125 (668)
T ss_pred             CCCC
Confidence            9975

>CHL00071 tufA elongation factor Tu

Probab=99.08  E-value=1.3e-09  Score=86.37  Aligned_cols=108  Identities=17%  Similarity=0.136  Sum_probs=71.3

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~Dl   88 (168)
                      .....+..+..++.|.||||+.+|.......+..+|++++|+|+..... ......+..+...   +.| +|+++||+|+
T Consensus        65 ~~~~~~~~~~~~~~~iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~g~~-~qt~~~~~~~~~~---g~~~iIvvvNK~D~  140 (409)
T CHL00071         65 TAHVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPM-PQTKEHILLAKQV---GVPNIVVFLNKEDQ  140 (409)
T ss_pred             ccEEEEccCCeEEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEEEccCC
Confidence            3344455566788999999998876655667789999999999986422 2233333334333   578 7789999998


Q ss_pred             CCCcccC---HHHHHHHHHhcC-----CCEEEEeccCCCCH
Q psy2646          89 TSKKAVD---YQVAKEYADHLK-----IPFLETSAKNGANV  121 (168)
Q Consensus        89 ~~~~~v~---~~~~~~~~~~~~-----~~~~~vSa~~~~~i  121 (168)
                      .+.....   ..++..+....+     ++++++||.+|.++
T Consensus       141 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        141 VDDEELLELVELEVRELLSKYDFPGDDIPIVSGSALLALEA  181 (409)
T ss_pred             CCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEcchhhcccc
Confidence            7533211   123334444433     68999999999754

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.08  E-value=1e-09  Score=89.48  Aligned_cols=125  Identities=18%  Similarity=0.163  Sum_probs=94.1

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhccc------chhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTI------TSSYYR--GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNV   77 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~------~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   77 (168)
                      -|+..|+..+..++.++++.|.||.-.+...      .+.|+.  ..|++|-|+|+++.+.   -..+.-++.+.   +.
T Consensus        36 vTVEkkeg~~~~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVvDAtnLeR---nLyltlQLlE~---g~  109 (653)
T COG0370          36 VTVEKKEGKLKYKGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVVDATNLER---NLYLTLQLLEL---GI  109 (653)
T ss_pred             eeEEEEEEEEEecCceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEcccchHHH---HHHHHHHHHHc---CC
Confidence            4777888888888888999999997554432      234443  5799999999998643   22223333444   78


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      |++++.|++|..+.+.+. .+..++.+.+|+|+++++|++|.|++++.+.+.+....+..
T Consensus       110 p~ilaLNm~D~A~~~Gi~-ID~~~L~~~LGvPVv~tvA~~g~G~~~l~~~i~~~~~~~~~  168 (653)
T COG0370         110 PMILALNMIDEAKKRGIR-IDIEKLSKLLGVPVVPTVAKRGEGLEELKRAIIELAESKTT  168 (653)
T ss_pred             CeEEEeccHhhHHhcCCc-ccHHHHHHHhCCCEEEEEeecCCCHHHHHHHHHHhcccccc
Confidence            999999999987666654 44557888899999999999999999999998876555443

>PRK00049 elongation factor Tu; Reviewed

Probab=99.08  E-value=2.4e-09  Score=84.51  Aligned_cols=109  Identities=14%  Similarity=0.120  Sum_probs=70.4

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEecC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL-LVGNKN   86 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii-vv~nK~   86 (168)
                      +......+..++.++.|.||||+.+|.......+..+|++++|+|+..... .....++..+...   +.|.+ +++||+
T Consensus        63 i~~~~~~~~~~~~~i~~iDtPG~~~f~~~~~~~~~~aD~~llVVDa~~g~~-~qt~~~~~~~~~~---g~p~iiVvvNK~  138 (396)
T PRK00049         63 INTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQV---GVPYIVVFLNKC  138 (396)
T ss_pred             EeeeEEEEcCCCeEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCc-hHHHHHHHHHHHc---CCCEEEEEEeec
Confidence            334445555566788999999998876655566789999999999986422 2233334444333   57876 689999


Q ss_pred             CCCCCcccC---HHHHHHHHHhc-----CCCEEEEeccCCCC
Q psy2646          87 DQTSKKAVD---YQVAKEYADHL-----KIPFLETSAKNGAN  120 (168)
Q Consensus        87 Dl~~~~~v~---~~~~~~~~~~~-----~~~~~~vSa~~~~~  120 (168)
                      |+.+.....   ..+...+....     +++++++||.++.+
T Consensus       139 D~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~iv~iSa~~g~~  180 (396)
T PRK00049        139 DMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALE  180 (396)
T ss_pred             CCcchHHHHHHHHHHHHHHHHhcCCCccCCcEEEeecccccC
Confidence            986422211   11233333332     36899999998753

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.07  E-value=1e-09  Score=87.74  Aligned_cols=114  Identities=20%  Similarity=0.207  Sum_probs=74.2

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChh---hH---HHHHHHHHHHHHhcCCCCc-E
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE---TF---NNLKQWLEEIDRYACDNVN-K   79 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~---~~~~~~~~~i~~~~~~~~p-i   79 (168)
                      |+......++.+...+.|+||||+.+|.......+..+|++++|+|++...   .+   ..+...+..+...   ++| +
T Consensus        72 Tid~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~---gi~~i  148 (446)
T PTZ00141         72 TIDIALWKFETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTL---GVKQM  148 (446)
T ss_pred             eEEeeeEEEccCCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHc---CCCeE
Confidence            344555666777789999999999998776677788999999999998642   01   1222222333333   555 6


Q ss_pred             EEEEecCCCCC--CcccCH----HHHHHHHHhc-----CCCEEEEeccCCCCHHH
Q psy2646          80 LLVGNKNDQTS--KKAVDY----QVAKEYADHL-----KIPFLETSAKNGANVEQ  123 (168)
Q Consensus        80 ivv~nK~Dl~~--~~~v~~----~~~~~~~~~~-----~~~~~~vSa~~~~~i~~  123 (168)
                      |+++||+|...  ...-..    +++..+....     +++++++|+.+|.|+.+
T Consensus       149 iv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        149 IVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             EEEEEccccccchhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            79999999532  111111    2222333322     36899999999999864

>PRK00098 GTPase RsgA; Reviewed

Probab=99.07  E-value=8.1e-10  Score=84.02  Aligned_cols=85  Identities=16%  Similarity=0.228  Sum_probs=63.0

Q ss_pred             hcCCcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCC
Q psy2646          41 YRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA  119 (168)
Q Consensus        41 ~~~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~  119 (168)
                      +.++|++++|+|+++++++.. +..|+..+..   .++|+++|+||+|+..... .........+.++++++++||+++.
T Consensus        78 aaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g~  153 (298)
T PRK00098         78 AANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEGE  153 (298)
T ss_pred             eecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCCc
Confidence            489999999999988765443 4667666543   3689999999999963221 1122334455668899999999999


Q ss_pred             CHHHHHHHHH
Q psy2646         120 NVEQAFLTMA  129 (168)
Q Consensus       120 ~i~~i~~~l~  129 (168)
                      |++++++.+.
T Consensus       154 gi~~L~~~l~  163 (298)
T PRK00098        154 GLDELKPLLA  163 (298)
T ss_pred             cHHHHHhhcc
Confidence            9999998774

>PLN03126 Elongation factor Tu; Provisional

Probab=99.06  E-value=3.1e-09  Score=85.41  Aligned_cols=108  Identities=17%  Similarity=0.129  Sum_probs=71.4

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEecCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNKND   87 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D   87 (168)
                      ......++.++..+.|+|+||+++|.......+..+|++++|+|+.+... .....++..+...   ++| +++++||+|
T Consensus       133 ~~~~~~~~~~~~~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~-~qt~e~~~~~~~~---gi~~iIvvvNK~D  208 (478)
T PLN03126        133 NTATVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGPM-PQTKEHILLAKQV---GVPNMVVFLNKQD  208 (478)
T ss_pred             EEEEEEEecCCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCeEEEEEeccc
Confidence            33444455566788999999999887655666788999999999986532 2223334444333   577 788999999


Q ss_pred             CCCCcccC---HHHHHHHHHhc-----CCCEEEEeccCCCC
Q psy2646          88 QTSKKAVD---YQVAKEYADHL-----KIPFLETSAKNGAN  120 (168)
Q Consensus        88 l~~~~~v~---~~~~~~~~~~~-----~~~~~~vSa~~~~~  120 (168)
                      +.+.....   .+++..+....     +++++++||.++.+
T Consensus       209 l~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~vp~Sa~~g~n  249 (478)
T PLN03126        209 QVDDEELLELVELEVRELLSSYEFPGDDIPIISGSALLALE  249 (478)
T ss_pred             ccCHHHHHHHHHHHHHHHHHhcCCCcCcceEEEEEcccccc
Confidence            86532211   11333444433     46899999998854

>cd01854 YjeQ_engC YjeQ/EngC

Probab=99.06  E-value=1.2e-09  Score=82.64  Aligned_cols=85  Identities=16%  Similarity=0.182  Sum_probs=66.2

Q ss_pred             hcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCC
Q psy2646          41 YRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA  119 (168)
Q Consensus        41 ~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~  119 (168)
                      ++++|.+++|+|++++. ++..+..|+..+...   +.|+++|+||+|+.....  ......+....+++++++||+++.
T Consensus        76 ~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~~---~ip~iIVlNK~DL~~~~~--~~~~~~~~~~~g~~v~~vSA~~g~  150 (287)
T cd01854          76 AANVDQLVIVVSLNEPFFNPRLLDRYLVAAEAA---GIEPVIVLTKADLLDDEE--EELELVEALALGYPVLAVSAKTGE  150 (287)
T ss_pred             EEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHHc---CCCEEEEEEHHHCCChHH--HHHHHHHHHhCCCeEEEEECCCCc
Confidence            88999999999999887 778888888776543   689999999999965311  112223334567899999999999


Q ss_pred             CHHHHHHHHHH
Q psy2646         120 NVEQAFLTMAT  130 (168)
Q Consensus       120 ~i~~i~~~l~~  130 (168)
                      |+++++..+..
T Consensus       151 gi~~L~~~L~~  161 (287)
T cd01854         151 GLDELREYLKG  161 (287)
T ss_pred             cHHHHHhhhcc
Confidence            99999887763

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.

>PLN03127 Elongation factor Tu; Provisional

Probab=99.05  E-value=2.5e-09  Score=85.41  Aligned_cols=107  Identities=16%  Similarity=0.111  Sum_probs=67.0

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEec
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNK   85 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK   85 (168)
                      |+......++.++.++.|.||||+.+|.......+..+|++++|+|+++... ......+..+...   +.| +|+++||
T Consensus       111 Ti~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~-~qt~e~l~~~~~~---gip~iIvviNK  186 (447)
T PLN03127        111 TIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPM-PQTKEHILLARQV---GVPSLVVFLNK  186 (447)
T ss_pred             eeeeeEEEEcCCCeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCc-hhHHHHHHHHHHc---CCCeEEEEEEe
Confidence            4455556666667789999999998775544445667999999999986422 2223333334333   678 5788999


Q ss_pred             CCCCCCcccCH---HHHHHHHHhc-----CCCEEEEeccC
Q psy2646          86 NDQTSKKAVDY---QVAKEYADHL-----KIPFLETSAKN  117 (168)
Q Consensus        86 ~Dl~~~~~v~~---~~~~~~~~~~-----~~~~~~vSa~~  117 (168)
                      +|+.+......   .+...+....     .++++++||.+
T Consensus       187 iDlv~~~~~~~~i~~~i~~~l~~~~~~~~~vpiip~Sa~s  226 (447)
T PLN03127        187 VDVVDDEELLELVEMELRELLSFYKFPGDEIPIIRGSALS  226 (447)
T ss_pred             eccCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEeccce
Confidence            99865322111   1222333322     36788888763

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

Probab=99.05  E-value=1.6e-09  Score=90.15  Aligned_cols=113  Identities=17%  Similarity=0.146  Sum_probs=71.7

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      +......+..++.++.|+||||+++|.......+..+|++++|+|++....-. ....+..+...  ...+++|++||+|
T Consensus        92 id~~~~~~~~~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~-t~e~~~~~~~~--~~~~iivvvNK~D  168 (632)
T PRK05506         92 IDVAYRYFATPKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQ-TRRHSFIASLL--GIRHVVLAVNKMD  168 (632)
T ss_pred             ceeeeeEEccCCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCcccc-CHHHHHHHHHh--CCCeEEEEEEecc
Confidence            33444455566678899999999887655455688999999999997642211 11112222222  1257899999999


Q ss_pred             CCCCcccCH----HHHHHHHHhcC---CCEEEEeccCCCCHHH
Q psy2646          88 QTSKKAVDY----QVAKEYADHLK---IPFLETSAKNGANVEQ  123 (168)
Q Consensus        88 l~~~~~v~~----~~~~~~~~~~~---~~~~~vSa~~~~~i~~  123 (168)
                      +.+...-..    .+...+.+.++   .+++++||++|.|+.+
T Consensus       169 ~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        169 LVDYDQEVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             cccchhHHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            864211111    12223334444   4699999999999874

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.02  E-value=2.6e-09  Score=78.09  Aligned_cols=127  Identities=19%  Similarity=0.322  Sum_probs=77.3

Q ss_pred             ccccceeeeeeC-CeEEEEEEEeCCCchhhc-----ccchhhhcCCcEEEEEEeCCChhhHHH---HHHHHHHHHHhcCC
Q psy2646           5 LPYQTLQNKKEE-RTRTLIVIWDTAGQERFR-----TITSSYYRGAHGIIVVYDCTDQETFNN---LKQWLEEIDRYACD   75 (168)
Q Consensus         5 ~~t~~~~~~~~~-~~~~~l~l~Dt~G~~~~~-----~~~~~~~~~~d~~i~v~d~~~~~s~~~---~~~~~~~i~~~~~~   75 (168)
                      -||..+....+. ...+.+.+||.||+..+-     ...+..+++++++|||+|+.+.+-.++   +...+..+.+. .+
T Consensus        32 ~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~-sp  110 (232)
T PF04670_consen   32 EPTIDVEKSHVRFLSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQY-SP  110 (232)
T ss_dssp             ----SEEEEEEECTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEEEEETT-STCHHHHHHHHHHHHHHHHH-ST
T ss_pred             CCcCCceEEEEecCCCcEEEEEEcCCccccccccccccHHHHHhccCEEEEEEEcccccHHHHHHHHHHHHHHHHHh-CC
Confidence            366666666663 445799999999997442     235668899999999999995443333   33444444444 57


Q ss_pred             CCcEEEEEecCCCCCCcc--cCH----HHHHHHHHhcC---CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKA--VDY----QVAKEYADHLK---IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~--v~~----~~~~~~~~~~~---~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +..+.|+++|+|+..+..  ...    +.+.+.....+   +.++.+|.-+ ..+.++|..++..+.
T Consensus       111 ~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TSI~D-~Sly~A~S~Ivq~Li  176 (232)
T PF04670_consen  111 NIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTSIWD-ESLYEAWSKIVQKLI  176 (232)
T ss_dssp             T-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-TTS-THHHHHHHHHHHTTS
T ss_pred             CCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEeccCcC-cHHHHHHHHHHHHHc
Confidence            899999999999854211  111    12223344445   6788888776 578888887777655

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.02  E-value=4.4e-09  Score=82.57  Aligned_cols=120  Identities=17%  Similarity=0.130  Sum_probs=84.4

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhcccc--------hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTIT--------SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNV   77 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~--------~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   77 (168)
                      .|+..-...++-+++++.+.||+|..+-....        ...++.||.+++|+|.+.+.+-.+.. .+.    ....+.
T Consensus       251 TTRDviee~i~i~G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~~-~~~----~~~~~~  325 (454)
T COG0486         251 TTRDVIEEDINLNGIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQPLDKEDLA-LIE----LLPKKK  325 (454)
T ss_pred             CccceEEEEEEECCEEEEEEecCCcccCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhHH-HHH----hcccCC
Confidence            35666667777777899999999976543322        34578899999999999852222211 111    124478


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      |+++|.||.|+.......     .+....+.+++.+|++++.|++.+.+.+...+...
T Consensus       326 ~~i~v~NK~DL~~~~~~~-----~~~~~~~~~~i~iSa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         326 PIIVVLNKADLVSKIELE-----SEKLANGDAIISISAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             CEEEEEechhcccccccc-----hhhccCCCceEEEEecCccCHHHHHHHHHHHHhhc
Confidence            999999999997653321     11112245799999999999999999998887766

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

Probab=99.01  E-value=1.6e-09  Score=81.30  Aligned_cols=80  Identities=24%  Similarity=0.229  Sum_probs=59.0

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......+..++.++.||||||...|...+..+++.+|++|+|+|+.+...-. ...++..+...   +.|+++++||+
T Consensus        51 ti~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~g~~~~-t~~~~~~~~~~---~~p~ivviNK~  126 (270)
T cd01886          51 TIQSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVEPQ-TETVWRQADRY---NVPRIAFVNKM  126 (270)
T ss_pred             CeeccEEEEEECCEEEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCCCCCHH-HHHHHHHHHHc---CCCEEEEEECC
Confidence            344445555566789999999999888888888999999999999998753222 22333333333   68999999999


Q ss_pred             CCCC
Q psy2646          87 DQTS   90 (168)
Q Consensus        87 Dl~~   90 (168)
                      |+.+
T Consensus       127 D~~~  130 (270)
T cd01886         127 DRTG  130 (270)
T ss_pred             CCCC
Confidence            9865

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

>COG2262 HflX GTPases [General function prediction only]

Probab=99.00  E-value=9.6e-09  Score=79.50  Aligned_cols=111  Identities=20%  Similarity=0.208  Sum_probs=77.9

Q ss_pred             EEEEEEEeCCCchh---------hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          19 RTLIVIWDTAGQER---------FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~---------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      +..+.+-||-|--+         |.+. -.-...+|.++.|+|+++++....+......+.+......|+++|.||+|+.
T Consensus       239 g~~vlLtDTVGFI~~LP~~LV~AFksT-LEE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~  317 (411)
T COG2262         239 GRKVLLTDTVGFIRDLPHPLVEAFKST-LEEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLL  317 (411)
T ss_pred             CceEEEecCccCcccCChHHHHHHHHH-HHHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEeccccc
Confidence            45688999998532         2221 1225679999999999999766666655555555544569999999999975


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ....    ....+..... ..+.+||++|.|++.+.+.|...+...
T Consensus       318 ~~~~----~~~~~~~~~~-~~v~iSA~~~~gl~~L~~~i~~~l~~~  358 (411)
T COG2262         318 EDEE----ILAELERGSP-NPVFISAKTGEGLDLLRERIIELLSGL  358 (411)
T ss_pred             Cchh----hhhhhhhcCC-CeEEEEeccCcCHHHHHHHHHHHhhhc
Confidence            4322    1112222222 589999999999999999998887754

>PRK13768 GTPase; Provisional

Probab=98.99  E-value=6.8e-09  Score=77.21  Aligned_cols=109  Identities=17%  Similarity=0.171  Sum_probs=69.5

Q ss_pred             EEEEEeCCCchhh---cccchhhhcC-----CcEEEEEEeCCChhhHHHH--HHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          21 LIVIWDTAGQERF---RTITSSYYRG-----AHGIIVVYDCTDQETFNNL--KQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        21 ~l~l~Dt~G~~~~---~~~~~~~~~~-----~d~~i~v~d~~~~~s~~~~--~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      .+.+||+||+.++   +..+..+++.     ++++++++|+.......+.  ..|+...... ..+.|+++|+||+|+.+
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~  176 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLS  176 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcC
Confidence            6889999998763   3344333333     8999999999654322221  1222222211 23789999999999865


Q ss_pred             CcccCHHHHHH----------------------------HHHhcC--CCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKE----------------------------YADHLK--IPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        91 ~~~v~~~~~~~----------------------------~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      .....  ....                            .....+  .+++++|+.++.|++++++++.+.+
T Consensus       177 ~~~~~--~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l  246 (253)
T PRK13768        177 EEELE--RILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVF  246 (253)
T ss_pred             chhHH--HHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHc
Confidence            43221  1111                            111223  5889999999999999999987664

>KOG0090|consensus

Probab=98.99  E-value=6.6e-09  Score=73.80  Aligned_cols=110  Identities=22%  Similarity=0.315  Sum_probs=75.0

Q ss_pred             EEEEEeCCCchhhcccchhhhc---CCcEEEEEEeCC-ChhhHHHHHHHHHHHHH-h--cCCCCcEEEEEecCCCCCCcc
Q psy2646          21 LIVIWDTAGQERFRTITSSYYR---GAHGIIVVYDCT-DQETFNNLKQWLEEIDR-Y--ACDNVNKLLVGNKNDQTSKKA   93 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~~~~~~---~~d~~i~v~d~~-~~~s~~~~~~~~~~i~~-~--~~~~~piivv~nK~Dl~~~~~   93 (168)
                      .+.+.|.||+.+.+.-...+++   .+-++|||+|.. .+....++.+++..+.. .  ...+.|++++.||.|+...+.
T Consensus        83 ~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt  162 (238)
T KOG0090|consen   83 NVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKT  162 (238)
T ss_pred             ceEEEeCCCcHHHHHHHHHHccccccceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCc
Confidence            4889999999998776666666   799999999986 34456666666666533 2  245799999999999863221


Q ss_pred             cC------HHHHHH------------------------------HH--HhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          94 VD------YQVAKE------------------------------YA--DHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        94 v~------~~~~~~------------------------------~~--~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ..      ..++..                              |.  +...+.+.++|++++ +++++-+|+.+.
T Consensus       163 ~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~  237 (238)
T KOG0090|consen  163 AEKIRQQLEKEIHKLRESRSALRSISDEDIAKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREA  237 (238)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhccccccccccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHh
Confidence            00      001100                              00  011246889999988 899999998764

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

Probab=98.99  E-value=5.7e-09  Score=78.23  Aligned_cols=113  Identities=17%  Similarity=0.164  Sum_probs=72.6

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......++.+++.+.+|||||..+|...+..+++.+|++++|+|+++......... +..+..   .+.|+++++||+
T Consensus        51 ti~~~~~~~~~~~~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~-~~~~~~---~~~p~iivvNK~  126 (268)
T cd04170          51 SISTSVAPLEWKGHKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVEVGTEKL-WEFADE---AGIPRIIFINKM  126 (268)
T ss_pred             cccceeEEEEECCEEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHH-HHHHHH---cCCCEEEEEECC
Confidence            4444455556667889999999998887778889999999999999997644433222 223332   268999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEE--eccCCCCHHHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLET--SAKNGANVEQAF  125 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~v--Sa~~~~~i~~i~  125 (168)
                      |+.... . ......+.+.++.+++.+  ...++.++..+.
T Consensus       127 D~~~~~-~-~~~~~~l~~~~~~~~~~~~ip~~~~~~~~~~v  165 (268)
T cd04170         127 DRERAD-F-DKTLAALQEAFGRPVVPLQLPIGEGDDFKGVV  165 (268)
T ss_pred             ccCCCC-H-HHHHHHHHHHhCCCeEEEEecccCCCceeEEE
Confidence            987531 1 122334444455444433  345544443333

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

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=98.97  E-value=5.6e-09  Score=70.54  Aligned_cols=99  Identities=20%  Similarity=0.184  Sum_probs=67.8

Q ss_pred             EEEeCCCch----hhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHH
Q psy2646          23 VIWDTAGQE----RFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQV   98 (168)
Q Consensus        23 ~l~Dt~G~~----~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~   98 (168)
                      .+.||||.-    .|....-....+||.++++.|++++.+.--     ..+..  .-..|+|-|+||+|+... ....+.
T Consensus        39 ~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~~~~~~p-----P~fa~--~f~~pvIGVITK~Dl~~~-~~~i~~  110 (143)
T PF10662_consen   39 NTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATEPRSVFP-----PGFAS--MFNKPVIGVITKIDLPSD-DANIER  110 (143)
T ss_pred             cEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCCCCccCC-----chhhc--ccCCCEEEEEECccCccc-hhhHHH
Confidence            469999953    233333445668999999999998643111     01111  115899999999999832 223455


Q ss_pred             HHHHHHhcCC-CEEEEeccCCCCHHHHHHHHH
Q psy2646          99 AKEYADHLKI-PFLETSAKNGANVEQAFLTMA  129 (168)
Q Consensus        99 ~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~  129 (168)
                      +.++.+..|+ .+|++|+.+|+|++++.++|-
T Consensus       111 a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen  111 AKKWLKNAGVKEIFEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             HHHHHHHcCCCCeEEEECCCCcCHHHHHHHHh
Confidence            5566666675 679999999999999998773

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

>PRK12288 GTPase RsgA; Reviewed

Probab=98.97  E-value=6.2e-09  Score=80.58  Aligned_cols=88  Identities=15%  Similarity=0.165  Sum_probs=66.7

Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCccc-CHHHHHHHHHhcCCCEEEEeccCCC
Q psy2646          41 YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAV-DYQVAKEYADHLKIPFLETSAKNGA  119 (168)
Q Consensus        41 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v-~~~~~~~~~~~~~~~~~~vSa~~~~  119 (168)
                      ..++|.+++|++.+...++..+..|+..+..   .++|+++|+||+|+...... ............+++++++||.++.
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~  194 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGE  194 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCc
Confidence            4679999999999877889999999876543   36899999999999653211 1122223334567899999999999


Q ss_pred             CHHHHHHHHHHH
Q psy2646         120 NVEQAFLTMATE  131 (168)
Q Consensus       120 ~i~~i~~~l~~~  131 (168)
                      |++++++.+...
T Consensus       195 GideL~~~L~~k  206 (347)
T PRK12288        195 GLEELEAALTGR  206 (347)
T ss_pred             CHHHHHHHHhhC
Confidence            999999988653

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=98.96  E-value=1.6e-08  Score=76.57  Aligned_cols=131  Identities=15%  Similarity=0.178  Sum_probs=88.5

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcc----cchhh---hcCCcEEEEEEeCCChh---hHHHHHHHHHHHHHh
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRT----ITSSY---YRGAHGIIVVYDCTDQE---TFNNLKQWLEEIDRY   72 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~----~~~~~---~~~~d~~i~v~d~~~~~---s~~~~~~~~~~i~~~   72 (168)
                      |+.|..+.-.+   ...-.+.+-|+||.-+-.+    +...|   +.++.++++|+|++..+   ..++...+..++..+
T Consensus       193 TL~PnLGvV~~---~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y  269 (369)
T COG0536         193 TLVPNLGVVRV---DGGESFVVADIPGLIEGASEGVGLGLRFLRHIERTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKY  269 (369)
T ss_pred             cccCcccEEEe---cCCCcEEEecCcccccccccCCCccHHHHHHHHhhheeEEEEecCcccCCCHHHHHHHHHHHHHHh
Confidence            45566665544   3334689999999754322    33333   56799999999998543   466666666666555


Q ss_pred             c--CCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEE-EEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          73 A--CDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFL-ETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        73 ~--~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~-~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      .  ..+.|.+||+||+|+....+........+.+..++..+ ++||.++.|++++...+...+....
T Consensus       270 ~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         270 SPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALTREGLDELLRALAELLEETK  336 (369)
T ss_pred             hHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhcccCHHHHHHHHHHHHHHhh
Confidence            3  45789999999999654333222333344444454322 2999999999999999998888775

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.93  E-value=5.8e-09  Score=87.61  Aligned_cols=81  Identities=22%  Similarity=0.191  Sum_probs=60.5

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......+..++.++.||||||+.+|...+..+++.+|++++|+|+.+....... .++..+...   +.|+++++||+
T Consensus        62 ti~~~~~~~~~~~~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~-~~~~~~~~~---~~p~ivviNK~  137 (689)
T TIGR00484        62 TITSAATTVFWKGHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSE-TVWRQANRY---EVPRIAFVNKM  137 (689)
T ss_pred             CEecceEEEEECCeEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHH-HHHHHHHHc---CCCEEEEEECC
Confidence            34445555666678999999999998877788899999999999999876444433 233333333   68999999999


Q ss_pred             CCCCC
Q psy2646          87 DQTSK   91 (168)
Q Consensus        87 Dl~~~   91 (168)
                      |+...
T Consensus       138 D~~~~  142 (689)
T TIGR00484       138 DKTGA  142 (689)
T ss_pred             CCCCC
Confidence            98753

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.

>PRK12739 elongation factor G; Reviewed

Probab=98.93  E-value=1.2e-08  Score=85.72  Aligned_cols=79  Identities=20%  Similarity=0.183  Sum_probs=57.7

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......+..++.++.|+||||+..|...+...++.+|++|+|+|+.+...-.+ ...+..+..   .+.|+++++||+
T Consensus        60 ti~~~~~~~~~~~~~i~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt-~~i~~~~~~---~~~p~iv~iNK~  135 (691)
T PRK12739         60 TITSAATTCFWKGHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQS-ETVWRQADK---YGVPRIVFVNKM  135 (691)
T ss_pred             CccceeEEEEECCEEEEEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHH-HHHHHHHHH---cCCCEEEEEECC
Confidence            3344445555567789999999998887778888999999999999987543222 233333333   368999999999


Q ss_pred             CCC
Q psy2646          87 DQT   89 (168)
Q Consensus        87 Dl~   89 (168)
                      |+.
T Consensus       136 D~~  138 (691)
T PRK12739        136 DRI  138 (691)
T ss_pred             CCC
Confidence            985

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=98.91  E-value=5e-09  Score=82.55  Aligned_cols=131  Identities=17%  Similarity=0.145  Sum_probs=93.2

Q ss_pred             cccccccceeeeeeCC-eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHH
Q psy2646           2 RLLLPYQTLQNKKEER-TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ----------ETFNNLKQWLEEID   70 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~-~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i~   70 (168)
                      |+..+|.|+....+.. +...+.++|++|+...+.-|..++.++++||||+++++-          +.+.+...++..+.
T Consensus       217 ~~r~~T~Gi~e~~f~~~~~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~  296 (389)
T PF00503_consen  217 RCRVKTTGITEIDFNFSGSRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESIC  296 (389)
T ss_dssp             HS----SSEEEEEEEE-TTEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHH
T ss_pred             eecCCCCCeeEEEEEeecccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHH
Confidence            5667999999999987 889999999999988888999999999999999998742          34666666777764


Q ss_pred             Hhc-CCCCcEEEEEecCCCCC-----Cc----------c---cCHHHHHHHHHh------------cCCCEEEEeccCCC
Q psy2646          71 RYA-CDNVNKLLVGNKNDQTS-----KK----------A---VDYQVAKEYADH------------LKIPFLETSAKNGA  119 (168)
Q Consensus        71 ~~~-~~~~piivv~nK~Dl~~-----~~----------~---v~~~~~~~~~~~------------~~~~~~~vSa~~~~  119 (168)
                      ... ..+.|++|+.||.|+..     ..          +   -....+..+...            ..+.++.++|.+..
T Consensus       297 ~~~~~~~~~iil~lnK~D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~  376 (389)
T PF00503_consen  297 NNPWFKNTPIILFLNKIDLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTE  376 (389)
T ss_dssp             TSGGGTTSEEEEEEE-HHHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHH
T ss_pred             hCcccccCceEEeeecHHHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccH
Confidence            433 35799999999999621     10          0   123344443321            12346688999999


Q ss_pred             CHHHHHHHHHHHH
Q psy2646         120 NVEQAFLTMATEI  132 (168)
Q Consensus       120 ~i~~i~~~l~~~~  132 (168)
                      ++..+|..+.+.+
T Consensus       377 ~~~~v~~~v~~~i  389 (389)
T PF00503_consen  377 NIRKVFNAVKDII  389 (389)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcC
Confidence            9999999887654

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 ....

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

Probab=98.91  E-value=1.4e-08  Score=77.33  Aligned_cols=113  Identities=18%  Similarity=0.168  Sum_probs=78.0

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+..-...|...+-+|.+-||||++.|......-...||+.|+++|+... -.+..+. ...|.... .=.-+++.+||+
T Consensus        73 TIDVAYRyFsT~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~G-vl~QTrR-Hs~I~sLL-GIrhvvvAVNKm  149 (431)
T COG2895          73 TIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKG-VLEQTRR-HSFIASLL-GIRHVVVAVNKM  149 (431)
T ss_pred             eEEEEeeecccccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchh-hHHHhHH-HHHHHHHh-CCcEEEEEEeee
Confidence            55666677777788999999999999988777778889999999999643 1222221 12221111 124578999999


Q ss_pred             CCCCCcccCHH----HHHHHHHhcC---CCEEEEeccCCCCHH
Q psy2646          87 DQTSKKAVDYQ----VAKEYADHLK---IPFLETSAKNGANVE  122 (168)
Q Consensus        87 Dl~~~~~v~~~----~~~~~~~~~~---~~~~~vSa~~~~~i~  122 (168)
                      ||.+-.+-..+    +-..|+..++   ..++++||..|.|+-
T Consensus       150 DLvdy~e~~F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         150 DLVDYSEEVFEAIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             cccccCHHHHHHHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            99864332222    2335677776   479999999999864

>TIGR00503 prfC peptide chain release factor 3

Probab=98.91  E-value=9.1e-09  Score=83.73  Aligned_cols=80  Identities=18%  Similarity=0.147  Sum_probs=59.2

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......++.+++.+.||||||+.+|......+++.+|++|+|+|+++... .....++.....   .+.|+++++||+
T Consensus        67 si~~~~~~~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~~PiivviNKi  142 (527)
T TIGR00503        67 SITTSVMQFPYRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL---RDTPIFTFMNKL  142 (527)
T ss_pred             cEEEEEEEEeeCCeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh---cCCCEEEEEECc
Confidence            3445566777888999999999998887766667899999999999987421 122334433322   368999999999


Q ss_pred             CCCC
Q psy2646          87 DQTS   90 (168)
Q Consensus        87 Dl~~   90 (168)
                      |+..
T Consensus       143 D~~~  146 (527)
T TIGR00503       143 DRDI  146 (527)
T ss_pred             cccC
Confidence            9864

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.

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.89  E-value=2.2e-08  Score=76.71  Aligned_cols=54  Identities=13%  Similarity=0.033  Sum_probs=37.8

Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHHhc-CCCEEEEeccCCCCHHHHHH-HHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFL-TMATEIK  133 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~~~vSa~~~~~i~~i~~-~l~~~~~  133 (168)
                      .+|+|+++||.|+......    ...+.... ..+++.+||+.+.++.++.+ .+...+.
T Consensus       214 ~KPvI~VlNK~Dl~~~~~~----~~~l~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lP  269 (318)
T cd01899         214 SKPMVIAANKADIPDAENN----ISKLRLKYPDEIVVPTSAEAELALRRAAKQGLIKYDP  269 (318)
T ss_pred             CCcEEEEEEHHHccChHHH----HHHHHhhCCCCeEEEEeCcccccHHHHHHhhHHHhCC
Confidence            5799999999997533221    11222222 46799999999999999887 5776654

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.

>KOG1707|consensus

Probab=98.87  E-value=3.4e-09  Score=84.87  Aligned_cols=119  Identities=24%  Similarity=0.257  Sum_probs=89.4

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcC--CCCcEEEEEecCCCCCCc
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYAC--DNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~--~~~piivv~nK~Dl~~~~   92 (168)
                      ....+...+.||+..+.-......-++.||++.++|+.+++.+++.+. +|+..+.+..+  .++|||+||||.|+....
T Consensus        52 tPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~  131 (625)
T KOG1707|consen   52 TPENVPTSIVDTSSDSDDRLCLRKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNE  131 (625)
T ss_pred             CcCcCceEEEecccccchhHHHHHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCcccc
Confidence            355567899999866554444466789999999999999999999884 79999866531  479999999999987544


Q ss_pred             ccCHHH-HHHHHHhcC--CCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          93 AVDYQV-AKEYADHLK--IPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        93 ~v~~~~-~~~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ..+.+. ..-+...+.  -..++|||++..++.++|...-+.+..
T Consensus       132 ~~s~e~~~~pim~~f~EiEtciecSA~~~~n~~e~fYyaqKaVih  176 (625)
T KOG1707|consen  132 NNSDEVNTLPIMIAFAEIETCIECSALTLANVSELFYYAQKAVIH  176 (625)
T ss_pred             ccchhHHHHHHHHHhHHHHHHHhhhhhhhhhhHhhhhhhhheeec
Confidence            432222 333333332  268999999999999999988777665

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.87  E-value=1.3e-08  Score=79.38  Aligned_cols=95  Identities=27%  Similarity=0.354  Sum_probs=68.4

Q ss_pred             chhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHH----HHHh
Q psy2646          30 QERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKE----YADH  105 (168)
Q Consensus        30 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~----~~~~  105 (168)
                      .++|..+...+++.++++++|+|+.+.+     ..|...+.+.. .+.|+++|+||+|+... ....+....    +++.
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~-~~~piilV~NK~DLl~k-~~~~~~~~~~l~~~~k~  122 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFV-GGNPVLLVGNKIDLLPK-SVNLSKIKEWMKKRAKE  122 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHh-CCCCEEEEEEchhhCCC-CCCHHHHHHHHHHHHHH
Confidence            4567778888889999999999997653     12334443332 25799999999998653 333333333    3555


Q ss_pred             cCC---CEEEEeccCCCCHHHHHHHHHHH
Q psy2646         106 LKI---PFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus       106 ~~~---~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +++   .++++||+++.|++++|+.+.+.
T Consensus       123 ~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       123 LGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             cCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            665   48999999999999999998654

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.

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

Probab=98.86  E-value=1.3e-08  Score=78.79  Aligned_cols=118  Identities=19%  Similarity=0.192  Sum_probs=79.3

Q ss_pred             ccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChh---hHH---HHHHHHHHHHHhcCCCCc
Q psy2646           5 LPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE---TFN---NLKQWLEEIDRYACDNVN   78 (168)
Q Consensus         5 ~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~---~~~~~~~~i~~~~~~~~p   78 (168)
                      --|+......++.+.+.+.|.|+||+..|-.-.-.-...||+.|||+|+.+.+   .|.   ..+.-. .+.+. ..-.-
T Consensus        70 GvTi~~~~~~fet~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~-~La~t-lGi~~  147 (428)
T COG5256          70 GVTIDVAHSKFETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHA-FLART-LGIKQ  147 (428)
T ss_pred             ceEEEEEEEEeecCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHH-HHHHh-cCCce
Confidence            34677778888888889999999998877665555677899999999998752   111   111111 11111 11356


Q ss_pred             EEEEEecCCCCCCcccCHHHH----HHHHHhcC-----CCEEEEeccCCCCHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVA----KEYADHLK-----IPFLETSAKNGANVEQA  124 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~----~~~~~~~~-----~~~~~vSa~~~~~i~~i  124 (168)
                      +||++||+|+.+.++-..++.    ..+.+..|     ++|+++|+..|+|+.+.
T Consensus       148 lIVavNKMD~v~wde~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         148 LIVAVNKMDLVSWDEERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             EEEEEEcccccccCHHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            899999999986544333332    23444443     57999999999998653

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.85  E-value=8.6e-08  Score=67.87  Aligned_cols=120  Identities=13%  Similarity=0.197  Sum_probs=80.4

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCC----------chhhcccchhhhcC---CcEEEEEEeCCChhhHHHHHHHHHHHHHh
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAG----------QERFRTITSSYYRG---AHGIIVVYDCTDQETFNNLKQWLEEIDRY   72 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G----------~~~~~~~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~i~~~   72 (168)
                      -|+...++.++++   +.+.|.||          ++.+..+...|+..   -.++++++|+..+..-.+. .+++.+...
T Consensus        59 rTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~-em~~~l~~~  134 (200)
T COG0218          59 RTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLDR-EMIEFLLEL  134 (200)
T ss_pred             ccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHHHHHHHHhhchhheEEEEEEECCCCCcHHHH-HHHHHHHHc
Confidence            3666777777765   88999998          35566666777764   5689999999876443332 344444433


Q ss_pred             cCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhc----CCC--EEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          73 ACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHL----KIP--FLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        73 ~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~----~~~--~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                         +.|++|++||+|..+..... ......++.+    ...  ++..|+.++.|++++...+...+.
T Consensus       135 ---~i~~~vv~tK~DKi~~~~~~-k~l~~v~~~l~~~~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~  197 (200)
T COG0218         135 ---GIPVIVVLTKADKLKKSERN-KQLNKVAEELKKPPPDDQWVVLFSSLKKKGIDELKAKILEWLK  197 (200)
T ss_pred             ---CCCeEEEEEccccCChhHHH-HHHHHHHHHhcCCCCccceEEEEecccccCHHHHHHHHHHHhh
Confidence               79999999999986543222 1112222222    222  888999999999999888877654

>COG1084 Predicted GTPase [General function prediction only]

Probab=98.83  E-value=4.5e-08  Score=73.89  Aligned_cols=124  Identities=19%  Similarity=0.123  Sum_probs=84.1

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchh-----hcccch---hhhc-CCcEEEEEEeCCCh--hhHHHHHHHHHHHHHhcCC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQER-----FRTITS---SYYR-GAHGIIVVYDCTDQ--ETFNNLKQWLEEIDRYACD   75 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~-----~~~~~~---~~~~-~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~   75 (168)
                      |-++...+++.+..++|+.||||.-+     .+..-.   ..++ =.++++|++|.+..  .+.+....++..+...-  
T Consensus       202 TK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f--  279 (346)
T COG1084         202 TKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELF--  279 (346)
T ss_pred             ccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhc--
Confidence            45566666777778999999999632     111111   1122 26789999999854  67888888888886653  


Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +.|+++|.||+|+.....+....  .....-+ .....+++..+.+++.+-..+...+.+
T Consensus       280 ~~p~v~V~nK~D~~~~e~~~~~~--~~~~~~~~~~~~~~~~~~~~~~d~~~~~v~~~a~~  337 (346)
T COG1084         280 KAPIVVVINKIDIADEEKLEEIE--ASVLEEGGEEPLKISATKGCGLDKLREEVRKTALE  337 (346)
T ss_pred             CCCeEEEEecccccchhHHHHHH--HHHHhhccccccceeeeehhhHHHHHHHHHHHhhc
Confidence            48999999999987544443222  2233333 457888999999988877777666443

>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=98.79  E-value=1.1e-08  Score=71.95  Aligned_cols=74  Identities=24%  Similarity=0.368  Sum_probs=51.5

Q ss_pred             eEEEEEEEeCCCchhhccc-chh--hhcCCcEEEEEEeCCC-hhhHHHHHHHHHHHHHhc---CCCCcEEEEEecCCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTI-TSS--YYRGAHGIIVVYDCTD-QETFNNLKQWLEEIDRYA---CDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~-~~~--~~~~~d~~i~v~d~~~-~~s~~~~~~~~~~i~~~~---~~~~piivv~nK~Dl~~   90 (168)
                      ..-.+.+.|+||+.+.+.. ...  +...+.++|||+|.+. ...+.++.+++..+....   ...+|++|++||+|+..
T Consensus        47 ~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~  126 (181)
T PF09439_consen   47 KGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFT  126 (181)
T ss_dssp             CGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT
T ss_pred             CCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccc
Confidence            3447899999999988763 333  5888999999999984 445667766666653322   45799999999999976


Q ss_pred             C
Q psy2646          91 K   91 (168)
Q Consensus        91 ~   91 (168)
                      .
T Consensus       127 A  127 (181)
T PF09439_consen  127 A  127 (181)
T ss_dssp             -
T ss_pred             c
Confidence            4

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.

>KOG1423|consensus

Probab=98.78  E-value=1e-07  Score=71.40  Aligned_cols=121  Identities=17%  Similarity=0.176  Sum_probs=74.6

Q ss_pred             eeeeeCCeEEEEEEEeCCCchh------hcc------cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc
Q psy2646          11 QNKKEERTRTLIVIWDTAGQER------FRT------ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN   78 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~------~~~------~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p   78 (168)
                      ....+..+..++.|+||||.-.      +..      .....+..||.+++|+|+++....-. ...+..+..+.  ..|
T Consensus       111 ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~~ys--~ip  187 (379)
T KOG1423|consen  111 ILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASATRTPLH-PRVLHMLEEYS--KIP  187 (379)
T ss_pred             eeEEEecCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCCcCccC-hHHHHHHHHHh--cCC
Confidence            3344456778999999999421      110      12345678999999999996321111 11233333333  689


Q ss_pred             EEEEEecCCCCCCcc-------------cCHHHHHHHHHhcCC----------------CEEEEeccCCCCHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKA-------------VDYQVAKEYADHLKI----------------PFLETSAKNGANVEQAFLTMA  129 (168)
Q Consensus        79 iivv~nK~Dl~~~~~-------------v~~~~~~~~~~~~~~----------------~~~~vSa~~~~~i~~i~~~l~  129 (168)
                      -+++.||.|...++.             ++.....-..+....                .+|.+||+.|.|++++-++|+
T Consensus       188 s~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLm  267 (379)
T KOG1423|consen  188 SILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLM  267 (379)
T ss_pred             ceeeccchhcchhhhHHhhhHHhccccccchhhhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHH
Confidence            999999999754332             111011111111112                389999999999999999999


Q ss_pred             HHHHH
Q psy2646         130 TEIKK  134 (168)
Q Consensus       130 ~~~~~  134 (168)
                      .++..
T Consensus       268 sqa~~  272 (379)
T KOG1423|consen  268 SQAPP  272 (379)
T ss_pred             hcCCC
Confidence            87643

>cd01858 NGP_1 NGP-1

Probab=98.75  E-value=6.5e-08  Score=66.78  Aligned_cols=91  Identities=15%  Similarity=0.035  Sum_probs=58.1

Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCC
Q psy2646          40 YYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA  119 (168)
Q Consensus        40 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~  119 (168)
                      .++++|.+++|+|+.++..-. ...+...+... ..+.|+++|+||+|+.....+ ......+.+.+....+.+||+.+.
T Consensus         5 ~l~~aD~il~VvD~~~p~~~~-~~~i~~~l~~~-~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~~~~   81 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGTR-CKHVEEYLKKE-KPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASINNPF   81 (157)
T ss_pred             hhhhCCEEEEEEECCCCcccc-CHHHHHHHHhc-cCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeeccccc
Confidence            478899999999999863211 12223333222 335899999999999643221 111222323222335789999999


Q ss_pred             CHHHHHHHHHHHHH
Q psy2646         120 NVEQAFLTMATEIK  133 (168)
Q Consensus       120 ~i~~i~~~l~~~~~  133 (168)
                      |++++++.+...+.
T Consensus        82 ~~~~L~~~l~~~~~   95 (157)
T cd01858          82 GKGSLIQLLRQFSK   95 (157)
T ss_pred             cHHHHHHHHHHHHh
Confidence            99999999976643

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.70  E-value=4e-07  Score=65.21  Aligned_cols=109  Identities=12%  Similarity=0.165  Sum_probs=66.7

Q ss_pred             EEEEEeCCCchhhcccchhh-----hcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEecCCCCCCcc-
Q psy2646          21 LIVIWDTAGQERFRTITSSY-----YRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKLLVGNKNDQTSKKA-   93 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~~~~-----~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~-   93 (168)
                      .+.+|||||..........|     +..+|+++++.+..    +... ..|+..+...   +.|+++|+||+|+..... 
T Consensus        53 ~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~l~v~~~~----~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~  125 (197)
T cd04104          53 NVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFFIIISSTR----FSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQ  125 (197)
T ss_pred             CceEEeCCCCCcccCCHHHHHHHhCccCcCEEEEEeCCC----CCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhh
Confidence            68999999975432222223     56789888875432    2222 3445555444   579999999999842111 


Q ss_pred             ---c---CHHH----HHHHH----HhcC---CCEEEEecc--CCCCHHHHHHHHHHHHHHHh
Q psy2646          94 ---V---DYQV----AKEYA----DHLK---IPFLETSAK--NGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        94 ---v---~~~~----~~~~~----~~~~---~~~~~vSa~--~~~~i~~i~~~l~~~~~~~~  136 (168)
                         .   ..++    ..+.+    ...+   -++|.+|+.  .+.++..+.+.+.+.+.+.+
T Consensus       126 ~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~  187 (197)
T cd04104         126 RSKPRSFNREQVLQEIRDNCLENLQEAGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHK  187 (197)
T ss_pred             ccccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHH
Confidence               0   0111    11111    1212   378899998  57899999999998887644

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

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.67  E-value=1.5e-07  Score=64.82  Aligned_cols=84  Identities=19%  Similarity=0.122  Sum_probs=55.0

Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHH
Q psy2646          45 HGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQA  124 (168)
Q Consensus        45 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i  124 (168)
                      |.+++|+|+.++.+....  ++.. ......+.|+++|+||+|+.+...+. .....+....+..++.+||.++.|++++
T Consensus         1 Dvvl~VvD~~~p~~~~~~--~i~~-~~~~~~~~p~IiVlNK~Dl~~~~~~~-~~~~~~~~~~~~~ii~vSa~~~~gi~~L   76 (155)
T cd01849           1 DVILEVLDARDPLGTRSP--DIER-VLIKEKGKKLILVLNKADLVPKEVLR-KWLAYLRHSYPTIPFKISATNGQGIEKK   76 (155)
T ss_pred             CEEEEEEeccCCccccCH--HHHH-HHHhcCCCCEEEEEechhcCCHHHHH-HHHHHHHhhCCceEEEEeccCCcChhhH
Confidence            789999999887554322  2221 11112368999999999985432211 1111233333567899999999999999


Q ss_pred             HHHHHHHH
Q psy2646         125 FLTMATEI  132 (168)
Q Consensus       125 ~~~l~~~~  132 (168)
                      ++.+....
T Consensus        77 ~~~i~~~~   84 (155)
T cd01849          77 ESAFTKQT   84 (155)
T ss_pred             HHHHHHHh
Confidence            99887654

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.61  E-value=1.4e-07  Score=64.05  Aligned_cols=76  Identities=17%  Similarity=0.213  Sum_probs=51.4

Q ss_pred             hhhcCCcEEEEEEeCCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEecc
Q psy2646          39 SYYRGAHGIIVVYDCTDQETFN--NLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAK  116 (168)
Q Consensus        39 ~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~  116 (168)
                      ..+..+|++++|+|+.++.+..  .+..|+...    ..+.|+++++||+|+.....+  ....++.+..+..++++||.
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~----~~~k~~iivlNK~DL~~~~~~--~~~~~~~~~~~~~ii~iSa~   80 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFRPPDLERYVKEV----DPRKKNILLLNKADLLTEEQR--KAWAEYFKKEGIVVVFFSAL   80 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc----cCCCcEEEEEechhcCCHHHH--HHHHHHHHhcCCeEEEEEec
Confidence            4578999999999998875533  333333322    236899999999998543221  23334445556789999999


Q ss_pred             CCCC
Q psy2646         117 NGAN  120 (168)
Q Consensus       117 ~~~~  120 (168)
                      ++.+
T Consensus        81 ~~~~   84 (141)
T cd01857          81 KENA   84 (141)
T ss_pred             CCCc
Confidence            8754

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.

>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=98.60  E-value=9.8e-08  Score=70.34  Aligned_cols=112  Identities=20%  Similarity=0.210  Sum_probs=58.9

Q ss_pred             EEEEEeCCCchhhcccchhhh--------cCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          21 LIVIWDTAGQERFRTITSSYY--------RGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~~~~~--------~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      .+.++|||||.++...|...-        ...-++++++|..... ....+..++..+......+.|.+.|.||+|+.+.
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            678999999988755554433        4566899999987432 2222333333332211237999999999999762


Q ss_pred             cc---cC----------------HHHHHHHH---HhcC-C-CEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          92 KA---VD----------------YQVAKEYA---DHLK-I-PFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        92 ~~---v~----------------~~~~~~~~---~~~~-~-~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ..   +.                ......++   ..++ . .++.+|+.+++|+.+++..+-+.+
T Consensus       172 ~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  172 YLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             HHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             hhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            20   00                00001112   1223 3 799999999999999998887654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>KOG1144|consensus

Probab=98.60  E-value=2.1e-07  Score=76.79  Aligned_cols=108  Identities=20%  Similarity=0.291  Sum_probs=75.0

Q ss_pred             EEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC-Ccc----
Q psy2646          22 IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD---QETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS-KKA----   93 (168)
Q Consensus        22 l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~-~~~----   93 (168)
                      +.++||||++.|..+.......||..|+|+|+-.   +++.+.+.    .+.   ..+.|+||..||+|... .+.    
T Consensus       542 ~lvIdtpghEsFtnlRsrgsslC~~aIlvvdImhGlepqtiESi~----lLR---~rktpFivALNKiDRLYgwk~~p~~  614 (1064)
T KOG1144|consen  542 LLVIDTPGHESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESIN----LLR---MRKTPFIVALNKIDRLYGWKSCPNA  614 (1064)
T ss_pred             eEEecCCCchhhhhhhhccccccceEEEEeehhccCCcchhHHHH----HHH---hcCCCeEEeehhhhhhcccccCCCc
Confidence            6789999999999999999999999999999975   34444332    121   23799999999999531 111    


Q ss_pred             -cCH------------------HHHHHHHHh------------cC--CCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          94 -VDY------------------QVAKEYADH------------LK--IPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        94 -v~~------------------~~~~~~~~~------------~~--~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                       +..                  ..+.+|+.+            ++  +.++++||.+|.||-+++.+|+.......
T Consensus       615 ~i~~~lkkQ~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m  690 (1064)
T KOG1144|consen  615 PIVEALKKQKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTM  690 (1064)
T ss_pred             hHHHHHHHhhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHH
Confidence             000                  011122211            11  36889999999999999999987665544

>PRK00007 elongation factor G; Reviewed

Probab=98.57  E-value=3.5e-07  Score=77.03  Aligned_cols=106  Identities=23%  Similarity=0.244  Sum_probs=67.2

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......+..++.++.|.||||+..|..-....+..+|++|+|+|+.......+.. .+..+...   +.|+++++||+
T Consensus        62 ti~~~~~~~~~~~~~~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~-~~~~~~~~---~~p~iv~vNK~  137 (693)
T PRK00007         62 TITSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSET-VWRQADKY---KVPRIAFVNKM  137 (693)
T ss_pred             CEeccEEEEEECCeEEEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHH-HHHHHHHc---CCCEEEEEECC
Confidence            333444555556778999999999877655566788999999999988654333322 33333333   68999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCC----CEEEEeccCC
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKI----PFLETSAKNG  118 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~----~~~~vSa~~~  118 (168)
                      |+.+.. . ......+.+.++.    ..+++|+..+
T Consensus       138 D~~~~~-~-~~~~~~i~~~l~~~~~~~~ipisa~~~  171 (693)
T PRK00007        138 DRTGAD-F-YRVVEQIKDRLGANPVPIQLPIGAEDD  171 (693)
T ss_pred             CCCCCC-H-HHHHHHHHHHhCCCeeeEEecCccCCc
Confidence            987533 1 1222333333332    3456666554

>cd01850 CDC_Septin CDC/Septin

Probab=98.57  E-value=6.1e-07  Score=67.59  Aligned_cols=98  Identities=15%  Similarity=0.105  Sum_probs=58.9

Q ss_pred             eCCeEEEEEEEeCCCchhh--------------------------cccchhhhc--CCcEEEEEEeCCChhhHHHHHHHH
Q psy2646          15 EERTRTLIVIWDTAGQERF--------------------------RTITSSYYR--GAHGIIVVYDCTDQETFNNLKQWL   66 (168)
Q Consensus        15 ~~~~~~~l~l~Dt~G~~~~--------------------------~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~   66 (168)
                      .++..+.+.||||||....                          ...+...+.  .+|+++++++.+.......-..++
T Consensus        58 ~~g~~~~l~iiDTpGfgd~~~~~~~~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~l~~~D~~~l  137 (276)
T cd01850          58 ENGVKLKLTVIDTPGFGDNINNSDCWKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHGLKPLDIEFM  137 (276)
T ss_pred             ECCEEEEEEEEecCCccccccchhhHHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCCCCHHHHHHH
Confidence            3567789999999994221                          111112333  478889998877521111112233


Q ss_pred             HHHHHhcCCCCcEEEEEecCCCCCCcc--cCHHHHHHHHHhcCCCEEEEecc
Q psy2646          67 EEIDRYACDNVNKLLVGNKNDQTSKKA--VDYQVAKEYADHLKIPFLETSAK  116 (168)
Q Consensus        67 ~~i~~~~~~~~piivv~nK~Dl~~~~~--v~~~~~~~~~~~~~~~~~~vSa~  116 (168)
                      ..+.    ..+|+++|+||+|+....+  .......+.+..+++++|.....
T Consensus       138 k~l~----~~v~vi~VinK~D~l~~~e~~~~k~~i~~~l~~~~i~~~~~~~~  185 (276)
T cd01850         138 KRLS----KRVNIIPVIAKADTLTPEELKEFKQRIMEDIEEHNIKIYKFPED  185 (276)
T ss_pred             HHHh----ccCCEEEEEECCCcCCHHHHHHHHHHHHHHHHHcCCceECCCCC
Confidence            3332    2589999999999865322  22344556677788888876653

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.

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

Probab=98.56  E-value=2.1e-07  Score=70.22  Aligned_cols=114  Identities=19%  Similarity=0.254  Sum_probs=73.7

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCccc--CHH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAV--DYQ   97 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v--~~~   97 (168)
                      -.+.|.|.||++-+-...-.-..-.|+.+||+.++.+-.--...+-+..+.-.  .-..++++-||+|+...+..  ..+
T Consensus        86 R~VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi--gik~iiIvQNKIDlV~~E~AlE~y~  163 (415)
T COG5257          86 RRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEII--GIKNIIIVQNKIDLVSRERALENYE  163 (415)
T ss_pred             EEEEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh--ccceEEEEecccceecHHHHHHHHH
Confidence            36889999999854322122223368999999998763322233222222222  12568999999999764322  234


Q ss_pred             HHHHHHHhc---CCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          98 VAKEYADHL---KIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        98 ~~~~~~~~~---~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ++.+|.+..   +.|++++||..+.||+.+++++...+...
T Consensus       164 qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP  204 (415)
T COG5257         164 QIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTP  204 (415)
T ss_pred             HHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCC
Confidence            455555432   47999999999999999999888776543

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.56  E-value=1.3e-07  Score=79.91  Aligned_cols=72  Identities=25%  Similarity=0.240  Sum_probs=53.8

Q ss_pred             eeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          14 KEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        14 ~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+++.++++.||||||+.+|.......++.+|++|+|+|+......+....| .....   .+.|+++++||+|..
T Consensus        80 ~~~~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~-~~~~~---~~~p~ivviNKiD~~  151 (720)
T TIGR00490        80 EYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVL-RQALK---ENVKPVLFINKVDRL  151 (720)
T ss_pred             eecCCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHH-HHHHH---cCCCEEEEEEChhcc
Confidence            3678889999999999998877777889999999999999874322222222 22222   357889999999975

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.

>KOG0458|consensus

Probab=98.56  E-value=4.3e-07  Score=73.05  Aligned_cols=118  Identities=15%  Similarity=0.151  Sum_probs=82.0

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHH-------HHHHHHHHHHhcCCC
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-------LKQWLEEIDRYACDN   76 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~-------~~~~~~~i~~~~~~~   76 (168)
                      .--|+.++..+++.....+.|.|.||+..|.+..-.-...||+.|||+|++-. .|+.       +++....+... + -
T Consensus       239 rGvTm~v~~~~fes~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~-~FE~gfd~~gQtrEha~llr~L-g-i  315 (603)
T KOG0458|consen  239 RGVTMDVKTTWFESKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTG-EFESGFDPGGQTREHALLLRSL-G-I  315 (603)
T ss_pred             cceeEEeeeEEEecCceeEEEecCCCccccchhhhccccccceEEEEEECCcc-hhhhccCCCCchHHHHHHHHHc-C-c
Confidence            34578888899998889999999999888877655667789999999999853 2332       22222222222 1 3


Q ss_pred             CcEEEEEecCCCCCCcccCHHHHH----HHH-HhcC-----CCEEEEeccCCCCHHHH
Q psy2646          77 VNKLLVGNKNDQTSKKAVDYQVAK----EYA-DHLK-----IPFLETSAKNGANVEQA  124 (168)
Q Consensus        77 ~piivv~nK~Dl~~~~~v~~~~~~----~~~-~~~~-----~~~~~vSa~~~~~i~~i  124 (168)
                      .-+||++||+|+.+..+-..+++.    .|. +..|     +.|++||+.+|+|+...
T Consensus       316 ~qlivaiNKmD~V~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  316 SQLIVAINKMDLVSWSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             ceEEEEeecccccCccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            568999999999876554444433    233 2223     58999999999997543

>cd01856 YlqF YlqF

Probab=98.51  E-value=3.8e-07  Score=63.85  Aligned_cols=89  Identities=19%  Similarity=0.129  Sum_probs=59.6

Q ss_pred             chhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEecc
Q psy2646          37 TSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAK  116 (168)
Q Consensus        37 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~  116 (168)
                      ....++++|.+++|+|++++....+. .+...+     .+.|+++|+||+|+.+...+  ....++....+..++.+||.
T Consensus        13 ~~~~i~~aD~il~v~D~~~~~~~~~~-~i~~~~-----~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~vi~iSa~   84 (171)
T cd01856          13 IKEKLKLVDLVIEVRDARIPLSSRNP-LLEKIL-----GNKPRIIVLNKADLADPKKT--KKWLKYFESKGEKVLFVNAK   84 (171)
T ss_pred             HHHHHhhCCEEEEEeeccCccCcCCh-hhHhHh-----cCCCEEEEEehhhcCChHHH--HHHHHHHHhcCCeEEEEECC
Confidence            35578899999999999876432211 122221     25789999999998643211  11112223334578999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q psy2646         117 NGANVEQAFLTMATEIK  133 (168)
Q Consensus       117 ~~~~i~~i~~~l~~~~~  133 (168)
                      ++.|++++.+.+...+.
T Consensus        85 ~~~gi~~L~~~l~~~l~  101 (171)
T cd01856          85 SGKGVKKLLKAAKKLLK  101 (171)
T ss_pred             CcccHHHHHHHHHHHHH
Confidence            99999999999887753

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.

>TIGR00101 ureG urease accessory protein UreG

Probab=98.49  E-value=1.9e-06  Score=61.86  Aligned_cols=104  Identities=20%  Similarity=0.154  Sum_probs=64.1

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHH
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQV   98 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~   98 (168)
                      .....+.++.|..--.... ..+  +|++|.|+|+.+.++...  .+..++      ...-++++||+|+........+.
T Consensus        91 ~~D~iiIEt~G~~l~~~~~-~~l--~~~~i~vvD~~~~~~~~~--~~~~qi------~~ad~~~~~k~d~~~~~~~~~~~  159 (199)
T TIGR00101        91 PLEMVFIESGGDNLSATFS-PEL--ADLTIFVIDVAAGDKIPR--KGGPGI------TRSDLLVINKIDLAPMVGADLGV  159 (199)
T ss_pred             CCCEEEEECCCCCcccccc-hhh--hCcEEEEEEcchhhhhhh--hhHhHh------hhccEEEEEhhhccccccccHHH
Confidence            3566788888842111111 122  688999999987655321  111122      12238999999997421112222


Q ss_pred             HHHHHHh--cCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          99 AKEYADH--LKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        99 ~~~~~~~--~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ..+..+.  .+.+++++||++|+|++++|+++.+.+.
T Consensus       160 ~~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       160 MERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             HHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            2333332  3589999999999999999999987643

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=98.49  E-value=9.8e-07  Score=68.80  Aligned_cols=83  Identities=13%  Similarity=0.175  Sum_probs=58.6

Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHH-hcCCCEEEEeccCCC
Q psy2646          41 YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGA  119 (168)
Q Consensus        41 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~vSa~~~~  119 (168)
                      +.++|.+++|++++..-....+..++..+...   +.|.++|+||+||.+...   .....+.. ..+++++.+|+.++.
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~---~i~piIVLNK~DL~~~~~---~~~~~~~~~~~g~~Vi~vSa~~g~  183 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWES---GAEPVIVLTKADLCEDAE---EKIAEVEALAPGVPVLAVSALDGE  183 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHc---CCCEEEEEEChhcCCCHH---HHHHHHHHhCCCCcEEEEECCCCc
Confidence            58899999999997444444566666665444   677899999999965311   11122222 346899999999999


Q ss_pred             CHHHHHHHHH
Q psy2646         120 NVEQAFLTMA  129 (168)
Q Consensus       120 ~i~~i~~~l~  129 (168)
                      |++++..++.
T Consensus       184 gl~~L~~~L~  193 (356)
T PRK01889        184 GLDVLAAWLS  193 (356)
T ss_pred             cHHHHHHHhh
Confidence            9999888763

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=98.46  E-value=6.7e-06  Score=62.29  Aligned_cols=117  Identities=21%  Similarity=0.099  Sum_probs=78.4

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhccc-------chhhhcCCcEEEEEEeCCChhh-HHHHHHHHH---------------
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTI-------TSSYYRGAHGIIVVYDCTDQET-FNNLKQWLE---------------   67 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~-------~~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~---------------   67 (168)
                      --..+..++.++|+.|+||.-.-.+.       .-..+++||++++|+|+..... .+.+...++               
T Consensus       101 VPG~l~Y~ga~IQild~Pgii~gas~g~grG~~vlsv~R~ADlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I  180 (365)
T COG1163         101 VPGMLEYKGAQIQLLDLPGIIEGASSGRGRGRQVLSVARNADLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTI  180 (365)
T ss_pred             ccceEeecCceEEEEcCcccccCcccCCCCcceeeeeeccCCEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEE
Confidence            33445677889999999986432221       2345789999999999986544 333322222               


Q ss_pred             ---------------------------------------------------HHHHhcCCCCcEEEEEecCCCCCCcccCH
Q psy2646          68 ---------------------------------------------------EIDRYACDNVNKLLVGNKNDQTSKKAVDY   96 (168)
Q Consensus        68 ---------------------------------------------------~i~~~~~~~~piivv~nK~Dl~~~~~v~~   96 (168)
                                                                         .+..+ ..=+|.+++.||.|+...     
T Consensus       181 ~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V~Ir~dvTlDd~id~l~~n-rvY~p~l~v~NKiD~~~~-----  254 (365)
T COG1163         181 KKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADVLIREDVTLDDLIDALEGN-RVYKPALYVVNKIDLPGL-----  254 (365)
T ss_pred             EEeccCCEEEecccccccCCHHHHHHHHHHhCcccceEEEecCCcHHHHHHHHhhc-ceeeeeEEEEecccccCH-----
Confidence                                                               11110 113789999999998652     


Q ss_pred             HHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          97 QVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        97 ~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ++...+.+..  .++.+||..+.|++++.+.+.+.+.--
T Consensus       255 e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L~li  291 (365)
T COG1163         255 EELERLARKP--NSVPISAKKGINLDELKERIWDVLGLI  291 (365)
T ss_pred             HHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhhCeE
Confidence            2333444433  799999999999999999999887653

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.43  E-value=3.7e-06  Score=60.69  Aligned_cols=101  Identities=16%  Similarity=0.218  Sum_probs=62.0

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVA   99 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~   99 (168)
                      ..+.|.||.|.-...   ..+....+..+.++|+.+.+...  .....   ..   ..|.++++||+|+.+.........
T Consensus       103 ~d~IiIEt~G~l~~~---~~~~~~~~~~i~Vvd~~~~d~~~--~~~~~---~~---~~a~iiv~NK~Dl~~~~~~~~~~~  171 (207)
T TIGR00073       103 IDLLFIENVGNLVCP---ADFDLGEHMRVVLLSVTEGDDKP--LKYPG---MF---KEADLIVINKADLAEAVGFDVEKM  171 (207)
T ss_pred             CCEEEEecCCCcCCC---cccccccCeEEEEEecCcccchh--hhhHh---HH---hhCCEEEEEHHHccccchhhHHHH
Confidence            467888998821101   11222355667788887643211  11111   11   467899999999965322222333


Q ss_pred             HHHHHhc--CCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646         100 KEYADHL--KIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus       100 ~~~~~~~--~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ....+..  ..+++++||+++.|++++|+++.+.
T Consensus       172 ~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       172 KADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             HHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3333333  3799999999999999999999875

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

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

Probab=98.42  E-value=3.3e-06  Score=66.22  Aligned_cols=120  Identities=18%  Similarity=0.180  Sum_probs=80.7

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEE
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ---ETFNNLKQWLEEIDRYACDNVNKLLVG   83 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~piivv~   83 (168)
                      |+...+...+..+..+.|.|.||++++-...-.-+...|..+||++.++.   ++-+.+    ..+...  .-.-.++|+
T Consensus        37 TiDlg~~y~~~~d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~deGl~~qtgEhL----~iLdll--gi~~giivl  110 (447)
T COG3276          37 TIDLGFYYRKLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHL----LILDLL--GIKNGIIVL  110 (447)
T ss_pred             eEeeeeEeccCCCCceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCccCcchhhHHHH----HHHHhc--CCCceEEEE
Confidence            34445555555556899999999998866555567789999999999753   333222    222222  123459999


Q ss_pred             ecCCCCCCcccCHHHHHHHHHhc---CCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          84 NKNDQTSKKAVDYQVAKEYADHL---KIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~~~~---~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ||+|..+...+. +...++...+   +.+++.+|+.+|.||+++-+.+...+.
T Consensus       111 tk~D~~d~~r~e-~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~~l~~L~~  162 (447)
T COG3276         111 TKADRVDEARIE-QKIKQILADLSLANAKIFKTSAKTGRGIEELKNELIDLLE  162 (447)
T ss_pred             eccccccHHHHH-HHHHHHHhhcccccccccccccccCCCHHHHHHHHHHhhh
Confidence            999987643222 2222232222   367899999999999999999998874

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.40  E-value=2e-06  Score=64.77  Aligned_cols=90  Identities=21%  Similarity=0.160  Sum_probs=60.7

Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccC
Q psy2646          38 SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKN  117 (168)
Q Consensus        38 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~  117 (168)
                      ...++.+|.+++|+|+..+.+.... .+...+     .+.|+++|+||+|+.+....  ....++.+..+.+++.+||.+
T Consensus        16 ~~~l~~aDvVl~V~Dar~p~~~~~~-~i~~~l-----~~kp~IiVlNK~DL~~~~~~--~~~~~~~~~~~~~vi~iSa~~   87 (276)
T TIGR03596        16 KEKLKLVDVVIEVLDARIPLSSRNP-MIDEIR-----GNKPRLIVLNKADLADPAVT--KQWLKYFEEKGIKALAINAKK   87 (276)
T ss_pred             HHHHhhCCEEEEEEeCCCCCCCCCh-hHHHHH-----CCCCEEEEEEccccCCHHHH--HHHHHHHHHcCCeEEEEECCC
Confidence            4568899999999999876442221 111112     25799999999998543211  111122233456789999999


Q ss_pred             CCCHHHHHHHHHHHHHHH
Q psy2646         118 GANVEQAFLTMATEIKKR  135 (168)
Q Consensus       118 ~~~i~~i~~~l~~~~~~~  135 (168)
                      +.|++++.+.+...+...
T Consensus        88 ~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        88 GKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             cccHHHHHHHHHHHHHHh
Confidence            999999999888776544

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.

>KOG1532|consensus

Probab=98.40  E-value=7.9e-06  Score=60.71  Aligned_cols=118  Identities=14%  Similarity=0.113  Sum_probs=69.2

Q ss_pred             eEEEEEEEeCCCchh-hcccc-----hhhhc--CCcEEEEEEeCCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          18 TRTLIVIWDTAGQER-FRTIT-----SSYYR--GAHGIIVVYDCTDQET-FNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~-~~~~~-----~~~~~--~~d~~i~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ......+.|||||-+ |.+-.     ...++  ..-++++++|..+..+ -....+++....-.-..+.|+|++.||.|+
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            335688999999854 33221     11122  3456778888764321 122223333222222458999999999998


Q ss_pred             CCCcc----cCHHH----HH-----------------HHHHhc-CCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          89 TSKKA----VDYQV----AK-----------------EYADHL-KIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        89 ~~~~~----v~~~~----~~-----------------~~~~~~-~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ....-    ++.-+    +.                 .+-+.+ ++..+-|||.+|.|.+++|.++-..+.+.
T Consensus       194 ~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  194 SDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVDEY  266 (366)
T ss_pred             cccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHHHH
Confidence            64311    11100    00                 111112 36789999999999999999998777654

>KOG0085|consensus

Probab=98.38  E-value=1.2e-07  Score=68.57  Aligned_cols=138  Identities=20%  Similarity=0.253  Sum_probs=101.0

Q ss_pred             CcccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC----------hhhHHHHHHHHHHHH
Q psy2646           1 MRLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD----------QETFNNLKQWLEEID   70 (168)
Q Consensus         1 ~~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~i~   70 (168)
                      +|+.+||-|+....++-..+-+.+.|.+|+..-+.-|-+++.+.-.++|++.++.          .+.+++...++..+.
T Consensus       180 LRvRvPTTGi~eypfdl~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi  259 (359)
T KOG0085|consen  180 LRVRVPTTGIIEYPFDLQKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTII  259 (359)
T ss_pred             heeecCcccceecCcchhhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHh
Confidence            4778999999999999999999999999998888889999999888888765543          334555555666665


Q ss_pred             Hhc-CCCCcEEEEEecCCCCCCccc----------------CHHHHHHHHHh----cC------CCEEEEeccCCCCHHH
Q psy2646          71 RYA-CDNVNKLLVGNKNDQTSKKAV----------------DYQVAKEYADH----LK------IPFLETSAKNGANVEQ  123 (168)
Q Consensus        71 ~~~-~~~~piivv~nK~Dl~~~~~v----------------~~~~~~~~~~~----~~------~~~~~vSa~~~~~i~~  123 (168)
                      .+. -.+.++|+..||.|+.+++..                +...+.+|.-.    ++      +--.+++|.+.+||.-
T Consensus       260 ~yPWF~nssVIlFLNKkDlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRf  339 (359)
T KOG0085|consen  260 TYPWFQNSSVILFLNKKDLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRF  339 (359)
T ss_pred             ccccccCCceEEEechhhhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHH
Confidence            554 347899999999998543321                11223333321    22      2356789999999999


Q ss_pred             HHHHHHHHHHHHhcc
Q psy2646         124 AFLTMATEIKKRVTK  138 (168)
Q Consensus       124 i~~~l~~~~~~~~~~  138 (168)
                      +|.++-+.+.+..-+
T Consensus       340 VFaaVkDtiLq~~Lk  354 (359)
T KOG0085|consen  340 VFAAVKDTILQLNLK  354 (359)
T ss_pred             HHHHHHHHHHHhhhH
Confidence            999999888876543

>KOG1490|consensus

Probab=98.38  E-value=2.1e-06  Score=68.29  Aligned_cols=123  Identities=15%  Similarity=0.094  Sum_probs=85.0

Q ss_pred             eeeeCCeEEEEEEEeCCCchhh----cccchh-----hhcCCcEEEEEEeCCCh--hhHHHHHHHHHHHHHhcCCCCcEE
Q psy2646          12 NKKEERTRTLIVIWDTAGQERF----RTITSS-----YYRGAHGIIVVYDCTDQ--ETFNNLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus        12 ~~~~~~~~~~l~l~Dt~G~~~~----~~~~~~-----~~~~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~pii   80 (168)
                      ..+++.+=..+|+.||||.-+-    ....+.     ..+=-.+|+|+.|++..  .|......++..|... -.+.|.|
T Consensus       207 vGH~dykYlrwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpL-FaNK~~I  285 (620)
T KOG1490|consen  207 VGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPL-FANKVTI  285 (620)
T ss_pred             hhhhhhheeeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHH-hcCCceE
Confidence            3344556678999999996321    111111     11223578999999864  5677777788887554 3478999


Q ss_pred             EEEecCCCCCCcccCHHHHH---HHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTSKKAVDYQVAK---EYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~~~~---~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +|+||+|+.....++.+...   .+...-++++++.|..+.+|+-++-......+...
T Consensus       286 lvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~~~eegVm~Vrt~ACe~LLa~  343 (620)
T KOG1490|consen  286 LVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSCVQEEGVMDVRTTACEALLAA  343 (620)
T ss_pred             EEeecccccCccccCHHHHHHHHHHHhccCceEEEecccchhceeeHHHHHHHHHHHH
Confidence            99999999877677654432   23334458999999999999999888877776654

>PRK13796 GTPase YqeH; Provisional

Probab=98.37  E-value=3.6e-06  Score=65.90  Aligned_cols=84  Identities=25%  Similarity=0.369  Sum_probs=56.7

Q ss_pred             hcCCc-EEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHH----HHHhcCC---CEEE
Q psy2646          41 YRGAH-GIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKE----YADHLKI---PFLE  112 (168)
Q Consensus        41 ~~~~d-~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~----~~~~~~~---~~~~  112 (168)
                      +..++ .+++|+|+.+..     ..|...+.+.. .+.|+++|+||+|+... ....+....    +++.+++   .++.
T Consensus        66 i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~-~~kpviLViNK~DLl~~-~~~~~~i~~~l~~~~k~~g~~~~~v~~  138 (365)
T PRK13796         66 IGDSDALVVNVVDIFDFN-----GSWIPGLHRFV-GNNPVLLVGNKADLLPK-SVKKNKVKNWLRQEAKELGLRPVDVVL  138 (365)
T ss_pred             hcccCcEEEEEEECccCC-----CchhHHHHHHh-CCCCEEEEEEchhhCCC-ccCHHHHHHHHHHHHHhcCCCcCcEEE
Confidence            34455 899999997743     12333443332 25799999999999643 233333332    3455565   6899


Q ss_pred             EeccCCCCHHHHHHHHHHH
Q psy2646         113 TSAKNGANVEQAFLTMATE  131 (168)
Q Consensus       113 vSa~~~~~i~~i~~~l~~~  131 (168)
                      +||+++.|++++++.+.+.
T Consensus       139 vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        139 ISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            9999999999999998764

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.37  E-value=3e-06  Score=65.24  Aligned_cols=112  Identities=14%  Similarity=0.153  Sum_probs=71.1

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC-
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD-   95 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~-   95 (168)
                      ..++.+.|.||+|.-.-.   ......+|.++++.+....+.+....   ..+.+     ..-++|+||+|+.+..... 
T Consensus       146 ~~g~d~viieT~Gv~qs~---~~i~~~aD~vlvv~~p~~gd~iq~~k---~gi~E-----~aDIiVVNKaDl~~~~~a~~  214 (332)
T PRK09435        146 AAGYDVILVETVGVGQSE---TAVAGMVDFFLLLQLPGAGDELQGIK---KGIME-----LADLIVINKADGDNKTAARR  214 (332)
T ss_pred             ccCCCEEEEECCCCccch---hHHHHhCCEEEEEecCCchHHHHHHH---hhhhh-----hhheEEeehhcccchhHHHH
Confidence            345789999999975211   22567799999998755444433322   21222     2348999999986532211 


Q ss_pred             -HHHHHHHHHh-------cCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          96 -YQVAKEYADH-------LKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        96 -~~~~~~~~~~-------~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                       ..+.......       +..+++.+||.++.|++++++.+.+++....+..
T Consensus       215 ~~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l~~sg  266 (332)
T PRK09435        215 AAAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAALTASG  266 (332)
T ss_pred             HHHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhccCC
Confidence             1122222221       2358999999999999999999998877444433

>PRK09602 translation-associated GTPase; Reviewed

Probab=98.37  E-value=6.5e-06  Score=65.01  Aligned_cols=52  Identities=13%  Similarity=0.091  Sum_probs=34.5

Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHH-HHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQ-AFLTMATE  131 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~-i~~~l~~~  131 (168)
                      ..|+++|+||.|+.....    ....+.+.....++.+||..+.++.+ +.+.+.+.
T Consensus       217 ~KPvI~VlNK~D~~~~~~----~l~~i~~~~~~~vvpISA~~e~~l~~~l~~~i~~~  269 (396)
T PRK09602        217 SKPMVIAANKADLPPAEE----NIERLKEEKYYIVVPTSAEAELALRRAAKAGLIDY  269 (396)
T ss_pred             CCCEEEEEEchhcccchH----HHHHHHhcCCCcEEEEcchhhhhHHHHHHHhHHhh
Confidence            589999999999753211    12222222245799999999999988 55555443

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

Probab=98.36  E-value=2.9e-06  Score=66.56  Aligned_cols=99  Identities=18%  Similarity=0.204  Sum_probs=68.5

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      +.+..+.++..+..+.|.||||++.|..-.-..+..+|.+|.|+|+...-.- ...++++ +.+.  .++||+-++||.|
T Consensus        69 VtsSVMqF~Y~~~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~-qT~KLfe-Vcrl--R~iPI~TFiNKlD  144 (528)
T COG4108          69 VTSSVMQFDYADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEP-QTLKLFE-VCRL--RDIPIFTFINKLD  144 (528)
T ss_pred             EEeeEEEeccCCeEEeccCCCCccccchhHHHHHHhhheeeEEEecccCccH-HHHHHHH-HHhh--cCCceEEEeeccc
Confidence            4567788888899999999999999876555567789999999999864211 1222222 3333  4899999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEE
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLE  112 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~  112 (168)
                      .....  +.+.+.++.+.+++..++
T Consensus       145 R~~rd--P~ELLdEiE~~L~i~~~P  167 (528)
T COG4108         145 REGRD--PLELLDEIEEELGIQCAP  167 (528)
T ss_pred             cccCC--hHHHHHHHHHHhCcceec
Confidence            76543  234455555666554433

>KOG1707|consensus

Probab=98.33  E-value=7.8e-06  Score=66.06  Aligned_cols=125  Identities=16%  Similarity=0.228  Sum_probs=87.8

Q ss_pred             ccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646           5 LPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus         5 ~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      -|-...+.+.+.+....+.+-|++-. ....+...- ..+|++.++||.+++.+|......+......  .+.|+++|++
T Consensus       459 ~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~  534 (625)
T KOG1707|consen  459 KPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDVACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVAT  534 (625)
T ss_pred             CCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeeeEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEee
Confidence            34444556666677778888888765 333333333 7899999999999999999888766655332  5899999999


Q ss_pred             cCCCCCCcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          85 KNDQTSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        85 K~Dl~~~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      |.|+.+..+.......+++.++++ +.+.+|...... .++|..|+.++..
T Consensus       535 K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~lf~kL~~~A~~  584 (625)
T KOG1707|consen  535 KADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS-NELFIKLATMAQY  584 (625)
T ss_pred             ccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC-chHHHHHHHhhhC
Confidence            999986543322333678888886 345666664333 8899988877664

>KOG0099|consensus

Probab=98.31  E-value=2.5e-06  Score=62.90  Aligned_cols=134  Identities=17%  Similarity=0.161  Sum_probs=91.3

Q ss_pred             cccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHHH
Q psy2646           2 RLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ----------ETFNNLKQWLEEIDR   71 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i~~   71 (168)
                      |+.+=|-|+-...+.=..+.++.+|.+||..-+.-|-.++.+.-++|||+..+.-          +.+.+...++..+..
T Consensus       184 rcRvlTsGIfet~FqVdkv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWn  263 (379)
T KOG0099|consen  184 RCRVLTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWN  263 (379)
T ss_pred             HhhhhccceeeEEEeccccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHh
Confidence            3444455666666666677899999999998888999999999999999977652          345555666666655


Q ss_pred             hc-CCCCcEEEEEecCCCCCCcccC----------------------------HH--HHHHHHHh-------------cC
Q psy2646          72 YA-CDNVNKLLVGNKNDQTSKKAVD----------------------------YQ--VAKEYADH-------------LK  107 (168)
Q Consensus        72 ~~-~~~~piivv~nK~Dl~~~~~v~----------------------------~~--~~~~~~~~-------------~~  107 (168)
                      +. ...+.+|+..||.|+..++...                            +.  .+.-+...             +-
T Consensus       264 NRwL~tisvIlFLNKqDllaeKi~Agk~~i~dyFpEf~~y~~p~da~~es~~d~~v~raK~fird~FlRiSta~~Dg~h~  343 (379)
T KOG0099|consen  264 NRWLRTISVILFLNKQDLLAEKILAGKSKIEDYFPEFARYTTPEDATPESGEDPRVTRAKYFIRDEFLRISTASGDGRHY  343 (379)
T ss_pred             hhHHhhhheeEEecHHHHHHHHHHcchhhHHHhChHHhccCCccccCCCCCCChhhHHHHHhhhhhHhhhccccCCCcee
Confidence            44 4468899999999973211100                            00  00001110             11


Q ss_pred             CCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646         108 IPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus       108 ~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +-+.+++|.+..+|..+|...-+.+.+-
T Consensus       344 CYpHFTcAvDTenIrrVFnDcrdiIqr~  371 (379)
T KOG0099|consen  344 CYPHFTCAVDTENIRRVFNDCRDIIQRM  371 (379)
T ss_pred             cccceeEeechHHHHHHHHHHHHHHHHH
Confidence            4467889999999999999988776543

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.30  E-value=4.7e-06  Score=63.20  Aligned_cols=90  Identities=22%  Similarity=0.253  Sum_probs=60.9

Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccC
Q psy2646          38 SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKN  117 (168)
Q Consensus        38 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~  117 (168)
                      ...+..+|++++|+|+.++.+...  .++....    .+.|+++|.||+|+......  .....+....+.+++.+||.+
T Consensus        19 ~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~----~~kp~iiVlNK~DL~~~~~~--~~~~~~~~~~~~~vi~vSa~~   90 (287)
T PRK09563         19 KENLKLVDVVIEVLDARIPLSSEN--PMIDKII----GNKPRLLILNKSDLADPEVT--KKWIEYFEEQGIKALAINAKK   90 (287)
T ss_pred             HHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh----CCCCEEEEEEchhcCCHHHH--HHHHHHHHHcCCeEEEEECCC
Confidence            456889999999999987643222  1122221    25799999999998542111  111222233457789999999


Q ss_pred             CCCHHHHHHHHHHHHHHH
Q psy2646         118 GANVEQAFLTMATEIKKR  135 (168)
Q Consensus       118 ~~~i~~i~~~l~~~~~~~  135 (168)
                      +.|++++.+.+...+...
T Consensus        91 ~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         91 GQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             cccHHHHHHHHHHHHHHH
Confidence            999999999888776554

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.27  E-value=5.4e-06  Score=61.51  Aligned_cols=112  Identities=14%  Similarity=0.165  Sum_probs=74.1

Q ss_pred             EEEEEEeCCCchh-------hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC-
Q psy2646          20 TLIVIWDTAGQER-------FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK-   91 (168)
Q Consensus        20 ~~l~l~Dt~G~~~-------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~-   91 (168)
                      -.+.||||||..+       ++.....++...|.++++.++.++.---+.+.|..-+ .. .-+.++++++|.+|...+ 
T Consensus        87 ~~l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l~~~~draL~~d~~f~~dVi-~~-~~~~~~i~~VtQ~D~a~p~  164 (296)
T COG3596          87 ENLVLWDTPGLGDGKDKDAEHRQLYRDYLPKLDLVLWLIKADDRALGTDEDFLRDVI-IL-GLDKRVLFVVTQADRAEPG  164 (296)
T ss_pred             cceEEecCCCcccchhhhHHHHHHHHHHhhhccEEEEeccCCCccccCCHHHHHHHH-Hh-ccCceeEEEEehhhhhccc
Confidence            4588999999754       5556677888999999999999874322333333333 22 224899999999996421 


Q ss_pred             ------cccCHHHHHH-----------HHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          92 ------KAVDYQVAKE-----------YADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        92 ------~~v~~~~~~~-----------~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                            .........+           ++.. =-|++.++...+.|++.+...++..+..
T Consensus       165 ~~W~~~~~~p~~a~~qfi~~k~~~~~~~~q~-V~pV~~~~~r~~wgl~~l~~ali~~lp~  223 (296)
T COG3596         165 REWDSAGHQPSPAIKQFIEEKAEALGRLFQE-VKPVVAVSGRLPWGLKELVRALITALPV  223 (296)
T ss_pred             cccccccCCCCHHHHHHHHHHHHHHHHHHhh-cCCeEEeccccCccHHHHHHHHHHhCcc
Confidence                  0111111111           1211 1488999999999999999999988764

>KOG0705|consensus

Probab=98.26  E-value=8.2e-06  Score=65.65  Aligned_cols=130  Identities=18%  Similarity=0.393  Sum_probs=100.1

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKND   87 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D   87 (168)
                      +.+++.+++....+.+.|.+|...     ..|-.++|++||||...+.++|+.+..+...+..+. ...+|+++++++--
T Consensus        66 ~kkE~vv~gqs~lLlirdeg~~~~-----aQft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~  140 (749)
T KOG0705|consen   66 FKKEVVVDGQSHLLLIRDEGGHPD-----AQFCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDH  140 (749)
T ss_pred             ceeeEEeeccceEeeeecccCCch-----hhhhhhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcch
Confidence            467778889999999999999433     458889999999999999999999988877774433 44688888888744


Q ss_pred             CC--CCcccCHHHHHHHHHhc-CCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCC
Q psy2646          88 QT--SKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS  143 (168)
Q Consensus        88 l~--~~~~v~~~~~~~~~~~~-~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~~  143 (168)
                      ..  ..+.+.+..+..+..++ .+.+|+.++..|.+++.+|..+...+......++...
T Consensus       141 iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~rvf~~~~~k~i~~~~~qq~~~  199 (749)
T KOG0705|consen  141 ISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNVERVFQEVAQKIVQLRKYQQLPA  199 (749)
T ss_pred             hhcccccccchHHHHHHHHhcCccceeecchhhhhhHHHHHHHHHHHHHHHHhhhhccc
Confidence            33  23455556666655444 5899999999999999999999988887755554443

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.24  E-value=1.4e-05  Score=60.31  Aligned_cols=96  Identities=20%  Similarity=0.196  Sum_probs=68.9

Q ss_pred             hcccchhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEE
Q psy2646          33 FRTITSSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFL  111 (168)
Q Consensus        33 ~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~  111 (168)
                      -+.+.+.-+.+.|-+++++.+.+|+ +..-+..++-.....   ++..+++.||+||........++........+++++
T Consensus        69 kn~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~~---gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~  145 (301)
T COG1162          69 KNVLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEAG---GIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVL  145 (301)
T ss_pred             cCceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHHc---CCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEE
Confidence            3445556677788889999888875 455566655555433   566688899999976544332344556667899999


Q ss_pred             EEeccCCCCHHHHHHHHHHH
Q psy2646         112 ETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus       112 ~vSa~~~~~i~~i~~~l~~~  131 (168)
                      .+|++++.+++++...+...
T Consensus       146 ~~s~~~~~~~~~l~~~l~~~  165 (301)
T COG1162         146 FVSAKNGDGLEELAELLAGK  165 (301)
T ss_pred             EecCcCcccHHHHHHHhcCC
Confidence            99999999999888877644

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.22  E-value=4.2e-06  Score=63.83  Aligned_cols=105  Identities=18%  Similarity=0.176  Sum_probs=66.2

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHH
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQ   97 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~   97 (168)
                      .++.+.|.||+|.-.   .....+..+|.++++.+...   -+++..+...+     .+.|.++++||+|+.........
T Consensus       125 ~g~D~viidT~G~~~---~e~~i~~~aD~i~vv~~~~~---~~el~~~~~~l-----~~~~~ivv~NK~Dl~~~~~~~~~  193 (300)
T TIGR00750       125 AGYDVIIVETVGVGQ---SEVDIANMADTFVVVTIPGT---GDDLQGIKAGL-----MEIADIYVVNKADGEGATNVTIA  193 (300)
T ss_pred             CCCCEEEEeCCCCch---hhhHHHHhhceEEEEecCCc---cHHHHHHHHHH-----hhhccEEEEEcccccchhHHHHH
Confidence            467899999998532   11235667888888854433   23333333323     24678999999998754321100


Q ss_pred             H------HHHHHH---hcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          98 V------AKEYAD---HLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        98 ~------~~~~~~---~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .      ...+..   .+..+++++||.++.|++++++++.+...
T Consensus       194 ~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       194 RLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            0      011111   12346999999999999999999998755

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.

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=98.20  E-value=4e-06  Score=72.12  Aligned_cols=68  Identities=22%  Similarity=0.324  Sum_probs=52.1

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      +.+.+.|+||||+.+|.......++.+|++|+|+|+...-.......| ..+..   .++|+++++||+|..
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~-~~~~~---~~~p~i~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVL-RQALG---ERIRPVLTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHH-HHHHH---CCCCEEEEEECCccc
Confidence            467889999999999877777788999999999999876433332223 33332   368999999999986

>PRK07560 elongation factor EF-2; Reviewed

Probab=98.17  E-value=4.8e-06  Score=70.70  Aligned_cols=70  Identities=29%  Similarity=0.274  Sum_probs=51.9

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ++++..+.|+||||+.+|.......++.+|++|+|+|+.......... .+......   +.|.|+++||+|..
T Consensus        83 ~~~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~-~~~~~~~~---~~~~iv~iNK~D~~  152 (731)
T PRK07560         83 EGKEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTET-VLRQALRE---RVKPVLFINKVDRL  152 (731)
T ss_pred             cCCcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCCCCccHHH-HHHHHHHc---CCCeEEEEECchhh
Confidence            456788999999999988777778899999999999998653322222 22322222   46789999999975

>PTZ00416 elongation factor 2; Provisional

Probab=98.15  E-value=4.6e-06  Score=71.70  Aligned_cols=67  Identities=24%  Similarity=0.350  Sum_probs=51.5

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.|.||||+.+|..-....++.+|++|+|+|+...-.... ...+..+...   +.|+++++||+|+.
T Consensus        91 ~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t-~~~~~~~~~~---~~p~iv~iNK~D~~  157 (836)
T PTZ00416         91 PFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQT-ETVLRQALQE---RIRPVLFINKVDRA  157 (836)
T ss_pred             ceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccH-HHHHHHHHHc---CCCEEEEEEChhhh
Confidence            5789999999999887767778899999999999987533232 2333444333   58999999999986

>KOG1191|consensus

Probab=98.14  E-value=6.7e-06  Score=65.31  Aligned_cols=132  Identities=19%  Similarity=0.170  Sum_probs=83.2

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchh-hcc--------cchhhhcCCcEEEEEEeCC--ChhhHHHHHHHHHHHHHh---
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQER-FRT--------ITSSYYRGAHGIIVVYDCT--DQETFNNLKQWLEEIDRY---   72 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~-~~~--------~~~~~~~~~d~~i~v~d~~--~~~s~~~~~~~~~~i~~~---   72 (168)
                      |++.-...++-.++++.+.||+|..+ -..        .....++.+|++++|+|+.  +-.+...+...+.....-   
T Consensus       303 TRDaiea~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~  382 (531)
T KOG1191|consen  303 TRDAIEAQVTVNGVPVRLSDTAGIREESNDGIEALGIERARKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVV  382 (531)
T ss_pred             chhhheeEeecCCeEEEEEeccccccccCChhHHHhHHHHHHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEE
Confidence            45555566667778899999999765 111        1234577899999999993  333333434444443111   


Q ss_pred             ---cCCCCcEEEEEecCCCCCC-cccCHHHHHHHHHhc---CCC-EEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          73 ---ACDNVNKLLVGNKNDQTSK-KAVDYQVAKEYADHL---KIP-FLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        73 ---~~~~~piivv~nK~Dl~~~-~~v~~~~~~~~~~~~---~~~-~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                         .....|++++.||.|+... ...... ...+....   ..+ ..++|+++++|++.+...+...+.......
T Consensus       383 ~~~~~~~~~~i~~~nk~D~~s~~~~~~~~-~~~~~~~~~~~~~~i~~~vs~~tkeg~~~L~~all~~~~~~~~~~  456 (531)
T KOG1191|consen  383 IVNKMEKQRIILVANKSDLVSKIPEMTKI-PVVYPSAEGRSVFPIVVEVSCTTKEGCERLSTALLNIVERLVVSP  456 (531)
T ss_pred             EeccccccceEEEechhhccCccccccCC-ceeccccccCcccceEEEeeechhhhHHHHHHHHHHHHHHhhcCC
Confidence               1235789999999998653 122110 11111111   133 456999999999999999999888776633

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=98.14  E-value=6.9e-06  Score=53.89  Aligned_cols=98  Identities=21%  Similarity=0.133  Sum_probs=66.5

Q ss_pred             EEeCCCchhhcccc----hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHH
Q psy2646          24 IWDTAGQERFRTIT----SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVA   99 (168)
Q Consensus        24 l~Dt~G~~~~~~~~----~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~   99 (168)
                      ..||||.-.-++.|    -.....+|.+++|-.++++.+.-.     ..+...  ...|+|-+++|.||.+...+  +..
T Consensus        41 ~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~and~~s~f~-----p~f~~~--~~k~vIgvVTK~DLaed~dI--~~~  111 (148)
T COG4917          41 DIDTPGEYFEHPRWYHALITTLQDADVIIYVHAANDPESRFP-----PGFLDI--GVKKVIGVVTKADLAEDADI--SLV  111 (148)
T ss_pred             ccCCchhhhhhhHHHHHHHHHhhccceeeeeecccCccccCC-----cccccc--cccceEEEEecccccchHhH--HHH
Confidence            57999954323333    334678999999999998754111     111111  14569999999999864333  344


Q ss_pred             HHHHHhcC-CCEEEEeccCCCCHHHHHHHHHH
Q psy2646         100 KEYADHLK-IPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus       100 ~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      ..+..+-| -++|++|+.++.|++++++.|..
T Consensus       112 ~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~  143 (148)
T COG4917         112 KRWLREAGAEPIFETSAVDNQGVEELVDYLAS  143 (148)
T ss_pred             HHHHHHcCCcceEEEeccCcccHHHHHHHHHh
Confidence            45555555 58999999999999999998864

>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=98.12  E-value=1.6e-05  Score=51.79  Aligned_cols=60  Identities=27%  Similarity=0.275  Sum_probs=39.3

Q ss_pred             EEEEEEeCCCchhh----------cccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646          20 TLIVIWDTAGQERF----------RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~----------~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      ..+.|+||||...-          ....+ .+..+|++++|+|++++.. +....++..+.    .+.|+++|.||
T Consensus        47 ~~~~~vDtpG~~~~~~~~~~~~~~~~~~~-~~~~~d~ii~vv~~~~~~~-~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   47 KKFILVDTPGINDGESQDNDGKEIRKFLE-QISKSDLIIYVVDASNPIT-EDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             EEEEEEESSSCSSSSHHHHHHHHHHHHHH-HHCTESEEEEEEETTSHSH-HHHHHHHHHHH----TTSEEEEEEES
T ss_pred             eeEEEEeCCCCcccchhhHHHHHHHHHHH-HHHHCCEEEEEEECCCCCC-HHHHHHHHHHh----cCCCEEEEEcC
Confidence            34579999996421          11223 3478999999999887322 22334444442    37899999998

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 ....

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.12  E-value=7.7e-05  Score=53.28  Aligned_cols=118  Identities=13%  Similarity=0.125  Sum_probs=67.8

Q ss_pred             eEEEEEEEeCCCchhhcc--------c---chhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEe
Q psy2646          18 TRTLIVIWDTAGQERFRT--------I---TSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC--DNVNKLLVGN   84 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~--------~---~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piivv~n   84 (168)
                      .+.++.|+||||......        +   +.....+.|++++|+++++. +-.+ ...+..+.....  .-.+++++.|
T Consensus        47 ~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~~-t~~d-~~~l~~l~~~fg~~~~~~~ivv~T  124 (196)
T cd01852          47 DGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGRF-TEEE-EQAVETLQELFGEKVLDHTIVLFT  124 (196)
T ss_pred             CCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCCc-CHHH-HHHHHHHHHHhChHhHhcEEEEEE
Confidence            445799999999654321        1   11234578999999999872 2111 222333322211  1257899999


Q ss_pred             cCCCCCCcccC------HHHHHHHHHhcCCCEEEEe-----ccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          85 KNDQTSKKAVD------YQVAKEYADHLKIPFLETS-----AKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        85 K~Dl~~~~~v~------~~~~~~~~~~~~~~~~~vS-----a~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +.|......+.      ....+.+.+..+-.++..+     +..+.++.++++.+.+.+....+
T Consensus       125 ~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~~~~  188 (196)
T cd01852         125 RGDDLEGGTLEDYLENSCEALKRLLEKCGGRYVAFNNKAKGEEQEQQVKELLAKVESMVKENGG  188 (196)
T ss_pred             CccccCCCcHHHHHHhccHHHHHHHHHhCCeEEEEeCCCCcchhHHHHHHHHHHHHHHHHhcCC
Confidence            99965432211      1233344444444454444     34566788888888877776443

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).

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

Probab=98.10  E-value=5.9e-06  Score=69.23  Aligned_cols=78  Identities=22%  Similarity=0.169  Sum_probs=59.9

Q ss_pred             ccceeeeeeCCe-EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646           7 YQTLQNKKEERT-RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus         7 t~~~~~~~~~~~-~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      |+.+..+++..+ .+.+.|.||||+-+|..-....++-+|++|+|+|+...-..+.-.-|.+..    ..++|.++++||
T Consensus        62 TI~saa~s~~~~~~~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~----~~~vp~i~fiNK  137 (697)
T COG0480          62 TITSAATTLFWKGDYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQAD----KYGVPRILFVNK  137 (697)
T ss_pred             EEeeeeeEEEEcCceEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHh----hcCCCeEEEEEC
Confidence            445555666666 499999999999999888888999999999999998764333333344433    236999999999


Q ss_pred             CCC
Q psy2646          86 NDQ   88 (168)
Q Consensus        86 ~Dl   88 (168)
                      +|.
T Consensus       138 mDR  140 (697)
T COG0480         138 MDR  140 (697)
T ss_pred             ccc
Confidence            996

>KOG3886|consensus

Probab=98.10  E-value=1.1e-05  Score=58.39  Aligned_cols=84  Identities=19%  Similarity=0.360  Sum_probs=56.5

Q ss_pred             cccceeeeeeC-CeEEEEEEEeCCCchhh-----cccchhhhcCCcEEEEEEeCCChhh---HHHHHHHHHHHHHhcCCC
Q psy2646           6 PYQTLQNKKEE-RTRTLIVIWDTAGQERF-----RTITSSYYRGAHGIIVVYDCTDQET---FNNLKQWLEEIDRYACDN   76 (168)
Q Consensus         6 ~t~~~~~~~~~-~~~~~l~l~Dt~G~~~~-----~~~~~~~~~~~d~~i~v~d~~~~~s---~~~~~~~~~~i~~~~~~~   76 (168)
                      +|+.+..-++. -+++.+.+||.+|++.+     .......+++.++++++||++..+-   ++.....++.+.++ .+.
T Consensus        38 ~tidveHsh~RflGnl~LnlwDcGgqe~fmen~~~~q~d~iF~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~-SP~  116 (295)
T KOG3886|consen   38 ATIDVEHSHVRFLGNLVLNLWDCGGQEEFMENYLSSQEDNIFRNVQVLIYVFDVESREMEKDFHYYQKCLEALLQN-SPE  116 (295)
T ss_pred             CcceeeehhhhhhhhheeehhccCCcHHHHHHHHhhcchhhheeheeeeeeeeccchhhhhhHHHHHHHHHHHHhc-CCc
Confidence            34444333332 23478899999999854     2234567889999999999987643   33333344445555 467


Q ss_pred             CcEEEEEecCCCCC
Q psy2646          77 VNKLLVGNKNDQTS   90 (168)
Q Consensus        77 ~piivv~nK~Dl~~   90 (168)
                      ..++++.+|+|+..
T Consensus       117 AkiF~l~hKmDLv~  130 (295)
T KOG3886|consen  117 AKIFCLLHKMDLVQ  130 (295)
T ss_pred             ceEEEEEeechhcc
Confidence            88999999999864

>KOG3905|consensus

Probab=97.94  E-value=0.00022  Score=54.39  Aligned_cols=114  Identities=13%  Similarity=0.188  Sum_probs=78.2

Q ss_pred             EEEEEEeCCCchhhcccchhhhcC---Cc-EEEEEEeCCCh-hhHHHHHHHHHHHHHh----------------------
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRG---AH-GIIVVYDCTDQ-ETFNNLKQWLEEIDRY----------------------   72 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~---~d-~~i~v~d~~~~-~s~~~~~~~~~~i~~~----------------------   72 (168)
                      .++.+|=..|......+....+..   ++ .+||++|++++ ..++.+.+|..-+.++                      
T Consensus       100 tr~~VWiLDGd~~h~~LLk~al~ats~aetlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~w  179 (473)
T KOG3905|consen  100 TRCNVWILDGDLYHKGLLKFALPATSLAETLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDW  179 (473)
T ss_pred             hhcceEEecCchhhhhHHhhcccccCccceEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHH
Confidence            567788888865444443333322   33 68889999998 4566666666533222                      


Q ss_pred             ---------------------------------------cCCCCcEEEEEecCCCC----CCcccC-------HHHHHHH
Q psy2646          73 ---------------------------------------ACDNVNKLLVGNKNDQT----SKKAVD-------YQVAKEY  102 (168)
Q Consensus        73 ---------------------------------------~~~~~piivv~nK~Dl~----~~~~v~-------~~~~~~~  102 (168)
                                                             .+-++|++||++|+|..    .+....       ...++.|
T Consensus       180 QeYvep~e~~pgsp~~r~t~~~~~~de~~llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkF  259 (473)
T KOG3905|consen  180 QEYVEPGEDQPGSPQRRTTVVGSSADEHVLLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKF  259 (473)
T ss_pred             HHhcCccccCCCCcccccccccCccccccccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHH
Confidence                                                   01268999999999973    222222       2345678


Q ss_pred             HHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646         103 ADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus       103 ~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      |-.+|...+++|+++..|++-+...|++.+.
T Consensus       260 CLr~GaaLiyTSvKE~KNidllyKYivhr~y  290 (473)
T KOG3905|consen  260 CLRYGAALIYTSVKETKNIDLLYKYIVHRSY  290 (473)
T ss_pred             HHHcCceeEEeecccccchHHHHHHHHHHhc
Confidence            8899999999999999999998888887664

>KOG0461|consensus

Probab=97.93  E-value=0.00015  Score=55.75  Aligned_cols=114  Identities=18%  Similarity=0.200  Sum_probs=64.3

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHH-HHHHHHhcCCCCcEEEEEecCCCCCC--cc
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQW-LEEIDRYACDNVNKLLVGNKNDQTSK--KA   93 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~-~~~i~~~~~~~~piivv~nK~Dl~~~--~~   93 (168)
                      ++.+++.+.|.||+.......-.-..-.|..++|+|+....--+.+.-+ +.++  .   -...+||+||.|+..+  +.
T Consensus        67 ~e~lq~tlvDCPGHasLIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~--~---c~klvvvinkid~lpE~qr~  141 (522)
T KOG0461|consen   67 GEQLQFTLVDCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGEL--L---CKKLVVVINKIDVLPENQRA  141 (522)
T ss_pred             cccceeEEEeCCCcHHHHHHHHhhhheeeeeeEEEehhcccccccchhhhhhhh--h---ccceEEEEeccccccchhhh
Confidence            5668899999999975543322233346889999999864222222211 1111  1   2457888899886543  11


Q ss_pred             cCHH-HHHHHHHhc-------CCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          94 VDYQ-VAKEYADHL-------KIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        94 v~~~-~~~~~~~~~-------~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      -..+ ......+.+       +.|++++||..|+--.+.+..+...+..+
T Consensus       142 ski~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~  191 (522)
T KOG0461|consen  142 SKIEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESR  191 (522)
T ss_pred             hHHHHHHHHHHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHh
Confidence            1111 111222211       27999999999955555555555444443

>KOG0468|consensus

Probab=97.91  E-value=1.8e-05  Score=65.17  Aligned_cols=69  Identities=25%  Similarity=0.342  Sum_probs=53.7

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      .++.+-+.+.||||+-.|..-....++.+|++++++|+.+.-.+..-+-+...+.    ...|+++++||+|.
T Consensus       193 ~~KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr~ikhaiq----~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  193 KGKSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTERIIKHAIQ----NRLPIVVVINKVDR  261 (971)
T ss_pred             cCceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEcccCceeeHHHHHHHHHh----ccCcEEEEEehhHH
Confidence            4677889999999997776666677899999999999998766655443333332    36899999999994

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=97.91  E-value=8.9e-05  Score=48.42  Aligned_cols=80  Identities=19%  Similarity=0.219  Sum_probs=56.7

Q ss_pred             hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEE
Q psy2646          33 FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLE  112 (168)
Q Consensus        33 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~  112 (168)
                      +..+...+.+.++.++++++.++.++++.+  |...+......+.|.++++||.|+.....+......        .+++
T Consensus        36 ~~~~~~~~~~s~~~~~~v~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~~--------~~~~  105 (124)
T smart00010       36 IDVYDPTSYESFDVVLQCWRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEGL--------EFAE  105 (124)
T ss_pred             hhhccccccCCCCEEEEEEEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHHH--------HHHH
Confidence            334446678899999999999999888765  776665443456889999999998543344433332        3556


Q ss_pred             EeccCCCCHH
Q psy2646         113 TSAKNGANVE  122 (168)
Q Consensus       113 vSa~~~~~i~  122 (168)
                      +|++++.|+.
T Consensus       106 ~s~~~~~~~~  115 (124)
T smart00010      106 TSAKTPEEGE  115 (124)
T ss_pred             HhCCCcchhh
Confidence            6888888874

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

>cd01882 BMS1 Bms1

Probab=97.91  E-value=9.9e-05  Score=54.03  Aligned_cols=96  Identities=8%  Similarity=0.046  Sum_probs=57.4

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEecCCCCCCcc-cC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-LLVGNKNDQTSKKA-VD   95 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ivv~nK~Dl~~~~~-v~   95 (168)
                      .+.++.++||||.-  ..+ ...++.+|.+++++|++....... ..++..+...   +.|. ++++||+|+.+... ..
T Consensus        81 ~~~~i~~vDtPg~~--~~~-l~~ak~aDvVllviDa~~~~~~~~-~~i~~~l~~~---g~p~vi~VvnK~D~~~~~~~~~  153 (225)
T cd01882          81 KKRRLTFIECPNDI--NAM-IDIAKVADLVLLLIDASFGFEMET-FEFLNILQVH---GFPRVMGVLTHLDLFKKNKTLR  153 (225)
T ss_pred             CCceEEEEeCCchH--HHH-HHHHHhcCEEEEEEecCcCCCHHH-HHHHHHHHHc---CCCeEEEEEeccccCCcHHHHH
Confidence            45678899999863  222 234688999999999986433222 2233333333   4674 55999999864221 11


Q ss_pred             --HHHHHH-HHHh--cCCCEEEEeccCCCC
Q psy2646          96 --YQVAKE-YADH--LKIPFLETSAKNGAN  120 (168)
Q Consensus        96 --~~~~~~-~~~~--~~~~~~~vSa~~~~~  120 (168)
                        ...+.. +...  .+.+++.+||+++..
T Consensus       154 ~~~~~l~~~~~~~~~~~~ki~~iSa~~~~~  183 (225)
T cd01882         154 KTKKRLKHRFWTEVYQGAKLFYLSGIVHGR  183 (225)
T ss_pred             HHHHHHHHHHHHhhCCCCcEEEEeeccCCC
Confidence              111211 2221  236899999998853

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.

>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=97.84  E-value=0.0001  Score=41.69  Aligned_cols=44  Identities=25%  Similarity=0.267  Sum_probs=29.9

Q ss_pred             CCcEEEEEEeCCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646          43 GAHGIIVVYDCTDQ--ETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus        43 ~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      =.++++|++|++..  .+.++-..++..++.. -.+.|+++|.||+|
T Consensus        13 L~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~-F~~~P~i~V~nK~D   58 (58)
T PF06858_consen   13 LADAILFIIDPSEQCGYSIEEQLSLFKEIKPL-FPNKPVIVVLNKID   58 (58)
T ss_dssp             T-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHH-TTTS-EEEEE--TT
T ss_pred             hcceEEEEEcCCCCCCCCHHHHHHHHHHHHHH-cCCCCEEEEEeccC
Confidence            36899999999964  5777777888888665 34799999999998

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.

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=97.74  E-value=0.00057  Score=55.18  Aligned_cols=115  Identities=14%  Similarity=0.268  Sum_probs=78.1

Q ss_pred             EEEEEEeCCCchhhcccchhhhcC----CcEEEEEEeCCChhh-HHHHHHHHHHHHHh----------------------
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRG----AHGIIVVYDCTDQET-FNNLKQWLEEIDRY----------------------   72 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~----~d~~i~v~d~~~~~s-~~~~~~~~~~i~~~----------------------   72 (168)
                      .++.+|-..|...+..+....+..    --.+|+|+|++.|.. ++.+..|+..+..+                      
T Consensus        73 ~rl~vw~L~g~~~~~~LLk~~lt~~~l~~t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~  152 (472)
T PF05783_consen   73 ARLNVWELDGDPSHSDLLKFALTPENLPNTLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQW  152 (472)
T ss_pred             ceeeEEEcCCCcchHhHhcccCCcccccceEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHH
Confidence            578999999876666665554442    247889999999843 44445554432111                      


Q ss_pred             ---------c-------------------------------CCCCcEEEEEecCCCCC----C-----cccC--HHHHHH
Q psy2646          73 ---------A-------------------------------CDNVNKLLVGNKNDQTS----K-----KAVD--YQVAKE  101 (168)
Q Consensus        73 ---------~-------------------------------~~~~piivv~nK~Dl~~----~-----~~v~--~~~~~~  101 (168)
                               .                               +-++|++||++|.|...    .     ..++  ...++.
T Consensus       153 q~Y~ep~~~~~~~s~~~~~~~~~~~~~~~~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~  232 (472)
T PF05783_consen  153 QEYVEPGDSSDSGSPNRRSPSSSSSDDESVLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRT  232 (472)
T ss_pred             HHhhhccccccccCcccccccccccccccccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHH
Confidence                     0                               01489999999999631    1     1111  123566


Q ss_pred             HHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646         102 YADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus       102 ~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +|-.+|..++++|++...+++-+...|.+.+..
T Consensus       233 ~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~  265 (472)
T PF05783_consen  233 FCLKYGASLIYTSVKEEKNLDLLYKYILHRLYG  265 (472)
T ss_pred             HHHhcCCeEEEeeccccccHHHHHHHHHHHhcc
Confidence            788899999999999999998888887777654

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=97.71  E-value=0.00044  Score=53.92  Aligned_cols=106  Identities=18%  Similarity=0.112  Sum_probs=64.5

Q ss_pred             EEEEEEeCCCchhhcc--cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--
Q psy2646          20 TLIVIWDTAGQERFRT--ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--   95 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~--~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--   95 (168)
                      --+.|.||.|+++|-.  +...+-...|-.++++.+++..+.- ..+-+..+..   .+.|++++.||+|+.....+.  
T Consensus       201 klVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~-tkEHLgi~~a---~~lPviVvvTK~D~~~ddr~~~v  276 (527)
T COG5258         201 KLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKM-TKEHLGIALA---MELPVIVVVTKIDMVPDDRFQGV  276 (527)
T ss_pred             cEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchh-hhHhhhhhhh---hcCCEEEEEEecccCcHHHHHHH
Confidence            3578999999998754  2233445688899999888764321 2222222222   379999999999986432211  


Q ss_pred             HHHHH----------------------HHHHhcC---CCEEEEeccCCCCHHHHHHHHH
Q psy2646          96 YQVAK----------------------EYADHLK---IPFLETSAKNGANVEQAFLTMA  129 (168)
Q Consensus        96 ~~~~~----------------------~~~~~~~---~~~~~vSa~~~~~i~~i~~~l~  129 (168)
                      .+++.                      ..+-..+   .|+|.+|+.+|.|++-+.+.+.
T Consensus       277 ~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~f~  335 (527)
T COG5258         277 VEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEFFL  335 (527)
T ss_pred             HHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHHHH
Confidence            01110                      0111111   5899999999999765544443

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

Probab=97.64  E-value=0.00042  Score=52.25  Aligned_cols=126  Identities=15%  Similarity=0.126  Sum_probs=75.5

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHhcCCCC-cEEEE
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ---ETFNNLKQWLEEIDRYACDNV-NKLLV   82 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~-piivv   82 (168)
                      |+.+..+.++..+..+-..|.||+..|-...-.-..+.|+.|||+++++.   ++-+.+.  +  ..+.   ++ -++++
T Consensus        62 TIntahveyet~~rhyahVDcPGHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiL--l--arqv---Gvp~ivvf  134 (394)
T COG0050          62 TINTAHVEYETANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHIL--L--ARQV---GVPYIVVF  134 (394)
T ss_pred             eeccceeEEecCCceEEeccCCChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhh--h--hhhc---CCcEEEEE
Confidence            44455555555666788999999998866555556789999999999874   3333221  1  1222   44 56888


Q ss_pred             EecCCCCCCcccC---HHHHHHHHHhcC-----CCEEEEeccCCCC----HHHHHHHHHHHHHHHhccC
Q psy2646          83 GNKNDQTSKKAVD---YQVAKEYADHLK-----IPFLETSAKNGAN----VEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        83 ~nK~Dl~~~~~v~---~~~~~~~~~~~~-----~~~~~vSa~~~~~----i~~i~~~l~~~~~~~~~~~  139 (168)
                      .||+|+.....+.   ..+.+++...++     .|++.-||..--.    -.+.+..|++.+....+.+
T Consensus       135 lnK~Dmvdd~ellelVemEvreLLs~y~f~gd~~Pii~gSal~ale~~~~~~~~i~eLm~avd~yip~P  203 (394)
T COG0050         135 LNKVDMVDDEELLELVEMEVRELLSEYGFPGDDTPIIRGSALKALEGDAKWEAKIEELMDAVDSYIPTP  203 (394)
T ss_pred             EecccccCcHHHHHHHHHHHHHHHHHcCCCCCCcceeechhhhhhcCCcchHHHHHHHHHHHHhcCCCC
Confidence            9999997633321   123445666665     4677777654321    2333444555555544443

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.64  E-value=0.00066  Score=47.65  Aligned_cols=86  Identities=19%  Similarity=0.235  Sum_probs=60.2

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHH
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQ   97 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~   97 (168)
                      ..+.+.|+||||...  ......+..+|.+++++..+. .+...+..++..+...   +.|+.+|+|+.|....   ...
T Consensus        91 ~~~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~~-~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~~---~~~  161 (179)
T cd03110          91 EGAELIIIDGPPGIG--CPVIASLTGADAALLVTEPTP-SGLHDLERAVELVRHF---GIPVGVVINKYDLNDE---IAE  161 (179)
T ss_pred             cCCCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCCc-ccHHHHHHHHHHHHHc---CCCEEEEEeCCCCCcc---hHH
Confidence            567899999997642  223456788999999998874 3566666666666544   5678999999996432   234


Q ss_pred             HHHHHHHhcCCCEEE
Q psy2646          98 VAKEYADHLKIPFLE  112 (168)
Q Consensus        98 ~~~~~~~~~~~~~~~  112 (168)
                      +..++.+.++++++.
T Consensus       162 ~~~~~~~~~~~~vl~  176 (179)
T cd03110         162 EIEDYCEEEGIPILG  176 (179)
T ss_pred             HHHHHHHHcCCCeEE
Confidence            566677777877653

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>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=97.63  E-value=0.00014  Score=50.32  Aligned_cols=64  Identities=23%  Similarity=0.280  Sum_probs=44.9

Q ss_pred             EEEEEEeCCCchh----hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          20 TLIVIWDTAGQER----FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        20 ~~l~l~Dt~G~~~----~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      ..+.|+||||...    ...++..|+..+|++|+|++++..-+-.+...+.......   ...+++|.||.
T Consensus       101 ~~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~---~~~~i~V~nk~  168 (168)
T PF00350_consen  101 RNLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD---KSRTIFVLNKA  168 (168)
T ss_dssp             CSEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT---CSSEEEEEE-G
T ss_pred             cceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC---CCeEEEEEcCC
Confidence            3589999999743    2356778899999999999999865544555555544333   34589999984

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 ....

>KOG0466|consensus

Probab=97.61  E-value=5.6e-05  Score=57.08  Aligned_cols=111  Identities=10%  Similarity=0.098  Sum_probs=66.0

Q ss_pred             EEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--HHH
Q psy2646          21 LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--YQV   98 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--~~~   98 (168)
                      .+.|.|.||++-+-.....-..-.|+.++++..+.+-.--...+-+..+.-+.  -.-++++-||+|+..+.+..  .++
T Consensus       126 HVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM~--LkhiiilQNKiDli~e~~A~eq~e~  203 (466)
T KOG0466|consen  126 HVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIMK--LKHIIILQNKIDLIKESQALEQHEQ  203 (466)
T ss_pred             EEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHhh--hceEEEEechhhhhhHHHHHHHHHH
Confidence            57899999998542211111223567777776654311111111122221111  24689999999997654322  223


Q ss_pred             HHHHHHhc---CCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          99 AKEYADHL---KIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        99 ~~~~~~~~---~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ++.|....   +.|++++||.-++|++.+.+.++..+.
T Consensus       204 I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIP  241 (466)
T KOG0466|consen  204 IQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIP  241 (466)
T ss_pred             HHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCC
Confidence            44455432   479999999999999888888776653

>smart00053 DYNc Dynamin, GTPase

Probab=97.55  E-value=0.00036  Score=51.53  Aligned_cols=68  Identities=13%  Similarity=0.120  Sum_probs=43.9

Q ss_pred             EEEEEEeCCCchhh-------------cccchhhhcC-CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646          20 TLIVIWDTAGQERF-------------RTITSSYYRG-AHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~-------------~~~~~~~~~~-~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      ..|.|.||||....             ..+...|+++ .+.+++|+|+...-.-.+...+...+.   ..+.|+++|+||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld---~~~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVD---PQGERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHH---HcCCcEEEEEEC
Confidence            57999999997421             2244567774 458889998864322222223333332   236899999999


Q ss_pred             CCCCC
Q psy2646          86 NDQTS   90 (168)
Q Consensus        86 ~Dl~~   90 (168)
                      .|...
T Consensus       202 ~D~~~  206 (240)
T smart00053      202 LDLMD  206 (240)
T ss_pred             CCCCC
Confidence            99865

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=97.46  E-value=0.0043  Score=49.28  Aligned_cols=118  Identities=16%  Similarity=0.231  Sum_probs=68.8

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhccc-----------------------------chhhhc-CCcEEEEEE-eCC
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTI-----------------------------TSSYYR-GAHGIIVVY-DCT   54 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~-----------------------------~~~~~~-~~d~~i~v~-d~~   54 (168)
                      |.........++-..++.+.||+|-..-..+                             ....+. .++..|+|. |.+
T Consensus        77 P~kAvEI~~~~~~~~~VrlIDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgs  156 (492)
T TIGR02836        77 PNEAVEININEGTKFKVRLVDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGT  156 (492)
T ss_pred             cCcceEEeccCCCcccEEEEECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCC
Confidence            3334444444667788999999984321110                             122344 688877777 664


Q ss_pred             --C--hhhH-HHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCC--CCHHHHHHH
Q psy2646          55 --D--QETF-NNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNG--ANVEQAFLT  127 (168)
Q Consensus        55 --~--~~s~-~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~--~~i~~i~~~  127 (168)
                        +  ++.+ +.-..++..++..   ++|++++.|+.|-....  +.+....+...++++++.+|+..-  ..+..+|+.
T Consensus       157 i~dI~Re~y~~aEe~~i~eLk~~---~kPfiivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~  231 (492)
T TIGR02836       157 ITDIPREDYVEAEERVIEELKEL---NKPFIILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDVESMRESDILSVLEE  231 (492)
T ss_pred             ccccccccchHHHHHHHHHHHhc---CCCEEEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHH
Confidence              1  1222 2334567777655   79999999999932221  333344566677888887776533  244444443


Q ss_pred             H
Q psy2646         128 M  128 (168)
Q Consensus       128 l  128 (168)
                      +
T Consensus       232 v  232 (492)
T TIGR02836       232 V  232 (492)
T ss_pred             H
Confidence            3

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.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=97.41  E-value=0.0011  Score=50.59  Aligned_cols=78  Identities=13%  Similarity=0.007  Sum_probs=42.8

Q ss_pred             eEEEEEEEeCCCchhhcccc-------hhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEecC
Q psy2646          18 TRTLIVIWDTAGQERFRTIT-------SSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC--DNVNKLLVGNKN   86 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~-------~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~   86 (168)
                      .+..+.|+||||..+.....       ..++  .+.|+++||..++.......-..++..+...-+  --.++||+.|+.
T Consensus        84 ~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~  163 (313)
T TIGR00991        84 AGFTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHA  163 (313)
T ss_pred             CCeEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECC
Confidence            44689999999976532211       1112  268999999665532111111223333322211  125789999999


Q ss_pred             CCCCCcccC
Q psy2646          87 DQTSKKAVD   95 (168)
Q Consensus        87 Dl~~~~~v~   95 (168)
                      |.......+
T Consensus       164 d~~~pd~~~  172 (313)
T TIGR00991       164 QFSPPDGLE  172 (313)
T ss_pred             ccCCCCCCC
Confidence            976444444

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=97.31  E-value=0.00064  Score=48.24  Aligned_cols=102  Identities=22%  Similarity=0.206  Sum_probs=62.2

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVA   99 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~   99 (168)
                      ..+.|.+.+|.  +..- -.+.-..+.-|+|+|++..+..-.        +....--..=++|+||.||...-..+.+..
T Consensus        97 ~Dll~iEs~GN--L~~~-~sp~L~d~~~v~VidvteGe~~P~--------K~gP~i~~aDllVInK~DLa~~v~~dlevm  165 (202)
T COG0378          97 LDLLFIESVGN--LVCP-FSPDLGDHLRVVVIDVTEGEDIPR--------KGGPGIFKADLLVINKTDLAPYVGADLEVM  165 (202)
T ss_pred             CCEEEEecCcc--eecc-cCcchhhceEEEEEECCCCCCCcc--------cCCCceeEeeEEEEehHHhHHHhCccHHHH
Confidence            56778888882  1110 112222347788888886432100        000000113489999999976544444444


Q ss_pred             HHHHHhc--CCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646         100 KEYADHL--KIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus       100 ~~~~~~~--~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ..-++..  +.+++++|+++|+|++++++|+...+
T Consensus       166 ~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         166 ARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             HHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence            4444444  38999999999999999999987653

>KOG0465|consensus

Probab=97.26  E-value=0.0016  Score=53.52  Aligned_cols=74  Identities=24%  Similarity=0.278  Sum_probs=55.0

Q ss_pred             eeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          13 KKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        13 ~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      ..+..+.+.+.+.||||+-.|..-.+..++--||.|+++|....-.-+...-|.+ +.++   ++|-+..+||+|...
T Consensus        97 t~~~w~~~~iNiIDTPGHvDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ-~~ry---~vP~i~FiNKmDRmG  170 (721)
T KOG0465|consen   97 TYFTWRDYRINIIDTPGHVDFTFEVERALRVLDGAVLVLDAVAGVESQTETVWRQ-MKRY---NVPRICFINKMDRMG  170 (721)
T ss_pred             eeeeeccceeEEecCCCceeEEEEehhhhhhccCeEEEEEcccceehhhHHHHHH-HHhc---CCCeEEEEehhhhcC
Confidence            3444567899999999999988888889999999999998875422222223333 3333   799999999999755

>KOG0464|consensus

Probab=97.26  E-value=8.7e-05  Score=58.30  Aligned_cols=79  Identities=19%  Similarity=0.170  Sum_probs=63.0

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+-+--+.+|.++.++.++||||+-.|+--.+.+++--||.+.|||.+-.-.-+.+..|.+.-    .-++|-.+++||+
T Consensus        89 tiqsaav~fdwkg~rinlidtpghvdf~leverclrvldgavav~dasagve~qtltvwrqad----k~~ip~~~finkm  164 (753)
T KOG0464|consen   89 TIQSAAVNFDWKGHRINLIDTPGHVDFRLEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQAD----KFKIPAHCFINKM  164 (753)
T ss_pred             eeeeeeeecccccceEeeecCCCcceEEEEHHHHHHHhcCeEEEEeccCCcccceeeeehhcc----ccCCchhhhhhhh
Confidence            445566778999999999999999999988899999999999999998654444444555432    3368999999999


Q ss_pred             CCC
Q psy2646          87 DQT   89 (168)
Q Consensus        87 Dl~   89 (168)
                      |..
T Consensus       165 dk~  167 (753)
T KOG0464|consen  165 DKL  167 (753)
T ss_pred             hhh
Confidence            964

>KOG1424|consensus

Probab=97.24  E-value=0.00052  Score=55.14  Aligned_cols=80  Identities=16%  Similarity=0.162  Sum_probs=51.9

Q ss_pred             hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEE
Q psy2646          33 FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLE  112 (168)
Q Consensus        33 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~  112 (168)
                      |+.+|+- +..+|+||.++|+.++--|.. ..+..++.+. .+.+..++++||.||....+..  .-..+....++++++
T Consensus       165 WRQLWRV-lErSDivvqIVDARnPllfr~-~dLe~Yvke~-d~~K~~~LLvNKaDLl~~~qr~--aWa~YF~~~ni~~vf  239 (562)
T KOG1424|consen  165 WRQLWRV-LERSDIVVQIVDARNPLLFRS-PDLEDYVKEV-DPSKANVLLVNKADLLPPEQRV--AWAEYFRQNNIPVVF  239 (562)
T ss_pred             HHHHHHH-HhhcceEEEEeecCCccccCC-hhHHHHHhcc-ccccceEEEEehhhcCCHHHHH--HHHHHHHhcCceEEE
Confidence            3444443 678999999999999743322 2222333222 3456789999999997654322  222455566799999


Q ss_pred             EeccC
Q psy2646         113 TSAKN  117 (168)
Q Consensus       113 vSa~~  117 (168)
                      .||..
T Consensus       240 ~SA~~  244 (562)
T KOG1424|consen  240 FSALA  244 (562)
T ss_pred             Eeccc
Confidence            99987

>KOG3887|consensus

Probab=97.22  E-value=0.0047  Score=45.50  Aligned_cols=116  Identities=22%  Similarity=0.290  Sum_probs=68.5

Q ss_pred             EEEEEEEeCCCchhh-cc--cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHH-hc-CCCCcEEEEEecCCCCCC-c
Q psy2646          19 RTLIVIWDTAGQERF-RT--ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YA-CDNVNKLLVGNKNDQTSK-K   92 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~-~~--~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~-~~-~~~~piivv~nK~Dl~~~-~   92 (168)
                      -+.+++||.|||-.+ .+  -.+..++++.++|||+|+-+. -.+.+..+...+.+ +. ++++.+=|.+.|.|-... -
T Consensus        74 finf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALifvIDaQdd-y~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~  152 (347)
T KOG3887|consen   74 FINFQVWDFPGQMDFFDPSFDYEMIFRGVGALIFVIDAQDD-YMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDF  152 (347)
T ss_pred             hcceEEeecCCccccCCCccCHHHHHhccCeEEEEEechHH-HHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhh
Confidence            367999999998543 22  235578999999999999753 23333333333322 22 567888899999995321 1


Q ss_pred             ccCHH-HHHHH----HHhcC-----CCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          93 AVDYQ-VAKEY----ADHLK-----IPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        93 ~v~~~-~~~~~----~~~~~-----~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      .+..+ .+.+-    ....|     +.++-+| .-...|.+.|..++..+..+.
T Consensus       153 kietqrdI~qr~~d~l~d~gle~v~vsf~LTS-IyDHSIfEAFSkvVQkLipqL  205 (347)
T KOG3887|consen  153 KIETQRDIHQRTNDELADAGLEKVQVSFYLTS-IYDHSIFEAFSKVVQKLIPQL  205 (347)
T ss_pred             hhhhHHHHHHHhhHHHHhhhhccceEEEEEee-ecchHHHHHHHHHHHHHhhhc
Confidence            11111 11111    11122     3445544 445678888888887776543

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.21  E-value=0.001  Score=50.38  Aligned_cols=56  Identities=21%  Similarity=0.215  Sum_probs=39.2

Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHHhc--CCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYADHL--KIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~--~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ..+-++|+||+|+........+...+..+..  ..+++++||++|+|++++++||...
T Consensus       230 ~~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        230 AAASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             hcCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            3567999999999642111222233333332  4789999999999999999999764

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=97.16  E-value=0.0067  Score=45.95  Aligned_cols=112  Identities=18%  Similarity=0.199  Sum_probs=71.3

Q ss_pred             CeEEEEEEEeCCC--chhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCccc
Q psy2646          17 RTRTLIVIWDTAG--QERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAV   94 (168)
Q Consensus        17 ~~~~~l~l~Dt~G--~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v   94 (168)
                      .-++.+.|.+|.|  |.+     -.....+|.++++.-..-.+..+-++   .-+.+     +-=++|+||.|...... 
T Consensus       141 AaG~DvIIVETVGvGQse-----v~I~~~aDt~~~v~~pg~GD~~Q~iK---~GimE-----iaDi~vINKaD~~~A~~-  206 (323)
T COG1703         141 AAGYDVIIVETVGVGQSE-----VDIANMADTFLVVMIPGAGDDLQGIK---AGIME-----IADIIVINKADRKGAEK-  206 (323)
T ss_pred             hcCCCEEEEEecCCCcch-----hHHhhhcceEEEEecCCCCcHHHHHH---hhhhh-----hhheeeEeccChhhHHH-
Confidence            3456788999986  433     23566799988887665444444332   22222     33489999999654211 


Q ss_pred             CHHH---HHHHH------HhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCC
Q psy2646          95 DYQV---AKEYA------DHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP  142 (168)
Q Consensus        95 ~~~~---~~~~~------~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~  142 (168)
                      ...+   ...+.      +.|..+++.+||.+|.|++++++.+.++...........
T Consensus       207 a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~~~sg~~~  263 (323)
T COG1703         207 AARELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFLTESGLFT  263 (323)
T ss_pred             HHHHHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHHHhccccc
Confidence            1111   11122      123468999999999999999999999888776665443

>KOG1143|consensus

Probab=97.12  E-value=0.0058  Score=47.76  Aligned_cols=101  Identities=18%  Similarity=0.235  Sum_probs=61.7

Q ss_pred             EEEEEEeCCCchhhcccchhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYR--GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--   95 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--   95 (168)
                      -.+.|+|.+|+.+|....-.-+.  ..|-..++++++..-.. ..++-+..+...   ++|++++++|+|+.....+.  
T Consensus       249 KlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~-tTrEHLgl~~AL---~iPfFvlvtK~Dl~~~~~~~~t  324 (591)
T KOG1143|consen  249 KLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITW-TTREHLGLIAAL---NIPFFVLVTKMDLVDRQGLKKT  324 (591)
T ss_pred             ceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcc-ccHHHHHHHHHh---CCCeEEEEEeeccccchhHHHH
Confidence            35789999999998664333222  25677788887764221 122233333333   79999999999986542221  


Q ss_pred             ----------------------HHHHHHHHHh----cCCCEEEEeccCCCCHHHH
Q psy2646          96 ----------------------YQVAKEYADH----LKIPFLETSAKNGANVEQA  124 (168)
Q Consensus        96 ----------------------~~~~~~~~~~----~~~~~~~vSa~~~~~i~~i  124 (168)
                                            ..++...+.+    .=.|+|.+|+.+|+|++-+
T Consensus       325 v~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll  379 (591)
T KOG1143|consen  325 VKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLL  379 (591)
T ss_pred             HHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHH
Confidence                                  1122222222    2258999999999997543

>PTZ00258 GTP-binding protein; Provisional

Probab=97.07  E-value=0.012  Score=46.59  Aligned_cols=45  Identities=18%  Similarity=0.085  Sum_probs=29.0

Q ss_pred             CCCcEEEEEecC--CCCCCcccCHHHHHHHHHhc-CCCEEEEeccCCC
Q psy2646          75 DNVNKLLVGNKN--DQTSKKAVDYQVAKEYADHL-KIPFLETSAKNGA  119 (168)
Q Consensus        75 ~~~piivv~nK~--Dl~~~~~v~~~~~~~~~~~~-~~~~~~vSa~~~~  119 (168)
                      ..+|+++++|+.  |+.....-..+.+..++... +.+++.+||+-..
T Consensus       219 t~KP~iyv~N~~E~D~~~~~~~~~~~l~~~~~~~~~~~~v~~sa~~E~  266 (390)
T PTZ00258        219 TAKPMIYLVNMSEKDFIRQKNKWLAKIKEWVGEKGGGPIIPYSAEFEE  266 (390)
T ss_pred             hcCCEEEEEECchhhhcccchHHHHHHHHHHHhcCCCeEEEeeHHHHH
Confidence            358999999999  76211111234455566666 4789999986554

>KOG0467|consensus

Probab=96.96  E-value=0.0017  Score=54.46  Aligned_cols=71  Identities=24%  Similarity=0.229  Sum_probs=50.7

Q ss_pred             eeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646          13 KKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus        13 ~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      +..-.+++.+.+.|+||+-+|.+......+-+|+.++++|+...-.-+... .+.+..   ..+...++|+||+|
T Consensus        65 is~~~~~~~~nlidspghvdf~sevssas~l~d~alvlvdvvegv~~qt~~-vlrq~~---~~~~~~~lvinkid  135 (887)
T KOG0467|consen   65 ISLLHKDYLINLIDSPGHVDFSSEVSSASRLSDGALVLVDVVEGVCSQTYA-VLRQAW---IEGLKPILVINKID  135 (887)
T ss_pred             cccccCceEEEEecCCCccchhhhhhhhhhhcCCcEEEEeeccccchhHHH-HHHHHH---HccCceEEEEehhh
Confidence            333457789999999999999888888888899999999998652222211 122221   12456799999999

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=96.94  E-value=0.0051  Score=45.76  Aligned_cols=73  Identities=14%  Similarity=0.072  Sum_probs=41.3

Q ss_pred             CeEEEEEEEeCCCchhhcc---c-------chhhhc--CCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCC--CCcEEE
Q psy2646          17 RTRTLIVIWDTAGQERFRT---I-------TSSYYR--GAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACD--NVNKLL   81 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~---~-------~~~~~~--~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~--~~piiv   81 (168)
                      ..+..+.||||||......   .       ...++.  ..|+++++..++... ...+ ..++..+....+.  -.++++
T Consensus        76 ~~g~~i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l~~~~idvIL~V~rlD~~r~~~~d-~~llk~I~e~fG~~i~~~~iv  154 (249)
T cd01853          76 VDGFKLNIIDTPGLLESVMDQRVNRKILSSIKRYLKKKTPDVVLYVDRLDMYRRDYLD-LPLLRAITDSFGPSIWRNAIV  154 (249)
T ss_pred             ECCeEEEEEECCCcCcchhhHHHHHHHHHHHHHHHhccCCCEEEEEEcCCCCCCCHHH-HHHHHHHHHHhChhhHhCEEE
Confidence            3346789999999764311   0       122333  578888887666431 2221 2233333322111  257999


Q ss_pred             EEecCCCCC
Q psy2646          82 VGNKNDQTS   90 (168)
Q Consensus        82 v~nK~Dl~~   90 (168)
                      |.||+|...
T Consensus       155 V~T~~d~~~  163 (249)
T cd01853         155 VLTHAASSP  163 (249)
T ss_pred             EEeCCccCC
Confidence            999999754

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.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=96.92  E-value=0.0024  Score=44.81  Aligned_cols=45  Identities=31%  Similarity=0.175  Sum_probs=28.5

Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          45 HGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        45 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      |++++|+|+.++.+... ..+...+. ....+.|+++|+||+|+...
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~-l~~~~kp~IlVlNK~DL~~~   45 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVL-QAGGNKKLVLVLNKIDLVPK   45 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHH-hccCCCCEEEEEehhhcCCH
Confidence            78999999988633211 12222221 11235899999999999643

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

>KOG1954|consensus

Probab=96.88  E-value=0.00093  Score=51.94  Aligned_cols=68  Identities=21%  Similarity=0.297  Sum_probs=48.3

Q ss_pred             EEEEEeCCCch-----------hhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          21 LIVIWDTAGQE-----------RFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        21 ~l~l~Dt~G~~-----------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.|.||||.-           .|......|...+|.++++||+...+--++....+..+..+   .-.+-||.||.|..
T Consensus       148 ~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~---EdkiRVVLNKADqV  224 (532)
T KOG1954|consen  148 SVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGH---EDKIRVVLNKADQV  224 (532)
T ss_pred             heeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCC---cceeEEEecccccc
Confidence            57899999942           13344577889999999999998665444444455555444   56788999999975


Q ss_pred             CC
Q psy2646          90 SK   91 (168)
Q Consensus        90 ~~   91 (168)
                      ..
T Consensus       225 dt  226 (532)
T KOG1954|consen  225 DT  226 (532)
T ss_pred             CH
Confidence            43

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=96.78  E-value=0.0015  Score=48.45  Aligned_cols=104  Identities=17%  Similarity=0.220  Sum_probs=62.4

Q ss_pred             EEEEEEeCCC--chhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHH
Q psy2646          20 TLIVIWDTAG--QERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQ   97 (168)
Q Consensus        20 ~~l~l~Dt~G--~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~   97 (168)
                      +.+.|.+|.|  |.+.     ....-+|.+++|..+.-.+..+-++   .-+.+     .+=++|+||.|.+..+.. ..
T Consensus       122 ~D~IiiETVGvGQsE~-----~I~~~aD~~v~v~~Pg~GD~iQ~~K---aGimE-----iaDi~vVNKaD~~gA~~~-~~  187 (266)
T PF03308_consen  122 FDVIIIETVGVGQSEV-----DIADMADTVVLVLVPGLGDEIQAIK---AGIME-----IADIFVVNKADRPGADRT-VR  187 (266)
T ss_dssp             -SEEEEEEESSSTHHH-----HHHTTSSEEEEEEESSTCCCCCTB----TTHHH-----H-SEEEEE--SHHHHHHH-HH
T ss_pred             CCEEEEeCCCCCccHH-----HHHHhcCeEEEEecCCCccHHHHHh---hhhhh-----hccEEEEeCCChHHHHHH-HH
Confidence            5678888875  5442     2567799999999877554433322   11222     234899999996543221 12


Q ss_pred             HHHHHHH-------hcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          98 VAKEYAD-------HLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        98 ~~~~~~~-------~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +......       .|..|++.+||.++.|++++++.+.++......
T Consensus       188 ~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~~l~~  234 (266)
T PF03308_consen  188 DLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRDYLKE  234 (266)
T ss_dssp             HHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHH
Confidence            2222221       123589999999999999999999877655443

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>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=96.76  E-value=0.0097  Score=43.09  Aligned_cols=120  Identities=13%  Similarity=0.121  Sum_probs=63.3

Q ss_pred             eeCCeEEEEEEEeCCCchhhcc--------c---chhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEE
Q psy2646          14 KEERTRTLIVIWDTAGQERFRT--------I---TSSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLL   81 (168)
Q Consensus        14 ~~~~~~~~l~l~Dt~G~~~~~~--------~---~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piiv   81 (168)
                      .+++  ..+.|+||||......        +   ......+.|+++||+.++... ....+..++..+-... --.-+||
T Consensus        45 ~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~g~ha~llVi~~~r~t~~~~~~l~~l~~~FG~~-~~k~~iv  121 (212)
T PF04548_consen   45 EVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSPGPHAFLLVIPLGRFTEEDREVLELLQEIFGEE-IWKHTIV  121 (212)
T ss_dssp             EETT--EEEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT-ESEEEEEEETTB-SHHHHHHHHHHHHHHCGG-GGGGEEE
T ss_pred             eecc--eEEEEEeCCCCCCCcccHHHHHHHHHHHHHhccCCCeEEEEEEecCcchHHHHHHHHHHHHHccHH-HHhHhhH
Confidence            4445  5688999999532111        1   112345789999999998431 1222222333321110 1135888


Q ss_pred             EEecCCCCCCcccCH-------HHHHHHHHhcCCCEEEEecc------CCCCHHHHHHHHHHHHHHHh
Q psy2646          82 VGNKNDQTSKKAVDY-------QVAKEYADHLKIPFLETSAK------NGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~-------~~~~~~~~~~~~~~~~vSa~------~~~~i~~i~~~l~~~~~~~~  136 (168)
                      |.|..|......+..       .....+.+..+-.++..+..      ....+.++|..+-..+..+.
T Consensus       122 vfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~R~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~  189 (212)
T PF04548_consen  122 VFTHADELEDDSLEDYLKKESNEALQELIEKCGGRYHVFNNKTKDKEKDESQVSELLEKIEEMVQENG  189 (212)
T ss_dssp             EEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTTCEEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HhhhccccccccHHHHHhccCchhHhHHhhhcCCEEEEEeccccchhhhHHHHHHHHHHHHHHHHHcC
Confidence            899888655433211       12344556666667766655      22456777777776666554

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 ....

>KOG0460|consensus

Probab=96.66  E-value=0.009  Score=46.13  Aligned_cols=117  Identities=15%  Similarity=0.137  Sum_probs=67.0

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc-cC--H
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA-VD--Y   96 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~-v~--~   96 (168)
                      -..-=.|.||+.+|....-.-....|+.|+|+.++|.. +...++-+-...+..  =..++|.+||.|+....+ ++  .
T Consensus       117 RhYaH~DCPGHADYIKNMItGaaqMDGaILVVaatDG~-MPQTrEHlLLArQVG--V~~ivvfiNKvD~V~d~e~leLVE  193 (449)
T KOG0460|consen  117 RHYAHTDCPGHADYIKNMITGAAQMDGAILVVAATDGP-MPQTREHLLLARQVG--VKHIVVFINKVDLVDDPEMLELVE  193 (449)
T ss_pred             cccccCCCCchHHHHHHhhcCccccCceEEEEEcCCCC-CcchHHHHHHHHHcC--CceEEEEEecccccCCHHHHHHHH
Confidence            34556899999888665445566789999999998852 222222222222331  145788899999874322 21  1


Q ss_pred             HHHHHHHHhcC-----CCEEEEec---cCCCCH---HHHHHHHHHHHHHHhccC
Q psy2646          97 QVAKEYADHLK-----IPFLETSA---KNGANV---EQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        97 ~~~~~~~~~~~-----~~~~~vSa---~~~~~i---~~i~~~l~~~~~~~~~~~  139 (168)
                      -+.+++...++     +|++.-||   ..|.+-   .+.+..|++.+....+.+
T Consensus       194 mE~RElLse~gf~Gd~~PvI~GSAL~ALeg~~peig~~aI~kLldavDsyip~P  247 (449)
T KOG0460|consen  194 MEIRELLSEFGFDGDNTPVIRGSALCALEGRQPEIGLEAIEKLLDAVDSYIPTP  247 (449)
T ss_pred             HHHHHHHHHcCCCCCCCCeeecchhhhhcCCCccccHHHHHHHHHHHhccCCCc
Confidence            23445556664     57886654   455321   234455555555544433

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.57  E-value=0.012  Score=43.11  Aligned_cols=63  Identities=29%  Similarity=0.311  Sum_probs=45.5

Q ss_pred             EEEEEEeC-CCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCC-CcEEEEEecCCCC
Q psy2646          20 TLIVIWDT-AGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN-VNKLLVGNKNDQT   89 (168)
Q Consensus        20 ~~l~l~Dt-~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~-~piivv~nK~Dl~   89 (168)
                      ..+.+.|| +|.+.|.   +...+++|.+|.|+|++- .++..+..+.....+.   + .++.+|+||.|-.
T Consensus       134 ~e~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~-~sl~taeri~~L~~el---g~k~i~~V~NKv~e~  198 (255)
T COG3640         134 YEVVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSY-KSLRTAERIKELAEEL---GIKRIFVVLNKVDEE  198 (255)
T ss_pred             CcEEEEecccchhhhc---cccccCCCEEEEEeCCcH-HHHHHHHHHHHHHHHh---CCceEEEEEeeccch
Confidence            56778888 5777665   467889999999999984 3555555544443333   4 7899999999853

>KOG0459|consensus

Probab=96.57  E-value=0.0044  Score=48.74  Aligned_cols=116  Identities=19%  Similarity=0.147  Sum_probs=68.0

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChh---hHHHHHHHHHHHHHhc-CCCCcEEEEEec
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE---TFNNLKQWLEEIDRYA-CDNVNKLLVGNK   85 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~~~~~~~~i~~~~-~~~~piivv~nK   85 (168)
                      .-.-.+....-++.+.|.||+..|-+..-.-..+||.-++|+++...+   .|+.-..-.+...... ..-...|+++||
T Consensus       147 vGrA~FEte~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~gv~~lVv~vNK  226 (501)
T KOG0459|consen  147 VGRAYFETENKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINK  226 (501)
T ss_pred             eeeEEEEecceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhhccceEEEEEEe
Confidence            333444455568999999999887664444567789888888775321   2332211111111111 123567999999


Q ss_pred             CCCCCCcc--cCHHH----HHHHHHhcC------CCEEEEeccCCCCHHHHH
Q psy2646          86 NDQTSKKA--VDYQV----AKEYADHLK------IPFLETSAKNGANVEQAF  125 (168)
Q Consensus        86 ~Dl~~~~~--v~~~~----~~~~~~~~~------~~~~~vSa~~~~~i~~i~  125 (168)
                      +|.+.-..  -..++    ...|....+      ..++++|..+|.++.+-.
T Consensus       227 MddPtvnWs~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~  278 (501)
T KOG0459|consen  227 MDDPTVNWSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRT  278 (501)
T ss_pred             ccCCccCcchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhcc
Confidence            99764211  11222    223333222      579999999999987754

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.49  E-value=0.024  Score=42.75  Aligned_cols=98  Identities=18%  Similarity=0.167  Sum_probs=59.4

Q ss_pred             eEEEEEEEeCCCchhhcccc----h---hh-----hcCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646          18 TRTLIVIWDTAGQERFRTIT----S---SY-----YRGAHGIIVVYDCTDQ-ETFNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~----~---~~-----~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      .++.+.|.||||........    .   ..     -...|.+++|+|++.. +.+..+.    .+.+.   -.+.-++.|
T Consensus       153 ~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~~----~f~~~---~~~~g~IlT  225 (272)
T TIGR00064       153 RNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQAK----VFNEA---VGLTGIILT  225 (272)
T ss_pred             CCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHHHHHH----HHHhh---CCCCEEEEE
Confidence            44789999999975432211    0   01     1238999999999743 2333322    22221   124588899


Q ss_pred             cCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHH
Q psy2646          85 KNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM  128 (168)
Q Consensus        85 K~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l  128 (168)
                      |.|....-.    ....+....+.|+.+++  +|++++++-..-
T Consensus       226 KlDe~~~~G----~~l~~~~~~~~Pi~~~~--~Gq~~~dl~~~~  263 (272)
T TIGR00064       226 KLDGTAKGG----IILSIAYELKLPIKFIG--VGEKIDDLAPFD  263 (272)
T ss_pred             ccCCCCCcc----HHHHHHHHHCcCEEEEe--CCCChHhCccCC
Confidence            999754322    23344555689999998  888887765433

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.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=96.34  E-value=0.072  Score=41.85  Aligned_cols=45  Identities=18%  Similarity=0.072  Sum_probs=28.9

Q ss_pred             CCCcEEEEEecCCCCC-CcccCHHHHHHHHHhcCCCEEEEeccCCC
Q psy2646          75 DNVNKLLVGNKNDQTS-KKAVDYQVAKEYADHLKIPFLETSAKNGA  119 (168)
Q Consensus        75 ~~~piivv~nK~Dl~~-~~~v~~~~~~~~~~~~~~~~~~vSa~~~~  119 (168)
                      ..+|+++++|+.|..- ...-....+.+++...+.+++.+||.-..
T Consensus       198 t~KP~i~v~N~~e~~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~E~  243 (364)
T PRK09601        198 TAKPVLYVANVDEDDLADGNPYVKKVREIAAKEGAEVVVICAKIEA  243 (364)
T ss_pred             ccCCeEEEEECCccccccccHHHHHHHHHHHHcCCeEEEEEHHHHH
Confidence            3689999999988521 11112244555665668889999985443

>KOG1486|consensus

Probab=96.27  E-value=0.085  Score=39.35  Aligned_cols=52  Identities=19%  Similarity=0.156  Sum_probs=36.5

Q ss_pred             CcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          77 VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        77 ~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ++++.|.||+|     +++.++...++..-+  -+-+|+.-+-|++.+++.+...+.--
T Consensus       239 ~~ClYvYnKID-----~vs~eevdrlAr~Pn--svViSC~m~lnld~lle~iWe~l~L~  290 (364)
T KOG1486|consen  239 IKCLYVYNKID-----QVSIEEVDRLARQPN--SVVISCNMKLNLDRLLERIWEELNLV  290 (364)
T ss_pred             EEEEEEeeccc-----eecHHHHHHHhcCCC--cEEEEeccccCHHHHHHHHHHHhceE
Confidence            55666677776     355566666666543  45667788899999999999887653

>COG1161 Predicted GTPases [General function prediction only]

Probab=96.22  E-value=0.021  Score=44.13  Aligned_cols=93  Identities=23%  Similarity=0.164  Sum_probs=60.3

Q ss_pred             CCch-hhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhc
Q psy2646          28 AGQE-RFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHL  106 (168)
Q Consensus        28 ~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~  106 (168)
                      +|+. ++.......+..+|+++.|+|+.++.+...-  .+..+.    .+.|.++|+||.|+..... ...=...+.+..
T Consensus        18 ~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~~--~l~~~v----~~k~~i~vlNK~DL~~~~~-~~~W~~~~~~~~   90 (322)
T COG1161          18 PGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRNP--ELERIV----KEKPKLLVLNKADLAPKEV-TKKWKKYFKKEE   90 (322)
T ss_pred             CCchHHHHHHHHHhcccCCEEEEEEeccccccccCc--cHHHHH----ccCCcEEEEehhhcCCHHH-HHHHHHHHHhcC
Confidence            6653 4444556678899999999999998653321  122221    2455699999999976433 222223344444


Q ss_pred             CCCEEEEeccCCCCHHHHHHH
Q psy2646         107 KIPFLETSAKNGANVEQAFLT  127 (168)
Q Consensus       107 ~~~~~~vSa~~~~~i~~i~~~  127 (168)
                      +...+.+++..+.+...+...
T Consensus        91 ~~~~~~v~~~~~~~~~~i~~~  111 (322)
T COG1161          91 GIKPIFVSAKSRQGGKKIRKA  111 (322)
T ss_pred             CCccEEEEeecccCccchHHH
Confidence            677889999999887776643

>KOG0448|consensus

Probab=96.14  E-value=0.032  Score=46.70  Aligned_cols=93  Identities=19%  Similarity=0.262  Sum_probs=56.6

Q ss_pred             EEEEEeCCCch---hhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHH
Q psy2646          21 LIVIWDTAGQE---RFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQ   97 (168)
Q Consensus        21 ~l~l~Dt~G~~---~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~   97 (168)
                      .+.+.|.||.+   ........+-.++|++|||+.+.+..+..+ .+++....   ..+.-++++.||+|....+.-..+
T Consensus       207 DivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se-k~Ff~~vs---~~KpniFIlnnkwDasase~ec~e  282 (749)
T KOG0448|consen  207 DIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE-KQFFHKVS---EEKPNIFILNNKWDASASEPECKE  282 (749)
T ss_pred             cceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH-HHHHHHhh---ccCCcEEEEechhhhhcccHHHHH
Confidence            57899999975   334445667789999999999887644333 33333332   224567778889998754333333


Q ss_pred             HHHHHHHhcC--------CCEEEEeccC
Q psy2646          98 VAKEYADHLK--------IPFLETSAKN  117 (168)
Q Consensus        98 ~~~~~~~~~~--------~~~~~vSa~~  117 (168)
                      .+..-..++.        -.+|+|||+.
T Consensus       283 ~V~~Qi~eL~v~~~~eA~DrvfFVS~~e  310 (749)
T KOG0448|consen  283 DVLKQIHELSVVTEKEAADRVFFVSAKE  310 (749)
T ss_pred             HHHHHHHhcCcccHhhhcCeeEEEeccc
Confidence            3322222222        2478888653

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.13  E-value=0.049  Score=42.03  Aligned_cols=96  Identities=24%  Similarity=0.239  Sum_probs=58.4

Q ss_pred             eEEEEEEEeCCCchhhcc--------cch---h-hhcCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646          18 TRTLIVIWDTAGQERFRT--------ITS---S-YYRGAHGIIVVYDCTDQ-ETFNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~--------~~~---~-~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      ..+.+.|.||||......        +..   . .-...+..++|+|++.. +.+..+..+.    ..   -.+.-++.|
T Consensus       195 ~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a~~f~----~~---~~~~giIlT  267 (318)
T PRK10416        195 RGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQAKAFH----EA---VGLTGIILT  267 (318)
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHHHHHH----hh---CCCCEEEEE
Confidence            457899999999753221        111   0 11246789999999853 2333322211    11   134588999


Q ss_pred             cCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHH
Q psy2646          85 KNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        85 K~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~  126 (168)
                      |.|....-.    .+..+....++|+.+++  +|++++++-.
T Consensus       268 KlD~t~~~G----~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~~  303 (318)
T PRK10416        268 KLDGTAKGG----VVFAIADELGIPIKFIG--VGEGIDDLQP  303 (318)
T ss_pred             CCCCCCCcc----HHHHHHHHHCCCEEEEe--CCCChhhCcc
Confidence            999543222    23345566689999999  8888877654

>KOG0463|consensus

Probab=96.08  E-value=0.019  Score=44.99  Aligned_cols=100  Identities=16%  Similarity=0.164  Sum_probs=56.7

Q ss_pred             EEEEEeCCCchhhcccc--hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--H
Q psy2646          21 LIVIWDTAGQERFRTIT--SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--Y   96 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~--~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--~   96 (168)
                      .+.|+|.+|+++|-...  ...-+..|-..+++-++-. -..-..+-+......   .+|+++|.+|+|+.....+.  .
T Consensus       220 viTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaG-IiGmTKEHLgLALaL---~VPVfvVVTKIDMCPANiLqEtm  295 (641)
T KOG0463|consen  220 VITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAG-IIGMTKEHLGLALAL---HVPVFVVVTKIDMCPANILQETM  295 (641)
T ss_pred             eEEEEeccchhhhhheeeeccccCCCCceEEEeccccc-ceeccHHhhhhhhhh---cCcEEEEEEeeccCcHHHHHHHH
Confidence            57899999999885432  2223346667777655432 111111112222222   68999999999986543221  1


Q ss_pred             HHHHHHH--------------------------HhcCCCEEEEeccCCCCHHHH
Q psy2646          97 QVAKEYA--------------------------DHLKIPFLETSAKNGANVEQA  124 (168)
Q Consensus        97 ~~~~~~~--------------------------~~~~~~~~~vSa~~~~~i~~i  124 (168)
                      ..+..+.                          .+.-+|+|.+|..+|+|+.-+
T Consensus       296 Kll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LL  349 (641)
T KOG0463|consen  296 KLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLL  349 (641)
T ss_pred             HHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHH
Confidence            1111111                          112268999999999997544

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=96.03  E-value=0.15  Score=35.71  Aligned_cols=91  Identities=11%  Similarity=0.101  Sum_probs=67.5

Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHH
Q psy2646          43 GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVE  122 (168)
Q Consensus        43 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~  122 (168)
                      ..|.++|++|.....++..+..=+..+...-- --.+.++++-....+...+...+..+++..+.+|++.+.-....+..
T Consensus        64 rIDlIVFvinl~sk~SL~~ve~SL~~vd~~ff-lGKVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~~  142 (176)
T PF11111_consen   64 RIDLIVFVINLHSKYSLQSVEASLSHVDPSFF-LGKVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGRT  142 (176)
T ss_pred             eeEEEEEEEecCCcccHHHHHHHHhhCChhhh-ccceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHHH
Confidence            47999999999999898888766665521101 12356666666555545688889999999999999999998888887


Q ss_pred             HHHHHHHHHHHH
Q psy2646         123 QAFLTMATEIKK  134 (168)
Q Consensus       123 ~i~~~l~~~~~~  134 (168)
                      .+-+.+.+.+.-
T Consensus       143 ~lAqRLL~~lqi  154 (176)
T PF11111_consen  143 SLAQRLLRMLQI  154 (176)
T ss_pred             HHHHHHHHHHHH
Confidence            777777766554

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=95.85  E-value=0.058  Score=42.47  Aligned_cols=106  Identities=15%  Similarity=0.197  Sum_probs=48.6

Q ss_pred             EEEEEeCCCchhhcccchhh-----hcCCcEEEEEEeCCChhhHHHHHHHH-HHHHHhcCCCCcEEEEEecCCCC-----
Q psy2646          21 LIVIWDTAGQERFRTITSSY-----YRGAHGIIVVYDCTDQETFNNLKQWL-EEIDRYACDNVNKLLVGNKNDQT-----   89 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~~~~-----~~~~d~~i~v~d~~~~~s~~~~~~~~-~~i~~~~~~~~piivv~nK~Dl~-----   89 (168)
                      .+.+||.||.-....-...|     +..-|.+|++.+-.    |....-++ ..+.+.   +.|+.+|-+|+|..     
T Consensus        87 nv~lWDlPG~gt~~f~~~~Yl~~~~~~~yD~fiii~s~r----f~~ndv~La~~i~~~---gK~fyfVRTKvD~Dl~~~~  159 (376)
T PF05049_consen   87 NVTLWDLPGIGTPNFPPEEYLKEVKFYRYDFFIIISSER----FTENDVQLAKEIQRM---GKKFYFVRTKVDSDLYNER  159 (376)
T ss_dssp             TEEEEEE--GGGSS--HHHHHHHTTGGG-SEEEEEESSS------HHHHHHHHHHHHT---T-EEEEEE--HHHHHHHHH
T ss_pred             CCeEEeCCCCCCCCCCHHHHHHHccccccCEEEEEeCCC----CchhhHHHHHHHHHc---CCcEEEEEecccccHhhhh
Confidence            48899999964333223334     44578777766432    43333333 333433   78999999999951     


Q ss_pred             --CCcccCHHHH----HHHH-H---hcC---CCEEEEeccCCC--CHHHHHHHHHHHHH
Q psy2646          90 --SKKAVDYQVA----KEYA-D---HLK---IPFLETSAKNGA--NVEQAFLTMATEIK  133 (168)
Q Consensus        90 --~~~~v~~~~~----~~~~-~---~~~---~~~~~vSa~~~~--~i~~i~~~l~~~~~  133 (168)
                        .++....++.    ++-+ +   ..+   -++|-+|+.+-.  +...+.+.|.+.+.
T Consensus       160 ~~~p~~f~~e~~L~~IR~~c~~~L~k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp  218 (376)
T PF05049_consen  160 RRKPRTFNEEKLLQEIRENCLENLQKAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLP  218 (376)
T ss_dssp             CC-STT--HHTHHHHHHHHHHHHHHCTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-
T ss_pred             ccCCcccCHHHHHHHHHHHHHHHHHHcCCCcCceEEEeCCCcccCChHHHHHHHHHHhH
Confidence              2223332222    2222 1   123   368888987765  35555555554443

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.

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=95.81  E-value=0.045  Score=36.81  Aligned_cols=65  Identities=15%  Similarity=0.176  Sum_probs=45.4

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      +.+.++|+|+..  .......+..+|.++++++.+. .++..+...+..+... ....++.++.|+.+-
T Consensus        45 yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~~-~s~~~~~~~l~~l~~~-~~~~~~~lVvN~~~~  109 (139)
T cd02038          45 YDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPEP-TSITDAYALIKKLAKQ-LRVLNFRVVVNRAES  109 (139)
T ss_pred             CCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCCh-hHHHHHHHHHHHHHHh-cCCCCEEEEEeCCCC
Confidence            678999999753  3333567889999999998873 4555555555555433 234678899999874

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.

>cd01900 YchF YchF subfamily

Probab=95.73  E-value=0.079  Score=40.04  Aligned_cols=34  Identities=24%  Similarity=0.215  Sum_probs=23.6

Q ss_pred             EEEEEeCCCchhhc----ccchh---hhcCCcEEEEEEeCC
Q psy2646          21 LIVIWDTAGQERFR----TITSS---YYRGAHGIIVVYDCT   54 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~----~~~~~---~~~~~d~~i~v~d~~   54 (168)
                      +++++|+||..+-.    .+...   .++.+|++++|+|..
T Consensus        63 ~i~lvD~pGl~~~a~~~~glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          63 TIEFVDIAGLVKGASKGEGLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             EEEEEECCCcCCCCchhhHHHHHHHHHHHhCCEEEEEEeCc
Confidence            59999999964321    12222   357899999999873

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.

>KOG0410|consensus

Probab=95.52  E-value=0.015  Score=44.66  Aligned_cols=105  Identities=16%  Similarity=0.182  Sum_probs=65.2

Q ss_pred             EEEEEEeCCCchh---------hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc----EEEEEecC
Q psy2646          20 TLIVIWDTAGQER---------FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN----KLLVGNKN   86 (168)
Q Consensus        20 ~~l~l~Dt~G~~~---------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p----iivv~nK~   86 (168)
                      ..+.+.||-|--.         |... -.-+..+|.++.|+|++.|+.-......+.-+....-+..|    ++=|=||.
T Consensus       226 ~~vlltDTvGFisdLP~~LvaAF~AT-LeeVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnki  304 (410)
T KOG0410|consen  226 NFVLLTDTVGFISDLPIQLVAAFQAT-LEEVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKI  304 (410)
T ss_pred             cEEEEeechhhhhhCcHHHHHHHHHH-HHHHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhcccc
Confidence            3577889988421         2211 12366899999999999997655444444444443222222    34456777


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      |..+... +       .+.+  ..+.+||.+|.|++++.+++-..+..-
T Consensus       305 D~e~~~~-e-------~E~n--~~v~isaltgdgl~el~~a~~~kv~~~  343 (410)
T KOG0410|consen  305 DYEEDEV-E-------EEKN--LDVGISALTGDGLEELLKAEETKVASE  343 (410)
T ss_pred             ccccccC-c-------cccC--CccccccccCccHHHHHHHHHHHhhhh
Confidence            7644221 1       1122  267889999999999999888776653

>PHA02518 ParA-like protein; Provisional

Probab=95.50  E-value=0.094  Score=37.47  Aligned_cols=67  Identities=12%  Similarity=0.065  Sum_probs=41.4

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh--hhHHHHHHHHHHHHHhcCCCCc-EEEEEecCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ--ETFNNLKQWLEEIDRYACDNVN-KLLVGNKND   87 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~D   87 (168)
                      ..+.+.|+|+||..  ..+....+..+|.+|+++..+..  .....+..++..+... ....| ..++.|+.+
T Consensus        75 ~~~d~viiD~p~~~--~~~~~~~l~~aD~viip~~ps~~~~~~~~~~~~~~~~~~~~-~~~~~~~~iv~n~~~  144 (211)
T PHA02518         75 SGYDYVVVDGAPQD--SELARAALRIADMVLIPVQPSPFDIWAAPDLVELIKARQEV-TDGLPKFAFIISRAI  144 (211)
T ss_pred             ccCCEEEEeCCCCc--cHHHHHHHHHCCEEEEEeCCChhhHHHHHHHHHHHHHHHhh-CCCCceEEEEEeccC
Confidence            34689999999873  34456778899999999987742  2233333334333222 22344 456667765

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=95.41  E-value=0.21  Score=37.49  Aligned_cols=80  Identities=24%  Similarity=0.311  Sum_probs=55.3

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVA   99 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~   99 (168)
                      ..+.|.|+|.--.  --.-..+.++|.+|+|--.+ +-.++++...++....+   +.|..+|.||.++..    +  +.
T Consensus       164 ~~~~IIDsaaG~g--CpVi~sl~~aD~ai~VTEPT-p~glhD~kr~~el~~~f---~ip~~iViNr~~~g~----s--~i  231 (284)
T COG1149         164 ADLLIIDSAAGTG--CPVIASLKGADLAILVTEPT-PFGLHDLKRALELVEHF---GIPTGIVINRYNLGD----S--EI  231 (284)
T ss_pred             cceeEEecCCCCC--ChHHHhhccCCEEEEEecCC-ccchhHHHHHHHHHHHh---CCceEEEEecCCCCc----h--HH
Confidence            4678888875422  11234688999999997666 34577777777766665   799999999996432    1  56


Q ss_pred             HHHHHhcCCCEE
Q psy2646         100 KEYADHLKIPFL  111 (168)
Q Consensus       100 ~~~~~~~~~~~~  111 (168)
                      ++++...+++++
T Consensus       232 e~~~~e~gi~il  243 (284)
T COG1149         232 EEYCEEEGIPIL  243 (284)
T ss_pred             HHHHHHcCCCee
Confidence            678877776654

>KOG2423|consensus

Probab=95.33  E-value=0.11  Score=41.21  Aligned_cols=93  Identities=15%  Similarity=0.096  Sum_probs=55.8

Q ss_pred             ccchhhh---cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEE
Q psy2646          35 TITSSYY---RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFL  111 (168)
Q Consensus        35 ~~~~~~~---~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~  111 (168)
                      .+|...|   ..+|++|-|+|+.||..-. ....-..+... .+..-+|+|.||+||..- .++..=+..+.+.+..--|
T Consensus       202 RIW~ELyKViDSSDVvvqVlDARDPmGTr-c~~ve~ylkke-~phKHli~vLNKvDLVPt-wvt~~Wv~~lSkeyPTiAf  278 (572)
T KOG2423|consen  202 RIWGELYKVIDSSDVVVQVLDARDPMGTR-CKHVEEYLKKE-KPHKHLIYVLNKVDLVPT-WVTAKWVRHLSKEYPTIAF  278 (572)
T ss_pred             HHHHHHHHhhcccceeEEeeeccCCcccc-cHHHHHHHhhc-CCcceeEEEeeccccccH-HHHHHHHHHHhhhCcceee
Confidence            3455444   4689999999999985311 11111222222 556789999999999643 2332333445566655567


Q ss_pred             EEeccCCCCHHHHHHHHHH
Q psy2646         112 ETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus       112 ~vSa~~~~~i~~i~~~l~~  130 (168)
                      ..|..+..|--.++..+-.
T Consensus       279 HAsi~nsfGKgalI~llRQ  297 (572)
T KOG2423|consen  279 HASINNSFGKGALIQLLRQ  297 (572)
T ss_pred             ehhhcCccchhHHHHHHHH
Confidence            7777777775555554443

>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=95.29  E-value=0.11  Score=33.34  Aligned_cols=62  Identities=18%  Similarity=0.117  Sum_probs=42.9

Q ss_pred             EEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCC-CCcEEEEEec
Q psy2646          21 LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD-NVNKLLVGNK   85 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~piivv~nK   85 (168)
                      .+.+.|+|+...  ......+..+|.++++++.+. .++..+..++..+.+.... ...+.+|+|+
T Consensus        44 D~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          44 DYVVVDLGRSLD--EVSLAALDQADRVFLVTQQDL-PSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             CEEEEeCCCCcC--HHHHHHHHHcCeEEEEecCCh-HHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            688999998643  223456788999999887764 4677777777776555333 4567777775

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.

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=95.26  E-value=0.17  Score=39.64  Aligned_cols=70  Identities=20%  Similarity=0.275  Sum_probs=56.1

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      ..+.+.++|.|  .-+......++.++|-+++|++.+ ..+.....+++..+++......+..+++|+.+...
T Consensus       216 ~~~~~vV~Dlp--~~~~~~t~~vL~~Sd~iviv~e~s-l~slR~ak~lld~l~~~r~~~~~p~lv~n~~~~~~  285 (366)
T COG4963         216 GSFDFVVVDLP--NIWTDWTRQVLSGSDEIVIVAEPS-LASLRNAKELLDELKRLRPNDPKPILVLNRVGVPK  285 (366)
T ss_pred             ccCCeEEEcCC--CccchHHHHHHhcCCeEEEEeccc-HHHHHHHHHHHHHHHHhCCCCCCceEEeeecCCCC
Confidence            34678999999  334556678999999999999887 35788888899998887766788899999998643

>KOG2486|consensus

Probab=95.15  E-value=0.042  Score=41.39  Aligned_cols=104  Identities=21%  Similarity=0.210  Sum_probs=59.8

Q ss_pred             EEEEEEeCCCc----------hhhcccchhhhcCCc---EEEEEEeCCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646          20 TLIVIWDTAGQ----------ERFRTITSSYYRGAH---GIIVVYDCTDQ--ETFNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus        20 ~~l~l~Dt~G~----------~~~~~~~~~~~~~~d---~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      -.+.+.|.||-          .++..+...|+.+-+   -+.+++|++-+  ........|+.+   +   ++|..+|.|
T Consensus       183 ~~~~~vDlPG~~~a~y~~~~~~d~~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge---~---~VP~t~vfT  256 (320)
T KOG2486|consen  183 KSWYEVDLPGYGRAGYGFELPADWDKFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGE---N---NVPMTSVFT  256 (320)
T ss_pred             ceEEEEecCCcccccCCccCcchHhHhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhh---c---CCCeEEeee
Confidence            46889999991          234445566665433   35566677643  222222333333   2   799999999


Q ss_pred             cCCCCCC------cccC-HHH-HHHHH---HhcCCCEEEEeccCCCCHHHHHHHHH
Q psy2646          85 KNDQTSK------KAVD-YQV-AKEYA---DHLKIPFLETSAKNGANVEQAFLTMA  129 (168)
Q Consensus        85 K~Dl~~~------~~v~-~~~-~~~~~---~~~~~~~~~vSa~~~~~i~~i~~~l~  129 (168)
                      |+|....      +... ... ...+.   .....|++.+|+.++.|++.++-.+.
T Consensus       257 K~DK~k~~~~~~kKp~~~i~~~f~~l~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~  312 (320)
T KOG2486|consen  257 KCDKQKKVKRTGKKPGLNIKINFQGLIRGVFLVDLPWIYVSSVTSLGRDLLLLHIA  312 (320)
T ss_pred             hhhhhhhccccccCccccceeehhhccccceeccCCceeeecccccCceeeeeehh
Confidence            9996421      1111 000 11111   11235788999999999988876554

>KOG2484|consensus

Probab=95.08  E-value=0.041  Score=43.29  Aligned_cols=55  Identities=18%  Similarity=0.156  Sum_probs=36.8

Q ss_pred             cchhhhcCCcEEEEEEeCCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEecCCCCCCccc
Q psy2646          36 ITSSYYRGAHGIIVVYDCTDQETFN--NLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAV   94 (168)
Q Consensus        36 ~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v   94 (168)
                      -....+..+|++|.|+|+.||.+-.  ++..|....    ..+...|+|.||.||.....+
T Consensus       139 e~rkvve~sDVVleVlDARDPlgtR~~~vE~~V~~~----~gnKkLILVLNK~DLVPrEv~  195 (435)
T KOG2484|consen  139 EFRKVVEASDVVLEVLDARDPLGTRCPEVEEAVLQA----HGNKKLILVLNKIDLVPREVV  195 (435)
T ss_pred             HHHHHHhhhheEEEeeeccCCCCCCChhHHHHHHhc----cCCceEEEEeehhccCCHHHH
Confidence            3344567799999999999985422  333333221    234789999999999765443

>PRK14974 cell division protein FtsY; Provisional

Probab=95.07  E-value=0.19  Score=39.10  Aligned_cols=100  Identities=17%  Similarity=0.092  Sum_probs=59.3

Q ss_pred             EEEEEEEeCCCchhhcc-cc---hhh--hcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRT-IT---SSY--YRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~-~~---~~~--~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      ++.+.|.||+|...... +.   ...  ....|.+++|+|+...+ ..+.+    ..+...   -..--++.||.|....
T Consensus       222 ~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a----~~f~~~---~~~~giIlTKlD~~~~  294 (336)
T PRK14974        222 GIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQA----REFNEA---VGIDGVILTKVDADAK  294 (336)
T ss_pred             CCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHH----HHHHhc---CCCCEEEEeeecCCCC
Confidence            35699999999753221 11   111  23578899999987542 22222    222111   1234788999997543


Q ss_pred             cccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          92 KAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        92 ~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      -.    .+..++...+.|+.+++  +|++++++..+=...
T Consensus       295 ~G----~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~~~~~~~  328 (336)
T PRK14974        295 GG----AALSIAYVIGKPILFLG--VGQGYDDLIPFDPDW  328 (336)
T ss_pred             cc----HHHHHHHHHCcCEEEEe--CCCChhhcccCCHHH
Confidence            22    12344455688999998  799998876543333

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.05  E-value=0.15  Score=40.93  Aligned_cols=86  Identities=17%  Similarity=0.080  Sum_probs=48.2

Q ss_pred             EEEEEEEeCCCchhhcc-cc---hhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCc
Q psy2646          19 RTLIVIWDTAGQERFRT-IT---SSY--YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~-~~---~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~   92 (168)
                      .+.+.|.||+|...... +.   ..+  ....+-++||+|+.-...-.   .....+.+.   -.+.-++.||.|-...-
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~---~~a~~F~~~---~~~~g~IlTKlD~~arg  255 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAE---AQAKAFKDS---VDVGSVIITKLDGHAKG  255 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHH---HHHHHHHhc---cCCcEEEEECccCCCCc
Confidence            57899999999754321 11   111  23467899999987432211   122222221   23568889999965432


Q ss_pred             ccCHHHHHHHHHhcCCCEEEEe
Q psy2646          93 AVDYQVAKEYADHLKIPFLETS  114 (168)
Q Consensus        93 ~v~~~~~~~~~~~~~~~~~~vS  114 (168)
                      .    .+..+....+.|+.+++
T Consensus       256 G----~aLs~~~~t~~PI~fig  273 (429)
T TIGR01425       256 G----GALSAVAATKSPIIFIG  273 (429)
T ss_pred             c----HHhhhHHHHCCCeEEEc
Confidence            2    12234445567776666

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.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=94.88  E-value=0.36  Score=33.38  Aligned_cols=84  Identities=8%  Similarity=0.008  Sum_probs=52.2

Q ss_pred             EEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHH
Q psy2646          21 LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAK  100 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~  100 (168)
                      .+.|+|+||....  .....+..+|.+|++++.+. .++..+..++..+...  ......++.|+.+....  .......
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~~~~~--~~~~~~iv~N~~~~~~~--~~~~~~~  136 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEI-SSLRDADRVKGLLEAL--GIKVVGVIVNRVRPDMV--EGGDMVE  136 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCc-chHHHHHHHHHHHHHc--CCceEEEEEeCCccccc--chhhHHH
Confidence            6899999976432  23445788999999997774 3555666666665443  12456889999985432  1222233


Q ss_pred             HHHHhcCCCEE
Q psy2646         101 EYADHLKIPFL  111 (168)
Q Consensus       101 ~~~~~~~~~~~  111 (168)
                      .+.+.++.+++
T Consensus       137 ~~~~~~~~~v~  147 (179)
T cd02036         137 DIEEILGVPLL  147 (179)
T ss_pred             HHHHHhCCCEE
Confidence            45555666654

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>KOG0469|consensus

Probab=94.86  E-value=0.043  Score=44.67  Aligned_cols=69  Identities=25%  Similarity=0.360  Sum_probs=49.4

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ++..+.+.++|.||+-.|.+-....++=.||.+.|+|..+.--.+.-.-+.+.+.+    .+.-+++.||+|.
T Consensus        94 d~~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~E----RIkPvlv~NK~DR  162 (842)
T KOG0469|consen   94 DGNGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAE----RIKPVLVMNKMDR  162 (842)
T ss_pred             CCcceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHh----hccceEEeehhhH
Confidence            45678899999999999988878889999999999998875332222222233322    2334788999994

>PF14331 ImcF-related_N: ImcF-related N-terminal domain

Probab=94.39  E-value=0.18  Score=37.94  Aligned_cols=95  Identities=15%  Similarity=0.148  Sum_probs=51.6

Q ss_pred             CCcEEEEEEeCCChhh--------HHHHHHHHHHH---HHhcCCCCcEEEEEecCCCCCCcccCHH--HHHHHHHhcCCC
Q psy2646          43 GAHGIIVVYDCTDQET--------FNNLKQWLEEI---DRYACDNVNKLLVGNKNDQTSKKAVDYQ--VAKEYADHLKIP  109 (168)
Q Consensus        43 ~~d~~i~v~d~~~~~s--------~~~~~~~~~~i---~~~~~~~~piivv~nK~Dl~~~~~v~~~--~~~~~~~~~~~~  109 (168)
                      ..+|+|+++|+++.-.        -.....+...+   ........||.+++||+|+...-..-..  ........+|+.
T Consensus        25 PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~lg~~~PVYvv~Tk~D~l~GF~ef~~~L~~~~r~q~lG~t  104 (266)
T PF14331_consen   25 PLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTLGVRLPVYVVFTKCDLLPGFDEFFSDLSEEEREQVLGFT  104 (266)
T ss_pred             CCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHhCCCCCeEeeeECCCcccCHHHHHHhCCHHHHhCCcccc
Confidence            4799999999875411        11222333333   3333568999999999998653110000  011122344543


Q ss_pred             EEEEeccCCCC---HHHHHHHHHHHHHHHhc
Q psy2646         110 FLETSAKNGAN---VEQAFLTMATEIKKRVT  137 (168)
Q Consensus       110 ~~~vSa~~~~~---i~~i~~~l~~~~~~~~~  137 (168)
                      +-.-.......   +.+.|+.+...+.....
T Consensus       105 ~~~~~~~~~~~~~~~~~~~~~l~~~L~~~~~  135 (266)
T PF14331_consen  105 FPYDEDADGDAWAWFDEEFDELVARLNARVL  135 (266)
T ss_pred             cCCccccccchHHHHHHHHHHHHHHHHHHHH
Confidence            32223333334   77777777777766544

>KOG0447|consensus

Probab=94.36  E-value=0.45  Score=39.45  Aligned_cols=103  Identities=13%  Similarity=0.186  Sum_probs=62.2

Q ss_pred             eeeCCeEE-EEEEEeCCCch-------------hhcccchhhhcCCcEEEEEEeCCChhh-HHHHHHHHHHHHHhcCCCC
Q psy2646          13 KKEERTRT-LIVIWDTAGQE-------------RFRTITSSYYRGAHGIIVVYDCTDQET-FNNLKQWLEEIDRYACDNV   77 (168)
Q Consensus        13 ~~~~~~~~-~l~l~Dt~G~~-------------~~~~~~~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~   77 (168)
                      +++.|.++ +..+.|.||.-             ....+...|+.+..++|+|+--...+. -..+.++...+.   ..+.
T Consensus       404 ltVKGPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDAERSnVTDLVsq~D---P~Gr  480 (980)
T KOG0447|consen  404 LNVKGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAERSIVTDLVSQMD---PHGR  480 (980)
T ss_pred             EeecCCCcceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcchhhhhHHHHHHhcC---CCCC
Confidence            34445444 67889999953             223456788999999999983332211 112223333332   3367


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhc-----CCCEEEEeccCC
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHL-----KIPFLETSAKNG  118 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~-----~~~~~~vSa~~~  118 (168)
                      ..|+|.+|.|+.+....++..+.++.+..     .+.||.+-.-.|
T Consensus       481 RTIfVLTKVDlAEknlA~PdRI~kIleGKLFPMKALGYfaVVTGrG  526 (980)
T KOG0447|consen  481 RTIFVLTKVDLAEKNVASPSRIQQIIEGKLFPMKALGYFAVVTGKG  526 (980)
T ss_pred             eeEEEEeecchhhhccCCHHHHHHHHhcCccchhhcceeEEEecCC
Confidence            88999999999876566666666655421     245666653333

>TIGR01968 minD_bact septum site-determining protein MinD

Probab=93.79  E-value=0.41  Score=35.33  Aligned_cols=65  Identities=14%  Similarity=-0.002  Sum_probs=45.0

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      .+.+.|+|+|+...  ......+..+|.+|+++..+ ..++..+..++..+....  ..++.++.|+.+.
T Consensus       111 ~~D~viiD~p~~~~--~~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~l~~~~--~~~~~iviN~~~~  175 (261)
T TIGR01968       111 EFDYVIIDCPAGIE--SGFRNAVAPADEAIVVTTPE-VSAVRDADRVIGLLEAKG--IEKIHLIVNRLRP  175 (261)
T ss_pred             hCCEEEEeCCCCcC--HHHHHHHHhCCeEEEEcCCC-cHHHHHHHHHHHHHHHcC--CCceEEEEeCcCc
Confidence            46789999998642  22334577899999988776 456666666666665442  2467889999874

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.

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=93.77  E-value=0.45  Score=40.42  Aligned_cols=72  Identities=15%  Similarity=0.082  Sum_probs=41.7

Q ss_pred             EEEEEEEeCCCchhhc-------cc---chhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCC--CCcEEEEEe
Q psy2646          19 RTLIVIWDTAGQERFR-------TI---TSSYYR--GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD--NVNKLLVGN   84 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~-------~~---~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piivv~n   84 (168)
                      +..+.|+||||.....       .+   ...+++  ..|++|+|..++.......-..++..+....+.  -.-+|||.|
T Consensus       165 G~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFT  244 (763)
T TIGR00993       165 GVKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLT  244 (763)
T ss_pred             CceEEEEECCCCCccccchHHHHHHHHHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEe
Confidence            3578999999976431       11   122333  589999998876432221222344444332211  245799999


Q ss_pred             cCCCCC
Q psy2646          85 KNDQTS   90 (168)
Q Consensus        85 K~Dl~~   90 (168)
                      +.|...
T Consensus       245 hgD~lp  250 (763)
T TIGR00993       245 HAASAP  250 (763)
T ss_pred             CCccCC
Confidence            999764

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.

>TIGR01969 minD_arch cell division ATPase MinD, archaeal

Probab=93.73  E-value=1.2  Score=32.70  Aligned_cols=65  Identities=9%  Similarity=0.026  Sum_probs=41.6

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEecCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNKNDQ   88 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~Dl   88 (168)
                      +.+.+.|+|+|+...  ......+..+|.+|++++.+- .++..+..........   +.+ +.++.|+.+.
T Consensus       107 ~~yD~VIiD~p~~~~--~~~~~~l~~ad~vliv~~~~~-~s~~~~~~~~~~~~~~---~~~~~~vv~N~~~~  172 (251)
T TIGR01969       107 DDTDFLLIDAPAGLE--RDAVTALAAADELLLVVNPEI-SSITDALKTKIVAEKL---GTAILGVVLNRVTR  172 (251)
T ss_pred             hhCCEEEEeCCCccC--HHHHHHHHhCCeEEEEECCCC-chHHHHHHHHHHHHhc---CCceEEEEEECCCc
Confidence            347899999998643  233445678999999998764 3455444433333322   334 5799999875

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=93.44  E-value=0.59  Score=37.80  Aligned_cols=86  Identities=17%  Similarity=0.078  Sum_probs=49.1

Q ss_pred             EEEEEEeCCCchhhcccc----h--hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc
Q psy2646          20 TLIVIWDTAGQERFRTIT----S--SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA   93 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~----~--~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~   93 (168)
                      ..+.|.||+|........    .  ..+-.+|.+++|+|++...   ++......+...   -...-+|.||.|-...-.
T Consensus       176 ~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq---~av~~a~~F~~~---l~i~gvIlTKlD~~a~~G  249 (437)
T PRK00771        176 ADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQ---QAKNQAKAFHEA---VGIGGIIITKLDGTAKGG  249 (437)
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccH---HHHHHHHHHHhc---CCCCEEEEecccCCCccc
Confidence            378999999975432110    1  1133688999999987642   222222222211   112367889999643322


Q ss_pred             cCHHHHHHHHHhcCCCEEEEec
Q psy2646          94 VDYQVAKEYADHLKIPFLETSA  115 (168)
Q Consensus        94 v~~~~~~~~~~~~~~~~~~vSa  115 (168)
                          .+..+....+.|+.+++.
T Consensus       250 ----~~ls~~~~~~~Pi~fig~  267 (437)
T PRK00771        250 ----GALSAVAETGAPIKFIGT  267 (437)
T ss_pred             ----HHHHHHHHHCcCEEEEec
Confidence                233455666788887773

>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=93.42  E-value=1.6  Score=31.42  Aligned_cols=90  Identities=16%  Similarity=0.188  Sum_probs=52.8

Q ss_pred             eEEEEEEEeCCCchhhcccc-hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCC-CCc-EEEEEecCCCCCCccc
Q psy2646          18 TRTLIVIWDTAGQERFRTIT-SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD-NVN-KLLVGNKNDQTSKKAV   94 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~p-iivv~nK~Dl~~~~~v   94 (168)
                      ..+.+.|.|++|.--...+. ....+.+|.++++++.+ ..++..+..++..+...... +.+ ..++.|+.+..    .
T Consensus       115 ~~yD~ilID~~g~~~~~~~~~~l~~~~ad~vliv~~p~-~~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~----~  189 (212)
T cd02117         115 DDLDVVLYDVLGDVVCGGFAMPIREGKADEIYIVTSGE-FMALYAANNICKGIRKYAKSGGVRLGGLICNSRNTD----R  189 (212)
T ss_pred             cCCCEEEEecCCCceecccccccccccCcEEEEEeccc-HHHHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCCc----c
Confidence            45789999997754222221 11124799999998775 34555555555555443211 333 45899999853    2


Q ss_pred             CHHHHHHHHHhcCCCEEE
Q psy2646          95 DYQVAKEYADHLKIPFLE  112 (168)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~  112 (168)
                      ......++.+.++.+++.
T Consensus       190 ~~~~~~~~~~~~~~~vl~  207 (212)
T cd02117         190 ETELIDAFAERLGTQVIH  207 (212)
T ss_pred             HHHHHHHHHHHcCCCEEE
Confidence            233455677777765544

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=93.41  E-value=0.79  Score=33.57  Aligned_cols=66  Identities=17%  Similarity=0.118  Sum_probs=42.7

Q ss_pred             EEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          21 LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.|+|+|+..  .......+..+|.+++++..+- .++..+...+..+........++.++.|+.|..
T Consensus       116 D~viiD~pp~~--~~~~~~~l~~ad~vii~~~~~~-~s~~~~~~~~~~l~~~~~~~~~~~iv~n~~~~~  181 (246)
T TIGR03371       116 DWVLIDVPRGP--SPITRQALAAADLVLVVVNADA-ACYATLHQQALALFAGSGPRIGPHFLINQFDPA  181 (246)
T ss_pred             CEEEEECCCCc--hHHHHHHHHhCCeEEEEeCCCH-HHHHHHHHHHHHHhhcccccccceEEeeccCcc
Confidence            79999999853  3444567889999999998763 345555422222222112345678999999853

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.

>TIGR00959 ffh signal recognition particle protein

Probab=93.25  E-value=0.58  Score=37.74  Aligned_cols=88  Identities=16%  Similarity=0.099  Sum_probs=50.7

Q ss_pred             eEEEEEEEeCCCchhhcc-cch---h--hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRT-ITS---S--YYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~-~~~---~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      ..+.+.|.||||...... +..   .  ..-..+.++||+|+...   .++..+...+....  + ..-++.||.|-...
T Consensus       181 ~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tg---q~~~~~a~~f~~~v--~-i~giIlTKlD~~~~  254 (428)
T TIGR00959       181 NGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTG---QDAVNTAKTFNERL--G-LTGVVLTKLDGDAR  254 (428)
T ss_pred             cCCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccch---HHHHHHHHHHHhhC--C-CCEEEEeCccCccc
Confidence            446799999999643221 111   1  12357889999998753   23333333332221  2 23677999995432


Q ss_pred             cccCHHHHHHHHHhcCCCEEEEec
Q psy2646          92 KAVDYQVAKEYADHLKIPFLETSA  115 (168)
Q Consensus        92 ~~v~~~~~~~~~~~~~~~~~~vSa  115 (168)
                      ..    .+..+....++|+.+++.
T Consensus       255 ~G----~~lsi~~~~~~PI~fi~~  274 (428)
T TIGR00959       255 GG----AALSVRSVTGKPIKFIGV  274 (428)
T ss_pred             cc----HHHHHHHHHCcCEEEEeC
Confidence            22    244566667888887774

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.20  E-value=1.1  Score=37.14  Aligned_cols=96  Identities=17%  Similarity=0.223  Sum_probs=54.8

Q ss_pred             EEEEEEEeCCCchhhccc-chh--hh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc
Q psy2646          19 RTLIVIWDTAGQERFRTI-TSS--YY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA   93 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~-~~~--~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~   93 (168)
                      .+.+.|.||+|....... ...  .+  ......++|++.+.  +..++...+..+...    .+.-+|.||.|....  
T Consensus       428 ~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAts--s~~Dl~eii~~f~~~----~~~gvILTKlDEt~~--  499 (559)
T PRK12727        428 DYKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANA--HFSDLDEVVRRFAHA----KPQGVVLTKLDETGR--  499 (559)
T ss_pred             cCCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCC--ChhHHHHHHHHHHhh----CCeEEEEecCcCccc--
Confidence            468999999996432211 000  01  11234667777764  244444444444322    467899999996432  


Q ss_pred             cCHHHHHHHHHhcCCCEEEEeccCCCCH-HHHHH
Q psy2646          94 VDYQVAKEYADHLKIPFLETSAKNGANV-EQAFL  126 (168)
Q Consensus        94 v~~~~~~~~~~~~~~~~~~vSa~~~~~i-~~i~~  126 (168)
                        .-.........++++.+++  +|+.+ +++..
T Consensus       500 --lG~aLsv~~~~~LPI~yvt--~GQ~VPeDL~~  529 (559)
T PRK12727        500 --FGSALSVVVDHQMPITWVT--DGQRVPDDLHR  529 (559)
T ss_pred             --hhHHHHHHHHhCCCEEEEe--CCCCchhhhhc
Confidence              1234455666788888888  67776 44433

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=93.16  E-value=0.17  Score=45.73  Aligned_cols=70  Identities=23%  Similarity=0.216  Sum_probs=44.6

Q ss_pred             EEEEEeCCCchh--------hcccchhhh---------cCCcEEEEEEeCCChhh------H---HHHHHHHHHHHHhcC
Q psy2646          21 LIVIWDTAGQER--------FRTITSSYY---------RGAHGIIVVYDCTDQET------F---NNLKQWLEEIDRYAC   74 (168)
Q Consensus        21 ~l~l~Dt~G~~~--------~~~~~~~~~---------~~~d~~i~v~d~~~~~s------~---~~~~~~~~~i~~~~~   74 (168)
                      +-.++||+|..-        ....|..++         +..+|||+++|+++.-.      .   ..++.-+.++.....
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            356999999421        122354443         34899999999986421      1   123334444444446


Q ss_pred             CCCcEEEEEecCCCCC
Q psy2646          75 DNVNKLLVGNKNDQTS   90 (168)
Q Consensus        75 ~~~piivv~nK~Dl~~   90 (168)
                      ...||.|+.||+|+..
T Consensus       242 ~~~PVYvv~Tk~Dll~  257 (1169)
T TIGR03348       242 ARFPVYLVLTKADLLA  257 (1169)
T ss_pred             CCCCEEEEEecchhhc
Confidence            6899999999999754

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=93.13  E-value=0.72  Score=38.14  Aligned_cols=70  Identities=21%  Similarity=0.274  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEe--ccCCCCHHHHHHHHHHHHH
Q psy2646          59 FNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETS--AKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        59 ~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vS--a~~~~~i~~i~~~l~~~~~  133 (168)
                      +.++...++.+..+   ++|++|++||.|...+.+  .+.+++++.+.+++++.+.  +.-|.|-.++-+.+++.+.
T Consensus       358 l~NL~RHIenvr~F---GvPvVVAINKFd~DTe~E--i~~I~~~c~e~Gv~va~~~~~~~Gg~Gai~LA~aVveA~~  429 (557)
T PRK13505        358 FANLERHIENIRKF---GVPVVVAINKFVTDTDAE--IAALKELCEELGVEVALSEVWAKGGEGGVELAEKVVELIE  429 (557)
T ss_pred             HHHHHHHHHHHHHc---CCCEEEEEeCCCCCCHHH--HHHHHHHHHHcCCCEEEecccccCCcchHHHHHHHHHHHh
Confidence            34444445555444   899999999999865433  3567789999998877443  5556688888888887665

>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=93.05  E-value=0.5  Score=33.87  Aligned_cols=92  Identities=16%  Similarity=0.169  Sum_probs=53.1

Q ss_pred             EEEEEEEeCCCchhhccc----chhh--hcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTI----TSSY--YRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~----~~~~--~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      ++.+.|.||+|.......    +..+  ....+-+++|+|++... ....+..++   ...   + +-=++.||.|-...
T Consensus        83 ~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~---~~~---~-~~~lIlTKlDet~~  155 (196)
T PF00448_consen   83 GYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFY---EAF---G-IDGLILTKLDETAR  155 (196)
T ss_dssp             TSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHH---HHS---S-TCEEEEESTTSSST
T ss_pred             CCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHh---hcc---c-CceEEEEeecCCCC
Confidence            357899999996543211    1111  12577899999998643 233222222   111   1 23567999996432


Q ss_pred             cccCHHHHHHHHHhcCCCEEEEeccCCCCHHH
Q psy2646          92 KAVDYQVAKEYADHLKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        92 ~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~  123 (168)
                      -    -.+..+....+.|+-+++  +|+++++
T Consensus       156 ~----G~~l~~~~~~~~Pi~~it--~Gq~V~D  181 (196)
T PF00448_consen  156 L----GALLSLAYESGLPISYIT--TGQRVDD  181 (196)
T ss_dssp             T----HHHHHHHHHHTSEEEEEE--SSSSTTG
T ss_pred             c----ccceeHHHHhCCCeEEEE--CCCChhc
Confidence            2    234456667788888888  6776644

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 ....

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=92.86  E-value=1.1  Score=30.86  Aligned_cols=88  Identities=11%  Similarity=0.135  Sum_probs=54.0

Q ss_pred             eEEEEEEEeCCCchhhcccchhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEecCCCCCC---
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNKNDQTSK---   91 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~Dl~~~---   91 (168)
                      ..+.+.|.|+|+...  ......+  ..+|.++++...+ ..+...+..++..+.+.   +.+ ..++.|+.+....   
T Consensus        66 ~~yD~VIiD~pp~~~--~~~~~~~~~~~ad~viiV~~p~-~~s~~~~~~~~~~l~~~---~~~~~gvv~N~~~~~~~~~~  139 (169)
T cd02037          66 GELDYLVIDMPPGTG--DEHLTLAQSLPIDGAVIVTTPQ-EVALDDVRKAIDMFKKV---NIPILGVVENMSYFVCPHCG  139 (169)
T ss_pred             CCCCEEEEeCCCCCc--HHHHHHHhccCCCeEEEEECCc-hhhHHHHHHHHHHHHhc---CCCeEEEEEcCCcccCCCCC
Confidence            457899999998632  1111222  5789999998766 45677777777777655   334 4678999874211   


Q ss_pred             --ccc-CHHHHHHHHHhcCCCEE
Q psy2646          92 --KAV-DYQVAKEYADHLKIPFL  111 (168)
Q Consensus        92 --~~v-~~~~~~~~~~~~~~~~~  111 (168)
                        ... .....+.+++.++.+++
T Consensus       140 ~~~~~~~~~~~~~~~~~~~~~~~  162 (169)
T cd02037         140 KKIYIFGKGGGEKLAEELGVPLL  162 (169)
T ss_pred             CcccccCCccHHHHHHHcCCCEE
Confidence              111 12345667776665543

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.

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=92.67  E-value=1.9  Score=32.16  Aligned_cols=68  Identities=12%  Similarity=0.081  Sum_probs=41.8

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE-EEEEecCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK-LLVGNKND   87 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi-ivv~nK~D   87 (168)
                      ..+.+.|+|++|.-.... ....+..+|.+|+++..+ ..++..+..++..+.... ..+.++ .++.|+.+
T Consensus       116 ~~yD~viIDt~g~~~~~~-~~~~l~~AD~viip~~~~-~~sl~~~~~~~~~i~~~~~~~~l~i~giv~N~~~  185 (270)
T PRK13185        116 DDYDVILFDVLGDVVCGG-FAAPLQYADYALIVTAND-FDSIFAANRIAAAIQAKAKNYKVRLAGVIANRSA  185 (270)
T ss_pred             ccCCEEEEecCCCcccCc-ccchhhhCcEEEEEecCc-hhhHHHHHHHHHHHHhhhhccCCCceEEEEeccC
Confidence            357899999987532221 223467799999988664 445555555555543221 335664 47889976

>CHL00175 minD septum-site determining protein; Validated

Probab=92.58  E-value=0.87  Score=34.27  Aligned_cols=65  Identities=12%  Similarity=-0.026  Sum_probs=43.7

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      .+.+.|+|+|+.-.  ......+..+|.+++|++.+ ..++..+..++..+....  ...+.++.|+.+-
T Consensus       126 ~yD~VIiDtpp~~~--~~~~~~l~~aD~viiV~~p~-~~si~~~~~~~~~l~~~~--~~~~~lvvN~~~~  190 (281)
T CHL00175        126 GYDYILIDCPAGID--VGFINAIAPAQEAIVVTTPE-ITAIRDADRVAGLLEANG--IYNVKLLVNRVRP  190 (281)
T ss_pred             CCCEEEEeCCCCCC--HHHHHHHHhcCeeEEEcCCC-hHHHHHHHHHHHHHHHcC--CCceEEEEeccCh
Confidence            57899999998642  23344567799998888765 456666666666665542  2346788899874

>KOG4273|consensus

Probab=92.56  E-value=0.84  Score=34.13  Aligned_cols=89  Identities=22%  Similarity=0.384  Sum_probs=57.6

Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC------------------cc---------
Q psy2646          41 YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK------------------KA---------   93 (168)
Q Consensus        41 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~------------------~~---------   93 (168)
                      ....-+++.+||.+....+..+..|+..-.-+.  =--++++|||.|....                  +.         
T Consensus        76 a~pl~a~vmvfdlse~s~l~alqdwl~htdins--fdillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfg  153 (418)
T KOG4273|consen   76 AEPLQAFVMVFDLSEKSGLDALQDWLPHTDINS--FDILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFG  153 (418)
T ss_pred             ccceeeEEEEEeccchhhhHHHHhhcccccccc--chhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhcc
Confidence            344568999999999888888899987542221  0124678999984210                  00         


Q ss_pred             cC-----------------HHHHHHHHHhcCCCEEEEeccCC------------CCHHHHHHHHHHH
Q psy2646          94 VD-----------------YQVAKEYADHLKIPFLETSAKNG------------ANVEQAFLTMATE  131 (168)
Q Consensus        94 v~-----------------~~~~~~~~~~~~~~~~~vSa~~~------------~~i~~i~~~l~~~  131 (168)
                      ++                 ....++++..+++.+++.++...            +|++.+|.++..+
T Consensus       154 isetegssllgsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ah  220 (418)
T KOG4273|consen  154 ISETEGSSLLGSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAH  220 (418)
T ss_pred             ccccccccccccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhc
Confidence            00                 11234677888999999998433            4677788777644

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=92.54  E-value=2  Score=32.59  Aligned_cols=65  Identities=15%  Similarity=0.219  Sum_probs=32.0

Q ss_pred             CCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--HHHHHHHHHhcCCCEEE
Q psy2646          43 GAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--YQVAKEYADHLKIPFLE  112 (168)
Q Consensus        43 ~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--~~~~~~~~~~~~~~~~~  112 (168)
                      ..|+|+|+++++... .-.++ ..+..+    ...+++|-|+.|.|.....++.  ...+..-....++.+|.
T Consensus       113 RVH~cLYfI~pt~~~L~~~Di-~~mk~L----s~~vNvIPvIaKaD~lt~~el~~~k~~i~~~l~~~~I~~f~  180 (281)
T PF00735_consen  113 RVHACLYFIPPTGHGLKPLDI-EFMKRL----SKRVNVIPVIAKADTLTPEELQAFKQRIREDLEENNIKIFD  180 (281)
T ss_dssp             -EEEEEEEE-TTSSSS-HHHH-HHHHHH----TTTSEEEEEESTGGGS-HHHHHHHHHHHHHHHHHTT--S--
T ss_pred             CcceEEEEEcCCCccchHHHH-HHHHHh----cccccEEeEEecccccCHHHHHHHHHHHHHHHHHcCceeec
Confidence            479999999987531 11122 123333    3458899999999975433221  11222233445665554

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.

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=92.11  E-value=1  Score=33.13  Aligned_cols=67  Identities=6%  Similarity=-0.013  Sum_probs=44.9

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHH---hcCCCCcEEEEEecCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR---YACDNVNKLLVGNKND   87 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~---~~~~~~piivv~nK~D   87 (168)
                      +.+.+.|.|+||...  ......+..+|.+|+.+..+. ..+..+..++..+..   ....+.|..++.|.++
T Consensus        82 ~~yD~iiID~pp~~~--~~~~~al~~aD~vliP~~ps~-~d~~~~~~~~~~v~~~~~~~~~~l~~~iv~~~~~  151 (231)
T PRK13849         82 QGFDYALADTHGGSS--ELNNTIIASSNLLLIPTMLTP-LDIDEALSTYRYVIELLLSENLAIPTAILRQRVP  151 (231)
T ss_pred             CCCCEEEEeCCCCcc--HHHHHHHHHCCEEEEeccCcH-HHHHHHHHHHHHHHHHHHHhCCCCCeEEEEEecc
Confidence            457899999999753  344556788999988877653 334444444444322   2245678889999986

>KOG1547|consensus

Probab=91.90  E-value=2.5  Score=31.57  Aligned_cols=100  Identities=15%  Similarity=0.162  Sum_probs=53.1

Q ss_pred             CCeEEEEEEEeCCCchhh---cccch-----------hhh--------------cCCcEEEEEEeCCChhhHHHHH-HHH
Q psy2646          16 ERTRTLIVIWDTAGQERF---RTITS-----------SYY--------------RGAHGIIVVYDCTDQETFNNLK-QWL   66 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~---~~~~~-----------~~~--------------~~~d~~i~v~d~~~~~s~~~~~-~~~   66 (168)
                      ++-.+++.+.||||--..   ...|+           .|+              ...+++++.+..+.. ++.-++ .++
T Consensus       100 ~gVklkltviDTPGfGDqInN~ncWePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGh-sLrplDiefl  178 (336)
T KOG1547|consen  100 KGVKLKLTVIDTPGFGDQINNDNCWEPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGH-SLRPLDIEFL  178 (336)
T ss_pred             cceEEEEEEecCCCcccccCccchhHHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCC-ccCcccHHHH
Confidence            466778999999983211   12221           121              136889999987743 222221 223


Q ss_pred             HHHHHhcCCCCcEEEEEecCCCCC--CcccCHHHHHHHHHhcCCCEEEEeccCCCC
Q psy2646          67 EEIDRYACDNVNKLLVGNKNDQTS--KKAVDYQVAKEYADHLKIPFLETSAKNGAN  120 (168)
Q Consensus        67 ~~i~~~~~~~~piivv~nK~Dl~~--~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~  120 (168)
                      ..+.+.    +.++-|+-|.|-..  ++..-.+.+++-...+++.+|+-.+.+...
T Consensus       179 krLt~v----vNvvPVIakaDtlTleEr~~FkqrI~~el~~~~i~vYPq~~fded~  230 (336)
T KOG1547|consen  179 KRLTEV----VNVVPVIAKADTLTLEERSAFKQRIRKELEKHGIDVYPQDSFDEDL  230 (336)
T ss_pred             HHHhhh----heeeeeEeecccccHHHHHHHHHHHHHHHHhcCcccccccccccch
Confidence            333322    56777888998432  222222233333445677777765554443

>cd03112 CobW_like The function of this protein family is unkown

Probab=91.87  E-value=0.35  Score=33.30  Aligned_cols=64  Identities=14%  Similarity=0.104  Sum_probs=38.0

Q ss_pred             EEEEEEEeCCCchhhcccchh--------hhcCCcEEEEEEeCCChhhHH-HHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSS--------YYRGAHGIIVVYDCTDQETFN-NLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~--------~~~~~d~~i~v~d~~~~~s~~-~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ..+..+.|++|...-..+...        ..-..+++++++|+.+..... ....+..++..      .=+++.||+|+
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            467789999998543222221        233588999999987643321 22223333322      23779999996

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.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=91.57  E-value=1.3  Score=34.83  Aligned_cols=103  Identities=19%  Similarity=0.271  Sum_probs=53.8

Q ss_pred             ccccceeeeee----CCeEEEEEEEeCCCchhh---cccc-----------hhh--------------hcCCcEEEEEEe
Q psy2646           5 LPYQTLQNKKE----ERTRTLIVIWDTAGQERF---RTIT-----------SSY--------------YRGAHGIIVVYD   52 (168)
Q Consensus         5 ~~t~~~~~~~~----~~~~~~l~l~Dt~G~~~~---~~~~-----------~~~--------------~~~~d~~i~v~d   52 (168)
                      .||+.+.....    ++-.+.|.+.||||-=.+   ...|           +.|              =...|+|+|.+.
T Consensus        63 ~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~  142 (373)
T COG5019          63 SPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIR  142 (373)
T ss_pred             CcceEEEeeeeeeecCCeEEEEEEeccCCccccccccccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEec
Confidence            34554444433    467788999999983111   1111           111              124799999998


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--HHHHHHHHHhcCCCEE
Q psy2646          53 CTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--YQVAKEYADHLKIPFL  111 (168)
Q Consensus        53 ~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--~~~~~~~~~~~~~~~~  111 (168)
                      ++.. .+..++  +..+++. ...+-+|-|+.|.|.....++.  ...+.+....+++++|
T Consensus       143 Ptgh-~l~~~D--Ie~Mk~l-s~~vNlIPVI~KaD~lT~~El~~~K~~I~~~i~~~nI~vf  199 (373)
T COG5019         143 PTGH-GLKPLD--IEAMKRL-SKRVNLIPVIAKADTLTDDELAEFKERIREDLEQYNIPVF  199 (373)
T ss_pred             CCCC-CCCHHH--HHHHHHH-hcccCeeeeeeccccCCHHHHHHHHHHHHHHHHHhCCcee
Confidence            7643 112111  1222222 2356788899999975432221  1222333444566666

>PRK10818 cell division inhibitor MinD; Provisional

Probab=91.15  E-value=1.2  Score=33.17  Aligned_cols=67  Identities=9%  Similarity=0.024  Sum_probs=44.0

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc------CCCCcEEEEEecCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA------CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~------~~~~piivv~nK~Dl   88 (168)
                      .+.+.|.|+|+.-.  ......+..+|.++++++.+. .++..+..++..+....      ..+.+..++.|..|.
T Consensus       113 ~yd~viiD~p~~~~--~~~~~~l~~ad~vivv~~p~~-~sl~~~~~~l~~i~~~~~~~~~~~~~~~~~vv~n~~~~  185 (270)
T PRK10818        113 DFEFIVCDSPAGIE--TGALMALYFADEAIITTNPEV-SSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNP  185 (270)
T ss_pred             CCCEEEEeCCCCcc--HHHHHHHHhCCeEEEEcCCCc-hHHHhHHHHHHHHHHhhccccccccccceEEEEeccCH
Confidence            57899999987643  223445788999999988874 45666666666653211      112345788898874

>PRK10867 signal recognition particle protein; Provisional

Probab=90.96  E-value=1.1  Score=36.30  Aligned_cols=88  Identities=15%  Similarity=0.097  Sum_probs=49.0

Q ss_pred             eEEEEEEEeCCCchhhcc-cc---hhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRT-IT---SSY--YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~-~~---~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      ..+.+.|.||+|...... +.   ..+  .-..+.+++|+|+...   .++......+....  + ..-+|.||.|-...
T Consensus       182 ~~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~g---q~av~~a~~F~~~~--~-i~giIlTKlD~~~r  255 (433)
T PRK10867        182 NGYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTG---QDAVNTAKAFNEAL--G-LTGVILTKLDGDAR  255 (433)
T ss_pred             cCCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccH---HHHHHHHHHHHhhC--C-CCEEEEeCccCccc
Confidence            346799999999643211 11   111  1256788999998643   22222233332211  1 23567799995433


Q ss_pred             cccCHHHHHHHHHhcCCCEEEEec
Q psy2646          92 KAVDYQVAKEYADHLKIPFLETSA  115 (168)
Q Consensus        92 ~~v~~~~~~~~~~~~~~~~~~vSa  115 (168)
                      ..    .+..+....++|+.+++.
T Consensus       256 gG----~alsi~~~~~~PI~fig~  275 (433)
T PRK10867        256 GG----AALSIRAVTGKPIKFIGT  275 (433)
T ss_pred             cc----HHHHHHHHHCcCEEEEeC
Confidence            22    244556667788887774

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=90.82  E-value=0.57  Score=32.80  Aligned_cols=68  Identities=16%  Similarity=0.047  Sum_probs=49.2

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      +.+.|.|+|+.....  ....+..+|.+|++++.+. .+...+..+...+.........+.+|.|+.+..+
T Consensus        95 yD~iiiD~~~~~~~~--~~~~l~~ad~viv~~~~~~-~~i~~~~~~~~~l~~~~~~~~~~~vv~N~v~~~~  162 (195)
T PF01656_consen   95 YDYIIIDTPPGLSDP--VRNALAAADYVIVPIEPDP-SSIEGAERLIELLKRLGKKLKIIGVVINRVDPGN  162 (195)
T ss_dssp             SSEEEEEECSSSSHH--HHHHHHTSSEEEEEEESSH-HHHHHHHHHHHHHHHHTHTEEEEEEEEEEETSCC
T ss_pred             ccceeecccccccHH--HHHHHHhCceeeeecCCcH-HHHHHHHHHHHHHHHhccccceEEEEEeeeCCCc
Confidence            678999999864322  4567889999999998875 4577777777777655322135688999998654

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 ....

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=90.65  E-value=1.2  Score=32.77  Aligned_cols=103  Identities=9%  Similarity=0.165  Sum_probs=63.5

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChh--hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCH
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE--TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDY   96 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~   96 (168)
                      .+.+.|.|+.|...  .+....+..+|.+|+=.-.+..+  .-..+..|+..+.+......|.-|+.|+++-.... ...
T Consensus        83 ~~d~VlvDleG~as--~~~~~aia~sDlVlIP~~~s~lD~~eA~~t~~~v~~~~~~~~~~ip~~Vl~Tr~~~~~~~-~~~  159 (231)
T PF07015_consen   83 GFDFVLVDLEGGAS--ELNDYAIARSDLVLIPMQPSQLDADEAAKTFKWVRRLEKAERRDIPAAVLFTRVPAARLT-RAQ  159 (231)
T ss_pred             CCCEEEEeCCCCCc--hhHHHHHHHCCEEEECCCCChHHHHHHHHHHHHHHHHHHhhCCCCCeeEEEecCCcchhh-HHH
Confidence            46789999998652  33455677899988877666432  22233345555443335679999999998732111 111


Q ss_pred             HHHHHHHHhcCCCEEEEeccCCCCHHHHHH
Q psy2646          97 QVAKEYADHLKIPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        97 ~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~  126 (168)
                      ....++.+  ++|++.+.-.+.....++|.
T Consensus       160 ~~~~e~~~--~lpvl~t~l~eR~Af~~m~~  187 (231)
T PF07015_consen  160 RIISEQLE--SLPVLDTELHERDAFRAMFS  187 (231)
T ss_pred             HHHHHHHh--cCCccccccccHHHHHHHHH
Confidence            12223333  48888888777777777766

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 [].

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=90.59  E-value=1.3  Score=27.83  Aligned_cols=45  Identities=18%  Similarity=0.164  Sum_probs=31.8

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE   67 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~   67 (168)
                      +.+.++|+|+...  ......+..+|.++++++.+. .++..+..+++
T Consensus        40 ~d~viiD~p~~~~--~~~~~~l~~ad~viv~~~~~~-~s~~~~~~~~~   84 (104)
T cd02042          40 YDYIIIDTPPSLG--LLTRNALAAADLVLIPVQPSP-LDLDGLEKLLE   84 (104)
T ss_pred             CCEEEEeCcCCCC--HHHHHHHHHCCEEEEeccCCH-HHHHHHHHHHH
Confidence            6788999998643  223367788999999987763 45666666555

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.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=90.53  E-value=4  Score=30.41  Aligned_cols=68  Identities=15%  Similarity=0.128  Sum_probs=40.9

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE-EEEEecCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK-LLVGNKNDQ   88 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi-ivv~nK~Dl   88 (168)
                      .+.+.|.|++|..... .....+..+|.+|+++..+ ..++..+..++..+.... ..+.++ .++.|+.+.
T Consensus       115 ~yD~vIIDt~g~~~~~-~~~~al~~aD~vlip~~p~-~~~l~~~~~~~~~i~~~~~~~~l~~~giV~Nr~~~  184 (267)
T cd02032         115 EYDVILFDVLGDVVCG-GFAAPLNYADYALIVTDND-FDSIFAANRIAAAVREKAKTYKVRLAGLIANRTDK  184 (267)
T ss_pred             cCCEEEEeCCCCcccc-cchhhhhhcCEEEEEecCC-cccHHHHHHHHHHHHHHhhccCCceEEEEEeCCCH
Confidence            4789999998764211 1223477899999988765 334445544444443221 234553 478899873

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=89.86  E-value=5.5  Score=32.17  Aligned_cols=102  Identities=19%  Similarity=0.218  Sum_probs=58.2

Q ss_pred             EEEEEEEeCCCchhhcc----cchhhhc---CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRT----ITSSYYR---GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~----~~~~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      ...+.|.||+|......    ....++.   ...-+++|++++-.  ..++......+...   + +--++.||.|-...
T Consensus       299 ~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~--~~~l~~~~~~f~~~---~-~~~vI~TKlDet~~  372 (424)
T PRK05703        299 DCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTK--YEDLKDIYKHFSRL---P-LDGLIFTKLDETSS  372 (424)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCC--HHHHHHHHHHhCCC---C-CCEEEEeccccccc
Confidence            36799999999754321    1122333   23467788888643  23333333333211   1 23688999996432


Q ss_pred             cccCHHHHHHHHHhcCCCEEEEeccCCCCH-HHHHHHHHHHH
Q psy2646          92 KAVDYQVAKEYADHLKIPFLETSAKNGANV-EQAFLTMATEI  132 (168)
Q Consensus        92 ~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i-~~i~~~l~~~~  132 (168)
                      -    -.+..+....++|+.+++  +|.++ +++...=.+.+
T Consensus       373 ~----G~i~~~~~~~~lPv~yit--~Gq~VpdDl~~a~~~~l  408 (424)
T PRK05703        373 L----GSILSLLIESGLPISYLT--NGQRVPDDIKVANPEEL  408 (424)
T ss_pred             c----cHHHHHHHHHCCCEEEEe--CCCCChhhhhhCCHHHH
Confidence            2    235566677788998888  77775 55554333333

>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=89.54  E-value=2.9  Score=28.85  Aligned_cols=85  Identities=14%  Similarity=0.068  Sum_probs=46.3

Q ss_pred             EEEEEEEeCCCchhhcc----cchhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCc
Q psy2646          19 RTLIVIWDTAGQERFRT----ITSSY--YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~----~~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~   92 (168)
                      ...+.|.|++|...+..    ....+  ....+++++|+|......   ...+...+.+..  + ..-++.||.|.....
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~---~~~~~~~~~~~~--~-~~~viltk~D~~~~~  155 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD---AVNQAKAFNEAL--G-ITGVILTKLDGDARG  155 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH---HHHHHHHHHhhC--C-CCEEEEECCcCCCCc
Confidence            45688899999742211    11111  234899999999865422   222333332221  2 356777999975432


Q ss_pred             ccCHHHHHHHHHhcCCCEEEE
Q psy2646          93 AVDYQVAKEYADHLKIPFLET  113 (168)
Q Consensus        93 ~v~~~~~~~~~~~~~~~~~~v  113 (168)
                      .    .....+...++|+..+
T Consensus       156 g----~~~~~~~~~~~p~~~~  172 (173)
T cd03115         156 G----AALSIRAVTGKPIKFI  172 (173)
T ss_pred             c----hhhhhHHHHCcCeEee
Confidence            2    2223555566666543

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.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=89.51  E-value=1.1  Score=30.44  Aligned_cols=58  Identities=21%  Similarity=0.215  Sum_probs=37.1

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      .+.+.|.||+|....   ...++..+|-++++...+-.+.+.-..   ..+.     ..--++++||+|
T Consensus        91 ~~D~iiIDtaG~~~~---~~~~~~~Ad~~ivv~tpe~~D~y~~~k---~~~~-----~~~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQS---EVDIASMADTTVVVMAPGAGDDIQAIK---AGIM-----EIADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccChh---hhhHHHhCCEEEEEECCCchhHHHHhh---hhHh-----hhcCEEEEeCCC
Confidence            578999999996532   235889999999998776322222111   1111     223488999987

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.

>TIGR01007 eps_fam capsular exopolysaccharide family

Probab=89.42  E-value=1.8  Score=30.91  Aligned_cols=68  Identities=19%  Similarity=0.104  Sum_probs=43.2

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ..+.+.|.|+|+.... .......+.+|.+|++++.+.. +...+...+..+....  ...+-+|.||.|..
T Consensus       126 ~~yD~ViiD~pp~~~~-~~~~~~~~~~D~vilV~~~~~~-~~~~~~~~~~~l~~~~--~~~~gvVlN~~~~~  193 (204)
T TIGR01007       126 KYFDYIIIDTPPIGTV-TDAAIIARACDASILVTDAGEI-KKRDVQKAKEQLEQTG--SNFLGVVLNKVDIS  193 (204)
T ss_pred             hcCCEEEEeCCCcccc-chHHHHHHhCCeEEEEEECCCC-CHHHHHHHHHHHHhCC--CCEEEEEEeCcccc
Confidence            3467899999974221 1123355679999999988643 4455555555554431  23467889999854

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.

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=88.13  E-value=3.1  Score=32.35  Aligned_cols=99  Identities=14%  Similarity=0.181  Sum_probs=56.4

Q ss_pred             EEEEEEeCCCchhhcccchhhhc--------CCcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYR--------GAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~--------~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      ....+.++.|...-.+....+..        ..|++|-|+|+.+...... ....+.....     .-=++++||.|+.+
T Consensus        85 ~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia-----~AD~ivlNK~Dlv~  159 (323)
T COG0523          85 PDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLA-----FADVIVLNKTDLVD  159 (323)
T ss_pred             CCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHH-----hCcEEEEecccCCC
Confidence            56678888887654333322222        3688999999987543222 2232222222     22489999999977


Q ss_pred             CcccCHHHHHHHHHhcC--CCEEEEeccCCCCHHHHHH
Q psy2646          91 KKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~--~~~~~vSa~~~~~i~~i~~  126 (168)
                      ...  .+........++  .+++.++. .+.+..+++.
T Consensus       160 ~~~--l~~l~~~l~~lnp~A~i~~~~~-~~~~~~~ll~  194 (323)
T COG0523         160 AEE--LEALEARLRKLNPRARIIETSY-GDVDLAELLD  194 (323)
T ss_pred             HHH--HHHHHHHHHHhCCCCeEEEccc-cCCCHHHhhc
Confidence            543  233344444443  67787776 4444444443

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=87.98  E-value=4.4  Score=30.66  Aligned_cols=92  Identities=14%  Similarity=0.126  Sum_probs=54.2

Q ss_pred             EEEEEEEeCCCchhhcc-c---chhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCc
Q psy2646          19 RTLIVIWDTAGQERFRT-I---TSSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~-~---~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~   92 (168)
                      ++.+.|.||+|...... .   +..++  ...+-++||+|++..  .+++..++..+..    -.+--++.||.|-...-
T Consensus       154 ~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~--~~d~~~~~~~f~~----~~~~~~I~TKlDet~~~  227 (270)
T PRK06731        154 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK--SKDMIEIITNFKD----IHIDGIVFTKFDETASS  227 (270)
T ss_pred             CCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccC--HHHHHHHHHHhCC----CCCCEEEEEeecCCCCc
Confidence            46899999999763221 1   11122  235678999998642  2233333444322    13347889999965432


Q ss_pred             ccCHHHHHHHHHhcCCCEEEEeccCCCCHH
Q psy2646          93 AVDYQVAKEYADHLKIPFLETSAKNGANVE  122 (168)
Q Consensus        93 ~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~  122 (168)
                      .    .+..++...+.|+.+++  +|+++-
T Consensus       228 G----~~l~~~~~~~~Pi~~it--~Gq~vp  251 (270)
T PRK06731        228 G----ELLKIPAVSSAPIVLMT--DGQDVK  251 (270)
T ss_pred             c----HHHHHHHHHCcCEEEEe--CCCCCC
Confidence            2    23455666788888887  666654

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=87.21  E-value=10  Score=28.15  Aligned_cols=67  Identities=19%  Similarity=0.135  Sum_probs=38.4

Q ss_pred             eEEEEEEEeCCCchhhcccc-hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEE-EEEec
Q psy2646          18 TRTLIVIWDTAGQERFRTIT-SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKL-LVGNK   85 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pii-vv~nK   85 (168)
                      ..+.+.|+|++|......+. .....-+|.+|+++.++. .++..+..++..+.... ..+.++. ++.|+
T Consensus       115 ~~yD~viID~~g~~~~~~~~~~~~~~aaD~vlip~~p~~-~sl~~~~~l~~~i~~~~~~~~~~l~gVv~n~  184 (270)
T cd02040         115 DDLDFVIYDVLGDVVCGGFAMPIREGKAQEIYIVTSGEM-MALYAANNICKGILKYAKSGGVRLGGLICNS  184 (270)
T ss_pred             cCCCEEEEecccCcccCCcccccccccccEEEEEecCch-HHHHHHHHHHHHHHHhCccCCCceEEEEEec
Confidence            35789999998764322221 222335999999887753 45655655555554432 1245554 44555

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.

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=87.15  E-value=4.6  Score=31.48  Aligned_cols=95  Identities=22%  Similarity=0.269  Sum_probs=55.7

Q ss_pred             eEEEEEEEeCCCchhhcc-cc------hhhhcCC-----cEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646          18 TRTLIVIWDTAGQERFRT-IT------SSYYRGA-----HGIIVVYDCTDQ-ETFNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~-~~------~~~~~~~-----d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      +++.+.|.||+|.-.-.. +.      ...++..     +=+++++|++-. +.+..++.+-+.+      ++ --++.|
T Consensus       220 r~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqnal~QAk~F~eav------~l-~GiIlT  292 (340)
T COG0552         220 RGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNALSQAKIFNEAV------GL-DGIILT  292 (340)
T ss_pred             cCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccChhHHHHHHHHHHhc------CC-ceEEEE
Confidence            457899999999643211 11      1122222     337777799854 5566655433322      22 267799


Q ss_pred             cCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHH
Q psy2646          85 KNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF  125 (168)
Q Consensus        85 K~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~  125 (168)
                      |.|-...-.+    +..++..+++|+.++.  -|++++++-
T Consensus       293 KlDgtAKGG~----il~I~~~l~~PI~fiG--vGE~~~DL~  327 (340)
T COG0552         293 KLDGTAKGGI----ILSIAYELGIPIKFIG--VGEGYDDLR  327 (340)
T ss_pred             ecccCCCcce----eeeHHHHhCCCEEEEe--CCCChhhcc
Confidence            9995432222    2356777889999987  566666653

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=86.90  E-value=11  Score=28.09  Aligned_cols=68  Identities=15%  Similarity=0.166  Sum_probs=40.6

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE-EEEEecCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK-LLVGNKNDQ   88 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi-ivv~nK~Dl   88 (168)
                      .+.+.|.|++|.-..... ...+..+|.+|+++..+ ..++..+..++..+.... ..+.++ .++.|+.+.
T Consensus       115 ~yD~ViID~~~~~~~~~~-~~~l~aAD~vlip~~~~-~~sl~~~~~l~~~i~~~~~~~~l~~~gIV~N~~~~  184 (268)
T TIGR01281       115 DYDVILFDVLGDVVCGGF-ATPLQYADYALVVAAND-FDALFAANRIAASVQEKAKNYDVRLAGIIGNRSDA  184 (268)
T ss_pred             cCCEEEEecCCccccCcc-ccchhhcCEEEEEecCc-hhHHHHHHHHHHHHHHHhhcCCCceEEEEEeCCCh
Confidence            578999999875321111 23467799998887553 345555555555443321 234553 578899874

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=86.89  E-value=7.3  Score=31.10  Aligned_cols=105  Identities=12%  Similarity=0.118  Sum_probs=60.3

Q ss_pred             eEEEEEEEeCCCchhhccc----chhhhcC--Cc-EEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTI----TSSYYRG--AH-GIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~----~~~~~~~--~d-~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      ..+.+.|.||+|......+    ...++..  .+ -.+||+|++..  ..++...+..+...    .+-=++.||.|-..
T Consensus       253 ~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~--~~~~~~~~~~~~~~----~~~~~I~TKlDet~  326 (388)
T PRK12723        253 KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK--TSDVKEIFHQFSPF----SYKTVIFTKLDETT  326 (388)
T ss_pred             CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC--HHHHHHHHHHhcCC----CCCEEEEEeccCCC
Confidence            3468999999997543221    1112222  23 58899999864  33333334433211    23477899999643


Q ss_pred             CcccCHHHHHHHHHhcCCCEEEEeccCCCCH-HHHHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKEYADHLKIPFLETSAKNGANV-EQAFLTMATEIKK  134 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i-~~i~~~l~~~~~~  134 (168)
                      .-.    .+..+....+.|+.+++  +|+++ +++...=...+.+
T Consensus       327 ~~G----~~l~~~~~~~~Pi~yit--~Gq~vPeDl~~~~~~~~~~  365 (388)
T PRK12723        327 CVG----NLISLIYEMRKEVSYVT--DGQIVPHNISIAEPLTFIK  365 (388)
T ss_pred             cch----HHHHHHHHHCCCEEEEe--CCCCChhhhhhCCHHHHHH
Confidence            322    23456666788888887  77777 5555443333333

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=86.66  E-value=6  Score=34.43  Aligned_cols=98  Identities=16%  Similarity=0.184  Sum_probs=55.6

Q ss_pred             EEEEEEEeCCCchhhcc-cch---hh--hcCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRT-ITS---SY--YRGAHGIIVVYDCTDQ-ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~-~~~---~~--~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      ...+.|+||+|...... +.+   ..  ....+-.++|+|++.. +.+.++   ...+...... -+-=+|.||.|-...
T Consensus       263 ~~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i---~~~f~~~~~~-~i~glIlTKLDEt~~  338 (767)
T PRK14723        263 DKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEV---VHAYRHGAGE-DVDGCIITKLDEATH  338 (767)
T ss_pred             CCCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHH---HHHHhhcccC-CCCEEEEeccCCCCC
Confidence            34689999999543211 111   11  1234568899998743 333333   2333221100 133677999996543


Q ss_pred             cccCHHHHHHHHHhcCCCEEEEeccCCCCH-HHHHH
Q psy2646          92 KAVDYQVAKEYADHLKIPFLETSAKNGANV-EQAFL  126 (168)
Q Consensus        92 ~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i-~~i~~  126 (168)
                      -.    .+..+....++|+.+++  +|+++ +++..
T Consensus       339 ~G----~iL~i~~~~~lPI~yit--~GQ~VPdDL~~  368 (767)
T PRK14723        339 LG----PALDTVIRHRLPVHYVS--TGQKVPEHLEL  368 (767)
T ss_pred             cc----HHHHHHHHHCCCeEEEe--cCCCChhhccc
Confidence            22    24456667788998888  78887 66554

>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring

Probab=86.62  E-value=13  Score=28.92  Aligned_cols=111  Identities=20%  Similarity=0.184  Sum_probs=57.2

Q ss_pred             EEEEEEEeCCCchhhcccchhhh-cCCcEEEEEEeCCChhhHHHH---HHHHHHHHHhcCCCCcEEEEEecCCCCCCccc
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYY-RGAHGIIVVYDCTDQETFNNL---KQWLEEIDRYACDNVNKLLVGNKNDQTSKKAV   94 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~-~~~d~~i~v~d~~~~~s~~~~---~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v   94 (168)
                      .+.+.|+|++|......+..... .-++.+ +++...+..++..+   ...+..+........-+-+|.|+.|..+    
T Consensus       147 ~~DyVliD~~gdv~~ggf~l~i~~~~ad~V-IVVt~pe~~si~~A~~v~kai~~~~~lg~~~~i~GlViNr~d~~~----  221 (329)
T cd02033         147 DFDYVLLDFLGDVVCGGFGLPIARDMAQKV-IVVGSNDLQSLYVANNVCNAVEYFRKLGGNVGVAGMVINKDDGTG----  221 (329)
T ss_pred             cCCEEEEecCCcceeccccchhhhcCCceE-EEeCCchHHHHHHHHHHHHHHHHHHHhCCCCCceEEEEeCcCCcc----
Confidence            46788899887543111111111 224444 44444455556443   3334444333111223688999998532    


Q ss_pred             CHHHHHHHHHhcCCCEEE----------------EeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          95 DYQVAKEYADHLKIPFLE----------------TSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~----------------vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                         .+..+++.++++++.                +-......+.+.|..+.+.+.+..+
T Consensus       222 ---~ie~~ae~lgi~vLg~IP~D~~V~~a~~~g~~~~~p~s~~a~~f~~LA~~I~~~~~  277 (329)
T cd02033         222 ---EAQAFAAHAGIPILAAIPADEELRRKSAAYQIVGRPGTTWGPLFEQLATNVAEAPP  277 (329)
T ss_pred             ---hHHHHHHHhCCCEEEECCCCHHHHHHHHcCCeecCCCCHHHHHHHHHHHHHHHhcC
Confidence               234555555544331                1112233577888888888877554

This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.

>KOG2655|consensus

Probab=86.58  E-value=8.3  Score=30.47  Aligned_cols=70  Identities=14%  Similarity=0.227  Sum_probs=39.5

Q ss_pred             CCcEEEEEEeCCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--HHHHHHHHHhcCCCEEEEeccCC
Q psy2646          43 GAHGIIVVYDCTDQ--ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--YQVAKEYADHLKIPFLETSAKNG  118 (168)
Q Consensus        43 ~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--~~~~~~~~~~~~~~~~~vSa~~~  118 (168)
                      ..|+|+|.+.++..  ..++ +    ..++.. ...+.+|-|+-|.|......+.  ...+.+-...+++++|.-.....
T Consensus       129 RVH~cLYFI~P~ghgL~p~D-i----~~Mk~l-~~~vNiIPVI~KaD~lT~~El~~~K~~I~~~i~~~nI~vf~fp~~~~  202 (366)
T KOG2655|consen  129 RVHCCLYFISPTGHGLKPLD-I----EFMKKL-SKKVNLIPVIAKADTLTKDELNQFKKRIRQDIEEHNIKVFDFPTDES  202 (366)
T ss_pred             ceEEEEEEeCCCCCCCcHhh-H----HHHHHH-hccccccceeeccccCCHHHHHHHHHHHHHHHHHcCcceecCCCCcc
Confidence            58999999987643  2222 2    222222 3467888899999975433221  12233344556677665554433

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=86.16  E-value=17  Score=29.63  Aligned_cols=77  Identities=18%  Similarity=0.336  Sum_probs=46.1

Q ss_pred             EEEEEEeCC--C--hhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCC--
Q psy2646          46 GIIVVYDCT--D--QETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNG--  118 (168)
Q Consensus        46 ~~i~v~d~~--~--~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~--  118 (168)
                      |+++.-|.+  +  ++.|..+. ....+++..   ++|++++.|-.+-...  -+.+...++.+.++++++.+++..-  
T Consensus       148 GiVVTTDGSi~dipRe~Y~eAEervI~ELk~i---gKPFvillNs~~P~s~--et~~L~~eL~ekY~vpVlpvnc~~l~~  222 (492)
T PF09547_consen  148 GIVVTTDGSITDIPRENYVEAEERVIEELKEI---GKPFVILLNSTKPYSE--ETQELAEELEEKYDVPVLPVNCEQLRE  222 (492)
T ss_pred             eEEEecCCCccCCChHHHHHHHHHHHHHHHHh---CCCEEEEEeCCCCCCH--HHHHHHHHHHHHhCCcEEEeehHHcCH
Confidence            455554443  1  24555543 455666655   7999999998873332  2334556677888999988876533  


Q ss_pred             CCHHHHHHH
Q psy2646         119 ANVEQAFLT  127 (168)
Q Consensus       119 ~~i~~i~~~  127 (168)
                      ..|..+++.
T Consensus       223 ~DI~~Il~~  231 (492)
T PF09547_consen  223 EDITRILEE  231 (492)
T ss_pred             HHHHHHHHH
Confidence            234444443

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>KOG3929|consensus

Probab=85.70  E-value=1.9  Score=32.56  Aligned_cols=15  Identities=33%  Similarity=0.410  Sum_probs=13.1

Q ss_pred             CCcEEEEEecCCCCC
Q psy2646          76 NVNKLLVGNKNDQTS   90 (168)
Q Consensus        76 ~~piivv~nK~Dl~~   90 (168)
                      .+|+++||.|.|...
T Consensus       190 P~PV~IVgsKYDvFq  204 (363)
T KOG3929|consen  190 PVPVVIVGSKYDVFQ  204 (363)
T ss_pred             CCceEEeccchhhhc
Confidence            689999999999754

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=85.67  E-value=3.9  Score=32.67  Aligned_cols=97  Identities=14%  Similarity=0.161  Sum_probs=54.5

Q ss_pred             EEEEEEEeCCCchhhccc----chhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCc
Q psy2646          19 RTLIVIWDTAGQERFRTI----TSSYYR--GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~----~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~   92 (168)
                      .+.+.|.||+|.......    ...+..  ..+.+++|++++.  ...++..++..+..    -.+--++.||.|-...-
T Consensus       285 ~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~--~~~d~~~i~~~f~~----l~i~glI~TKLDET~~~  358 (407)
T PRK12726        285 CVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGM--KSADVMTILPKLAE----IPIDGFIITKMDETTRI  358 (407)
T ss_pred             CCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCcc--cHHHHHHHHHhcCc----CCCCEEEEEcccCCCCc
Confidence            468999999998543221    111222  3466677776642  23333333333221    12347789999965432


Q ss_pred             ccCHHHHHHHHHhcCCCEEEEeccCCCCHHH-HHHH
Q psy2646          93 AVDYQVAKEYADHLKIPFLETSAKNGANVEQ-AFLT  127 (168)
Q Consensus        93 ~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~-i~~~  127 (168)
                      .    .+..++...+.|+.+++  .|+++.+ ++..
T Consensus       359 G----~~Lsv~~~tglPIsylt--~GQ~VpdDi~~a  388 (407)
T PRK12726        359 G----DLYTVMQETNLPVLYMT--DGQNITENIFRP  388 (407)
T ss_pred             c----HHHHHHHHHCCCEEEEe--cCCCCCcccCCC
Confidence            2    24456667788988888  6666643 4443

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=84.56  E-value=6.6  Score=31.67  Aligned_cols=91  Identities=14%  Similarity=0.144  Sum_probs=53.2

Q ss_pred             EEEEEEEeCCCchhhcc--c--chhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCc
Q psy2646          19 RTLIVIWDTAGQERFRT--I--TSSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~--~--~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~   92 (168)
                      ++.+.|.||+|......  +  ...++  ...+.++||+|++-.  ..++..+...+...    ..--++.||.|-...-
T Consensus       320 ~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk--~~d~~~i~~~F~~~----~idglI~TKLDET~k~  393 (436)
T PRK11889        320 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK--SKDMIEIITNFKDI----HIDGIVFTKFDETASS  393 (436)
T ss_pred             CCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccC--hHHHHHHHHHhcCC----CCCEEEEEcccCCCCc
Confidence            36789999999754221  1  11222  235678899987632  22333334444221    2337789999965432


Q ss_pred             ccCHHHHHHHHHhcCCCEEEEeccCCCCH
Q psy2646          93 AVDYQVAKEYADHLKIPFLETSAKNGANV  121 (168)
Q Consensus        93 ~v~~~~~~~~~~~~~~~~~~vSa~~~~~i  121 (168)
                      .    .+..++...++|+.+++  +|+++
T Consensus       394 G----~iLni~~~~~lPIsyit--~GQ~V  416 (436)
T PRK11889        394 G----ELLKIPAVSSAPIVLMT--DGQDV  416 (436)
T ss_pred             c----HHHHHHHHHCcCEEEEe--CCCCC
Confidence            2    23456666788888887  66665

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=83.95  E-value=17  Score=27.71  Aligned_cols=67  Identities=16%  Similarity=0.169  Sum_probs=40.7

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE-EEEEecCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK-LLVGNKND   87 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi-ivv~nK~D   87 (168)
                      .+.+.+.|++|.-....+ ...+..||.+|++++.+ ..++..+..++..+.... ..+.+. .++.|+.+
T Consensus       115 ~yD~IiIDt~~~l~~~a~-~aal~~AD~viIp~~p~-~~sl~~~~~l~~~i~~~~~~~~l~~~gvv~n~~~  183 (290)
T CHL00072        115 EYDIILFDVLGDVVCGGF-AAPLNYADYCIIITDNG-FDALFAANRIAASVREKARTHPLRLAGLVGNRTS  183 (290)
T ss_pred             cCCEEEEecCCcceechh-hhhhhcCCEEEEEecCC-HHHHHHHHHHHHHHHHHhccCCCceEEEEEeCCC
Confidence            478999999875221111 12356799999988665 445666666555554331 223333 48889987

>PRK11670 antiporter inner membrane protein; Provisional

Probab=83.48  E-value=14  Score=29.31  Aligned_cols=67  Identities=15%  Similarity=0.027  Sum_probs=38.1

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEecCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-LLVGNKNDQ   88 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ivv~nK~Dl   88 (168)
                      +.+.+.|+|+|+.-.-..+.-..+-.+|++|++...... ++.++...+..+.   ..+.|+ -+|.|+.+.
T Consensus       214 ~~yDyvIID~PPg~gd~~l~~~~l~aad~viiV~tp~~~-s~~da~~~i~~~~---~~~~~ilGiV~Nm~~~  281 (369)
T PRK11670        214 PDLDYLVLDMPPGTGDIQLTLAQNIPVTGAVVVTTPQDI-ALIDAKKGIVMFE---KVEVPVLGIVENMSMH  281 (369)
T ss_pred             ccCCEEEEeCCCCCchHHHHHhhhccCCeEEEEecCchh-HHHHHHHHHHHHh---ccCCCeEEEEEcCCcc
Confidence            457889999986421111111223358998888866543 3444444343332   235666 478898764

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=83.32  E-value=12  Score=30.11  Aligned_cols=98  Identities=17%  Similarity=0.268  Sum_probs=57.8

Q ss_pred             eEEEEEEEeCCCchhhcccc----hhhhcC--CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTIT----SSYYRG--AHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~----~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      ..+.+.|.||.|...++...    ..++..  ..-+.||++++..  ..++...+..+...   + .--++.||.|-...
T Consensus       280 ~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K--~~dlkei~~~f~~~---~-i~~~I~TKlDET~s  353 (407)
T COG1419         280 RDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTK--YEDLKEIIKQFSLF---P-IDGLIFTKLDETTS  353 (407)
T ss_pred             hcCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcc--hHHHHHHHHHhccC---C-cceeEEEcccccCc
Confidence            44579999999987654422    223332  3346667777653  45566555555333   1 12677999995432


Q ss_pred             cccCHHHHHHHHHhcCCCEEEEeccCCCCH-HHHHHH
Q psy2646          92 KAVDYQVAKEYADHLKIPFLETSAKNGANV-EQAFLT  127 (168)
Q Consensus        92 ~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i-~~i~~~  127 (168)
                      -+    ....+....+.|+.+++  +|+++ ++++..
T Consensus       354 ~G----~~~s~~~e~~~PV~YvT--~GQ~VPeDI~va  384 (407)
T COG1419         354 LG----NLFSLMYETRLPVSYVT--NGQRVPEDIVVA  384 (407)
T ss_pred             hh----HHHHHHHHhCCCeEEEe--CCCCCCchhhhc
Confidence            11    23345556677877776  77776 555543

>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases

Probab=83.25  E-value=13  Score=25.99  Aligned_cols=86  Identities=19%  Similarity=0.269  Sum_probs=57.1

Q ss_pred             hcCCcEEEEEEeCCCh-------hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEE
Q psy2646          41 YRGAHGIIVVYDCTDQ-------ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLET  113 (168)
Q Consensus        41 ~~~~d~~i~v~d~~~~-------~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~v  113 (168)
                      ++....=.+++|.+|-       +-..++..|+..+.+.- ....+++|-|-.-...  .....++..+.+.++++++.-
T Consensus        36 Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~-~~~~v~IvSNsaGs~~--d~~~~~a~~~~~~lgIpvl~h  112 (168)
T PF09419_consen   36 LKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQF-GKDRVLIVSNSAGSSD--DPDGERAEALEKALGIPVLRH  112 (168)
T ss_pred             hhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHC-CCCeEEEEECCCCccc--CccHHHHHHHHHhhCCcEEEe
Confidence            5555555566777662       22456778888887652 1225888888652211  234567778889999999988


Q ss_pred             eccCCCCHHHHHHHHH
Q psy2646         114 SAKNGANVEQAFLTMA  129 (168)
Q Consensus       114 Sa~~~~~i~~i~~~l~  129 (168)
                      +++...+..++...+.
T Consensus       113 ~~kKP~~~~~i~~~~~  128 (168)
T PF09419_consen  113 RAKKPGCFREILKYFK  128 (168)
T ss_pred             CCCCCccHHHHHHHHh
Confidence            8988877777766553

All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=82.99  E-value=9.6  Score=30.29  Aligned_cols=99  Identities=17%  Similarity=0.138  Sum_probs=52.8

Q ss_pred             EEEEEEEeCCCchhhcccchh---hh---cCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCC--CcEEEEEecCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSS---YY---RGAHGIIVVYDCTDQ-ETFNNLKQWLEEIDRYACDN--VNKLLVGNKNDQT   89 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~---~~---~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~--~piivv~nK~Dl~   89 (168)
                      +..+.|+||+|...+......   .+   ....-.++|++++.. +...++..-+..........  ..-=++.||.|-.
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            357899999997643322111   12   223456889988753 33333322222221110000  1236778999964


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~  123 (168)
                      ..-.    .+..+....++|+.+++  +|+++-+
T Consensus       295 ~~~G----~~l~~~~~~~lPi~yvt--~Gq~VPe  322 (374)
T PRK14722        295 SNLG----GVLDTVIRYKLPVHYVS--TGQKVPE  322 (374)
T ss_pred             CCcc----HHHHHHHHHCcCeEEEe--cCCCCCc
Confidence            4222    34456666788888887  6666543

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=82.77  E-value=8.2  Score=31.17  Aligned_cols=104  Identities=13%  Similarity=0.100  Sum_probs=58.8

Q ss_pred             EEEEEEEeCCCchhhccc----chhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCc
Q psy2646          19 RTLIVIWDTAGQERFRTI----TSSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~----~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~   92 (168)
                      ...+.+.||+|.......    ...+.  ...+-.+||+|++..  .+.+..+...+...    -.-=++.||.|-...-
T Consensus       269 ~~d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~--~~~~~~~~~~f~~~----~~~~~I~TKlDEt~~~  342 (420)
T PRK14721        269 GKHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSS--GDTLDEVISAYQGH----GIHGCIITKVDEAASL  342 (420)
T ss_pred             CCCEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCC--HHHHHHHHHHhcCC----CCCEEEEEeeeCCCCc
Confidence            346889999996542211    11111  124567899998842  22333333333211    2336789999964422


Q ss_pred             ccCHHHHHHHHHhcCCCEEEEeccCCCCH-HHHHHHHHHHHHH
Q psy2646          93 AVDYQVAKEYADHLKIPFLETSAKNGANV-EQAFLTMATEIKK  134 (168)
Q Consensus        93 ~v~~~~~~~~~~~~~~~~~~vSa~~~~~i-~~i~~~l~~~~~~  134 (168)
                      .    .+..+....++|+.+++  +|.++ +++...-...+.+
T Consensus       343 G----~~l~~~~~~~lPi~yvt--~Gq~VP~Dl~~a~~~~lv~  379 (420)
T PRK14721        343 G----IALDAVIRRKLVLHYVT--NGQKVPEDLHEANSRYLLH  379 (420)
T ss_pred             c----HHHHHHHHhCCCEEEEE--CCCCchhhhhhCCHHHHHH
Confidence            2    24456667788998888  78877 5655543333333

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=82.08  E-value=20  Score=27.35  Aligned_cols=112  Identities=16%  Similarity=0.124  Sum_probs=59.0

Q ss_pred             EEEEEEEeCCCchhh-cccchhhhcCCcEEEEEEeCCChhhHHHHHHHHH---HHHHhcCCCCcEEEEEecCCCCCCccc
Q psy2646          19 RTLIVIWDTAGQERF-RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE---EIDRYACDNVNKLLVGNKNDQTSKKAV   94 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~-~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~---~i~~~~~~~~piivv~nK~Dl~~~~~v   94 (168)
                      .+.+.|+|++|.-.- ..........+|.+|++.+.+ ..++..+..+..   .+......-.++.++.|+.+...    
T Consensus       122 ~yD~IliD~~~~~~~~g~~~~~a~~~Ad~viVvt~~e-~~sl~~a~~l~k~v~~~~~~~~~v~i~GVV~N~~~~~~----  196 (296)
T TIGR02016       122 DFDFVLMDFLGDVVCGGFATPLARSLAEEVIVIGSND-RQSLYVANNICNAVEYFRKLGGRVGLLGLVVNRDDGSG----  196 (296)
T ss_pred             cCCEEEEecCCCccccccccchhhhhCCeEEEEecch-HHHHHHHHHHHHHHHHHHHcCCCCcceEEEEeCCCCcc----
Confidence            588999998764210 011122234688887776554 334544444333   33332111235678899987421    


Q ss_pred             CHHHHHHHHHhcCCCEEEEe----------------ccCCC-CHHHHHHHHHHHHHHHhcc
Q psy2646          95 DYQVAKEYADHLKIPFLETS----------------AKNGA-NVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~vS----------------a~~~~-~i~~i~~~l~~~~~~~~~~  138 (168)
                         ...++++.++++++..-                ..... ...+.|..+.+.+......
T Consensus       197 ---~~~~~~~~~~i~vLg~IP~d~~i~~~~~~~~~~~~~~~~~~~~~f~~la~~i~~~~~~  254 (296)
T TIGR02016       197 ---EAQAFAREVGIPVLAAIPADEELRRKSLAYQIVGSHATPRFGKLFEELAGNVADAPPL  254 (296)
T ss_pred             ---HHHHHHHHcCCCeEEECCCCHHHHHHhcCCCeeecCCCHHHHHHHHHHHHHHHHhcCC
Confidence               23455555554433210                01112 2668888888888776443

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=82.07  E-value=6.4  Score=32.41  Aligned_cols=96  Identities=20%  Similarity=0.217  Sum_probs=53.2

Q ss_pred             EEEEEEeCCCchhhcc-cch--hhhcC---CcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc
Q psy2646          20 TLIVIWDTAGQERFRT-ITS--SYYRG---AHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA   93 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~-~~~--~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~   93 (168)
                      ..+.+.||+|...... +..  ..+..   ..-.++|+|.+..  ...+......+..    ...--++.||.|-...- 
T Consensus       335 ~d~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~--~~~l~~i~~~f~~----~~~~g~IlTKlDet~~~-  407 (484)
T PRK06995        335 KHIVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSH--GDTLNEVVQAYRG----PGLAGCILTKLDEAASL-  407 (484)
T ss_pred             CCeEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCc--HHHHHHHHHHhcc----CCCCEEEEeCCCCcccc-
Confidence            4688999999543221 101  11111   2236788888743  2222222222211    12346778999954321 


Q ss_pred             cCHHHHHHHHHhcCCCEEEEeccCCCCH-HHHHHH
Q psy2646          94 VDYQVAKEYADHLKIPFLETSAKNGANV-EQAFLT  127 (168)
Q Consensus        94 v~~~~~~~~~~~~~~~~~~vSa~~~~~i-~~i~~~  127 (168)
                         -.+..+....++|+.+++  +|+++ +++...
T Consensus       408 ---G~~l~i~~~~~lPI~yvt--~GQ~VPeDL~~a  437 (484)
T PRK06995        408 ---GGALDVVIRYKLPLHYVS--NGQRVPEDLHLA  437 (484)
T ss_pred             ---hHHHHHHHHHCCCeEEEe--cCCCChhhhccC
Confidence               234566677789998888  78888 665543

>PF01268 FTHFS: Formate--tetrahydrofolate ligase; InterPro: IPR000559 Formate--tetrahydrofolate ligase (6

Probab=81.25  E-value=1.7  Score=36.02  Aligned_cols=72  Identities=13%  Similarity=0.131  Sum_probs=40.5

Q ss_pred             CCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEe--ccCCCCHHHHHHHHHHHHHHHhccCCCCCCchh
Q psy2646          74 CDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETS--AKNGANVEQAFLTMATEIKKRVTKDEKPSSESD  147 (168)
Q Consensus        74 ~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vS--a~~~~~i~~i~~~l~~~~~~~~~~~~~~~~~~~  147 (168)
                      ..++|+||.+|+..-....+  .+.+.++++.+++++..+.  ++=|.|-.++-+.+++.+.+..+...++-+...
T Consensus       369 ~fGvpvVVAIN~F~tDT~aE--i~~I~~~~~~~Gv~~avs~~wa~GGeGa~eLA~~Vv~a~ee~~~~~fk~LY~l~  442 (557)
T PF01268_consen  369 KFGVPVVVAINRFPTDTDAE--IELIRELCEELGVRAAVSEHWAKGGEGAVELAEAVVEACEEEEPSNFKPLYDLE  442 (557)
T ss_dssp             CTT--EEEEEE--TTS-HHH--HHHHHHHCCCCCEEEEEC-HHHHGGGGCHHHHHHHHHH-HHHS------SS-TT
T ss_pred             hcCCCeEEEecCCCCCCHHH--HHHHHHHHHhCCCCEEEechhhcccccHHHHHHHHHHHhhccCCCCcCcccCCc
Confidence            45899999999987544333  2455677788887744443  566778899999999888666665555544443

3.4.3 from EC) (formyltetrahydrofolate synthetase) (FTHFS) is one of the enzymes participating in the transfer of one-carbon units, an essential element of various biosynthetic pathways. In many of these processes the transfers of one-carbon units are mediated by the coenzyme tetrahydrofolate (THF). In eukaryotes the FTHFS activity is expressed by a multifunctional enzyme, C-1-tetrahydrofolate synthase (C1-THF synthase), which also catalyses the dehydrogenase and cyclohydrolase activities. Two forms of C1-THF synthases are known [], one is located in the mitochondrial matrix, while the second one is cytoplasmic. In both forms the FTHFS domain consists of about 600 amino acid residues and is located in the C-terminal section of C1-THF synthase. In prokaryotes FTHFS activity is expressed by a monofunctional homotetrameric enzyme of about 560 amino acid residues []. The crystal structure of N(10)-formyltetrahydrofolate synthetase from Moorella thermoacetica shows that the subunit is composed of three domains organised around three mixed beta-sheets. There are two cavities between adjacent domains. One of them was identified as the nucleotide binding site by homology modelling. The large domain contains a seven-stranded beta-sheet surrounded by helices on both sides. The second domain contains a five-stranded beta-sheet with two alpha-helices packed on one side while the other two are a wall of the active site cavity. The third domain contains a four-stranded beta-sheet forming a half-barrel. The concave side is covered by two helices while the convex side is another wall of the large cavity. Arg 97 is likely involved in formyl phosphate binding. The tetrameric molecule is relatively flat with the shape of the letter X, and the active sites are located at the end of the subunits far from the subunit interface [].; GO: 0004329 formate-tetrahydrofolate ligase activity, 0005524 ATP binding, 0009396 folic acid-containing compound biosynthetic process; PDB: 2EO2_A 3DO6_B 1FPM_A 3RBO_A 3PZX_B 3QB6_A 1FP7_A 3SIN_B 1EG7_A 3QUS_A ....

>cd00477 FTHFS Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate

Probab=81.13  E-value=8.4  Score=31.82  Aligned_cols=58  Identities=10%  Similarity=0.046  Sum_probs=42.1

Q ss_pred             CCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEe--ccCCCCHHHHHHHHHHHHH
Q psy2646          74 CDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETS--AKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        74 ~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vS--a~~~~~i~~i~~~l~~~~~  133 (168)
                      ..+.|++|.+|+..-..+.+  .+.+.++++..++++..+.  +.-|.|-.++-+.+++.+.
T Consensus       354 ~fg~p~VVaiN~F~~Dt~~E--i~~v~~~~~~~g~~~~~~~~~~~GG~Ga~eLA~~Vi~a~e  413 (524)
T cd00477         354 KFGVPVVVAINKFSTDTDAE--LALVRKLAEEAGAFVAVSEHWAEGGKGAVELAEAVIEACE  413 (524)
T ss_pred             HcCCCeEEEecCCCCCCHHH--HHHHHHHHHHcCCCEEEehhhhhhhhhHHHHHHHHHHHhc
Confidence            34899999999997554433  3456678888888766553  5556788888888887665

FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2 fixation (acetogenesis) and the glycine synthase/reductase pathways of purinolysis. The key physiological role of this enzyme in acetogens is to catalyze the formylation of tetrahydrofolate, an initial step in the reduction of carbon dioxide and other one-carbon precursors to acetate. In purinolytic organisms, the enzymatic reaction is reversed, liberating formate from 10-formyltetrahydrofolate with concurrent production of ATP.

>KOG3022|consensus

Probab=80.07  E-value=24  Score=26.93  Aligned_cols=119  Identities=13%  Similarity=0.163  Sum_probs=63.8

Q ss_pred             eCCeEEEEEEEeCCC-chhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEE-ecC--CCCC
Q psy2646          15 EERTRTLIVIWDTAG-QERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG-NKN--DQTS   90 (168)
Q Consensus        15 ~~~~~~~l~l~Dt~G-~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~-nK~--Dl~~   90 (168)
                      ++.....+.+.|||. ..+-+-..-.+++.+++.|+|-.. ..-++.++++-.......   ++|++-++ |..  +-+.
T Consensus       152 vdwg~lDyLviDtPPGtsDehls~~~~~~~~~gAviVTTP-Q~vAl~Dv~K~i~fc~K~---~I~ilGvVENMs~f~Cp~  227 (300)
T KOG3022|consen  152 VDWGELDYLVIDTPPGTSDEHLSLVQFLRESDGAVIVTTP-QEVALQDVRKEIDFCRKA---GIPILGVVENMSGFVCPK  227 (300)
T ss_pred             CCCCCcCEEEEeCCCCCChhhhheeecccccCceEEEeCc-hhhhhHHHHhhhhhhhhc---CCceEEEEeccccccCCC
Confidence            456778899999984 333232334566666887666433 334566666655544433   68876544 321  1111


Q ss_pred             C----cccCHHHHHHHHHhcCCCEEE------------------EeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          91 K----KAVDYQVAKEYADHLKIPFLE------------------TSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        91 ~----~~v~~~~~~~~~~~~~~~~~~------------------vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      .    ..+...-++.+++.++++++-                  +-..-..-..+.|..++..+.+...
T Consensus       228 C~~~~~iF~~gGg~~l~~~~glp~Lg~iPld~~i~~~~d~G~~~v~~~p~s~~~~af~~i~~~i~~~~~  296 (300)
T KOG3022|consen  228 CGHSTNIFGSGGGERLAEELGLPLLGSLPLDPLIAESSDSGVPFVEEYPDSPASEAFEDIAEKLVEQLS  296 (300)
T ss_pred             CCCcceeccCccHHHHHHHcCCCeEeecCCCHHHHHhccCCCeeEecCCCchHHHHHHHHHHHHHHhhc
Confidence            1    112222345677777665441                  1111223355677777777766544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	168
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		9e-52
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		1e-51
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		1e-51
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		1e-51
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		1e-51
4fmc_B	171	Espg-Rab1 Complex Length = 171		1e-51
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		2e-50
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		3e-50
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		4e-50
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		7e-50
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		4e-45
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		1e-44
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		4e-43
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		1e-42
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		1e-30
4fmc_F	117	Espg-Rab1 Complex Length = 117		2e-30
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		7e-30
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		8e-30
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		1e-29
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		1e-29
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		2e-29
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		2e-29
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		7e-29
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		7e-28
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		1e-27
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		2e-27
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		8e-27
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		2e-26
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		2e-26
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		3e-26
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		3e-26
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		3e-26
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		3e-26
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		3e-26
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		3e-26
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		7e-26
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		1e-25
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		1e-25
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		1e-25
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		1e-25
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		1e-25
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		2e-25
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		2e-25
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		2e-25
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		3e-25
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		3e-25
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		4e-25
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		4e-25
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		4e-25
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		7e-25
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		8e-25
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		9e-25
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		1e-24
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		3e-24
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		3e-24
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		3e-24
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		4e-24
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		4e-24
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		1e-23
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		1e-23
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		2e-23
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		2e-23
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		2e-23
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		3e-23
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		3e-23
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		3e-23
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		5e-23
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		1e-22
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		1e-22
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		2e-22
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		3e-22
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		9e-22
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		1e-21
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		2e-21
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		4e-21
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		3e-20
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		3e-20
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		8e-20
2efc_B	181	Ara7-GdpATVPS9A Length = 181		2e-19
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		2e-19
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		6e-19
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		6e-19
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		6e-19
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		8e-19
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		1e-18
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		1e-18
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		2e-18
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		6e-18
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		8e-18
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		1e-17
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		6e-17
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		7e-17
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		8e-17
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		1e-16
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		1e-16
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		2e-16
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		3e-16
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		3e-16
1vg1_A	185	Gdp-bound Rab7 Length = 185		5e-16
4q21_A	189	Molecular Switch For Signal Transduction: Structura		8e-16
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		8e-16
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		2e-15
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		4e-15
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		4e-15
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		4e-15
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		5e-15
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		5e-15
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		9e-15
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		9e-15
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		1e-14
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		1e-14
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		1e-14
6q21_A	171	Molecular Switch For Signal Transduction: Structura		1e-14
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		1e-14
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		1e-14
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-14
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		1e-14
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		1e-14
1wq1_R	166	Ras-Rasgap Complex Length = 166		1e-14
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-14
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		1e-14
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-14
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		1e-14
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		1e-14
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		1e-14
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-14
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		1e-14
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		2e-14
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		2e-14
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		2e-14
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		2e-14
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		2e-14
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		2e-14
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		4e-14
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		4e-14
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		4e-14
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		4e-14
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		4e-14
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		4e-14
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		4e-14
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		4e-14
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		4e-14
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		5e-14
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		5e-14
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		6e-14
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		8e-14
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		9e-14
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		1e-13
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		1e-13
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-13
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		1e-13
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		1e-13
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		2e-13
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		5e-13
2bku_A	177	Kap95p:rangtp Complex Length = 177		4e-12
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		4e-12
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		4e-12
1byu_A	216	Canine Gdp-Ran Length = 216		4e-12
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		4e-12
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		4e-12
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		5e-12
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		5e-12
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		5e-12
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		9e-12
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		1e-11
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		2e-11
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		2e-11
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		3e-11
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		3e-11
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		3e-11
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		4e-11
3icq_B	171	Karyopherin Nuclear State Length = 171		4e-11
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		4e-11
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		6e-11
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		7e-11
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		8e-11
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		9e-11
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		9e-11
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		9e-11
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		1e-10
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		3e-10
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		5e-09
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		1e-08
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		2e-08
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		8e-08
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		8e-08
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		2e-07
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		3e-07
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		4e-07
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		8e-07
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		8e-07
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		8e-07
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		9e-07
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		1e-06
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		1e-06
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		1e-06
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		2e-06
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		2e-06
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		3e-06
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		4e-06
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		4e-06
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		4e-06
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		4e-06
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		4e-06
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		4e-06
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		4e-06
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		4e-06
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		4e-06
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		5e-06
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		5e-06
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		5e-06
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		5e-06
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		5e-06
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		5e-06
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		5e-06
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		5e-06
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		5e-06
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		5e-06
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		5e-06
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		6e-06
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		6e-06
1s1c_A	183	Crystal Structure Of The Complex Between The Human		6e-06
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		6e-06
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		6e-06
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		8e-06
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		9e-06
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		3e-05
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		3e-05
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		3e-05
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		3e-05
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		7e-05
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		8e-05
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		8e-05
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		8e-05
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		2e-04
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		2e-04
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		2e-04
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		2e-04
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		2e-04
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		2e-04
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		3e-04
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		3e-04
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		3e-04
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		3e-04
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		3e-04
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		3e-04
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		3e-04
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		3e-04
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		4e-04
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		4e-04
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		4e-04
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		4e-04
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		4e-04
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		4e-04
1mh1_A	186	Small G-Protein Length = 186		5e-04
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		5e-04
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		5e-04
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		5e-04
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		5e-04
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		5e-04
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		6e-04
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		7e-04
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		7e-04
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		7e-04
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		8e-04
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		9e-04

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score =  199 bits (505), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 92/113 (81%), Positives = 101/113 (89%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 69  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 128
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+
Sbjct: 129 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 181

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  198 bits (504), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 92/113 (81%), Positives = 101/113 (89%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 52  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 111
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+
Sbjct: 112 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 164

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score =  198 bits (504), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 92/113 (81%), Positives = 101/113 (89%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 69  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 128
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+
Sbjct: 129 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 181

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  198 bits (503), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 92/113 (81%), Positives = 101/113 (89%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 59  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 118
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+
Sbjct: 119 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  198 bits (503), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 92/113 (81%), Positives = 101/113 (89%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 78  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 137
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+
Sbjct: 138 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 190

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  198 bits (503), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 92/113 (81%), Positives = 101/113 (89%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 59  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 118
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+
Sbjct: 119 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  194 bits (494), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 91/113 (80%), Positives = 100/113 (88%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 61  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 120
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
            K D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TMA EIKKR+
Sbjct: 121 IKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 173

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score =  193 bits (491), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 90/113 (79%), Positives = 100/113 (88%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE++ N+KQWL+EIDRYA +NVNKLLVG
Sbjct: 62  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK+D T+KK VD   AKE+AD L IPFLETSAKN  NVEQAF+TMA EIKKR+
Sbjct: 122 NKSDLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRM 174

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score =  193 bits (490), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 90/113 (79%), Positives = 100/113 (88%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE++ N+KQWL+EIDRYA +NVNKLLVG
Sbjct: 62  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK+D T+KK VD   AKE+AD L IPFLETSAKN  NVEQAF+TMA EIKKR+
Sbjct: 122 NKSDLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRM 174

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  192 bits (488), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 91/112 (81%), Positives = 98/112 (87%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 86  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 145
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           NK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F T A EIKKR
Sbjct: 146 NKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFXTXAAEIKKR 197

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  176 bits (447), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 88/148 (59%), Positives = 107/148 (72%), Gaps = 6/148 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRG+HGII+VYD TDQE+FN +K WL+EIDRYA   V KLLVG
Sbjct: 61  IWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVG 120
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK---DE 140
           NK D   K+ V+Y VAKE+AD  K+PFLETSA +  NVE AFLTMA +IK+ +++   +E
Sbjct: 121 NKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNE 180
Query: 141 KPSSESDAKKLNLNSGKPVDAPRSGGCC 168
               + D   +NL   K      +GGCC
Sbjct: 181 TTQKKEDKGNVNL---KGQSLTNTGGCC 205

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  175 bits (444), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 87/148 (58%), Positives = 106/148 (71%), Gaps = 5/148 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRG+HGII+VYD TDQE+FN +K WL+EIDRYA   V KLLVG
Sbjct: 61  IWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVG 120
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK---DE 140
           NK D   K+ V+Y VAKE+AD  K+PFLETSA +  NVE AFLTMA +IK+ +++   +E
Sbjct: 121 NKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNE 180
Query: 141 KPSSESDAKKLNLNSGKPVDAPRSGGCC 168
               + D   +NL      +    GGCC
Sbjct: 181 TTQKKEDKGNVNLKGQSLTNT--GGGCC 206

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  170 bits (430), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 81/113 (71%), Positives = 93/113 (82%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGII+VYD TD+++F+N+KQW++EIDRYA +NVNKLLVG
Sbjct: 62  IWDTAGQERFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK D  SK+ V     +E AD   I F+ETSAKN  NVEQAF TMA EIKKRV
Sbjct: 122 NKCDLVSKRVVTSDEGRELADSHGIKFIETSAKNAYNVEQAFHTMAGEIKKRV 174

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  168 bits (426), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 79/111 (71%), Positives = 91/111 (81%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRG+HGII+VYD TDQE+FN +K WL+EIDRYA   V KLLVG
Sbjct: 74  IWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVG 133
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D   K+ V+Y VAKE+AD  K+PFLETSA +  NVE AFLTMA +IK+
Sbjct: 134 NKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKE 184

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  129 bits (323), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 64/116 (55%), Positives = 82/116 (70%), Gaps = 2/116 (1%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITS+YYRG HG+IVVYD T  E+F N+K+WL EI++  CD+V ++LVG
Sbjct: 62  IWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQ-NCDDVCRILVG 120
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           NKND   +K V+ + A ++A  + I   ETSAK   NVE+ F    TE+  R  KD
Sbjct: 121 NKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMF-NCITELVLRAKKD 175

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score =  127 bits (320), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 58/67 (86%), Positives = 63/67 (94%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+EIDRYA +NVNKLLVG
Sbjct: 51  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 110
Query: 84  NKNDQTS 90
           NK D T+
Sbjct: 111 NKCDLTT 117

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  126 bits (316), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 59/113 (52%), Positives = 80/113 (70%), Gaps = 1/113 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTIT++YYRGA GII+VYD TD+ TF N+KQW + ++ +A D    LLVG
Sbjct: 56  IWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVG 115
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK+D  ++     Q  +  A  L IPF+E+SAKN  NV + F T+A  I++++
Sbjct: 116 NKSDMETRVVTADQ-GEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 167

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  125 bits (315), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 58/113 (51%), Positives = 80/113 (70%), Gaps = 1/113 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQERFRTIT++YYRGA GII+VYD TD+ TF N+KQW + ++ +A D    LLVG
Sbjct: 73  LWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVG 132
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK+D  + + V     +  A  L IPF+E+SAKN  NV + F T+A  I++++
Sbjct: 133 NKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 184

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  125 bits (314), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 58/113 (51%), Positives = 80/113 (70%), Gaps = 1/113 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQERFRTIT++YYRGA GII+VYD TD+ TF N+KQW + ++ +A D    LLVG
Sbjct: 60  LWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVG 119
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK+D  ++     Q  +  A  L IPF+E+SAKN  NV + F T+A  I++++
Sbjct: 120 NKSDMETRVVTADQ-GEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 171

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  125 bits (314), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 59/113 (52%), Positives = 80/113 (70%), Gaps = 1/113 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFRTIT++YYRGA GII+VYD TD+ TF N+KQW + ++ +A D    LLVG
Sbjct: 56  IWDTAGQERFRTITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVG 115
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK+D  + + V     +  A  L IPF+E+SAKN  NV + F T+A  I++++
Sbjct: 116 NKSDXET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 167

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  124 bits (312), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 58/126 (46%), Positives = 89/126 (70%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + IWDTAGQERFRTIT++YYRGA GI++VYD T++++F+N++ W+  I+ +A  +V 
Sbjct: 56  RIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVE 115
Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
           K+++GNK D   K+ V  +  ++ A    I F+ETSAK   NVE AF T+A +IK ++ K
Sbjct: 116 KMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK 175
Query: 139 DEKPSS 144
           + K ++
Sbjct: 176 NWKATA 181

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  124 bits (312), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 58/113 (51%), Positives = 80/113 (70%), Gaps = 1/113 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQERFRTIT++YYRGA GII+VYD TD+ TF N+KQW + ++ +A D    LLVG
Sbjct: 56  LWDTAGQERFRTITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVG 115
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK+D  + + V     +  A  L IPF+E+SAKN  NV + F T+A  I++++
Sbjct: 116 NKSDXET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 167

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  122 bits (307), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 57/120 (47%), Positives = 85/120 (70%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + IWDTAGQERFRTIT++YYRGA GI++VYD T++++F+N++ W+  I+ +A  +V 
Sbjct: 54  RIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVE 113
Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
           K+++GNK D   K+ V  +  ++ A    I F+ETSAK   NVE AF T+A +IK ++ K
Sbjct: 114 KMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK 173

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  119 bits (299), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 52/115 (45%), Positives = 80/115 (69%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQERFR++T +YYR AH ++++YD T++ +F+N++ WL EI  YA  +V  +L+G
Sbjct: 64  MWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLG 123
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
           NK D   ++ V  +  ++ A    +PF+ETSAK G NV+ AF  +A E+K+R  K
Sbjct: 124 NKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMK 178

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  118 bits (296), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 58/128 (45%), Positives = 87/128 (67%), Gaps = 1/128 (0%)
Query: 9   TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           T++  + +  R  + IWDTAGQERFRTIT SYYR A+G I+ YD T + +F ++  W+E+
Sbjct: 67  TMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIED 126
Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIP-FLETSAKNGANVEQAFLT 127
           + +YA  N+ +LL+GNK+D +  + V    A+  A+H  I   +ETSAK+ +NVE+AFL 
Sbjct: 127 VRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLR 186
Query: 128 MATEIKKR 135
           +ATE+  R
Sbjct: 187 VATELIMR 194

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  117 bits (294), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 54/113 (47%), Positives = 79/113 (69%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQE FR+IT SYYRGA G ++VYD T +ETFN+L  WLE+  +++  N+  +L+G
Sbjct: 74  IWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIG 133
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK+D  S++ V  +  + +A    + F+ETSAK   NVE+AF+  A EI +++
Sbjct: 134 NKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKI 186

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  115 bits (289), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 53/107 (49%), Positives = 73/107 (68%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + IWDTAGQER+RTIT++YYRGA G I++YD T++E+FN ++ W  +I  Y+ DN  
Sbjct: 53  RIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQ 112
Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
            LLVGNK D   ++ V  +  ++ ADHL   F E SAK+  NV+Q F
Sbjct: 113 VLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTF 159

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  114 bits (285), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 74/111 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T++E+F   K W++E+ R A  N+   L G
Sbjct: 59  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSG 118
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D  +K+AVD+Q A+ YAD   + F+ETSAK   NV + F+ +A ++ K
Sbjct: 119 NKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  114 bits (285), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 74/111 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T++E+F   K W++E+ R A  N+   L G
Sbjct: 59  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSG 118
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D  +K+AVD+Q A+ YAD   + F+ETSAK   NV + F+ +A ++ K
Sbjct: 119 NKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  114 bits (285), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 74/111 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T++E+F   K W++E+ R A  N+   L G
Sbjct: 60  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSG 119
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D  +K+AVD+Q A+ YAD   + F+ETSAK   NV + F+ +A ++ K
Sbjct: 120 NKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 170

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  114 bits (285), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 74/111 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T++E+F   K W++E+ R A  N+   L G
Sbjct: 59  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSG 118
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D  +K+AVD+Q A+ YAD   + F+ETSAK   NV + F+ +A ++ K
Sbjct: 119 NKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  114 bits (285), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 74/111 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T++E+F   K W++E+ R A  N+   L G
Sbjct: 59  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSG 118
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D  +K+AVD+Q A+ YAD   + F+ETSAK   NV + F+ +A ++ K
Sbjct: 119 NKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  114 bits (285), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 74/111 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T++E+F   K W++E+ R A  N+   L G
Sbjct: 59  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSG 118
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D  +K+AVD+Q A+ YAD   + F+ETSAK   NV + F+ +A ++ K
Sbjct: 119 NKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  114 bits (285), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 74/111 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T++E+F   K W++E+ R A  N+   L G
Sbjct: 59  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSG 118
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D  +K+AVD+Q A+ YAD   + F+ETSAK   NV + F+ +A ++ K
Sbjct: 119 NKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  114 bits (284), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 53/112 (47%), Positives = 79/112 (70%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQE FR+IT SYYRGA G ++VYD T ++TFN+L  WLE+  +++  N+  +L+G
Sbjct: 63  IWDTAGQESFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIG 122
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           NK+D  S++ V  +  + +A    + F+ETSAK  +NVE+AF+  A EI ++
Sbjct: 123 NKSDLESRREVKKEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIYEK 174

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  112 bits (281), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 54/109 (49%), Positives = 76/109 (69%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFR+IT SYYR A+ +I+ YD T +E+F  L +WL EI++YA + V  +LVG
Sbjct: 79  IWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVG 138
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D   ++ V  Q A+E+++   + +LETSAK   NVE+ FL +A  +
Sbjct: 139 NKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 187

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  112 bits (280), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 52/109 (47%), Positives = 72/109 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T+ +TF   K W++E+ R A  N+   L G
Sbjct: 58  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAG 117
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D  SK+AV++Q A+ YAD   + F+ETSAK   NV + F+ +A ++
Sbjct: 118 NKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score =  112 bits (280), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 52/107 (48%), Positives = 71/107 (66%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + IWDTAG ER+RTIT++YYRGA G I+ YD T++E+FN ++ W  +I  Y+ DN  
Sbjct: 56  RIKLQIWDTAGLERYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQ 115
Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
            LLVGNK D   ++ V  +  ++ ADHL   F E SAK+  NV+Q F
Sbjct: 116 VLLVGNKCDXEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTF 162

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  112 bits (280), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 55/117 (47%), Positives = 74/117 (63%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFR++T SYYRGA G ++VYD T +ET+N+L  WL +    A  N+  +L G
Sbjct: 78  IWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCG 137
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE 140
           NK D   ++ V +  A  +A   ++ FLETSA  G NVE+AFL  A  I  ++   E
Sbjct: 138 NKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSGE 194

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  112 bits (280), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 52/109 (47%), Positives = 72/109 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T+ +TF   K W++E+ R A  N+   L G
Sbjct: 56  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAG 115
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D  SK+AV++Q A+ YAD   + F+ETSAK   NV + F+ +A ++
Sbjct: 116 NKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 164

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score =  112 bits (279), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 72/111 (64%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T+QETF   K W++E+ R A  ++   L G
Sbjct: 61  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAG 120
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D  +K+ V+Y+ A+ YAD   + F+ETSAK   NV   FL +A ++ K
Sbjct: 121 NKADLANKRMVEYEEAQAYADDNSLLFMETSAKTAMNVNDLFLAIAKKLPK 171

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  111 bits (278), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 53/114 (46%), Positives = 80/114 (70%), Gaps = 1/114 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERF +ITS+YYR A GII+VYD T +ETF++L +W++ ID+YA ++   LLVG
Sbjct: 79  IWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVG 138
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK D  + + +  Q  +++A  +  + F E SAK+  NV++ FL +  +I K++
Sbjct: 139 NKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 192

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  111 bits (278), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 72/111 (64%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T++E+F   K W++E+ R A  N+   L G
Sbjct: 60  IWDTAGQERYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSG 119
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D  +K+AVD+Q A+ YAD   + F ETSAK   NV + F  +A ++ K
Sbjct: 120 NKADLANKRAVDFQEAQSYADDNSLLFXETSAKTSXNVNEIFXAIAKKLPK 170

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  111 bits (278), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 52/111 (46%), Positives = 73/111 (65%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAG ER+ ++   YYRGA   IVVYD T++E+F   K W++E+ R A  N+   L G
Sbjct: 58  IWDTAGLERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSG 117
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D  +K+AVD+Q A+ YAD   + F+ETSAK   NV + F+ +A ++ K
Sbjct: 118 NKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 168

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  110 bits (276), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 54/109 (49%), Positives = 72/109 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFR +T SYYRGA G ++VYD T + T+N+L  WL +       N   +L+G
Sbjct: 68  IWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIG 127
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D  +++ V Y+ AK++A+   + FLE SAK G NVE AFL  A +I
Sbjct: 128 NKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 176

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  110 bits (276), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 54/117 (46%), Positives = 74/117 (63%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFR++T SYYRGA G ++VYD T +ET+N L  WL +    A  N+  +L G
Sbjct: 63  IWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCG 122
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE 140
           NK D  + + V +  A  +A   ++ FLETSA  G NVE+AF+  A +I  ++   E
Sbjct: 123 NKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESGE 179

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  110 bits (275), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 76/111 (68%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+R ITS+YYRGA G ++VYD     T+ N+++WL+E+  +A  N+  +LVG
Sbjct: 73  IWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVG 132
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK+D    +AV    A+ +A+   + F+ETSA +  NVE AF T+ TEI +
Sbjct: 133 NKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYR 183

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  110 bits (274), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 53/109 (48%), Positives = 75/109 (68%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+R ITS+YYRGA G ++VYD     T+ N+++WL+E+  +A  N+  +LVG
Sbjct: 82  IWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVG 141
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK+D    +AV    A+ +A+   + F+ETSA +  NVE AF T+ TEI
Sbjct: 142 NKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  110 bits (274), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 56/128 (43%), Positives = 80/128 (62%), Gaps = 9/128 (7%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+R ITS+YYRGA G ++VYD     T+ N+++WL+E+  +A  N+  +LVG
Sbjct: 58  IWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVG 117
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK--------- 134
           NK+D    +AV    A+ +A+   + F+ETSA +  NVE+AF  + TEI +         
Sbjct: 118 NKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIAD 177
Query: 135 RVTKDEKP 142
           R   DE P
Sbjct: 178 RAAHDESP 185

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  109 bits (272), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 51/109 (46%), Positives = 71/109 (65%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAG ER+ ++   YYRGA   IVVYD T+ +TF   K W++E+ R A  N+   L G
Sbjct: 58  IWDTAGLERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAG 117
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D  SK+AV++Q A+ YAD   + F+ETSAK   NV + F+ +A ++
Sbjct: 118 NKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  109 bits (272), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 53/113 (46%), Positives = 73/113 (64%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQ RFR +T SYYRGA G ++VYD T + T+N+L  WL +       N   +L+G
Sbjct: 83  IWDTAGQGRFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIG 142
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK D  +++ V Y+ AK++A+   + FLE SAK G NVE AFL  A +I + +
Sbjct: 143 NKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQNI 195

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  109 bits (272), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 57/121 (47%), Positives = 79/121 (65%), Gaps = 5/121 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+R ITS+YYRGA G ++VYD T + +F N+++WL+E+   A  N+  LLVG
Sbjct: 61  IWDTAGQERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVG 120
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI-----KKRVTK 138
           NK+D    + ++   A +YA   K+ F+ETSA    NVE AF  +  EI     KK+ TK
Sbjct: 121 NKSDLKHLRVINDNDATQYAKKEKLAFIETSALEATNVELAFHQLLNEIYNVRQKKQATK 180
Query: 139 D 139
           +
Sbjct: 181 N 181

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  108 bits (271), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 62/156 (39%), Positives = 88/156 (56%), Gaps = 9/156 (5%)
Query: 15  EERTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWL 66
           E  TRTL +        IWDTAGQER+R ITS+YYRGA G ++VYD +   ++ N   WL
Sbjct: 49  EFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWL 108
Query: 67  EEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
            E+   A DNV   L+GNK+D    +AV  + +K +A   ++ F ETSA N  NV++AF 
Sbjct: 109 SELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFE 168
Query: 127 TMATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAP 162
            +   I ++V+K +    +S A   N N     + P
Sbjct: 169 ELINTIYQKVSKHQMDLGDSSANG-NANGASAPNGP 203

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  107 bits (267), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 52/109 (47%), Positives = 74/109 (67%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAG ER+R ITS+YYRGA G ++VYD     T+ N+++WL+E+  +A  N+  +LVG
Sbjct: 82  IWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVG 141
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK+D    +AV    A+ +A+   + F+ETSA +  NVE AF T+ TEI
Sbjct: 142 NKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  107 bits (267), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 52/111 (46%), Positives = 75/111 (67%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAG ER+R ITS+YYRGA G ++VYD     T+ N+++WL+E+  +A  N+  +LVG
Sbjct: 61  IWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVG 120
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK+D    +AV    A+ +A+   + F+ETSA +  NVE AF T+ TEI +
Sbjct: 121 NKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYR 171

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  107 bits (267), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 50/107 (46%), Positives = 70/107 (65%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + IWDTAGQER+RTIT++YYRGA G I++YD T++E+FN ++ W  +I  Y+ DN  
Sbjct: 71  RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQ 130
Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
            +LVGNK D   ++ V  +  +  A+ L   F E SAK   +V QAF
Sbjct: 131 VILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAF 177

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  107 bits (267), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 48/114 (42%), Positives = 79/114 (69%), Gaps = 1/114 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           +WDTAGQERFR++T++++R A G ++++D T Q++F N++ W+ ++   A C+N + +L+
Sbjct: 88  LWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLI 147
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           GNK D   ++ V+ + A+E AD   IP+ ETSA  G NVE+A  T+   I KR+
Sbjct: 148 GNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM 201

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  107 bits (266), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 52/109 (47%), Positives = 71/109 (65%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERFR++T SYYRGA G ++VYD T +ET+N L  WL +    A  N+  +L G
Sbjct: 64  IWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCG 123
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D  + + V +  A  +A   ++ FLETSA  G +VE+AF+  A +I
Sbjct: 124 NKKDLDADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKI 172

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  105 bits (262), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 52/109 (47%), Positives = 73/109 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAG ER+R ITS+YYRGA G ++VYD     T+ N+++WL+E+  +A  N+   LVG
Sbjct: 58  IWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVG 117
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK+D    +AV    A+ +A+   + F+ETSA +  NVE AF T+ TEI
Sbjct: 118 NKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 166

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  105 bits (262), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 52/109 (47%), Positives = 73/109 (66%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAG ER+R ITS+YYRGA G ++VYD     T+ N+++WL+E+  +A  N+   LVG
Sbjct: 64  IWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVG 123
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK+D    +AV    A+ +A+   + F+ETSA +  NVE AF T+ TEI
Sbjct: 124 NKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 172

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  105 bits (261), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 49/107 (45%), Positives = 68/107 (63%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + IWDTAGQER+RTIT++YYRGA G +++YD  +QE+F  ++ W  +I  Y+ DN  
Sbjct: 70  RIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQ 129
Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
            +LVGNK D   ++ V  +  +  AD L   F E SAK   NV+Q F
Sbjct: 130 VILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVF 176

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  104 bits (259), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 50/115 (43%), Positives = 73/115 (63%), Gaps = 4/115 (3%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
            +IWDTAGQERFR +   YYRG+   I+VYD T +ETF+ LK W+ E+ ++   ++   +
Sbjct: 56  FLIWDTAGQERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAI 115
Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
            GNK D T  + V  + AK+YAD +   F+ETSAKN  N+ + F+    EI +R+
Sbjct: 116 AGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFI----EISRRI 166

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  104 bits (259), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 55/132 (41%), Positives = 86/132 (65%), Gaps = 8/132 (6%)
Query: 15  EERTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWL 66
           E  TRT+++        IWDTAG ER+R ITS+YYRGA G ++V+D T  +T+  +++WL
Sbjct: 61  EFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWL 120
Query: 67  EEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
           +E+  +A   +  +LVGNK+D +  + V  + A+ +A++  + FLETSA +  NVE AF 
Sbjct: 121 KELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFE 180
Query: 127 TMATEIKKRVTK 138
           T+  EI  +V+K
Sbjct: 181 TVLKEIFAKVSK 192

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score =  104 bits (259), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 52/123 (42%), Positives = 82/123 (66%), Gaps = 6/123 (4%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           RT++ +WDTAGQERFR+I  SY+R A G++++YD T +++F N+++W++ I+  A + V 
Sbjct: 76  RTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVP 135
Query: 79  KLLVGNKNDQTSKKAVDYQ--VAKEYADHLKIP----FLETSAKNGANVEQAFLTMATEI 132
            +LVGNK D     A + Q  V   + + L +     F ETSAK+G+N+ +A L +A E+
Sbjct: 136 IMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREV 195
Query: 133 KKR 135
           KKR
Sbjct: 196 KKR 198

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score =  104 bits (259), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 51/109 (46%), Positives = 70/109 (64%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAG ERFR++T SYYRGA G ++VYD T +ET+N L  WL +    A  N+  +L G
Sbjct: 61  IWDTAGLERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCG 120
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D  + + V +  A  +A   ++ FLETSA  G +VE+AF+  A +I
Sbjct: 121 NKKDLDADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKI 169

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  104 bits (259), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 55/132 (41%), Positives = 86/132 (65%), Gaps = 8/132 (6%)
Query: 15  EERTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWL 66
           E  TRT+++        IWDTAG ER+R ITS+YYRGA G ++V+D T  +T+  +++WL
Sbjct: 46  EFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWL 105
Query: 67  EEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
           +E+  +A   +  +LVGNK+D +  + V  + A+ +A++  + FLETSA +  NVE AF 
Sbjct: 106 KELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFE 165
Query: 127 TMATEIKKRVTK 138
           T+  EI  +V+K
Sbjct: 166 TVLKEIFAKVSK 177

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score =  103 bits (257), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 51/142 (35%), Positives = 88/142 (61%), Gaps = 5/142 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           +WDTAG ERFR++T++++R A G ++++D T Q++F N++ W+ ++   A C+N + +L+
Sbjct: 74  LWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLI 133
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR----VTK 138
           GNK D   ++ V+ + A+E A+   IP+ ETSA  G NVE++  T+   I KR    V K
Sbjct: 134 GNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRMEKCVEK 193
Query: 139 DEKPSSESDAKKLNLNSGKPVD 160
            + P + +      L+  KP +
Sbjct: 194 TQVPDTVNGGNSGKLDGEKPAE 215

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score =  102 bits (253), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 46/116 (39%), Positives = 79/116 (68%), Gaps = 1/116 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           +WDTAG ERFR++T++++R A G ++++D T Q++F N++ W+ ++   A C+N + +L+
Sbjct: 74  LWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLI 133
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
           GNK D   ++ V+ + A+E A+   IP+ ETSA  G NVE++  T+   I KR+ K
Sbjct: 134 GNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRMEK 189

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score =  102 bits (253), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 49/115 (42%), Positives = 72/115 (62%), Gaps = 4/115 (3%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
            +IWDTAG ERFR +   YYRG+   I+VYD T +ETF+ LK W+ E+ ++   ++   +
Sbjct: 57  FLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAI 116
Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
            GNK D T  + V  + AK+YAD +   F+ETSAKN  N+ + F+    EI +R+
Sbjct: 117 AGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFI----EISRRI 167

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  101 bits (251), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 45/111 (40%), Positives = 72/111 (64%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
            +IWDTAGQERF ++   YYRG+   ++VYD T Q++F  LK+W++E+  +  +N+   +
Sbjct: 74  FLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAI 133
Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
            GNK D +  + V  + AKEYA+ +    +ETSAKN  N+E+ F  ++ +I
Sbjct: 134 AGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQI 184

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 54/123 (43%), Positives = 74/123 (60%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAG ER+R ITS+YYRGA G ++VYD +   ++ N   WL E+   A DNV   L+G
Sbjct: 63  IWDTAGLERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIG 122
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D    +AV    AK +A   ++ F ETSA N  NV++AF  +   I + V+K +   
Sbjct: 123 NKSDLAHLRAVPTDEAKNFAMENQMLFTETSALNSDNVDKAFRELIVAIFQMVSKHQVDL 182
Query: 144 SES 146
           S S
Sbjct: 183 SGS 185

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 99.4 bits (246), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 44/121 (36%), Positives = 80/121 (66%), Gaps = 1/121 (0%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNV 77
           R  + +WDTAG ERFR++T++++R A G ++++D T++++F N++ W+ ++  +A  +N 
Sbjct: 69  RIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENP 128
Query: 78  NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT 137
           + +L GNK+D   ++AV  + A+E A+   IP+ ETSA NG N+  A   +   I KR+ 
Sbjct: 129 DIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRME 188
Query: 138 K 138
           +
Sbjct: 189 R 189

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score = 98.6 bits (244), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 46/116 (39%), Positives = 76/116 (65%), Gaps = 1/116 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           +WDTAG ERFR++T++++R A G ++ +D T Q++F N++ W  ++   A C+N + +L+
Sbjct: 74  LWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIVLI 133
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
           GNK D   ++ V+ + A+E A+   IP+ ETSA  G NVE++  T+   I KR  K
Sbjct: 134 GNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIXKRXEK 189

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 46/116 (39%), Positives = 76/116 (65%), Gaps = 1/116 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           +WDTAG ERFR++T++++R A G ++ +D T Q++F N++ W  ++   A C+N + +L+
Sbjct: 74  LWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIVLI 133
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
           GNK D   ++ V+ + A+E A+   IP+ ETSA  G NVE++  T+   I KR  K
Sbjct: 134 GNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIXKRXEK 189

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 97.1 bits (240), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 50/120 (41%), Positives = 75/120 (62%), Gaps = 5/120 (4%)
Query: 19  RTLIVIWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN- 76
           R  I +WDTAGQERFR ++   YYR  H ++ VYD T+  +F++L  W+EE  ++   N 
Sbjct: 68  RIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLAND 127
Query: 77  VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKN---GANVEQAFLTMATEIK 133
           + ++LVGNK D  S   V   +A+++AD   +P  ETSAKN     +VE  F+T+A ++K
Sbjct: 128 IPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLK 187

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 94.4 bits (233), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 51/112 (45%), Positives = 70/112 (62%), Gaps = 2/112 (1%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN-VNKL 80
           + IWDTAGQERFRT+T SYYRGA G+I+VYD T ++TF  L  WL E++ Y   N +   
Sbjct: 66  LAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNX 125
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           LVGNK D+ +++ VD     ++A      F+E SAK    V+ AF  +  +I
Sbjct: 126 LVGNKIDKENRE-VDRNEGLKFARKHSXLFIEASAKTCDGVQCAFEELVEKI 176

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score = 94.0 bits (232), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 50/120 (41%), Positives = 73/120 (60%), Gaps = 5/120 (4%)
Query: 19  RTLIVIWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN- 76
           R  I +WDTAGQERFR ++   YYR  H ++ VYD T+  +F++L  W+EE  ++   N 
Sbjct: 77  RIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLAND 136
Query: 77  VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKN---GANVEQAFLTMATEIK 133
           + ++LVGNK D  S   V   +A+++AD    P  ETSAKN     +VE  F T+A ++K
Sbjct: 137 IPRILVGNKCDLRSAIQVPTDLAQKFADTHSXPLFETSAKNPNDNDHVEAIFXTLAHKLK 196

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 92.8 bits (229), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 54/154 (35%), Positives = 81/154 (52%), Gaps = 5/154 (3%)
Query: 15  EERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC 74
           E+RT  L  +WDTAG ERFR++  SY R +   +VVYD T+  +F    +W++++     
Sbjct: 58  EDRTIRL-QLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERG 116
Query: 75  DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
            +V  +LVGNK D   K+ V  +  +  A  L + F+ETSAK G NV+Q F  +A  +  
Sbjct: 117 SDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPG 176
Query: 135 RVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
                E     S    +++   KP + P S G C
Sbjct: 177 M----ESTQDRSREDMIDIKLEKPQEQPVSEGGC 206

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 92.0 bits (227), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 43/111 (38%), Positives = 66/111 (59%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   I+V+D T+Q +F   K+W++E+      N+   L G
Sbjct: 65  IWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAG 124
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK+D    + V  + A+ YA    + F+ETSAK   NV++ F  +A  + +
Sbjct: 125 NKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPR 175

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 91.7 bits (226), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 54/154 (35%), Positives = 81/154 (52%), Gaps = 5/154 (3%)
Query: 15  EERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC 74
           E+RT  L  +WDTAG ERFR++  SY R +   +VVYD T+  +F    +W++++     
Sbjct: 61  EDRTVRL-QLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERG 119
Query: 75  DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
            +V  +LVGNK D   K+ V  +  +  A  L + F+ETSAK G NV+Q F  +A  +  
Sbjct: 120 SDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPG 179
Query: 135 RVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
                E     S    +++   KP + P S G C
Sbjct: 180 M----ESTQDRSREDMIDIKLEKPQEQPVSEGGC 209

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 90.1 bits (222), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 47/118 (39%), Positives = 72/118 (61%), Gaps = 1/118 (0%)
Query: 15  EERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC 74
           E+RT  L  +WDTAGQERFR++  SY R +   +VVYD T+  +F+   +W++++     
Sbjct: 59  EDRTVRL-QLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERG 117
Query: 75  DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
            +V  +LVGNK D + K+ V  +  +  A  L + F+ETSAK G NV+Q F  +A  +
Sbjct: 118 SDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 90.1 bits (222), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 46/118 (38%), Positives = 72/118 (61%), Gaps = 1/118 (0%)
Query: 15  EERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC 74
           E+RT  L  +WDTAGQERFR++  SY R +   +VVYD T+  +F    +W++++     
Sbjct: 47  EDRTVRL-QLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERG 105
Query: 75  DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
            +V  +LVGNK D   K+ +  +  ++ A  L + F+ETSAK G NV+Q F  +A+ +
Sbjct: 106 SDVIIMLVGNKTDLADKRQITIEEGEQRAKELSVMFIETSAKTGYNVKQLFRRVASAL 163

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 90.1 bits (222), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 47/118 (39%), Positives = 70/118 (59%), Gaps = 1/118 (0%)
Query: 15  EERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC 74
           E+RT  L  +WDTAGQERFR++  SY R +   +VVYD T+  +F    +W++++     
Sbjct: 51  EDRTIRL-QLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERG 109
Query: 75  DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
            +V  +LVGNK D   K+ V  +  +  A  L + F+ETSAK G NV+Q F  +A  +
Sbjct: 110 SDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 167

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 89.7 bits (221), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 42/110 (38%), Positives = 66/110 (60%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + IWDTAGQERF  +   YYR ++G I+VYD TD+++F  +K W++E+ +   + + 
Sbjct: 68  RVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEIC 127
Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
             +VGNK D   ++ V  Q A+ YA+ +      TSAK    +E+ FL +
Sbjct: 128 LCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDL 177

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 89.4 bits (220), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 42/110 (38%), Positives = 66/110 (60%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + IWDTAGQERF  +   YYR ++G I+VYD TD+++F  +K W++E+ +   + + 
Sbjct: 54  RVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEIC 113
Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
             +VGNK D   ++ V  Q A+ YA+ +      TSAK    +E+ FL +
Sbjct: 114 LCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDL 163

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 89.4 bits (220), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 42/110 (38%), Positives = 66/110 (60%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN 78
           R  + IWDTAGQERF  +   YYR ++G I+VYD TD+++F  +K W++E+ +   + + 
Sbjct: 54  RVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEIC 113
Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
             +VGNK D   ++ V  Q A+ YA+ +      TSAK    +E+ FL +
Sbjct: 114 LCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDL 163

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score = 88.2 bits (217), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 47/118 (39%), Positives = 70/118 (59%), Gaps = 1/118 (0%)
Query: 15  EERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC 74
           E+RT  L  +WDTAGQERFR++  SY R +   +VVYD T+  +F    +W++++     
Sbjct: 46  EDRTVRL-QLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERG 104
Query: 75  DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
            +V  +LVGNK D   K+ V  +  +  A  L + F+ETSAK G NV+Q F  +A  +
Sbjct: 105 SDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 162

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 86.7 bits (213), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 50/114 (43%), Positives = 71/114 (62%), Gaps = 10/114 (8%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK---- 79
           +WDTAGQERF+++  ++YRGA   ++VYD T+  +F N+K W +E   +A  NVN     
Sbjct: 62  VWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHA--NVNSPETF 119
Query: 80  --LLVGNKND-QTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMA 129
             +++GNK D + SKK V  + A+E A  L  IP   TSAKN  NV+ AF  +A
Sbjct: 120 PFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIA 173

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 86.3 bits (212), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 46/118 (38%), Positives = 69/118 (58%), Gaps = 1/118 (0%)
Query: 15  EERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC 74
           E+RT  L  +WDTAG ERFR++  SY R +   +VVYD T+  +F    +W++++     
Sbjct: 51  EDRTVRL-QLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERG 109
Query: 75  DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
            +V  +LVGNK D   K+ V  +  +  A  L + F+ETSAK G NV+Q F  +A  +
Sbjct: 110 SDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 167

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 85.5 bits (210), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 45/113 (39%), Positives = 64/113 (56%), Gaps = 5/113 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERF ++   YYR A   +VVYD T  ++F   + W++E+   A  ++   LVG
Sbjct: 56  IWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVG 115
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK----IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +   + +VA+E  + L     + F ETSAK G NV   FL +  +I
Sbjct: 116 NKIDXLQEGG-ERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 83.2 bits (204), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 43/109 (39%), Positives = 64/109 (58%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQERFR++  SY R +   IVVYD T++++F N  +W+++I      +V   LVG
Sbjct: 54  LWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVG 113
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D    + V Y+   + A      F ETSAK G N++  F   A+++
Sbjct: 114 NKTDLGDLRKVTYEEGXQKAQEYNTXFHETSAKAGHNIKVLFKKTASKL 162

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score = 82.8 bits (203), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 47/115 (40%), Positives = 66/115 (57%), Gaps = 1/115 (0%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD-NVNKL 80
           I I DTAGQE +  I  +Y+R   G + V+  T+ E+F     + E+I R   D NV  L
Sbjct: 54  IDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFL 113
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           LVGNK+D   K+ V  + AK  AD   + ++ETSAK  ANV++ F  +  EI+ R
Sbjct: 114 LVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 82.8 bits (203), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 47/119 (39%), Positives = 68/119 (57%), Gaps = 1/119 (0%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD-NVNKL 80
           I I DTAGQE +  I  +Y+R   G + V+  T+ E+F     + E+I R   D NV  L
Sbjct: 64  IDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFL 123
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           LVGNK+D   K+ V  + AK  A+   + ++ETSAK  ANV++ F  +  EI+ R  +D
Sbjct: 124 LVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED 182

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 47/119 (39%), Positives = 68/119 (57%), Gaps = 1/119 (0%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD-NVNKL 80
           I I DTAGQE +  I  +Y+R   G + V+  T+ E+F     + E+I R   D NV  L
Sbjct: 68  IDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFL 127
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           LVGNK+D   K+ V  + AK  A+   + ++ETSAK  ANV++ F  +  EI+ R  +D
Sbjct: 128 LVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED 186

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 47/119 (39%), Positives = 68/119 (57%), Gaps = 1/119 (0%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD-NVNKL 80
           I I DTAGQE +  I  +Y+R   G + V+  T+ E+F     + E+I R   D NV  L
Sbjct: 56  IDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFL 115
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           LVGNK+D   K+ V  + AK  A+   + ++ETSAK  ANV++ F  +  EI+ R  +D
Sbjct: 116 LVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED 174

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 81.6 bits (200), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 45/113 (39%), Positives = 66/113 (58%), Gaps = 3/113 (2%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ +I   YYRGA   IVV+D ++  T +  K W+ ++      N   +LV 
Sbjct: 97  IWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLK--ISSNYIIILVA 154
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK D+ +K  VD    ++YA    + F++TSAK G N++  F  +A EI K +
Sbjct: 155 NKIDK-NKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNI 206

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 81.3 bits (199), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 49/135 (36%), Positives = 73/135 (54%), Gaps = 4/135 (2%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC----DNVNK 79
           IWDTAGQERF+++  ++YRGA   ++V+D T   TF  L  W +E    A     +N   
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPF 120
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           +++GNK D  +++    +          IP+ ETSAK   NVEQAF T+A    K+ T+ 
Sbjct: 121 VVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEV 180
Query: 140 EKPSSESDAKKLNLN 154
           E  +   +  KL+ N
Sbjct: 181 ELYNEFPEPIKLDKN 195

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 49/135 (36%), Positives = 73/135 (54%), Gaps = 4/135 (2%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC----DNVNK 79
           IWDTAGQERF+++  ++YRGA   ++V+D T   TF  L  W +E    A     +N   
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPF 120
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           +++GNK D  +++    +          IP+ ETSAK   NVEQAF T+A    K+ T+ 
Sbjct: 121 VVLGNKIDFENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEV 180
Query: 140 EKPSSESDAKKLNLN 154
           E  +   +  KL+ N
Sbjct: 181 ELYNEFPEPIKLDKN 195

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 80.5 bits (197), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 46/121 (38%), Positives = 67/121 (55%), Gaps = 4/121 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC----DNVNK 79
           IWDTAGQERF+++  ++YRGA   ++V+D T   TF  L  W +E    A     +N   
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPF 120
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           +++GNK D  +++    +          IP+ ETSAK   NVEQAF T+A    K+ T+ 
Sbjct: 121 VVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEV 180
Query: 140 E 140
           E
Sbjct: 181 E 181

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 79.7 bits (195), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 45/127 (35%), Positives = 71/127 (55%), Gaps = 2/127 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++   + 
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRK 170
Query: 140 EKPSSES 146
             P  ES
Sbjct: 171 LNPPDES 177

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score = 79.3 bits (194), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 46/119 (38%), Positives = 67/119 (56%), Gaps = 1/119 (0%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD-NVNKL 80
           I I DTAG E +  I  +Y+R   G + V+  T+ E+F     + E+I R   D NV  L
Sbjct: 56  IDILDTAGLEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFL 115
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           LVGNK+D   K+ V  + AK  A+   + ++ETSAK  ANV++ F  +  EI+ R  +D
Sbjct: 116 LVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED 174

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/135 (35%), Positives = 72/135 (53%), Gaps = 4/135 (2%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC----DNVNK 79
           IWDTAG ERF+++  ++YRGA   ++V+D T   TF  L  W +E    A     +N   
Sbjct: 61  IWDTAGLERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPF 120
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           +++GNK D  +++    +          IP+ ETSAK   NVEQAF T+A    K+ T+ 
Sbjct: 121 VVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEV 180
Query: 140 EKPSSESDAKKLNLN 154
           E  +   +  KL+ N
Sbjct: 181 ELYNEFPEPIKLDKN 195

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 77.4 bits (189), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 43/115 (37%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++  + E+I R    ++V  
Sbjct: 53  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPM 112
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK+D  S+  VD + A++ A    IPF+ETSAK    V+ AF T+  EI+K
Sbjct: 113 VLVGNKSDLPSR-TVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRK 166

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 77.4 bits (189), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 43/115 (37%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++  + E+I R    ++V  
Sbjct: 53  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPM 112
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK+D  S+  VD + A++ A    IPF+ETSAK    V+ AF T+  EI+K
Sbjct: 113 VLVGNKSDLPSR-TVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRK 166

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 77.0 bits (188), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 43/116 (37%), Positives = 67/116 (57%), Gaps = 2/116 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++  + E+I R    ++V  
Sbjct: 53  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPM 112
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           +LVGNK+D  S+  VD + A++ A    IPF+ETSAK    V+ AF T+  EI+K 
Sbjct: 113 VLVGNKSDLPSR-TVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKH 167

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 77.0 bits (188), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 68/115 (59%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK+D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKSD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 76.3 bits (186), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 44/115 (38%), Positives = 65/115 (56%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++  + E+I R    D+V  
Sbjct: 70  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPM 129
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  ++  VD + A E A    IPF+ETSAK    VE AF T+  EI++
Sbjct: 130 VLVGNKCDLPTR-TVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQ 183

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 75.9 bits (185), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 40/108 (37%), Positives = 59/108 (54%), Gaps = 1/108 (0%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           +++WDTAGQE F  IT +YYRGA   ++V+  TD+E+F  +  W E++     D +   L
Sbjct: 56  LMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGD-IPTAL 114
Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA 129
           V NK D      +  + A+  A  LK+ F  TS K   NV + F  +A
Sbjct: 115 VQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLA 162

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 58  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 117
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 118 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 171

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 57  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 116
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 117 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 170

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 57  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 116
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 117 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 170

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 59  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 118
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 119 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 172

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDEYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 43/116 (37%), Positives = 66/116 (56%), Gaps = 2/116 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++  + E+I R    ++V  
Sbjct: 53  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPM 112
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           +LVGNK D  S+  VD + A++ A    IPF+ETSAK    V+ AF T+  EI+K 
Sbjct: 113 VLVGNKCDLPSR-TVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKH 167

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAGRTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score = 74.7 bits (182), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 39/116 (33%), Positives = 66/116 (56%), Gaps = 2/116 (1%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC--DNVNK 79
           I I DTAG E +  I  +Y+R   G ++V+  T+ E+F    ++ E+I R     D +  
Sbjct: 53  IDILDTAGLEDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPL 112
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           L+VGNK+D   ++ V  + A+  A+   + ++ETSAK  ANV++ F  +  EI+ +
Sbjct: 113 LVVGNKSDLEERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREIRTK 168

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 74.7 bits (182), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 39/116 (33%), Positives = 66/116 (56%), Gaps = 2/116 (1%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC--DNVNK 79
           I I DTAG E +  I  +Y+R   G ++V+  T+ E+F    ++ E+I R     D +  
Sbjct: 57  IDILDTAGLEDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPL 116
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           L+VGNK+D   ++ V  + A+  A+   + ++ETSAK  ANV++ F  +  EI+ +
Sbjct: 117 LVVGNKSDLEERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREIRTK 172

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 74.7 bits (182), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGN+ D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNRCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 73.9 bits (180), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DT GQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTGGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 73.9 bits (180), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 37/106 (34%), Positives = 59/106 (55%), Gaps = 4/106 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CDNVNK 79
           IWDTAGQERFR++ + +YRG+   ++ +   D ++F NL  W +E   YA     ++   
Sbjct: 64  IWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPF 123
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
           +++GNK D   ++    +      D+   P+ ETSAK+  NV  AF
Sbjct: 124 VILGNKTDIKERQVSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAF 169

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 73.9 bits (180), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTA QE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAAQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKXD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 73.9 bits (180), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 42/116 (36%), Positives = 65/116 (56%), Gaps = 2/116 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAG E +  +   Y R   G + V+   + ++F ++  + E+I R    ++V  
Sbjct: 70  LLDILDTAGHEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPM 129
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           +LVGNK D  S+  VD + A++ A    IPF+ETSAK    V+ AF T+  EI+K 
Sbjct: 130 VLVGNKCDLPSR-TVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKH 184

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 73.9 bits (180), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTA QE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAAQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKXD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score = 73.9 bits (180), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 40/107 (37%), Positives = 64/107 (59%), Gaps = 6/107 (5%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CDNVNK 79
           IWDTAGQERFR++ + +YRG+   ++ +   D ++F NL  W +E   YA     ++   
Sbjct: 62  IWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPF 121
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYA-DHLKIPFLETSAKNGANVEQAF 125
           +++GNK D  S++ V  + A+ +  D+   P+ ETSAK+  NV  AF
Sbjct: 122 VILGNKID-ISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 167

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 73.9 bits (180), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 40/107 (37%), Positives = 64/107 (59%), Gaps = 6/107 (5%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CDNVNK 79
           IWDTAGQERFR++ + +YRG+   ++ +   D ++F NL  W +E   YA     ++   
Sbjct: 60  IWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPF 119
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYA-DHLKIPFLETSAKNGANVEQAF 125
           +++GNK D  S++ V  + A+ +  D+   P+ ETSAK+  NV  AF
Sbjct: 120 VILGNKID-ISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 165

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  E ++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREFRQ 165

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAG+E +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGKEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DT GQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTTGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAG E +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGHEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAGQE    +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGQEEASAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 72.8 bits (177), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAG E +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 57  LLDILDTAGLEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 116
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 117 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 170

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 72.8 bits (177), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 37/106 (34%), Positives = 62/106 (58%), Gaps = 4/106 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CDNVNK 79
           IWDTAGQERF+++ + +YRGA   ++ +   D+++F NL  W +E   YA     ++   
Sbjct: 60  IWDTAGQERFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPF 119
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
           +++GNK D+  ++    +      ++   P+LETSAK+  NV  AF
Sbjct: 120 VVLGNKVDKEDRQVTTEEAQTWCMENGDYPYLETSAKDDTNVTVAF 165

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAG E +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGGEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAG E +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGGEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAG E +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGLEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAG E +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGVEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 66/115 (57%), Gaps = 2/115 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           L+ I DTAG E +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  
Sbjct: 52  LLDILDTAGIEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 112 VLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 63/121 (52%), Gaps = 1/121 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           I DTAGQE F  +   Y R  HG ++V+   D+++FN + +   +I R    D+   +LV
Sbjct: 61  ILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLV 120
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
           GNK D  S++ V    A  +     + + E SAK   NV++AF  +   ++K   ++  P
Sbjct: 121 GNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQELPP 180
Query: 143 S 143
           S
Sbjct: 181 S 181

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 70.1 bits (170), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 38/112 (33%), Positives = 61/112 (54%), Gaps = 1/112 (0%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           I DTAGQE F  +   Y R   G ++V+  TD+ +F  + ++  +I R    D    +L+
Sbjct: 57  ILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILI 116
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           GNK D   ++ V  +  ++ A  LK+ ++E SAK   NV+QAF  +   I+K
Sbjct: 117 GNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRK 168

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 67.4 bits (163), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 61/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 63  VWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 122 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 61/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 63  VWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 122 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 61/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 56  VWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 114
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 115 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 161

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 61/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 63  VWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 122 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 61/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 63  VWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 122 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 61/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 68  VWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 126
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 127 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 173

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 61/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 63  VWDTAGQEKFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 122 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 61/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 68  VWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 126
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 127 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 173

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 61/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 63  VWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 122 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 65.9 bits (159), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 60/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY  A   I+ +D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 63  VWDTAGQEKFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 122 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 65.5 bits (158), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/111 (33%), Positives = 61/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE++  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 63  VWDTAGQEKYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 122 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 40/116 (34%), Positives = 61/116 (52%), Gaps = 2/116 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           ++ I DTAG E+F  +   Y +   G  +VY  T Q TFN+L+   E+I R    D+V  
Sbjct: 54  MLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPM 113
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D   ++ V  +  +  A       FLE+SAK+  NV + F  +  +I +
Sbjct: 114 ILVGNKCDLEDERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQINR 169

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 40/116 (34%), Positives = 61/116 (52%), Gaps = 2/116 (1%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           ++ I DTAG E+F  +   Y +   G  +VY  T Q TFN+L+   E+I R    D+V  
Sbjct: 52  MLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPM 111
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEIKK 134
           +LVGNK D   ++ V  +  +  A       FLE+SAK+  NV + F  +  +I +
Sbjct: 112 ILVGNKCDLEDERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQINR 167

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/111 (33%), Positives = 60/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAG E+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 59  VWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 117
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 118 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 164

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/111 (33%), Positives = 60/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAG E+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 63  VWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 121
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 122 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/111 (33%), Positives = 60/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAG E+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 65  VWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCG 123
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 124 NKVDIKDRKV----KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 170

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 37/111 (33%), Positives = 60/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAG E+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 65  VWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCG 123
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 124 NKVDVKERKV----KAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 170

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 37/111 (33%), Positives = 60/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAG E+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 57  VWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCG 115
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 116 NKVDVKERKV----KAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 162

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 37/111 (33%), Positives = 60/111 (54%), Gaps = 7/111 (6%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAG E+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 58  VWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCG 116
Query: 84  NKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEI 132
           NK D   +K      AK    H K  + + + SAK+  N E+ FL +A ++
Sbjct: 117 NKVDVKERKV----KAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 163

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score = 63.2 bits (152), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 39/118 (33%), Positives = 62/118 (52%), Gaps = 2/118 (1%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNV 77
           + ++ I DTAG E+F  +   Y +   G  +VY  T Q TFN+L+   E+I R    ++V
Sbjct: 50  QCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDV 109
Query: 78  NKLLVGNKNDQTSKKAVDYQVAKEYADH-LKIPFLETSAKNGANVEQAFLTMATEIKK 134
             +LVGNK D   ++ V  +  +  A       FLE+SAK+  NV + F  +  +I +
Sbjct: 110 PMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score = 63.2 bits (152), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 39/118 (33%), Positives = 62/118 (52%), Gaps = 2/118 (1%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNV 77
           + ++ I DTAG E+F  +   Y +   G  +VY  T Q TFN+L+   E+I R    ++V
Sbjct: 50  QCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDV 109
Query: 78  NKLLVGNKNDQTSKKAVDYQVAKEYADH-LKIPFLETSAKNGANVEQAFLTMATEIKK 134
             +LVGNK D   ++ V  +  +  A       FLE+SAK+  NV + F  +  +I +
Sbjct: 110 PMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 62.8 bits (151), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 37/114 (32%), Positives = 61/114 (53%), Gaps = 2/114 (1%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           + DTAGQE F  +   Y R   G ++VY  TD+ +F ++ ++ + I R    ++   +LV
Sbjct: 70  VLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILV 129
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA-NVEQAFLTMATEIKKR 135
            NK D    + V     KE A    IP++ETSAK+   NV++ F  +   I+++
Sbjct: 130 ANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 62.8 bits (151), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 37/114 (32%), Positives = 61/114 (53%), Gaps = 2/114 (1%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           + DTAGQE F  +   Y R   G ++VY  TD+ +F ++ ++ + I R    ++   +LV
Sbjct: 70  VLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILV 129
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA-NVEQAFLTMATEIKKR 135
            NK D    + V     KE A    IP++ETSAK+   NV++ F  +   I+++
Sbjct: 130 ANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 62.8 bits (151), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 37/114 (32%), Positives = 61/114 (53%), Gaps = 2/114 (1%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           + DTAGQE F  +   Y R   G ++VY  TD+ +F ++ ++ + I R    ++   +LV
Sbjct: 70  VLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILV 129
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA-NVEQAFLTMATEIKKR 135
            NK D    + V     KE A    IP++ETSAK+   NV++ F  +   I+++
Sbjct: 130 ANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 62.8 bits (151), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 37/114 (32%), Positives = 61/114 (53%), Gaps = 2/114 (1%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           + DTAGQE F  +   Y R   G ++VY  TD+ +F ++ ++ + I R    ++   +LV
Sbjct: 65  VLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILV 124
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA-NVEQAFLTMATEIKKR 135
            NK D    + V     KE A    IP++ETSAK+   NV++ F  +   I+++
Sbjct: 125 ANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 178

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 36/107 (33%), Positives = 61/107 (57%), Gaps = 1/107 (0%)
Query: 20  TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVN 78
           +++ I DTAG E+F ++   Y +   G I+VY   +Q++F ++K   ++I R    + V 
Sbjct: 51  SVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVP 110
Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
            +LVGNK D  S++ V     +  A+    PF+ETSAK+   V++ F
Sbjct: 111 VILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELF 157

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 32/106 (30%), Positives = 52/106 (49%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+   +   YY GA G I+ +D T + T  NL +W++E      +    ++  
Sbjct: 65  VWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCA 124
Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA 129
           NK D  +++ +  ++  E        + E SAK   N    FL +A
Sbjct: 125 NKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLA 170

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 57.0 bits (136), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 42/117 (35%), Positives = 60/117 (51%), Gaps = 9/117 (7%)
Query: 24  IWDTAGQERFRTIT-SSYYRGAHGIIVVYDCTDQETFNN---LKQWLEEIDRYACDNVNK 79
           I DTAGQE   TI    + R   G ++VYD TD+ +F     LK  L+EI +    NV  
Sbjct: 80  ILDTAGQED--TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKK--PKNVTL 135
Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNG-ANVEQAFLTMATEIKKR 135
           +LVGNK D    + V  +  ++ A  L   F E SA  G  N+ + F  +  E+++R
Sbjct: 136 ILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRR 192

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 70/161 (43%), Gaps = 29/161 (18%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    YRGA   ++ +    + ++ N LK+W+ E+ R+A  NV  +LV
Sbjct: 61  LWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLV 119
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKI----------------PFLETSAKNGANVEQAFL 126
           G K D    K          ADH  +                 ++E S+K   NV+  F 
Sbjct: 120 GTKLDLRDDKGY-------LADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFD 172
Query: 127 TMATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGC 167
           T    + +   + E P    + ++    SG  + +   GGC
Sbjct: 173 TAIKVVLQPPRRKEVPRRRKNHRR----SGCSIASIVCGGC 209

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 36/114 (31%), Positives = 55/114 (48%), Gaps = 2/114 (1%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD--NVNKLL 81
           I DT G  +F  +        H  I+VY  T +++   LK   E+I     D  ++  +L
Sbjct: 55  ITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIML 114
Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           VGNK D++  + V    A+  A   K  F+ETSAK   NV++ F  +    K+R
Sbjct: 115 VGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRR 168

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 52.8 bits (125), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 30/110 (27%), Positives = 56/110 (50%), Gaps = 1/110 (0%)
Query: 26  DTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI-DRYACDNVNKLLVGN 84
           DTAGQ+ +  +  S+  G HG ++VY  T   +F  ++   +++ + +    V  +LVGN
Sbjct: 78  DTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGN 137
Query: 85  KNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           K D + ++ V     K+ A+     F+E+SA+     +  F  +  EI +
Sbjct: 138 KADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIAR 187

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 52.8 bits (125), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 59/114 (51%), Gaps = 5/114 (4%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN---VN 78
           + + DTAG + ++   S Y+ G +  I+V+D +  E+F + K W E +     D    + 
Sbjct: 75  LFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLR 134
Query: 79  KLLVGNKNDQTSKK-AVDYQVAKEYADHLKIPFLETSA-KNGANVEQAFLTMAT 130
            +LV NK D   ++  V   +A+++A    + F + SA   G + +  FL++AT
Sbjct: 135 AVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIAT 188

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/109 (30%), Positives = 56/109 (51%), Gaps = 3/109 (2%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY--ACDNVNKLL 81
           I DT G  +F  +        H  I+V+  T +++   L    + I +   + +++  +L
Sbjct: 60  ITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVML 119
Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMAT 130
           VGNK D+T ++ VD + A+  A   K  F+ETSAK   NV++ F  + T
Sbjct: 120 VGNKCDET-QREVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLT 167

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/116 (28%), Positives = 56/116 (48%), Gaps = 15/116 (12%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKLLV 82
           IWDTAGQ+ +  +   +Y  A  +++ +D T   +F+N+  +W  E++ + C  V  ++V
Sbjct: 86  IWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHF-CKKVPIIVV 144
Query: 83  GNKNDQTSKKA------------VDYQVAKEYADHL-KIPFLETSAKNGANVEQAF 125
           G K D    K+            V Y   +E A  +  + +LE SA+   NV   F
Sbjct: 145 GCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVF 200

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 32/112 (28%), Positives = 52/112 (46%), Gaps = 3/112 (2%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK---L 80
           IWD  GQ     +   Y  GA G+++VYD T+ ++F NL+ W   + + + ++  +    
Sbjct: 60  IWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVA 119
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           LVGNK D    + +  +    +           SAK G +V   F  +A EI
Sbjct: 120 LVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEI 171

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 49.7 bits (117), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 32/110 (29%), Positives = 52/110 (47%), Gaps = 1/110 (0%)
Query: 26  DTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI-DRYACDNVNKLLVGN 84
           DTAGQ+ +     +Y    +G I+VY  T  ++F  +K    ++ D      +  +LVGN
Sbjct: 60  DTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGN 119
Query: 85  KNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           K D   ++ + Y+  K  A+     FLE+SAK        F  +  E +K
Sbjct: 120 KKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEK 169

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 49.7 bits (117), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 35/114 (30%), Positives = 52/114 (45%), Gaps = 9/114 (7%)
Query: 26  DTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-----L 80
           DTAGQ+ +     +Y    +G I+VY  T  ++F  +K     I     D V K     +
Sbjct: 60  DTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKV----IHGKLLDMVGKVQIPIM 115
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           LVGNK D   ++ + Y+  K  A+     FLE+SAK        F  +  E +K
Sbjct: 116 LVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEK 169

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 49.7 bits (117), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 1/85 (1%)
Query: 4   LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK 63
           ++P      +K  +    I +WD  GQ RFR++   Y RG   I+ + D  DQE     K
Sbjct: 51  MIPTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASK 110
Query: 64  QWLEE-IDRYACDNVNKLLVGNKND 87
             L   +D+     +  L++GNK D
Sbjct: 111 NELHNLLDKPQLQGIPVLVLGNKRD 135

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 49.3 bits (116), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 35/114 (30%), Positives = 52/114 (45%), Gaps = 9/114 (7%)
Query: 26  DTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-----L 80
           DTAGQ+ +     +Y    +G I+VY  T  ++F  +K     I     D V K     +
Sbjct: 58  DTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKV----IHGKLLDMVGKVQIPIM 113
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           LVGNK D   ++ + Y+  K  A+     FLE+SAK        F  +  E +K
Sbjct: 114 LVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEK 167

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/114 (30%), Positives = 52/114 (45%), Gaps = 9/114 (7%)
Query: 26  DTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-----L 80
           DTAGQ+ +     +Y    +G I+VY  T  ++F  +K     I     D V K     +
Sbjct: 55  DTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKV----IHGKLLDMVGKVQIPIM 110
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           LVGNK D   ++ + Y+  K  A+     FLE+SAK        F  +  E +K
Sbjct: 111 LVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEK 164

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 1/85 (1%)
Query: 4   LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK 63
           ++P      +K  +    I +WD  GQ RFR++   Y RG   I+ + D  DQE     K
Sbjct: 60  MIPTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASK 119
Query: 64  QWLEE-IDRYACDNVNKLLVGNKND 87
             L   +D+     +  L++GNK D
Sbjct: 120 NELHNLLDKPQLQGIPVLVLGNKRD 144

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/134 (26%), Positives = 64/134 (47%), Gaps = 16/134 (11%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 55  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 113
Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLT 127
           LVGNK D            +  ++ V  +  ++ A+ +    +LE SAK    V + F  
Sbjct: 114 LVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF-E 172
Query: 128 MATEIKKRVTKDEK 141
           MAT    +V K+++
Sbjct: 173 MATRAGLQVRKNKR 186

>pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In Trans State Soaked With Calcium Length = 497

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI--DRYACDNVNKLL 81
           +WD  GQ++ R +   YY G  G+I V DC D++  +  +Q L  I  DR   D +  L+
Sbjct: 370 VWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILI 428
Query: 82  VGNKND 87
             NK D
Sbjct: 429 FANKQD 434

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 1/85 (1%)
Query: 4   LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK 63
           ++P      +K  +    I IWD  GQ RFR++   Y RG + I+ + D  D+E     +
Sbjct: 51  MIPTVGFNMRKVTKGNVTIKIWDIGGQPRFRSMWERYCRGVNAIVYMIDAADREKIEASR 110
Query: 64  QWLEE-IDRYACDNVNKLLVGNKND 87
             L   +D+     +  L++GNK D
Sbjct: 111 NELHNLLDKPQLQGIPVLVLGNKRD 135

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 47.8 bits (112), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/114 (30%), Positives = 57/114 (50%), Gaps = 13/114 (11%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    YRGA   I+ +    + ++ N+ K+W+ E+  YA   V  +LV
Sbjct: 60  LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYA-PGVPIVLV 118
Query: 83  GNKNDQTSKKA--VDYQVA--------KEYADHLKIP-FLETSAKNGANVEQAF 125
           G K D    K   +D+  A        +E    +  P ++E S+K+  NV+  F
Sbjct: 119 GTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVF 172

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI--DRYACDNVNKLL 81
           +WD  GQ++ R +   YY G  G+I V DC D++  +  +Q L  I  DR   D +  L+
Sbjct: 61  VWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILI 119
Query: 82  VGNKND 87
             NK D
Sbjct: 120 FANKQD 125

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI--DRYACDNVNKLL 81
           +WD  GQ++ R +   YY G  G+I V DC D++  +  +Q L  I  DR   D +  L+
Sbjct: 60  VWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILI 118
Query: 82  VGNKND 87
             NK D
Sbjct: 119 FANKQD 124

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 34/118 (28%), Positives = 53/118 (44%), Gaps = 21/118 (17%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    YRGA   ++ +    + ++ N+ K+WL E+  YA   +  +LV
Sbjct: 58  LWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPELKHYA-PGIPIVLV 116
Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIP---------------FLETSAKNGANVEQAF 125
           G K D    K    Q  K++     I                +LE S+K   NV+  F
Sbjct: 117 GTKLDLRDDK----QFLKDHPGAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAVF 170

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/137 (25%), Positives = 62/137 (45%), Gaps = 16/137 (11%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 55  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 113
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 114 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 172
Query: 128 MATEIKKRVTKDEKPSS 144
           MAT    +  + +K S 
Sbjct: 173 MATRAALQARRGKKKSG 189

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI--DRYACDNVNKLL 81
           +WD  GQ++ R +   YY G  G+I V DC D++  +  +Q L  I  DR   D +  L+
Sbjct: 48  VWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILI 106
Query: 82  VGNKND 87
             NK D
Sbjct: 107 FANKQD 112

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/114 (30%), Positives = 56/114 (49%), Gaps = 13/114 (11%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    YRGA   I+ +    + ++ N+ K+W+ E+  YA   V  +LV
Sbjct: 58  LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILV 116
Query: 83  GNKNDQTSKKA--VDYQVA--------KEYADHLKIP-FLETSAKNGANVEQAF 125
           G K D    K   +D+  A        +E    +  P ++E S+K   NV+  F
Sbjct: 117 GTKLDLRDDKQFFIDHPGAVPITTNQGEELKKLIGSPIYIECSSKTQQNVKAVF 170

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/137 (25%), Positives = 62/137 (45%), Gaps = 16/137 (11%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 57  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 115
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 116 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 174
Query: 128 MATEIKKRVTKDEKPSS 144
           MAT    +  + +K S 
Sbjct: 175 MATRAALQARRGKKKSG 191

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/137 (25%), Positives = 62/137 (45%), Gaps = 16/137 (11%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 55  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 113
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 114 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 172
Query: 128 MATEIKKRVTKDEKPSS 144
           MAT    +  + +K S 
Sbjct: 173 MATRAALQARRGKKKSG 189

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 47.0 bits (110), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/137 (25%), Positives = 62/137 (45%), Gaps = 16/137 (11%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 55  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 113
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 114 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 172
Query: 128 MATEIKKRVTKDEKPSS 144
           MAT    +  + +K S 
Sbjct: 173 MATRAALQARRGKKKSG 189

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 35/137 (25%), Positives = 62/137 (45%), Gaps = 16/137 (11%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 57  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 115
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 116 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 174
Query: 128 MATEIKKRVTKDEKPSS 144
           MAT    +  + +K S 
Sbjct: 175 MATRAALQARRGKKKSG 191

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI--DRYACDNVNKLL 81
           +WD  GQ++ R +   YY G  G+I V DC D++  +  +Q L  I  DR   D +  L+
Sbjct: 48  VWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILI 106
Query: 82  VGNKND 87
             NK D
Sbjct: 107 FANKQD 112

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 35/137 (25%), Positives = 62/137 (45%), Gaps = 16/137 (11%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 58  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 116
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 117 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 175
Query: 128 MATEIKKRVTKDEKPSS 144
           MAT    +  + +K S 
Sbjct: 176 MATRAALQARRGKKKSG 192

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 30/104 (28%), Positives = 51/104 (49%), Gaps = 9/104 (8%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNV 77
           R  + +WDT+G   +  +    Y  +  +++ +D +  ET ++ LK+W  EI  + C N 
Sbjct: 70  RIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNT 128
Query: 78  NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANV 121
             LLVG K+D  +    D     E ++H + P    S   GAN+
Sbjct: 129 KMLLVGCKSDLRT----DVSTLVELSNHRQTP---VSYDQGANM 165

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI--DRYACDNVNKLL 81
           +WD  GQ++ R +   YY G  G+I V DC D++  +  +Q L  I  DR   D +  L+
Sbjct: 48  VWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREXRDAI-ILI 106
Query: 82  VGNKND 87
             NK D
Sbjct: 107 FANKQD 112

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 58/123 (47%), Gaps = 16/123 (13%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 75  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 133
Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLT 127
           LVGNK D            +  ++ V  +  ++ A+ +    +LE SAK    V + F  
Sbjct: 134 LVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF-E 192
Query: 128 MAT 130
           MAT
Sbjct: 193 MAT 195

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 57/123 (46%), Gaps = 16/123 (13%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 59  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 117
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 118 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 176
Query: 128 MAT 130
           MAT
Sbjct: 177 MAT 179

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/120 (25%), Positives = 57/120 (47%), Gaps = 15/120 (12%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W+ E+ ++ C NV  +
Sbjct: 75  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEV-KHFCPNVPII 133
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKI-------------PFLETSAKNGANVEQAFLT 127
           LV NK D  S + V  ++A+   + ++               +LE SAK    V + F T
Sbjct: 134 LVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFET 193

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 58/123 (47%), Gaps = 16/123 (13%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+ ++ C NV  +
Sbjct: 53  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPII 111
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 112 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 170
Query: 128 MAT 130
           MAT
Sbjct: 171 MAT 173

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 58/123 (47%), Gaps = 16/123 (13%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+ ++ C NV  +
Sbjct: 53  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPII 111
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 112 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 170
Query: 128 MAT 130
           MAT
Sbjct: 171 MAT 173

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 32/115 (27%), Positives = 52/115 (45%), Gaps = 6/115 (5%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +       Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 55  LALWDTAGQEDYDRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 113
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           LVGNK D  +    D   A+E A   + P      ++ AN   AF  M    K +
Sbjct: 114 LVGNKKDLRN----DEHTARELAKMKQEPVKPAEGRDMANRIGAFGYMECSAKTK 164

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 47.0 bits (110), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 58/123 (47%), Gaps = 16/123 (13%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+ ++ C NV  +
Sbjct: 55  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPII 113
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 114 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 172
Query: 128 MAT 130
           MAT
Sbjct: 173 MAT 175

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score = 46.6 bits (109), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 57/123 (46%), Gaps = 16/123 (13%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 56  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 114
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 115 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 173
Query: 128 MAT 130
           MAT
Sbjct: 174 MAT 176

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score = 46.6 bits (109), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 57/123 (46%), Gaps = 16/123 (13%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 57  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 115
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 116 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 174
Query: 128 MAT 130
           MAT
Sbjct: 175 MAT 177

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 46.6 bits (109), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 30/104 (28%), Positives = 51/104 (49%), Gaps = 9/104 (8%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNV 77
           R  + +WDT+G   +  +    Y  +  +++ +D +  ET ++ LK+W  EI  + C N 
Sbjct: 75  RIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNT 133
Query: 78  NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANV 121
             LLVG K+D  +    D     E ++H + P    S   GAN+
Sbjct: 134 KMLLVGCKSDLRT----DVSTLVELSNHRQTP---VSYDQGANM 170

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score = 46.6 bits (109), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 57/123 (46%), Gaps = 16/123 (13%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 56  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 114
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 115 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 173
Query: 128 MAT 130
           MAT
Sbjct: 174 MAT 176

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 46.2 bits (108), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 30/104 (28%), Positives = 51/104 (49%), Gaps = 9/104 (8%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNV 77
           R  + +WDT+G   +  +    Y  +  +++ +D +  ET ++ LK+W  EI  + C N 
Sbjct: 54  RIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNT 112
Query: 78  NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANV 121
             LLVG K+D  +    D     E ++H + P    S   GAN+
Sbjct: 113 KMLLVGCKSDLRT----DVSTLVELSNHRQTP---VSYDQGANM 149

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 46.2 bits (108), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 31/121 (25%), Positives = 56/121 (46%), Gaps = 15/121 (12%)
Query: 19  RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQ-WLEEIDRYACDNV 77
           R  + +WDTAGQE +  +    Y  ++ +++ +     ++  N+++ W+ E+  + C  V
Sbjct: 57  RVELALWDTAGQEDYDRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEVLHF-CQGV 115
Query: 78  NKLLVGNKND------------QTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQA 124
             +LVG K D            Q  ++ V  Q  +  AD +    + E SAK G  V + 
Sbjct: 116 PIILVGCKVDLRNDPQTIEQLRQEGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVREV 175
Query: 125 F 125
           F
Sbjct: 176 F 176

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI--DRYACDNVNKLL 81
           +WD  G ++ R +   YY G  G+I V DC D++  +  +Q L  I  DR   D +  L+
Sbjct: 61  VWDVGGLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILI 119
Query: 82  VGNKND 87
             NK D
Sbjct: 120 FANKQD 125

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI--DRYACDNVNKLL 81
           +WD  G ++ R +   YY G  G+I V DC D++  +  +Q L  I  DR   D +  L+
Sbjct: 50  VWDVGGLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILI 108
Query: 82  VGNKND 87
             NK D
Sbjct: 109 FANKQD 114

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI--DRYACDNVNKLL 81
           +WD  G ++ R +   YY G  G+I V DC D++  +  +Q L  I  DR   D +  L+
Sbjct: 51  VWDVGGLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILI 109
Query: 82  VGNKND 87
             NK D
Sbjct: 110 FANKQD 115

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/123 (26%), Positives = 56/123 (45%), Gaps = 16/123 (13%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAG E +  +    Y     I++ +     ++  N+ ++W  E+  + C NV  +
Sbjct: 58  LALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 116
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLK-------------IPFLETSAKNGANVEQAFLT 127
           LVGNK D  + +    ++AK   + +K               ++E SAK    V + F  
Sbjct: 117 LVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-E 175
Query: 128 MAT 130
           MAT
Sbjct: 176 MAT 178

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 43.1 bits (100), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 16  ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYAC 74
           E  R  + +WDT+G   +  +    Y  +  +++ +D +  ET ++ LK+W  EI  Y C
Sbjct: 55  EEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDY-C 113
Query: 75  DNVNKLLVGNKND 87
            +   LL+G K D
Sbjct: 114 PSTRVLLIGCKTD 126

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 43.1 bits (100), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 16  ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYAC 74
           E  R  + +WDT+G   +  +    Y  +  +++ +D +  ET ++ LK+W  EI  Y C
Sbjct: 54  EEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDY-C 112
Query: 75  DNVNKLLVGNKND 87
            +   LL+G K D
Sbjct: 113 PSTRVLLIGCKTD 125

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 43.1 bits (100), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 32/123 (26%), Positives = 57/123 (46%), Gaps = 16/123 (13%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+ ++W  E+  +   NV  +
Sbjct: 75  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFX-PNVPII 133
Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLT 127
           LVGNK D            +  ++ V  +  ++ A+ +    +LE SAK    V + F  
Sbjct: 134 LVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF-E 192
Query: 128 MAT 130
           MAT
Sbjct: 193 MAT 195

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 42.7 bits (99), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 16  ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYAC 74
           E  R  + +WDT+G   +  +    Y  +  +++ +D +  ET ++ LK+W  EI  Y C
Sbjct: 71  EEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDY-C 129
Query: 75  DNVNKLLVGNKND 87
            +   LL+G K D
Sbjct: 130 PSTRVLLIGCKTD 142

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 55  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 113
Query: 83  GNKND 87
           G K D
Sbjct: 114 GTKLD 118

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 55  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 113
Query: 83  GNKND 87
           G K D
Sbjct: 114 GTKLD 118

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 33/139 (23%), Positives = 64/139 (46%), Gaps = 5/139 (3%)
Query: 8   QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
           +TL    E  T  L+ +W+  G+  +  +     +     ++VY  TD+ +F    +   
Sbjct: 47  RTLMVDGESATIILLDMWENKGENEW--LHDHXMQVGDAYLIVYSITDRASFEKASELRI 104
Query: 68  EIDRY-ACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
           ++ R    +++  +LVGNK+D    + V     +  A      F+ETSA    NV++ F 
Sbjct: 105 QLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDCKFIETSAAVQHNVKELFE 164
Query: 127 TMATEIKKRVTKDEKPSSE 145
            +  +++ R  +D K  +E
Sbjct: 165 GIVRQVRLR--RDSKEKNE 181

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 29/115 (25%), Positives = 52/115 (45%), Gaps = 1/115 (0%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKL 80
           ++++D   Q+  R +           ++VY  TD+ +F    +   ++ R    D+V  +
Sbjct: 56  LMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPII 115
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           LVGNK+D    + V     +  A      F+ETSA    NV+  F  +  +I+ R
Sbjct: 116 LVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 170

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 29/115 (25%), Positives = 52/115 (45%), Gaps = 1/115 (0%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKL 80
           ++++D   Q+  R +           ++VY  TD+ +F    +   ++ R    D+V  +
Sbjct: 51  LMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPII 110
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           LVGNK+D    + V     +  A      F+ETSA    NV+  F  +  +I+ R
Sbjct: 111 LVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 165

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 29/115 (25%), Positives = 52/115 (45%), Gaps = 1/115 (0%)
Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKL 80
           ++++D   Q+  R +           ++VY  TD+ +F    +   ++ R    D+V  +
Sbjct: 56  LMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPII 115
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           LVGNK+D    + V     +  A      F+ETSA    NV+  F  +  +I+ R
Sbjct: 116 LVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 170

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 33/139 (23%), Positives = 64/139 (46%), Gaps = 5/139 (3%)
Query: 8   QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
           +TL    E  T  L+ +W+  G+  +  +     +     ++VY  TD+ +F    +   
Sbjct: 47  RTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRI 104
Query: 68  EIDRY-ACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
           ++ R    +++  +LVGNK+D    + V     +  A      F+ETSA    NV++ F 
Sbjct: 105 QLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFE 164
Query: 127 TMATEIKKRVTKDEKPSSE 145
            +  +++ R  +D K  +E
Sbjct: 165 GIVRQVRLR--RDSKEKNE 181

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 55  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 113
Query: 83  GNKND 87
           G K D
Sbjct: 114 GTKLD 118

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 55  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 113
Query: 83  GNKND 87
           G K D
Sbjct: 114 GTKLD 118

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 55  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 113
Query: 83  GNKND 87
           G K D
Sbjct: 114 GTKLD 118

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 55  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 113
Query: 83  GNKND 87
           G K D
Sbjct: 114 GTKLD 118

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 1/65 (1%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE-IDRYACDNVNKLLV 82
           +WD  GQ+R R++   YYR   G+I V D  D+      ++ ++  ++     N   L+ 
Sbjct: 48  VWDVGGQDRIRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVF 107
Query: 83  GNKND 87
            NK D
Sbjct: 108 ANKQD 112

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 1/65 (1%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE-IDRYACDNVNKLLV 82
           +WD  GQ+R R++   YYR   G+I V D  D+      ++ ++  ++     N   L+ 
Sbjct: 65  VWDVGGQDRIRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVF 124
Query: 83  GNKND 87
            NK D
Sbjct: 125 ANKQD 129

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 31/123 (25%), Positives = 51/123 (41%), Gaps = 18/123 (14%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK---L 80
           +WD  GQ+R R +   Y++   G+I V D  D+E    +   L+++     D +     L
Sbjct: 65  VWDVGGQDRIRPLWKHYFQNTQGLIFVVDSNDRERIQEVADELQKM--LLVDELRDAVLL 122
Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLE--------TSAKNGANVEQAFLTMATEI 132
           L  NK D  +  A+      E  D L +  L         T A  G  + +    ++ E+
Sbjct: 123 LFANKQDLPNAMAI-----SEMTDKLGLQSLRNRTWYVQATCATQGTGLYEGLDWLSNEL 177
Query: 133 KKR 135
            KR
Sbjct: 178 SKR 180

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 74  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 132
Query: 83  GNKND 87
           G K D
Sbjct: 133 GTKLD 137

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 82  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 140
Query: 83  GNKND 87
           G K D
Sbjct: 141 GTKLD 145

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 82  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 140
Query: 83  GNKND 87
           G K D
Sbjct: 141 GTKLD 145

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 62  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 120
Query: 83  GNKND 87
           G K D
Sbjct: 121 GTKLD 125

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 40.4 bits (93), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 55  LWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 113
Query: 83  GNKND 87
           G K D
Sbjct: 114 GTKLD 118

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 40.4 bits (93), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/68 (30%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 21  LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNK 79
           L+ ++DTAGQE +  +    Y      ++ +   +  +F N+K +W+ E+  YA  NV  
Sbjct: 67  LLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPF 125
Query: 80  LLVGNKND 87
           LL+G + D
Sbjct: 126 LLIGTQID 133

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 57  LWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 115
Query: 83  GNKND 87
           G K D
Sbjct: 116 GTKLD 120

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 55  LWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 113
Query: 83  GNKND 87
           G K D
Sbjct: 114 GTKLD 118

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 59  LWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 117
Query: 83  GNKND 87
           G K D
Sbjct: 118 GTKLD 122

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C N   +LV
Sbjct: 65  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILV 123
Query: 83  GNKND 87
           G K D
Sbjct: 124 GTKLD 128

>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2 (Scarf2) Complexed With Gdp-3'p At 1.6a Resolution Length = 181

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 1/65 (1%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE-IDRYACDNVNKLLV 82
           +WD  GQ+R R++   YYR   G+I V D  D+      ++ ++  ++     N   L+ 
Sbjct: 65  VWDVGGQDRIRSLWRHYYRNTEGVIFVIDSNDRSRIGEAREVMQRMLNEDELRNAVWLVF 124
Query: 83  GNKND 87
            NK D
Sbjct: 125 ANKQD 129

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 32/135 (23%), Positives = 61/135 (45%), Gaps = 3/135 (2%)
Query: 8   QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
           +TL    E  T  L+ +W+  G+  +  +     +     ++VY  TD+ +F    +   
Sbjct: 78  RTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRI 135
Query: 68  EIDRY-ACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
           ++ R    +++  +LVGNK+D    + V     +  A      F+ETSA    NV++ F 
Sbjct: 136 QLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFE 195
Query: 127 TMATEIKKRVTKDEK 141
            +  +++ R    EK
Sbjct: 196 GIVRQVRLRRDSKEK 210

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 40.0 bits (92), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C +   LLV
Sbjct: 56  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPHTPILLV 114
Query: 83  GNKND 87
           G K D
Sbjct: 115 GTKLD 119

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 40.0 bits (92), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C +   LLV
Sbjct: 56  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPHTPILLV 114
Query: 83  GNKND 87
           G K D
Sbjct: 115 GTKLD 119

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 40.0 bits (92), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y      ++ +      +F N++ +W  E+ R+ C +   LLV
Sbjct: 55  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPHTPILLV 113
Query: 83  GNKND 87
           G K D
Sbjct: 114 GTKLD 118

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 40.0 bits (92), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 30/129 (23%), Positives = 59/129 (45%), Gaps = 3/129 (2%)
Query: 8   QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
           +TL    E  T  L+ +W+  G+  +  +     +     ++VY  TD+ +F    +   
Sbjct: 47  RTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRI 104
Query: 68  EIDRY-ACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
           ++ R    +++  +LVGNK+D    + V     +  A      F+ETSA    NV++ F 
Sbjct: 105 QLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFE 164
Query: 127 TMATEIKKR 135
            +  +++ R
Sbjct: 165 GIVRQVRLR 173

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 39.7 bits (91), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 31/109 (28%), Positives = 51/109 (46%), Gaps = 3/109 (2%)
Query: 20  TLIVIWDTAGQERFRTITS--SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDN 76
           T +V+ DT   E+     S  S  +G    ++VY   D+ +F +  +   ++ R +  D+
Sbjct: 52  TTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADH 111
Query: 77  VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
           V  +LVGNK D    + V  +  +  A      F+ETSA    NV + F
Sbjct: 112 VPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELF 160

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 39.7 bits (91), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 29/116 (25%), Positives = 52/116 (44%), Gaps = 15/116 (12%)
Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQ-WLEEIDRYACDNVNKLLV 82
           + DTAGQ+ F  +    Y      ++ +      +F N+ + W+ EI R  C     +LV
Sbjct: 72  LCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEI-RCHCPKAPIILV 130
Query: 83  GNKN------------DQTSKKAVDYQVAKEYADHLKIP-FLETSAKNGANVEQAF 125
           G ++            D+  +K V  + AK  A+ +K   ++E SA    N+++ F
Sbjct: 131 GTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	168
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	7e-77
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	2e-74
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	5e-74
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	6e-74
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	2e-73
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	5e-73
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	6e-73
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	7e-73
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	8e-73
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-72
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	2e-72
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	3e-72
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	3e-72
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-71
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-71
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	2e-71
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	4e-71
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	6e-71
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	6e-71
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	7e-71
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	8e-71
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	1e-70
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	3e-70
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	7e-70
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	9e-70
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	4e-69
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	6e-69
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	6e-69
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	8e-69
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-68
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	2e-68
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	3e-68
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	1e-67
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	1e-67
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	2e-66
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	4e-66
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	4e-66
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	1e-63
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	4e-63
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	9e-63
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	2e-61
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	1e-60
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	2e-60
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	2e-60
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	4e-59
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	4e-59
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	6e-59
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	4e-58
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	7e-58
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	1e-57
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	2e-57
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	3e-57
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	4e-57
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	6e-57
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	1e-56
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	2e-56
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	1e-55
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	4e-55
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	7e-55
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	4e-54
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	5e-54
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	7e-54
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	2e-52
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	1e-50
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	2e-48
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	3e-48
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	2e-47
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	6e-47
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	2e-42
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	3e-42
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	6e-30
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-29
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	2e-28
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	8e-28
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	1e-27
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	3e-27
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	4e-26
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	2e-25
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	5e-25
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	1e-24
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	5e-24
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	5e-23
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	6e-22
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	1e-21
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	6e-20
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	2e-17
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	2e-13
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	1e-12
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	2e-12
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	4e-12
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	4e-12
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	6e-12
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	7e-12
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	8e-12
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	9e-12
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	2e-11
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	7e-10
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	1e-09
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	7e-09
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	2e-08
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	2e-08
3llu_A	196	RAS-related GTP-binding protein C; structural geno	7e-08
2ged_A	193	SR-beta, signal recognition particle receptor beta	1e-06
1nrj_B	218	SR-beta, signal recognition particle receptor beta	1e-06
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	2e-06
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	1e-05
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	1e-05
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	2e-05
2fh5_B	214	SR-beta, signal recognition particle receptor beta	2e-05
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	7e-05
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	6e-04

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score =  227 bits (580), Expect = 7e-77
 Identities = 86/161 (53%), Positives = 109/161 (67%), Gaps = 9/161 (5%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + +T+ +        IWDTAGQERFRTITSSYYRG+HGII+VYD TDQE+FN +K WL+E
Sbjct: 46  KIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQE 105

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           IDRYA   V KLLVGNK D   K+ V+Y VAKE+AD  K+PFLETSA +  NVE AFLTM
Sbjct: 106 IDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTM 165

Query: 129 ATEIKKRV-TKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
           A +IK+ +  ++   +++    K N+N          G CC
Sbjct: 166 ARQIKESMSQQNLNETTQKKEDKGNVNLKGQSLTNTGGCCC 206

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  220 bits (563), Expect = 2e-74
 Identities = 94/140 (67%), Positives = 107/140 (76%), Gaps = 8/140 (5%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + RT+ +        IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+E
Sbjct: 54  KIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQE 113

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           IDRYA +NVNKLLVGNK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TM
Sbjct: 114 IDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTM 173

Query: 129 ATEIKKRVTKDEKPSSESDA 148
           A EIKKR+           +
Sbjct: 174 AAEIKKRMGPGATAGGAEKS 193

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score =  218 bits (559), Expect = 5e-74
 Identities = 59/136 (43%), Positives = 92/136 (67%), Gaps = 8/136 (5%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + RT+ +        IWDTAGQERFRTIT++YYRGA GI++VYD T++++F+N++ W+  
Sbjct: 46  KIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRN 105

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           I+ +A  +V K+++GNK D   K+ V  +  ++ A    I F+ETSAK   NVE AF T+
Sbjct: 106 IEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTL 165

Query: 129 ATEIKKRVTKDEKPSS 144
           A +IK ++ K+ K ++
Sbjct: 166 ARDIKAKMDKNWKATA 181

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score =  219 bits (560), Expect = 6e-74
 Identities = 55/155 (35%), Positives = 86/155 (55%), Gaps = 13/155 (8%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + +T+          IWDTAG ER+RTIT++YYRGA G I++YD T++E+FN ++ W  +
Sbjct: 46  KVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQ 105

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           I  Y+ DN   LLVGNK D   ++ V  +  ++ ADHL   F E SAK+  NV+Q F  +
Sbjct: 106 IKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERL 165

Query: 129 ATEIKKRVTKDEKPSSESDA-----KKLNLNSGKP 158
              I +++++    +  +        +L      P
Sbjct: 166 VDVICEKMSESLDTADPAVTGAKQGPQLTDQQAPP 200

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score =  217 bits (556), Expect = 2e-73
 Identities = 56/138 (40%), Positives = 85/138 (61%), Gaps = 8/138 (5%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
             +T+ +        IWDTAGQERFR+IT SYYR A+ +I+ YD T +E+F  L +WL E
Sbjct: 64  MIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLRE 123

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           I++YA + V  +LVGNK D   ++ V  Q A+E+++   + +LETSAK   NVE+ FL +
Sbjct: 124 IEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDL 183

Query: 129 ATEIKKRVTKDEKPSSES 146
           A  +     ++   ++ S
Sbjct: 184 ACRLISEARQNTLVNNVS 201

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score =  216 bits (553), Expect = 5e-73
 Identities = 51/128 (39%), Positives = 76/128 (59%), Gaps = 8/128 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + +T+          IWDTAGQER+RTIT++YYRGA G I++YD T++E+FN ++ W  +
Sbjct: 61  KVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQ 120

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           I  Y+ DN   +LVGNK D   ++ V  +  +  A+ L   F E SAK   +V QAF  +
Sbjct: 121 IKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERL 180

Query: 129 ATEIKKRV 136
              I  ++
Sbjct: 181 VDAICDKM 188

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score =  216 bits (553), Expect = 6e-73
 Identities = 55/141 (39%), Positives = 85/141 (60%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+R ITS+YYRGA G ++VYD     T+ N+++WL+E+  +A  N+  +LVG
Sbjct: 58  IWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVG 117

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK+D    +AV    A+ +A+   + F+ETSA +  NVE+AF  + TEI + V++ +   
Sbjct: 118 NKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIAD 177

Query: 144 SESDAKKLNLNSGKPVDAPRS 164
             +  +    N       P +
Sbjct: 178 RAAHDESPGNNVVDISVPPTT 198

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score =  216 bits (552), Expect = 7e-73
 Identities = 50/130 (38%), Positives = 76/130 (58%), Gaps = 8/130 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + +T+          IWDTAGQER+RTIT++YYRGA G +++YD  +QE+F  ++ W  +
Sbjct: 60  KVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQ 119

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           I  Y+ DN   +LVGNK D   ++ V  +  +  AD L   F E SAK   NV+Q F  +
Sbjct: 120 IKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERL 179

Query: 129 ATEIKKRVTK 138
              I +++ +
Sbjct: 180 VDVICEKMNE 189

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score =  215 bits (551), Expect = 8e-73
 Identities = 55/130 (42%), Positives = 84/130 (64%), Gaps = 8/130 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           R + L V        +WDTAGQERFR++T +YYR AH ++++YD T++ +F+N++ WL E
Sbjct: 49  RNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTE 108

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           I  YA  +V  +L+GNK D   ++ V  +  ++ A    +PF+ETSAK G NV+ AF  +
Sbjct: 109 IHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAI 168

Query: 129 ATEIKKRVTK 138
           A E+K+R  K
Sbjct: 169 AKELKRRSMK 178

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score =  215 bits (551), Expect = 1e-72
 Identities = 94/128 (73%), Positives = 106/128 (82%), Gaps = 8/128 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + RT+ +        IWDTAGQERFRTITSSYYRGAHGIIVVYD TDQE+FNN+KQWL+E
Sbjct: 71  KIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQE 130

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           IDRYA +NVNKLLVGNK D T+KK VDY  AKE+AD L IPFLETSAKN  NVEQ+F+TM
Sbjct: 131 IDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTM 190

Query: 129 ATEIKKRV 136
           A EIKKR+
Sbjct: 191 AAEIKKRM 198

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score =  215 bits (549), Expect = 2e-72
 Identities = 51/115 (44%), Positives = 79/115 (68%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAG ER+R ITS+YYRGA G ++V+D T  +T+  +++WL+E+  +A   +  +LVG
Sbjct: 78  IWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVG 137

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
           NK+D +  + V  + A+ +A++  + FLETSA +  NVE AF T+  EI  +V+K
Sbjct: 138 NKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSK 192

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score =  215 bits (550), Expect = 3e-72
 Identities = 62/157 (39%), Positives = 96/157 (61%), Gaps = 10/157 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + +T+ +        +WDTAGQERFRTIT++YYRGA GII+VYD TD+ TF N+KQW + 
Sbjct: 58  KIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKT 117

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           ++ +A D    LLVGNK+D    + V     +  A  L IPF+E+SAKN  NV + F T+
Sbjct: 118 VNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 176

Query: 129 ATEIKKRVTKDEKPSSESDAK-KLNLNSGKPVDAPRS 164
           A  I++++  ++     +  +  +++NSG    +  +
Sbjct: 177 AKLIQEKIDSNKLVGVGNGKEGNISINSGSGNSSKSN 213

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score =  215 bits (549), Expect = 3e-72
 Identities = 50/160 (31%), Positives = 81/160 (50%), Gaps = 11/160 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            ++T+ +        +WDTAG ERFR++  SY R +   +VVYD T+  +F    +W+++
Sbjct: 54  LSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDD 113

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           +      +V  +LVGNK D   K+ V  +  +  A  L + F+ETSAK G NV+Q F  +
Sbjct: 114 VRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 173

Query: 129 ATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
           A  +    +  ++   +    KL     +PV     GGC 
Sbjct: 174 AAALPGMESTQDRSREDMIDIKLEKPQEQPV---SEGGCL 210

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score =  213 bits (544), Expect = 1e-71
 Identities = 55/124 (44%), Positives = 79/124 (63%), Gaps = 8/124 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            TR++ V        IWDTAG ER+R ITS+YYRGA G ++VYD     T+ N+++WL+E
Sbjct: 67  ATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKE 126

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           +  +A  N+  +LVGNK+D    +AV    A+ +A+   + F+ETSA +  NVE AF T+
Sbjct: 127 LRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 186

Query: 129 ATEI 132
            TEI
Sbjct: 187 LTEI 190

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score =  214 bits (547), Expect = 1e-71
 Identities = 60/172 (34%), Positives = 90/172 (52%), Gaps = 20/172 (11%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            TRTL +        IWDTAGQER+R ITS+YYRGA G ++VYD +   ++ N   WL E
Sbjct: 51  ATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSE 110

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           +   A DNV   L+GNK+D    +AV  + +K +A   ++ F ETSA N  NV++AF  +
Sbjct: 111 LRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEEL 170

Query: 129 ATEIKKRVTK------------DEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
              I ++V+K            +   +S  +   ++L      +   +G  C
Sbjct: 171 INTIYQKVSKHQMDLGDSSANGNANGASAPNGPTISLTPTPNENKKANGNNC 222

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  212 bits (542), Expect = 2e-71
 Identities = 60/132 (45%), Positives = 84/132 (63%), Gaps = 9/132 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + RT+ +        IWDTAGQERFRTITS+YYRG HG+IVVYD T  E+F N+K+WL E
Sbjct: 47  KIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHE 106

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           I++   D+V ++LVGNKND   +K V+ + A ++A  + I   ETSAK   NVE+ F  +
Sbjct: 107 INQNC-DDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCI 165

Query: 129 ATEIKKRVTKDE 140
              + +    + 
Sbjct: 166 TELVLRAKKDNL 177

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score =  211 bits (540), Expect = 4e-71
 Identities = 55/130 (42%), Positives = 83/130 (63%), Gaps = 8/130 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
             R + +        IWDTAGQE FR+IT SYYRGA G ++VYD T +ETFN+L  WLE+
Sbjct: 59  GARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLED 118

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
             +++  N+  +L+GNK+D  S++ V  +  + +A    + F+ETSAK   NVE+AF+  
Sbjct: 119 ARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINT 178

Query: 129 ATEIKKRVTK 138
           A EI +++ +
Sbjct: 179 AKEIYRKIQQ 188

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score =  211 bits (540), Expect = 6e-71
 Identities = 58/128 (45%), Positives = 84/128 (65%), Gaps = 9/128 (7%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
             +TL +        IWDTAGQERFRTIT SYYR A+G I+ YD T + +F ++  W+E+
Sbjct: 67  TMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIED 126

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLT 127
           + +YA  N+ +LL+GNK+D +  + V    A+  A+H  I   +ETSAK+ +NVE+AFL 
Sbjct: 127 VRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLR 186

Query: 128 MATEIKKR 135
           +ATE+  R
Sbjct: 187 VATELIMR 194

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score =  211 bits (540), Expect = 6e-71
 Identities = 57/132 (43%), Positives = 78/132 (59%), Gaps = 8/132 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            +R + V        IWDTAGQERFR++T SYYRGA G ++VYD T +ET+N+L  WL +
Sbjct: 63  GSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTD 122

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
               A  N+  +L GNK D   ++ V +  A  +A   ++ FLETSA  G NVE+AFL  
Sbjct: 123 ARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKC 182

Query: 129 ATEIKKRVTKDE 140
           A  I  ++   E
Sbjct: 183 ARTILNKIDSGE 194

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score =  210 bits (538), Expect = 7e-71
 Identities = 55/132 (41%), Positives = 78/132 (59%), Gaps = 8/132 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            ++ + V        IWDTAGQERFR++T SYYRGA G ++VYD T +ET+N L  WL +
Sbjct: 48  GSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTD 107

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
               A  N+  +L GNK D  + + V +  A  +A   ++ FLETSA  G NVE+AF+  
Sbjct: 108 ARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQC 167

Query: 129 ATEIKKRVTKDE 140
           A +I  ++   E
Sbjct: 168 ARKILNKIESGE 179

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score =  211 bits (539), Expect = 8e-71
 Identities = 54/129 (41%), Positives = 85/129 (65%), Gaps = 9/129 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + +T+ +        IWDTAGQERF +ITS+YYR A GII+VYD T +ETF++L +W++ 
Sbjct: 64  KIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKM 123

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLT 127
           ID+YA ++   LLVGNK D  + + +  Q  +++A  +  + F E SAK+  NV++ FL 
Sbjct: 124 IDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLK 183

Query: 128 MATEIKKRV 136
           +  +I K++
Sbjct: 184 LVDDILKKM 192

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score =  211 bits (539), Expect = 1e-70
 Identities = 49/126 (38%), Positives = 83/126 (65%), Gaps = 1/126 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           +WDTAGQERFR++T++++R A G ++++D T Q++F N++ W+ ++   A C+N + +L+
Sbjct: 88  LWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLI 147

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
           GNK D   ++ V+ + A+E AD   IP+ ETSA  G NVE+A  T+   I KR+ +  + 
Sbjct: 148 GNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQCVEK 207

Query: 143 SSESDA 148
           +   D 
Sbjct: 208 TQIPDT 213

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score =  209 bits (535), Expect = 3e-70
 Identities = 44/121 (36%), Positives = 79/121 (65%), Gaps = 1/121 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           +WDTAG ERFR++T++++R A G ++++D T++++F N++ W+ ++  +A  +N + +L 
Sbjct: 74  LWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLC 133

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
           GNK+D   ++AV  + A+E A+   IP+ ETSA NG N+  A   +   I KR+ +    
Sbjct: 134 GNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRMERSVDK 193

Query: 143 S 143
           S
Sbjct: 194 S 194

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score =  208 bits (531), Expect = 7e-70
 Identities = 57/126 (45%), Positives = 77/126 (61%), Gaps = 8/126 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            TR + V        IWDTAGQERFR +T SYYRGA G ++VYD T + T+N+L  WL +
Sbjct: 53  GTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTD 112

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
                  N   +L+GNK D  +++ V Y+ AK++A+   + FLE SAK G NVE AFL  
Sbjct: 113 ARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEA 172

Query: 129 ATEIKK 134
           A +I +
Sbjct: 173 AKKIYQ 178

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score =  207 bits (530), Expect = 9e-70
 Identities = 60/130 (46%), Positives = 84/130 (64%), Gaps = 9/130 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + +T+ +        IWDTAGQERFRTIT++YYRGA GII+VYD TD+ TF N+KQW + 
Sbjct: 41  KIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKT 100

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           ++ +A D    LLVGNK+D    + V     +  A  L IPF+E+SAKN  NV + F T+
Sbjct: 101 VNEHANDEAQLLLVGNKSD-METRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 159

Query: 129 ATEIKKRVTK 138
           A  I++++  
Sbjct: 160 AKLIQEKIDS 169

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens} Length = 199

 Score =  207 bits (528), Expect = 4e-69
 Identities = 53/133 (39%), Positives = 82/133 (61%), Gaps = 14/133 (10%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + +TLIV        +WDTAGQERFR+I  SY+R A G++++YD T +++F N+++W++ 
Sbjct: 66  QMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDM 125

Query: 69  IDRYACDNVNKLLVGNKND------QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVE 122
           I+  A + V  +LVGNK D         +K V     ++ A      F ETSAK+G+N+ 
Sbjct: 126 IEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIV 185

Query: 123 QAFLTMATEIKKR 135
           +A L +A E+KKR
Sbjct: 186 EAVLHLAREVKKR 198

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score =  207 bits (528), Expect = 6e-69
 Identities = 52/164 (31%), Positives = 80/164 (48%), Gaps = 15/164 (9%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            T+ ++V        IWDTAGQERF+++  ++YRGA   ++V+D T   TF  L  W +E
Sbjct: 46  LTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDE 105

Query: 69  IDRYA----CDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQA 124
               A     +N   +++GNK D  +++    +          IP+ ETSAK   NVEQA
Sbjct: 106 FLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQA 165

Query: 125 FLTMATEIKKRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
           F T+A    K+ T+ E  +   +  KL+ N         +  C 
Sbjct: 166 FQTIARNALKQETEVELYNEFPEPIKLDKNERAK---ASAESCS 206

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B* Length = 181

 Score =  205 bits (525), Expect = 6e-69
 Identities = 46/131 (35%), Positives = 72/131 (54%), Gaps = 8/131 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            ++TL V        IWDTAGQER+ ++   YYRGA   I+V+D T+Q +F   K+W++E
Sbjct: 50  FSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQE 109

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           +      N+   L GNK+D    + V  + A+ YA    + F+ETSAK   NV++ F  +
Sbjct: 110 LQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEI 169

Query: 129 ATEIKKRVTKD 139
           A  + +    +
Sbjct: 170 ARRLPRVQPTE 180

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score =  205 bits (524), Expect = 8e-69
 Identities = 43/126 (34%), Positives = 70/126 (55%), Gaps = 8/126 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            T+ L +        IWDTAGQERF  +   YYR ++G I+VYD TD+++F  +K W++E
Sbjct: 44  LTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKE 103

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           + +   + +   +VGNK D   ++ V  Q A+ YA+ +      TSAK    +E+ FL +
Sbjct: 104 LRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDL 163

Query: 129 ATEIKK 134
              + +
Sbjct: 164 CKRMIE 169

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A* Length = 170

 Score =  205 bits (523), Expect = 1e-68
 Identities = 55/126 (43%), Positives = 79/126 (62%), Gaps = 8/126 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            T+T+ +        IWDTAGQER+ ++   YYRGA   IVVYD T++E+F   K W++E
Sbjct: 44  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKE 103

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           + R A  N+   L GNK D  +K+AVD+Q A+ YAD   + F+ETSAK   NV + F+ +
Sbjct: 104 LQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

Query: 129 ATEIKK 134
           A ++ K
Sbjct: 164 AKKLPK 169

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score =  204 bits (521), Expect = 2e-68
 Identities = 41/127 (32%), Positives = 63/127 (49%), Gaps = 9/127 (7%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
             R + V        +WDTAGQE F  IT +YYRGA   ++V+  TD+E+F  +  W E+
Sbjct: 43  LERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREK 102

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           +      ++   LV NK D      +  + A+  A  LK+ F  TS K   NV + F  +
Sbjct: 103 VVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYL 161

Query: 129 ATEIKKR 135
           A +  ++
Sbjct: 162 AEKHLQK 168

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score =  203 bits (520), Expect = 3e-68
 Identities = 49/126 (38%), Positives = 73/126 (57%), Gaps = 8/126 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            T+T+          IWDTAG ERFR +   YYRG+   I+VYD T +ETF+ LK W+ E
Sbjct: 44  MTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRE 103

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           + ++   ++   + GNK D T  + V  + AK+YAD +   F+ETSAKN  N+ + F+ +
Sbjct: 104 LRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEI 163

Query: 129 ATEIKK 134
           +  I  
Sbjct: 164 SRRIPS 169

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8 Length = 192

 Score =  203 bits (518), Expect = 1e-67
 Identities = 47/131 (35%), Positives = 76/131 (58%), Gaps = 8/131 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            T+T+          IWDTAGQERF ++   YYRG+   ++VYD T Q++F  LK+W++E
Sbjct: 61  MTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKE 120

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           +  +  +N+   + GNK D +  + V  + AKEYA+ +    +ETSAKN  N+E+ F  +
Sbjct: 121 LKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGI 180

Query: 129 ATEIKKRVTKD 139
           + +I      +
Sbjct: 181 SRQIPPLDPHE 191

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score =  203 bits (518), Expect = 1e-67
 Identities = 55/142 (38%), Positives = 78/142 (54%), Gaps = 10/142 (7%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
           + +T+ V        IWDTAGQERFRT+T SYYRGA G+I+VYD T ++TF  L  WL E
Sbjct: 53  KVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNE 112

Query: 69  IDRYACDN-VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLT 127
           ++ Y   N +  +LVGNK D+   + VD     ++A    + F+E SAK    V+ AF  
Sbjct: 113 LETYCTRNDIVNMLVGNKIDK-ENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEE 171

Query: 128 MATEIKKRVTKDEKPSSESDAK 149
           +  +I +     E  +  S   
Sbjct: 172 LVEKIIQTPGLWESENQNSGPS 193

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score =  201 bits (512), Expect = 2e-66
 Identities = 35/135 (25%), Positives = 60/135 (44%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+   +   YY GA G I+ +D T + T  NL +W++E      +    ++  
Sbjct: 65  VWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCA 124

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK D  +++ +  ++  E        + E SAK   N    FL +A     R       +
Sbjct: 125 NKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFVSN 184

Query: 144 SESDAKKLNLNSGKP 158
              +  ++N +   P
Sbjct: 185 VNLEPTEVNYDYHSP 199

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A* Length = 179

 Score =  198 bits (507), Expect = 4e-66
 Identities = 44/124 (35%), Positives = 72/124 (58%), Gaps = 8/124 (6%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            ++T+ +        +WDTAGQERFR++  SY R +   +VVYD T+  +F+   +W+++
Sbjct: 52  LSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDD 111

Query: 69  IDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           +      +V  +LVGNK D + K+ V  +  +  A  L + F+ETSAK G NV+Q F  +
Sbjct: 112 VRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 171

Query: 129 ATEI 132
           A  +
Sbjct: 172 AAAL 175

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score =  198 bits (507), Expect = 4e-66
 Identities = 49/131 (37%), Positives = 77/131 (58%), Gaps = 13/131 (9%)

Query: 17  RTRTLIV--------IWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
           R R + +        +WDTAGQERFR ++   YYR  H ++ VYD T+  +F++L  W+E
Sbjct: 58  RERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIE 117

Query: 68  EIDRYACDN-VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAK---NGANVEQ 123
           E  ++   N + ++LVGNK D  S   V   +A+++AD   +P  ETSAK   +  +VE 
Sbjct: 118 ECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEA 177

Query: 124 AFLTMATEIKK 134
            F+T+A ++K 
Sbjct: 178 IFMTLAHKLKS 188

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score =  192 bits (490), Expect = 1e-63
 Identities = 33/134 (24%), Positives = 53/134 (39%), Gaps = 12/134 (8%)

Query: 17  RTRTLIV---------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
             R + +         IWD  GQ     +   Y  GA G+++VYD T+ ++F NL+ W  
Sbjct: 44  FLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYT 103

Query: 68  EIDRYACD---NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQA 124
            + + + +        LVGNK D    + +  +    +           SAK G +V   
Sbjct: 104 VVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLC 163

Query: 125 FLTMATEIKKRVTK 138
           F  +A EI      
Sbjct: 164 FQKVAAEILGIKLN 177

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score =  191 bits (487), Expect = 4e-63
 Identities = 41/132 (31%), Positives = 67/132 (50%), Gaps = 14/132 (10%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
             + L V        IWDTAGQERFR++ + +YRG+   ++ +   D ++F NL  W +E
Sbjct: 45  LNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKE 104

Query: 69  IDRYA----CDNVNKLLVGNKNDQTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGANVEQ 123
              YA     ++   +++GNK D  S++ V  + A+ +   +   P+ ETSAK+  NV  
Sbjct: 105 FIYYADVKEPESFPFVILGNKID-ISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAA 163

Query: 124 AFLTMATEIKKR 135
           AF      +   
Sbjct: 164 AFEEAVRRVLAT 175

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score =  190 bits (485), Expect = 9e-63
 Identities = 48/134 (35%), Positives = 74/134 (55%), Gaps = 15/134 (11%)

Query: 17  RTRTLIV---------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
            T+ + V         +WDTAGQERF+++  ++YRGA   ++VYD T+  +F N+K W +
Sbjct: 46  LTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRD 105

Query: 68  EIDRYA----CDNVNKLLVGNKND-QTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGANV 121
           E   +A     +    +++GNK D + SKK V  + A+E A     IP   TSAKN  NV
Sbjct: 106 EFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINV 165

Query: 122 EQAFLTMATEIKKR 135
           + AF  +A    ++
Sbjct: 166 DTAFEEIARSALQQ 179

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  187 bits (477), Expect = 2e-61
 Identities = 45/113 (39%), Positives = 67/113 (59%), Gaps = 3/113 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ +I   YYRGA   IVV+D ++  T +  K W+ ++   +  N   +LV 
Sbjct: 97  IWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS--NYIIILVA 154

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           NK D+ +K  VD    ++YA    + F++TSAK G N++  F  +A EI K +
Sbjct: 155 NKIDK-NKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNI 206

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score =  184 bits (470), Expect = 1e-60
 Identities = 39/121 (32%), Positives = 63/121 (52%), Gaps = 1/121 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
           I DTAGQE F  +   Y R  HG ++V+   D+++FN + +   +I R    D+   +LV
Sbjct: 61  ILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLV 120

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
           GNK D  S++ V    A  +     + + E SAK   NV++AF  +   ++K   ++  P
Sbjct: 121 GNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQELPP 180

Query: 143 S 143
           S
Sbjct: 181 S 181

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score =  185 bits (471), Expect = 2e-60
 Identities = 49/146 (33%), Positives = 74/146 (50%), Gaps = 8/146 (5%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
           I DTAGQE +  I  +Y+R   G + V+  T+ E+F     + E+I R    +NV  LLV
Sbjct: 66  ILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLV 125

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
           GNK+D   K+ V  + AK  A+   + ++ETSAK  ANV++ F  +  EI+ R  +D K 
Sbjct: 126 GNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDSKE 185

Query: 143 SSESDAKKLNLNSGKPVDAPRSGGCC 168
            +    +K      +         CC
Sbjct: 186 KNGKKKRKSLAKRIR-------ERCC 204

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  185 bits (471), Expect = 2e-60
 Identities = 31/146 (21%), Positives = 62/146 (42%), Gaps = 15/146 (10%)

Query: 17  RTRTLIV--------IW--DTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWL 66
               + +        ++  DTAG + ++   S Y+ G +  I+V+D +  E+F + K W 
Sbjct: 60  VVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWF 119

Query: 67  EEIDRY---ACDNVNKLLVGNKND-QTSKKAVDYQVAKEYADHLKIPFLETSAK-NGANV 121
           E +          +  +LV NK D    +  V   +A+++A    + F + SA   G + 
Sbjct: 120 ELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDA 179

Query: 122 EQAFLTMATEIKKRVTKDEKPSSESD 147
           +  FL++AT   +          ++ 
Sbjct: 180 DAPFLSIATTFYRNYEDKVAAFQDAC 205

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score =  182 bits (464), Expect = 4e-59
 Identities = 34/131 (25%), Positives = 64/131 (48%), Gaps = 3/131 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQE+F  +   YY  A   I+++D T + T+ N+  W  ++ R  C+N+  +L G
Sbjct: 68  VWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV-CENIPIVLCG 126

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS 143
           NK D   +K      +  +     + + + SAK+  N E+ FL +A ++      +    
Sbjct: 127 NKVDIKDRKVKAK--SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAM 184

Query: 144 SESDAKKLNLN 154
                 ++ ++
Sbjct: 185 PALAPPEVVMD 195

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score =  180 bits (460), Expect = 4e-59
 Identities = 45/113 (39%), Positives = 65/113 (57%), Gaps = 1/113 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
           I DTAGQE +  I  +Y+R   G + V+  T+ E+F     + E+I R    +NV  LLV
Sbjct: 56  ILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLV 115

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           GNK+D   K+ V  + AK  AD   + ++ETSAK  ANV++ F  +  EI+ R
Sbjct: 116 GNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score =  180 bits (460), Expect = 6e-59
 Identities = 45/117 (38%), Positives = 67/117 (57%), Gaps = 1/117 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
           I DTAGQE +  I  +Y+R   G + V+  T+ E+F     + E+I R    +NV  LLV
Sbjct: 70  ILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLV 129

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           GNK+D   K+ V  + AK  A+   + ++ETSAK  ANV++ F  +  EI+ R  +D
Sbjct: 130 GNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED 186

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score =  178 bits (454), Expect = 4e-58
 Identities = 32/122 (26%), Positives = 54/122 (44%), Gaps = 1/122 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLLV 82
           + DTAGQ+ +     +Y    +G I+VY  T  ++F  +K    ++        +  +LV
Sbjct: 58  LVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLV 117

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
           GNK D   ++ + Y+  K  A+     FLE+SAK        F  +  E +K      + 
Sbjct: 118 GNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGACSQG 177

Query: 143 SS 144
            S
Sbjct: 178 KS 179

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  177 bits (451), Expect = 7e-58
 Identities = 24/114 (21%), Positives = 48/114 (42%), Gaps = 2/114 (1%)

Query: 24  IWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLL 81
           ++D   Q      +     +     ++V+  TD+ +F+ + + L  +       ++  +L
Sbjct: 55  VYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL 114

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           VGNK+D    + V  +  +  A  L    +ETSA    N  + F     +I+ R
Sbjct: 115 VGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR 168

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score =  176 bits (449), Expect = 1e-57
 Identities = 29/113 (25%), Positives = 50/113 (44%), Gaps = 1/113 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
           ++D   Q+  R +           ++VY  TD+ +F    +   ++ R    D+V  +LV
Sbjct: 53  VYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILV 112

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           GNK+D    + V     +  A      F+ETSA    NV+  F  +  +I+ R
Sbjct: 113 GNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 165

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score =  177 bits (451), Expect = 2e-57
 Identities = 24/119 (20%), Positives = 50/119 (42%), Gaps = 2/119 (1%)

Query: 24  IWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLL 81
           ++D   Q      +     +     ++V+  TD+ +F+ + + L  +       ++  +L
Sbjct: 76  VYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL 135

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE 140
           VGNK+D    + V  +  +  A  L    +ETSA    N  + F     +I+ R  ++ 
Sbjct: 136 VGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLRRGRNH 194

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score =  175 bits (447), Expect = 3e-57
 Identities = 36/112 (32%), Positives = 61/112 (54%), Gaps = 1/112 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
           I DTAG E+F ++   Y +   G I+VY   +Q++F ++K   ++I R    + V  +LV
Sbjct: 55  ILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILV 114

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           GNK D  S++ V     +  A+    PF+ETSAK+   V++ F  +  ++  
Sbjct: 115 GNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMNY 166

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  176 bits (449), Expect = 4e-57
 Identities = 30/122 (24%), Positives = 57/122 (46%), Gaps = 1/122 (0%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLLV 82
           + DTAGQ+ +  +  S+  G HG ++VY  T   +F  ++   +++   +    V  +LV
Sbjct: 76  LVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLV 135

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
           GNK D + ++ V     K+ A+     F+E+SA+     +  F  +  EI +      + 
Sbjct: 136 GNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENSYGQE 195

Query: 143 SS 144
             
Sbjct: 196 RR 197

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score =  175 bits (446), Expect = 6e-57
 Identities = 35/114 (30%), Positives = 55/114 (48%), Gaps = 2/114 (1%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA--CDNVNKLL 81
           I DT G  +F  +        H  I+VY  T +++   LK   E+I       +++  +L
Sbjct: 55  ITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIML 114

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           VGNK D++  + V    A+  A   K  F+ETSAK   NV++ F  +    K+R
Sbjct: 115 VGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRR 168

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score =  175 bits (446), Expect = 1e-56
 Identities = 38/147 (25%), Positives = 64/147 (43%), Gaps = 12/147 (8%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY--ACDNVNKLL 81
           I DT G  +F  +        H  I+V+  T +++   L    + I +   + +++  +L
Sbjct: 60  ITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVML 119

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEK 141
           VGNK D+ +++ VD + A+  A   K  F+ETSAK   NV++ F  + T   +R      
Sbjct: 120 VGNKCDE-TQREVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMSLNI 178

Query: 142 PSSESDAKKLNLNSGKPVDAPRSGGCC 168
               S  +K            R  G C
Sbjct: 179 DGKRSGKQK---------RTDRVKGKC 196

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score =  174 bits (444), Expect = 2e-56
 Identities = 37/114 (32%), Positives = 61/114 (53%), Gaps = 2/114 (1%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           + DTAGQE F  +   Y R   G ++VY  TD+ +F ++ ++ + I R    ++   +LV
Sbjct: 70  VLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILV 129

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNG-ANVEQAFLTMATEIKKR 135
            NK D    + V     KE A    IP++ETSAK+   NV++ F  +   I+++
Sbjct: 130 ANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score =  172 bits (439), Expect = 1e-55
 Identities = 45/128 (35%), Positives = 68/128 (53%), Gaps = 2/128 (1%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           I DTAGQE +  +   Y R   G + V+   + ++F ++  + E+I R    ++V  +LV
Sbjct: 56  ILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLV 115

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP 142
           GNK D  S + VD + A++ A    IPF+ETSAK    V+ AF T+  EI+K   K  K 
Sbjct: 116 GNKCDLPS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEKMSKD 174

Query: 143 SSESDAKK 150
             +   K 
Sbjct: 175 GKKKKKKS 182

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens} Length = 175

 Score =  170 bits (434), Expect = 4e-55
 Identities = 30/115 (26%), Positives = 53/115 (46%), Gaps = 3/115 (2%)

Query: 24  IWDTAGQERFRTITS--SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKL 80
           + DT   E+     S  S  +G    ++VY   D+ +F +  +   ++ R +  D+V  +
Sbjct: 56  VVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPII 115

Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           LVGNK D    + V  +  +  A      F+ETSA    NV + F  +  +++ R
Sbjct: 116 LVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLR 170

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score =  169 bits (431), Expect = 7e-55
 Identities = 41/112 (36%), Positives = 66/112 (58%), Gaps = 2/112 (1%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  +LV
Sbjct: 55  ILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLV 114

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           GNK+D  + + V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 115 GNKSD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score =  168 bits (427), Expect = 4e-54
 Identities = 39/113 (34%), Positives = 59/113 (52%), Gaps = 2/113 (1%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
           I DTAG E+F  +   Y +   G  +VY  T Q TFN+L+   E+I R    ++V  +LV
Sbjct: 55  ILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILV 114

Query: 83  GNKNDQTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           GNK D   ++ V  +  +  A       FLE+SAK+  NV + F  +  +I +
Sbjct: 115 GNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score =  168 bits (427), Expect = 5e-54
 Identities = 43/113 (38%), Positives = 63/113 (55%), Gaps = 2/113 (1%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           I DTAGQE +  +   Y R   G + V+   + ++F ++  + E+I R    D+V  +LV
Sbjct: 73  ILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLV 132

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           GNK D  + + VD + A E A    IPF+ETSAK    VE AF T+  EI++ 
Sbjct: 133 GNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQY 184

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8 Length = 211

 Score =  168 bits (428), Expect = 7e-54
 Identities = 32/135 (23%), Positives = 61/135 (45%), Gaps = 3/135 (2%)

Query: 8   QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
           +TL    E  T  L+ +W+  G+  +  +     +     ++VY  TD+ +F    +   
Sbjct: 78  RTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRI 135

Query: 68  EIDR-YACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
           ++ R    +++  +LVGNK+D    + V     +  A      F+ETSA    NV++ F 
Sbjct: 136 QLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFE 195

Query: 127 TMATEIKKRVTKDEK 141
            +  +++ R    EK
Sbjct: 196 GIVRQVRLRRDSKEK 210

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score =  164 bits (418), Expect = 2e-52
 Identities = 33/144 (22%), Positives = 63/144 (43%), Gaps = 3/144 (2%)

Query: 8   QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLE 67
           +TL    E  T  L+ +W+  G+  +  +     +     ++VY  TD+ +F    +   
Sbjct: 47  RTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRI 104

Query: 68  EIDR-YACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL 126
           ++ R    +++  +LVGNK+D    + V     +  A      F+ETSA    NV++ F 
Sbjct: 105 QLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFE 164

Query: 127 TMATEIKKRVTKDEKPSSESDAKK 150
            +  +++ R    EK       +K
Sbjct: 165 GIVRQVRLRRDSKEKNERRLAYQK 188

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score =  160 bits (407), Expect = 1e-50
 Identities = 35/114 (30%), Positives = 53/114 (46%), Gaps = 3/114 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV 82
           I DTAGQE        + R   G ++VYD TD+ +F  +      +D      NV  +LV
Sbjct: 80  ILDTAGQEDTIQ-REGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILV 138

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAK-NGANVEQAFLTMATEIKKR 135
           GNK D    + V  +  ++ A  L   F E SA     N+ + F  +  E+++R
Sbjct: 139 GNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRR 192

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 170

 Score =  153 bits (388), Expect = 2e-48
 Identities = 44/130 (33%), Positives = 69/130 (53%), Gaps = 11/130 (8%)

Query: 17  RTRTLIV--------IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE 68
            T+ + +        IWDTAGQERF ++   YYR A   +VVYD T  ++F   + W++E
Sbjct: 41  LTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKE 100

Query: 69  IDRYACDNVNKLLVGNKND---QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF 125
           +   A  ++   LVGNK D   +  ++ V  +  ++ A+   + F ETSAK G NV   F
Sbjct: 101 LHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVF 160

Query: 126 LTMATEIKKR 135
           L +  +I  +
Sbjct: 161 LGIGEKIPLK 170

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score =  153 bits (389), Expect = 3e-48
 Identities = 23/116 (19%), Positives = 48/116 (41%), Gaps = 9/116 (7%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           I D  G    +     +      ++ V+   D+ +F  +  +   +  +     V  +LV
Sbjct: 71  IRDEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLV 125

Query: 83  GNKND--QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKKR 135
           G ++     + + +D   A++ +  LK   + ET A  G NVE+ F  +A ++   
Sbjct: 126 GTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVAL 181

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score =  151 bits (384), Expect = 2e-47
 Identities = 29/115 (25%), Positives = 50/115 (43%), Gaps = 5/115 (4%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD---NVNKL 80
           + DTA  +  R     Y   AH  +VVY    +++F++   +LE +  +A +   ++  L
Sbjct: 73  VMDTADLDTPRNCER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPAL 131

Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAK-NGANVEQAFLTMATEIKK 134
           L+GNK D    + V        A      F E SA  +  +V+  F     E ++
Sbjct: 132 LLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREARR 186

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score =  150 bits (380), Expect = 6e-47
 Identities = 26/126 (20%), Positives = 50/126 (39%), Gaps = 10/126 (7%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQET-FNNLKQWLEEIDRYACDNVNKLLV 82
           +WD AG+E F +    +       + VYD +  +   + +K WL  I   A  +   +LV
Sbjct: 60  VWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARA-SSSPVILV 118

Query: 83  GNKNDQTSKK---AVDYQVAKEYADHLKIPFL-----ETSAKNGANVEQAFLTMATEIKK 134
           G   D + +K   A   ++ KE  +    P +       + +    + +   T+  E   
Sbjct: 119 GTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLN 178

Query: 135 RVTKDE 140
              +D+
Sbjct: 179 FKIRDQ 184

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  147 bits (371), Expect = 2e-42
 Identities = 25/123 (20%), Positives = 46/123 (37%), Gaps = 6/123 (4%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
            WD  GQE        +   +   +++ D     T +N   WL  I++Y       ++V 
Sbjct: 102 FWDFGGQEIMHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRHIEKYG-GKSPVIVVM 157

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI--KKRVTKDEK 141
           NK D+     ++ +   E    ++  F   S KNG  VE    ++ + +     +     
Sbjct: 158 NKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLHPDSIYGTPL 217

Query: 142 PSS 144
             S
Sbjct: 218 APS 220

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score =  138 bits (349), Expect = 3e-42
 Identities = 24/123 (19%), Positives = 50/123 (40%), Gaps = 11/123 (8%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY---ACDNVNKL 80
           I + AG    +     +   A  +I V+   D+ +F  + +   ++          +   
Sbjct: 58  IREEAGAPDAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALA 112

Query: 81  LVGNKN--DQTSKKAVDYQVAKEY-ADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT 137
           LVG ++    +S + V    A+   AD  +  + ET A  G NV++ F  +A ++     
Sbjct: 113 LVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRK 172

Query: 138 KDE 140
           + +
Sbjct: 173 QQQ 175

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C Length = 182

 Score =  106 bits (267), Expect = 6e-30
 Identities = 30/118 (25%), Positives = 51/118 (43%), Gaps = 13/118 (11%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    YRGA   I+ +    + ++ N+  +W+ E+  Y    V  +LV
Sbjct: 60  LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHY-APGVPIVLV 118

Query: 83  GNKND----------QTSKKAVDYQVAKEYADHLKIP-FLETSAKNGANVEQAFLTMA 129
           G K D                +     +E    +  P ++E S+K+  NV+  F    
Sbjct: 119 GTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAI 176

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score =  105 bits (264), Expect = 2e-29
 Identities = 26/106 (24%), Positives = 49/106 (46%), Gaps = 5/106 (4%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y  +  +++ +   ++ +F+N+  +W  EI  Y  D    +LV
Sbjct: 75  LWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHY-IDTAKTVLV 133

Query: 83  GNKND--QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
           G K D  +     V  Q   +    L  + ++E S+     + + F
Sbjct: 134 GLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 179

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score =  103 bits (259), Expect = 2e-28
 Identities = 33/122 (27%), Positives = 58/122 (47%), Gaps = 15/122 (12%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKL 80
           + IWDTAGQ+ +  +   +Y  A  +++ +D T   +F+N+  +W  E++ + C  V  +
Sbjct: 84  LHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHF-CKKVPII 142

Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLT 127
           +VG K D            +   + V Y   +E A  +  + +LE SA+   NV   F  
Sbjct: 143 VVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQE 202

Query: 128 MA 129
            A
Sbjct: 203 AA 204

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ... Length = 201

 Score =  101 bits (254), Expect = 8e-28
 Identities = 30/122 (24%), Positives = 54/122 (44%), Gaps = 15/122 (12%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y     I++ +     ++  N+  +W  E+  + C NV  +
Sbjct: 75  LALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPII 133

Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLT 127
           LVGNK D            +  ++ V  +  ++ A+ +    +LE SAK    V + F  
Sbjct: 134 LVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEM 193

Query: 128 MA 129
             
Sbjct: 194 AT 195

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score =  101 bits (254), Expect = 1e-27
 Identities = 37/155 (23%), Positives = 67/155 (43%), Gaps = 15/155 (9%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    YRGA   ++ +    + ++ N+  +W+ E+ R+   NV  +LV
Sbjct: 61  LWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRF-APNVPIVLV 119

Query: 83  GNKND--------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIK 133
           G K D              +     +E    +    ++E S+K   NV+  F T    + 
Sbjct: 120 GTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVL 179

Query: 134 KRVTKDEKPSSESDAKKLNLNSGKPVDAPRSGGCC 168
           +   + E P    + ++    SG  + +   GGC 
Sbjct: 180 QPPRRKEVPRRRKNHRR----SGCSIASIVCGGCT 210

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 207

 Score =  100 bits (251), Expect = 3e-27
 Identities = 32/130 (24%), Positives = 56/130 (43%), Gaps = 16/130 (12%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLV 82
           +WDTAGQE +  +    Y     I++ +     ++  N+  +W+ E+  + C NV  +LV
Sbjct: 77  LWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHF-CPNVPIILV 135

Query: 83  GNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMA 129
            NK D            +  ++ V     +  A  ++   +LE SAK    V + F T  
Sbjct: 136 ANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETAT 195

Query: 130 -TEIKKRVTK 138
              ++KR   
Sbjct: 196 RAALQKRYGS 205

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score = 98.5 bits (245), Expect = 4e-26
 Identities = 23/151 (15%), Positives = 46/151 (30%), Gaps = 41/151 (27%)

Query: 24  IWDTAGQERFRTITSSYYRGA-------------------------------------HG 46
           I D   Q    T    Y + A                                      G
Sbjct: 106 IDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDG 165

Query: 47  IIVVYDCT--DQETFNNLKQWLEEIDRYAC-DNVNKLLVGNKNDQTSKKAVDYQVAKEYA 103
            ++  D +      F++  +++  +           ++V  K D+  ++ +        +
Sbjct: 166 FLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIRDAHTFALS 225

Query: 104 DHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
               +  +ETSA++  NV+ AF T+   I K
Sbjct: 226 KK-NLQVVETSARSNVNVDLAFSTLVQLIDK 255

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score = 96.0 bits (239), Expect = 2e-25
 Identities = 28/119 (23%), Positives = 49/119 (41%), Gaps = 16/119 (13%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKL 80
           + +WDT+G   +  +    Y  +  +++ +D +  ET +++  +W  EI  + C N   L
Sbjct: 78  LSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKML 136

Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGAN-VEQAF 125
           LVG K+D               +  V Y      A  +    ++E SA    N V   F
Sbjct: 137 LVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 195

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score = 94.8 bits (236), Expect = 5e-25
 Identities = 26/118 (22%), Positives = 45/118 (38%), Gaps = 15/118 (12%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y      ++ +      +F N   +W  E+  + C N   +
Sbjct: 80  LGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPII 138

Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
           LVG K D            +     + Y      A  +  + +LE SA     ++  F
Sbjct: 139 LVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score = 93.2 bits (232), Expect = 1e-24
 Identities = 28/119 (23%), Positives = 49/119 (41%), Gaps = 16/119 (13%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKL 80
           + +WDT+G   +  +    Y  +  +++ +D +  ET +++  +W  EI  + C N   L
Sbjct: 57  LSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKML 115

Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGAN-VEQAF 125
           LVG K+D               +  V Y      A  +    ++E SA    N V   F
Sbjct: 116 LVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 174

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ... Length = 186

 Score = 91.7 bits (228), Expect = 5e-24
 Identities = 26/118 (22%), Positives = 45/118 (38%), Gaps = 15/118 (12%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKL 80
           + +WDTAGQE +  +    Y      ++ +      +F N   +W  E+  + C N   +
Sbjct: 55  LGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH-CPNTPII 113

Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
           LVG K D            +     + Y      A  +  + +LE SA     ++  F
Sbjct: 114 LVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 171

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 89.4 bits (222), Expect = 5e-23
 Identities = 28/118 (23%), Positives = 53/118 (44%), Gaps = 15/118 (12%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKL 80
           + + DTAGQ+ F  +    Y      ++ +      +F N  ++W+ EI  + C     +
Sbjct: 70  LQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCH-CPKAPII 128

Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
           LVG ++D            +  +K V  + AK  A+ +K   ++E SA    N+++ F
Sbjct: 129 LVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A* Length = 214

 Score = 86.9 bits (215), Expect = 6e-22
 Identities = 29/137 (21%), Positives = 55/137 (40%), Gaps = 16/137 (11%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL 80
           + +WDT+G   +  +    Y  +  +++ +D +  ET ++  K+W  EI  Y C +   L
Sbjct: 77  LSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDY-CPSTRVL 135

Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGA-NVEQAFL 126
           L+G K D               +  + Y+     A  L    +LE SA     ++   F 
Sbjct: 136 LIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFR 195

Query: 127 TMATEIKKRVTKDEKPS 143
           T +     + +   + S
Sbjct: 196 TASMLCLNKPSPLPQKS 212

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score = 86.0 bits (213), Expect = 1e-21
 Identities = 24/118 (20%), Positives = 50/118 (42%), Gaps = 15/118 (12%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNKL 80
           + ++DTAGQE +  +    Y      ++ +   +  +F N  ++W+ E+  Y   NV  L
Sbjct: 68  LGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPFL 126

Query: 81  LVGNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
           L+G + D               +K +  +  ++ A  +    ++E SA     ++  F
Sbjct: 127 LIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVF 184

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 81.3 bits (201), Expect = 6e-20
 Identities = 26/137 (18%), Positives = 45/137 (32%), Gaps = 6/137 (4%)

Query: 7   YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWL 66
           +  L   + +  +T   ++   GQ  +        RG  GI+ V D        N +   
Sbjct: 61  FLPLDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMR 120

Query: 67  EEIDRYACDNVNK----LLVG-NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANV 121
              +  A   +      +++  NK D      V+  V        K P LE  A  G  V
Sbjct: 121 NMRENLAEYGLTLDDVPIVIQVNKRDLPDALPVE-MVRAVVDPEGKFPVLEAVATEGKGV 179

Query: 122 EQAFLTMATEIKKRVTK 138
            +    ++  +  RV  
Sbjct: 180 FETLKEVSRLVLARVAG 196

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Length = 332

 Score = 77.0 bits (189), Expect = 2e-17
 Identities = 24/116 (20%), Positives = 45/116 (38%), Gaps = 15/116 (12%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQ-WLEEIDRYACDNVNKLLV 82
           +WDTAG E +  +    Y      ++ +      +F++++  W  E+  + C N   +LV
Sbjct: 207 LWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHH-CPNTPIILV 265

Query: 83  GNKND------------QTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAF 125
           G K D            +     + Y      A  +  + +LE SA     ++  F
Sbjct: 266 GTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 63.8 bits (156), Expect = 2e-13
 Identities = 24/123 (19%), Positives = 47/123 (38%), Gaps = 16/123 (13%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI---DRYACDNVNKL 80
           ++D +GQ R+R +   YY+    II V D +D+      K+ L+ +          +  L
Sbjct: 71  VFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPIL 130

Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMATEI 132
              NK D   + AV    + + +  L              + A  G  +++    +  +I
Sbjct: 131 FFANKMDL--RDAVT---SVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQI 185

Query: 133 KKR 135
           +  
Sbjct: 186 QTV 188

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A* Length = 192

 Score = 61.9 bits (151), Expect = 1e-12
 Identities = 30/125 (24%), Positives = 47/125 (37%), Gaps = 18/125 (14%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-- 79
             +WD  GQ++ R +   Y++   G+I V D  D+E        L+++     D +    
Sbjct: 75  FTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKM--LQEDELRDAV 132

Query: 80  LLV-GNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMAT 130
           LLV  NK D     A+      E  D L              T A  G  +      ++ 
Sbjct: 133 LLVFANKQDM--PNAMP---VSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSH 187

Query: 131 EIKKR 135
           E+ KR
Sbjct: 188 ELSKR 192

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A* Length = 188

 Score = 61.0 bits (149), Expect = 2e-12
 Identities = 33/123 (26%), Positives = 51/123 (41%), Gaps = 14/123 (11%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI-DRYACDNVNKL 80
           I +WD  GQ RFR++   Y RG   I+ + D  DQE     K  L  + D+     +  L
Sbjct: 69  IKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVL 128

Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFL--------ETSAKNGANVEQAFLTMATEI 132
           ++GNK D     A+D    KE  + + +  +          S K   N++     +    
Sbjct: 129 VLGNKRDL--PGALD---EKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHS 183

Query: 133 KKR 135
           K R
Sbjct: 184 KSR 186

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 60.3 bits (147), Expect = 4e-12
 Identities = 33/128 (25%), Positives = 57/128 (44%), Gaps = 18/128 (14%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-- 79
            ++WD  GQE  R+  ++YY     +IVV D TD+E  +  ++ L ++   A +++ K  
Sbjct: 62  FLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKM--LAHEDLRKAG 119

Query: 80  LLV-GNKNDQTSKKAVDYQVAKEYADHLKIP--------FLETSAKNGANVEQAFLTMAT 130
           LL+  NK D   K+ +      E +  LK+              A  G  + Q    M +
Sbjct: 120 LLIFANKQDV--KECMT---VAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMS 174

Query: 131 EIKKRVTK 138
            +K R+  
Sbjct: 175 RLKIRLEH 182

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ... Length = 164

 Score = 59.9 bits (146), Expect = 4e-12
 Identities = 30/125 (24%), Positives = 53/125 (42%), Gaps = 18/125 (14%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-- 79
             +WD  GQ++ R +   Y++   G+I V D  D+E  N  ++ L  +   A D +    
Sbjct: 46  FTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRM--LAEDELRDAV 103

Query: 80  LLV-GNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMAT 130
           LLV  NK D     A++   A E  D L              T A +G  + +    ++ 
Sbjct: 104 LLVFANKQDL--PNAMN---AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSN 158

Query: 131 EIKKR 135
           +++ +
Sbjct: 159 QLRNQ 163

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 60.0 bits (146), Expect = 6e-12
 Identities = 27/123 (21%), Positives = 47/123 (38%), Gaps = 18/123 (14%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK--LL 81
           +WD  GQ   R     Y+     +I V D TD++     K  L  +     D + K  LL
Sbjct: 70  VWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYAL--LDEDELRKSLLL 127

Query: 82  V-GNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMATEI 132
           +  NK D     A       E A+ L            +++S+K G  + +    +   +
Sbjct: 128 IFANKQDL--PDAAS---EAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERL 182

Query: 133 KKR 135
           +++
Sbjct: 183 REQ 185

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A* Length = 171

 Score = 59.5 bits (145), Expect = 7e-12
 Identities = 30/125 (24%), Positives = 49/125 (39%), Gaps = 18/125 (14%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-- 79
             +WD  G    R     YY     +I V D  D++     K  L  +     + + K  
Sbjct: 53  FQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAM--LEEEELRKAI 110

Query: 80  LLV-GNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMAT 130
           L+V  NK D   ++A+    + E A+ L        K    +TSA  G  +++A   +  
Sbjct: 111 LVVFANKQDM--EQAMT---SSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVE 165

Query: 131 EIKKR 135
            +K R
Sbjct: 166 TLKSR 170

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A* Length = 181

 Score = 59.5 bits (145), Expect = 8e-12
 Identities = 26/123 (21%), Positives = 44/123 (35%), Gaps = 18/123 (14%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK--LL 81
           +WD  GQ + R    SY+     +I V D  D++ F    Q L E+     + ++   +L
Sbjct: 64  VWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTEL--LEEEKLSCVPVL 121

Query: 82  V-GNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMATEI 132
           +  NK D  +          E A+ L               SA  G  V+     +   +
Sbjct: 122 IFANKQDLLTAAPAS-----EIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

Query: 133 KKR 135
             +
Sbjct: 177 NAK 179

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 59.2 bits (144), Expect = 9e-12
 Identities = 27/123 (21%), Positives = 45/123 (36%), Gaps = 18/123 (14%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK--LL 81
           +WD  GQ   R     YY     +I V D TD++  +   + L  +     + +    LL
Sbjct: 66  VWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLM--LQEEELQDAALL 123

Query: 82  V-GNKNDQTSKKAVDYQVAKEYADHLKIP--------FLETSAKNGANVEQAFLTMATEI 132
           V  NK DQ    +       E +  L +          + +SA  G  + +    +   I
Sbjct: 124 VFANKQDQPGALSAS-----EVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVI 178

Query: 133 KKR 135
           K+ 
Sbjct: 179 KEE 181

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A* Length = 186

 Score = 58.8 bits (143), Expect = 2e-11
 Identities = 26/126 (20%), Positives = 50/126 (39%), Gaps = 18/126 (14%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI---DRYACDNVN 78
           + IWD  GQ+  R+   +Y+    G+I V D  D++   + ++ L+ +   +R A     
Sbjct: 64  LNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLA--GAT 121

Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIP--------FLETSAKNGANVEQAFLTMAT 130
            L+  NK D     + +        + L++             SA  G ++      +  
Sbjct: 122 LLIFANKQDLPGALSCN-----AIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLD 176

Query: 131 EIKKRV 136
           +I  RV
Sbjct: 177 DISSRV 182

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A* Length = 181

 Score = 54.2 bits (131), Expect = 7e-10
 Identities = 27/115 (23%), Positives = 46/115 (40%), Gaps = 18/115 (15%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI---DRYACDNVN 78
            ++WD  GQE  R+  ++YY     +IVV D TD+E  +  ++ L ++   +        
Sbjct: 67  FLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLR--KAG 124

Query: 79  KLLVGNKNDQTSKKAVDYQVAKEYADHLKIP--------FLETSAKNGANVEQAF 125
            L+  NK D   K+ +      E +  LK+              A  G  + Q  
Sbjct: 125 LLIFANKQDV--KECMT---VAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGL 174

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 54.9 bits (132), Expect = 1e-09
 Identities = 27/123 (21%), Positives = 51/123 (41%), Gaps = 18/123 (14%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI---DRYACDNVNKL 80
           +WD  GQ++ R +   Y++   G+I V D  D+E  N  ++ L  +   D     +   L
Sbjct: 213 VWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELR--DAVLL 270

Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHL--------KIPFLETSAKNGANVEQAFLTMATEI 132
           +  NK D     A++   A E  D L              T A +G  + +    ++ ++
Sbjct: 271 VFANKQDL--PNAMN---AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 325

Query: 133 KKR 135
           + +
Sbjct: 326 RNQ 328

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B* Length = 190

 Score = 50.3 bits (121), Expect = 2e-08
 Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 7/68 (10%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD----NVNK 79
            +D  G  + R +   Y+   +GI+ + D  D E F+  +    E+D         +V  
Sbjct: 71  TFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEAR---VELDALFNIAELKDVPF 127

Query: 80  LLVGNKND 87
           +++GNK D
Sbjct: 128 VILGNKID 135

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A* Length = 198

 Score = 50.4 bits (121), Expect = 2e-08
 Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 7/68 (10%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD----NVNK 79
            +D  G  + R +  +Y    +GI+ + DC D E     K   EE+D    D    NV  
Sbjct: 73  TFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESK---EELDSLMTDETIANVPI 129

Query: 80  LLVGNKND 87
           L++GNK D
Sbjct: 130 LILGNKID 137

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 48.8 bits (116), Expect = 7e-08
 Identities = 26/120 (21%), Positives = 46/120 (38%), Gaps = 18/120 (15%)

Query: 22  IVIWDTAGQERFRTITS---SYYRGAHGIIVVYDCTDQ--ETFNNLKQWLEEIDRYACDN 76
             IWD  GQ  F   T      +RG   +I V D  D   E    L   + +  +    +
Sbjct: 71  FQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVN-PD 129

Query: 77  VNKLLVGNKND-------QTSKKAVDYQVAKEYADH----LKIPFLETSAKNGANVEQAF 125
           +N  +  +K D         +++ +  +   + AD     L + F  TS  +  ++ +AF
Sbjct: 130 MNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYDH-SIFEAF 188

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 45.5 bits (108), Expect = 1e-06
 Identities = 14/85 (16%), Positives = 33/85 (38%), Gaps = 9/85 (10%)

Query: 12  NKKEERTRTLIVIWDTAGQERFRTITSSYYR----GAHGIIVVYDC-TDQETFNNLKQWL 66
               +   + + + D  G  + R   S Y +       G+I + D   D +      ++L
Sbjct: 83  LSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFL 142

Query: 67  EEI----DRYACDNVNKLLVGNKND 87
            +I    +    + ++ L+  NK++
Sbjct: 143 VDILSITESSCENGIDILIACNKSE 167

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 218

 Score = 45.9 bits (109), Expect = 1e-06
 Identities = 14/86 (16%), Positives = 33/86 (38%), Gaps = 9/86 (10%)

Query: 12  NKKEERTRTLIVIWDTAGQERFRTITSSYY----RGAHGIIVVYDC-TDQETFNNLKQWL 66
               +   + + + D  G  + R   S Y     +   G+I + D   D +      ++L
Sbjct: 47  LSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFL 106

Query: 67  EEI----DRYACDNVNKLLVGNKNDQ 88
            +I    +    + ++ L+  NK++ 
Sbjct: 107 VDILSITESSCENGIDILIACNKSEL 132

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A* Length = 476

 Score = 45.2 bits (108), Expect = 2e-06
 Identities = 17/103 (16%), Positives = 32/103 (31%), Gaps = 9/103 (8%)

Query: 44  AHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYA 103
           A  I+ + D   +   + L +  E            L V NK D+ +      +   +  
Sbjct: 313 ADLILYLLDLGTERLDDELTEIRELKAA--HPAAKFLTVANKLDRAANADALIRAIADGT 370

Query: 104 DHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPSSES 146
                  +  SA NG  ++     +   +   V   +K    S
Sbjct: 371 GT---EVIGISALNGDGIDT----LKQHMGDLVKNLDKLHEAS 406

>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} Length = 227

 Score = 43.1 bits (101), Expect = 1e-05
 Identities = 15/124 (12%), Positives = 29/124 (23%), Gaps = 13/124 (10%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFN---NLKQWLEEIDRYACDNVNKLL 81
                +               G I V +    +           +   D     +   LL
Sbjct: 107 DQQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLL 166

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLE-------TSAKNGANVEQAFLTMATEIKK 134
           V +   Q   K +        A  L +  L        T A+           +  E++ 
Sbjct: 167 VLSCISQGDVKRMP---CFYLAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVES 223

Query: 135 RVTK 138
           +  +
Sbjct: 224 KRAR 227

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 43.1 bits (101), Expect = 1e-05
 Identities = 22/114 (19%), Positives = 47/114 (41%), Gaps = 18/114 (15%)

Query: 24  IWDTAGQERF-----RTITSSYYRGAHGIIVVYDCTDQETFNNLKQW---LEEIDRYACD 75
           +WD  GQ+ F            ++    +I V+D    E   +++ +   L+++ +Y+  
Sbjct: 56  LWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYS-P 114

Query: 76  NVNKLLVGNKND--QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLT 127
           +    ++ +K D  Q  K+   +Q+  +          ETS++ G      F T
Sbjct: 115 DAKIFVLLHKMDLVQLDKREELFQIMMKNL-------SETSSEFGFPNLIGFPT 161

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 42.7 bits (100), Expect = 2e-05
 Identities = 18/130 (13%), Positives = 51/130 (39%), Gaps = 18/130 (13%)

Query: 12  NKKEERTRTLIVIWDTAGQERFR---TITSSYYRGAHGIIVVYDCTDQ--ETFNNLKQWL 66
           + +   T   + + +  GQ  +      +   ++    ++ V D  D+      NL   +
Sbjct: 38  SLEHFSTLIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMII 97

Query: 67  EEIDRYACDNVNKLLVGNKND-------QTSKKAVDYQVAKEYAD----HLKIPFLETSA 115
           E   +    ++N  ++ +K D         +++ +  +  +E  +     +++ F  TS 
Sbjct: 98  EYAYKVN-PSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSI 156

Query: 116 KNGANVEQAF 125
            +  ++ +AF
Sbjct: 157 FDH-SIYEAF 165

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2 Length = 214

 Score = 42.0 bits (99), Expect = 2e-05
 Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 5/69 (7%)

Query: 24  IWDTAGQERFR-TITSSYYRGAHGIIVVYDCTD-QETFNNLKQWLEEI--DRYACDNVNK 79
           + D  G E  R  +   +   A  ++ V D    Q    ++ ++L ++  D  A  N   
Sbjct: 58  LIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPS 117

Query: 80  LLV-GNKND 87
           LL+  NK D
Sbjct: 118 LLIACNKQD 126

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A Length = 172

 Score = 40.2 bits (95), Expect = 7e-05
 Identities = 17/80 (21%), Positives = 30/80 (37%), Gaps = 8/80 (10%)

Query: 44  AHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYA 103
           A  ++ + D T  +  +  + W E I R     +   +V NK D T +     +V     
Sbjct: 84  ADRVLFMVDGTTTDAVDPAEIWPEFIARL-PAKLPITVVRNKADITGETLGMSEVNGH-- 140

Query: 104 DHLKIPFLETSAKNGANVEQ 123
                  +  SA+ G  V+ 
Sbjct: 141 -----ALIRLSARTGEGVDV 155

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana} Length = 423

 Score = 38.1 bits (89), Expect = 6e-04
 Identities = 22/133 (16%), Positives = 43/133 (32%), Gaps = 19/133 (14%)

Query: 22  IVIWDTAG-------QERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC 74
           + + DT G                  +  A   I+V D       +++    +E+     
Sbjct: 85  VTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAPTPYEDDVVNLFKEM----- 139

Query: 75  DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
             +  ++V NK D   +KA +  +   Y    +   L  SA      +     +   I +
Sbjct: 140 -EIPFVVVVNKIDVLGEKAEE--LKGLYESRYEAKVLLVSALQKKGFD----DIGKTISE 192

Query: 135 RVTKDEKPSSESD 147
            +  DE+     D
Sbjct: 193 ILPGDEEIPYLGD 205

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	168
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.96
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.95
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.95
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.94
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.94
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.94
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.94
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.94
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.94
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.94
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.94
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.93
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.93
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.93
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.93
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.93
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.93
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.93
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.93
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.93
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.93
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.93
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.93
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.93
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.93
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.93
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.93
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.93
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.93
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.93
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.93
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.93
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.93
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.93
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.93
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.93
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.92
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.92
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.92
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.92
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.92
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.92
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.92
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.92
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.92
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.92
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.92
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.92
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.92
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.92
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.92
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.92
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.92
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.92
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.92
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.91
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.91
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.91
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.91
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.91
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.91
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.91
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.91
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.91
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.91
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.91
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.91
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.91
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.91
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.91
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.91
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.91
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.91
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.91
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.9
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.9
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.9
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.9
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.9
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.9
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.9
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.9
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.89
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.89
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.89
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.89
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.89
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.89
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.89
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.89
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.89
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.89
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.89
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.88
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.88
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.88
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.88
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.87
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.87
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.87
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.87
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.86
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.86
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.86
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.86
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.85
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.75
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.83
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.83
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.83
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.8
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.79
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.79
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.79
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.78
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.76
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.75
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.75
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.74
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.74
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.73
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.73
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.72
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.72
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.71
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.69
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.69
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.68
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.67
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.67
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.66
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.66
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.66
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.66
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.66
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.65
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.63
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.63
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.63
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.61
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.61
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.6
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.6
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.59
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.59
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.59
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.59
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.58
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.58
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.57
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.57
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.56
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.56
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.56
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.55
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.54
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.52
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.52
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.51
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.5
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.5
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.5
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.49
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.49
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.49
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.47
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.47
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.46
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.45
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.43
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.39
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.39
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.38
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.38
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.37
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.37
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.34
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.33
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.33
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.33
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.31
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.27
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.26
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.25
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.24
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.15
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.14
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.11
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.11
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.1
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.09
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.08
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.07
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.05
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.0
1wxq_A	397	GTP-binding protein; structural genomics, riken st	98.99
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	98.99
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.94
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.9
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.89
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.86
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.84
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.81
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	98.68
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	98.68
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	98.67
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.63
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.56
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	98.44
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.42
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.41
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.37
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.32
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.18
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	97.91
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.34
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	96.67
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	96.63
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.09
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.72
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	95.7
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	95.3
3end_A	307	Light-independent protochlorophyllide reductase ir	95.24
3cwq_A	209	Para family chromosome partitioning protein; alpha	95.0
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	94.67
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.46
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.26
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	94.01
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	93.29
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	93.01
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	92.61
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	92.52
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	92.33
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	92.08
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	90.83
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	90.02
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	89.12
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	88.74
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	88.45
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	86.61
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	86.57
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	85.75
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	84.71
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	84.41
2xxa_A	433	Signal recognition particle protein; protein trans	84.27
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	83.85
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	81.6
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	81.53

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=2.5e-33  Score=202.48  Aligned_cols=135  Identities=32%  Similarity=0.509  Sum_probs=116.1

Q ss_pred             ccccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc
Q psy2646           3 LLLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN   78 (168)
Q Consensus         3 ~~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p   78 (168)
                      .+.||++    .+.+.+++..+.++||||+|+++|..+++.|+++++++++|||++++++|+.+..|+..+.....++.|
T Consensus        41 ~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~p  120 (216)
T 4dkx_A           41 TYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVI  120 (216)
T ss_dssp             ---------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSE
T ss_pred             CcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCe
Confidence            3567776    456677899999999999999999999999999999999999999999999999999999776667899


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ++|||||+|+...+.++.+++.++++.++++|+++||++|.||+++|+.|++.+.....
T Consensus       121 iilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~F~~i~~~i~~~~~  179 (216)
T 4dkx_A          121 IMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMES  179 (216)
T ss_dssp             EEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHHC-----
T ss_pred             EEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHHHHHHHHHHHhhhc
Confidence            99999999999888999999999999999999999999999999999999988875543

>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=99.96  E-value=8.3e-28  Score=171.64  Aligned_cols=134  Identities=59%  Similarity=0.925  Sum_probs=119.1

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    ...+.+++..+.+.||||||+++|..++..+++++|++|+|||++++.++..+..|+..+......+.|+
T Consensus        37 ~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~pi  116 (206)
T 2bcg_Y           37 YISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLK  116 (206)
T ss_dssp             CCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEE
T ss_pred             CCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCE
Confidence            345554    4566778889999999999999999999999999999999999999999999999999987765567999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ++|+||+|+...+.+..+++..++..++++++++||++|.|++++|.++.+.+.+...
T Consensus       117 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~~  174 (206)
T 2bcg_Y          117 LLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMS  174 (206)
T ss_dssp             EEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            9999999998777788888888998899999999999999999999999999987644

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.95  E-value=2e-27  Score=171.91  Aligned_cols=130  Identities=42%  Similarity=0.655  Sum_probs=111.7

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++..+.+.||||||+++|..++..+++++|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+.
T Consensus        52 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~  131 (223)
T 3cpj_B           52 TRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLA  131 (223)
T ss_dssp             EEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGG
T ss_pred             EEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc
Confidence            45566788889999999999999999999999999999999999999999999999999877655579999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ..+.+..+++..++..++++++++||+++.|++++|+++.+.+.++....
T Consensus       132 ~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~~~  181 (223)
T 3cpj_B          132 HLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKH  181 (223)
T ss_dssp             GGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHHHHHHHHHHTTCC---
T ss_pred             cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhhc
Confidence            76678888888899889999999999999999999999999988655443

>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=99.95  E-value=6.8e-27  Score=166.44  Aligned_cols=129  Identities=36%  Similarity=0.549  Sum_probs=115.3

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCCC
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQT   89 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl~   89 (168)
                      ..+.+++..+.+.||||||++++..++..+++.+|++++|||++++.++..+..|+..+.... ..+.|+++|+||+|+.
T Consensus        53 ~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~  132 (206)
T 2bov_A           53 KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE  132 (206)
T ss_dssp             EEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCG
T ss_pred             EEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCcc
Confidence            456678888999999999999999999999999999999999999999999999999987654 3479999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ..+.+..+++..++..++++++++||++|.|++++|+++.+.+..+....
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~~~~  182 (206)
T 2bov_A          133 DKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED  182 (206)
T ss_dssp             GGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHHccccc
Confidence            77778888888899888999999999999999999999999998765443

>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=99.94  E-value=3.8e-26  Score=159.90  Aligned_cols=132  Identities=44%  Similarity=0.763  Sum_probs=104.4

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++..+.+.||||||+++|..++..+++++|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+.
T Consensus        47 ~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~  126 (183)
T 2fu5_C           47 IRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVN  126 (183)
T ss_dssp             EEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CC
T ss_pred             EEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCC
Confidence            34566788889999999999999999999999999999999999999999999999999877655679999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCCC
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEK  141 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~  141 (168)
                      ..+.+..+++..+++.++++++++||+++.|++++|.++.+.+.++..+..+
T Consensus       127 ~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~i~~~~~~~~~  178 (183)
T 2fu5_C          127 DKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWK  178 (183)
T ss_dssp             SCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHHHHHHCC
T ss_pred             ccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHhhcccc
Confidence            7777888888899998999999999999999999999999999877665443

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.94  E-value=1.8e-25  Score=157.89  Aligned_cols=131  Identities=70%  Similarity=1.051  Sum_probs=117.3

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++..+.+.||||||++++..++..+++.+|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+.
T Consensus        55 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~  134 (196)
T 3tkl_A           55 IRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT  134 (196)
T ss_dssp             EEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT
T ss_pred             EEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccc
Confidence            45566788889999999999999999999999999999999999999999999999999977766689999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCC
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE  140 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~  140 (168)
                      ..+.+...++..++..++++++++||+++.|++++|+++.+.+.++.....
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~~~~~  185 (196)
T 3tkl_A          135 TKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGA  185 (196)
T ss_dssp             TTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHHHHHHHHHHHHHHC----
T ss_pred             cccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHHHHHHhcccc
Confidence            888888888889999999999999999999999999999999988766543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.94  E-value=1.3e-26  Score=166.12  Aligned_cols=135  Identities=24%  Similarity=0.446  Sum_probs=110.4

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~pi   79 (168)
                      +.||++   ...+.+++..+.+.||||||+++|..++..+++++|++|+|||++++++++.+. .|+..+... .++.|+
T Consensus        38 ~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~pi  116 (212)
T 2j0v_A           38 YIPTVFDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRF-APNVPI  116 (212)
T ss_dssp             CCCSSCCCEEEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-CTTCCE
T ss_pred             CCCccceeEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCE
Confidence            445555   334567888899999999999999999999999999999999999999999986 798888665 347999


Q ss_pred             EEEEecCCCCCCcc--------cCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          80 LLVGNKNDQTSKKA--------VDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        80 ivv~nK~Dl~~~~~--------v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ++|+||+|+...+.        +..+++..++..++. +++++||++|.|++++|+++.+.+.+...+.
T Consensus       117 ilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~~~  185 (212)
T 2j0v_A          117 VLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQPPRRK  185 (212)
T ss_dssp             EEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHCC----
T ss_pred             EEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCCCCCHHHHHHHHHHHHhhhhhhc
Confidence            99999999866443        367788888888885 9999999999999999999999987654433

>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=99.94  E-value=1.1e-25  Score=160.47  Aligned_cols=134  Identities=43%  Similarity=0.679  Sum_probs=115.8

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    .+.+.+++..+.+.||||||+++|..++..+++++|++|+|||++++.+++.+..|+..+......+.|+
T Consensus        58 ~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~pi  137 (201)
T 2hup_A           58 QGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQ  137 (201)
T ss_dssp             -------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEE
T ss_pred             CCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCE
Confidence            345544    4556778888999999999999999999999999999999999999999999999999987765567999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ++|+||+|+...+.+..+++..+++.+++ +++++||+++.|++++|+++.+.+.++..
T Consensus       138 ilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~  196 (201)
T 2hup_A          138 LLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIMRHG  196 (201)
T ss_dssp             EEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHHHHHHHHHHHHHHhcc
Confidence            99999999987667888888899999998 99999999999999999999999887654

>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=99.94  E-value=3.5e-25  Score=156.30  Aligned_cols=129  Identities=42%  Similarity=0.710  Sum_probs=116.9

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++..+.+.||||||+++|..++..+++++|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+.
T Consensus        60 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~  139 (191)
T 2a5j_A           60 ARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE  139 (191)
T ss_dssp             EEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG
T ss_pred             EEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccC
Confidence            55677788899999999999999999999999999999999999999999999999999877655689999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      +.+.+..+++..++..++++++++||+++.|++++|+++.+.+.++..+
T Consensus       140 ~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~~  188 (191)
T 2a5j_A          140 SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQ  188 (191)
T ss_dssp             GGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHHHT
T ss_pred             CccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHHh
Confidence            7667888888899998999999999999999999999999999876543

>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=99.94  E-value=2.5e-25  Score=155.41  Aligned_cols=128  Identities=24%  Similarity=0.347  Sum_probs=113.5

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      ...+.+++..+.+.+|||||+++|..++..+++++|++++|||++++++++.+..|+..+.... ..+.|+++|+||+|+
T Consensus        44 ~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  123 (181)
T 3t5g_A           44 TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDL  123 (181)
T ss_dssp             EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTC
T ss_pred             EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccc
Confidence            5566778999999999999999999999999999999999999999999999999999886553 347999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ...+.+..+++..+++.++++++++||+++.|++++|+++.+.+.....
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~  172 (181)
T 3t5g_A          124 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDG  172 (181)
T ss_dssp             TTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHHHHHHHHHTC--
T ss_pred             hhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHHHHHHHHHHhcC
Confidence            8888888899999999999999999999999999999999998876554

>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=99.94  E-value=3.3e-25  Score=157.66  Aligned_cols=136  Identities=39%  Similarity=0.697  Sum_probs=119.9

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    .+.+.+++..+.+.||||||++++..++..+++++|++|+|||++++.+++.+..|+..+......+.|+
T Consensus        37 ~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi  116 (203)
T 1zbd_A           37 FVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQV  116 (203)
T ss_dssp             CCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEE
T ss_pred             cCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCE
Confidence            445554    3456668889999999999999999999999999999999999999999999999999987765567999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ++|+||+|+...+.+..+++..+++.++++++++||++|.|++++|+++.+.+.++....
T Consensus       117 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~~~  176 (203)
T 1zbd_A          117 LLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSES  176 (203)
T ss_dssp             EEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHHHHHHT
T ss_pred             EEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            999999999877778888888899989999999999999999999999999998876544

>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=99.94  E-value=3.2e-25  Score=155.41  Aligned_cols=134  Identities=40%  Similarity=0.656  Sum_probs=117.6

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.++++.+.+.+|||||++++..++..+++++|++|+|||++++.++..+..|+..+......+.|+++|+||+|+.
T Consensus        49 ~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  128 (186)
T 2bme_A           49 SKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD  128 (186)
T ss_dssp             EEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG
T ss_pred             EEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc
Confidence            45566788889999999999999999999999999999999999999999999999998877655689999999999997


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCC
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKPS  143 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~~  143 (168)
                      ..+.+...++..++...+++++++||+++.|++++|+++.+.+.++........
T Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~~~~~~~  182 (186)
T 2bme_A          129 ADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESGELDP  182 (186)
T ss_dssp             GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHHSCC---
T ss_pred             cccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHHhhhcCCCc
Confidence            766788888888999999999999999999999999999999988766554443

>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=99.93  E-value=5.6e-25  Score=156.57  Aligned_cols=131  Identities=42%  Similarity=0.687  Sum_probs=117.8

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++..+.+.||||||++++..++..+++++|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+.
T Consensus        64 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  143 (200)
T 2o52_A           64 SRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLD  143 (200)
T ss_dssp             EEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGG
T ss_pred             EEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcc
Confidence            55666788889999999999999999999999999999999999999999999999999877655689999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCC
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE  140 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~  140 (168)
                      ..+.+...++..+++..+++++++||++|.|++++|+++.+.+.++.....
T Consensus       144 ~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~~~~  194 (200)
T 2o52_A          144 PEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSGE  194 (200)
T ss_dssp             GGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHHHTTS
T ss_pred             cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcCC
Confidence            766788888888999999999999999999999999999999987765544

>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=99.93  E-value=4.8e-25  Score=157.33  Aligned_cols=134  Identities=40%  Similarity=0.658  Sum_probs=118.2

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    .+.+.+++..+.++||||||+++|..++..+++++|++|+|||++++.+++.+..|+..+......+.|+
T Consensus        55 ~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~pi  134 (201)
T 2ew1_A           55 QGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVIT  134 (201)
T ss_dssp             CCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEE
T ss_pred             CCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCE
Confidence            345554    3456678888999999999999999999999999999999999999999999999999987765567999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ++|+||+|+...+.+..+++..++...+++++++||++|.|++++|+++.+.+.++..
T Consensus       135 ilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~~  192 (201)
T 2ew1_A          135 VLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEAR  192 (201)
T ss_dssp             EEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             EEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            9999999998767788888888888889999999999999999999999999887643

>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=99.93  E-value=7.1e-25  Score=150.93  Aligned_cols=126  Identities=23%  Similarity=0.318  Sum_probs=99.4

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      ...+.+++..+.+.+|||||++++..++..+++.+|++++|||++++++++.+..|+..+.... ..+.|+++|+||+|+
T Consensus        39 ~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  118 (166)
T 3q72_A           39 DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDL  118 (166)
T ss_dssp             EEEEEETTEEEEEEEEECC---------------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTC
T ss_pred             EEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEecccc
Confidence            4566788999999999999999999999999999999999999999999999999999886643 457999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      .+.+.+..+++..++..++++++++||++|.|++++|+++.+.+.++
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  165 (166)
T 3q72_A          119 VRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR  165 (166)
T ss_dssp             CSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             ccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHHHHHHHhc
Confidence            88788888888899999999999999999999999999999988765

>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=99.93  E-value=7.3e-25  Score=152.85  Aligned_cols=126  Identities=35%  Similarity=0.589  Sum_probs=113.0

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++..+.+.||||||++++..++..+++++|++|+|||++++.+++.+..|+..+.....++.|+++|+||+|+.
T Consensus        51 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~  130 (181)
T 2efe_B           51 SQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLL  130 (181)
T ss_dssp             EEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCT
T ss_pred             EEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCccc
Confidence            55666788899999999999999999999999999999999999999999999999999877655689999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ..+.+..+++..++..++++++++||+++.|++++|+++.+.+...
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  176 (181)
T 2efe_B          131 DARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRV  176 (181)
T ss_dssp             TTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHHHHHHHTCC--
T ss_pred             ccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            7777888888899988999999999999999999999998876543

>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=99.93  E-value=7.9e-25  Score=152.56  Aligned_cols=132  Identities=39%  Similarity=0.742  Sum_probs=108.3

Q ss_pred             ccccccee----eeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTLQ----NKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~~----~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+..    .+.+++..+.+.+|||||++++..++..+++++|++++|||++++.+++.+..|+..+......+.|+
T Consensus        40 ~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi  119 (180)
T 2g6b_A           40 FISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVAL  119 (180)
T ss_dssp             CCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEE
T ss_pred             cCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcE
Confidence            34555543    34678888999999999999999999999999999999999999999999999999987765567999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ++|+||+|+...+.+..+++..+++.++++++++||+++.|++++|+++.+.+.++
T Consensus       120 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  175 (180)
T 2g6b_A          120 MLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRR  175 (180)
T ss_dssp             EEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHC-
T ss_pred             EEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999987777888888889988899999999999999999999999888654

>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=99.93  E-value=1.3e-24  Score=152.02  Aligned_cols=125  Identities=30%  Similarity=0.519  Sum_probs=114.0

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      .....+++..+.+.+|||||++++..++..+++++|++++|||++++.+++.+..|+..+.... ..+.|+++|+||+|+
T Consensus        56 ~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  135 (183)
T 3kkq_A           56 LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDL  135 (183)
T ss_dssp             EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTC
T ss_pred             EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCc
Confidence            5667778999999999999999999999999999999999999999999999999999886543 457999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEecc-CCCCHHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAK-NGANVEQAFLTMATEIKK  134 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~-~~~~i~~i~~~l~~~~~~  134 (168)
                      ...+.+..+++..+++.++++++++||+ ++.|++++|+++.+.+.+
T Consensus       136 ~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          136 MHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ  182 (183)
T ss_dssp             STTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             hhccCcCHHHHHHHHHHhCCeEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            8877888899999999999999999999 999999999999988765

>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=99.93  E-value=6.4e-25  Score=152.63  Aligned_cols=126  Identities=43%  Similarity=0.712  Sum_probs=113.6

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ..+.+.+++..+.+.+|||||++++..++..+++++|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+
T Consensus        53 ~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  132 (179)
T 1z0f_A           53 GTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADL  132 (179)
T ss_dssp             EEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC
T ss_pred             EEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccc
Confidence            35667778889999999999999999999999999999999999999999999999999987765568999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ...+.+..+++.++++.++++++++||+++.|++++|+++.+.+.+
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          133 EAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             GGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             ccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            8767778888889999999999999999999999999999987753

>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=99.93  E-value=1.1e-24  Score=152.84  Aligned_cols=127  Identities=34%  Similarity=0.568  Sum_probs=110.3

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      ...+.+++..+.+.+|||||++++..++..+++.+|++++|||++++.++..+..|+..+.... ..+.|+++|+||+|+
T Consensus        42 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl  121 (189)
T 4dsu_A           42 RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDL  121 (189)
T ss_dssp             EEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTS
T ss_pred             EEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccC
Confidence            4556678999999999999999999999999999999999999999999999999999986653 457999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      .. +.+..+.+..++..++++++++||++|.|++++|+++.+.+.....
T Consensus       122 ~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  169 (189)
T 4dsu_A          122 PS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKE  169 (189)
T ss_dssp             SS-CSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             cc-cccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhhh
Confidence            74 4567788888999999999999999999999999999999886653

>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=99.93  E-value=1.5e-24  Score=152.72  Aligned_cols=133  Identities=38%  Similarity=0.669  Sum_probs=117.2

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    ...+.+++..+.+.||||||++++..++..+++++|++|+|||++++.+++.+..|+..+......+.|+
T Consensus        51 ~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi  130 (189)
T 2gf9_A           51 FVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQV  130 (189)
T ss_dssp             CCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEE
T ss_pred             cCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCE
Confidence            345554    3455667888999999999999999999999999999999999999999999999999987765567999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ++|+||+|+...+.+..+++..+++.++++++++||+++.|++++|+++.+.+.++.
T Consensus       131 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  187 (189)
T 2gf9_A          131 ILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEKM  187 (189)
T ss_dssp             EEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             EEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            999999999876777778888899989999999999999999999999999887654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.93  E-value=1.3e-24  Score=151.33  Aligned_cols=129  Identities=46%  Similarity=0.804  Sum_probs=116.1

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++..+.+.+|||||++++..++..+++++|++++|||++++.++..+..|+..+... ..+.|+++|+||+|+.
T Consensus        48 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~p~ilv~nK~Dl~  126 (181)
T 3tw8_B           48 IRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQN-CDDVCRILVGNKNDDP  126 (181)
T ss_dssp             EEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHH-CTTSEEEEEEECTTCG
T ss_pred             EEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHh-CCCCCEEEEEECCCCc
Confidence            455567888899999999999999999999999999999999999999999999999998765 4579999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      +.+.+...+...++..++++++++||++|.|++++|+++.+.+.+.....
T Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~~~  176 (181)
T 3tw8_B          127 ERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDN  176 (181)
T ss_dssp             GGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHHhhhh
Confidence            87778888888899999999999999999999999999999988766543

>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=99.93  E-value=1.6e-25  Score=158.54  Aligned_cols=133  Identities=27%  Similarity=0.376  Sum_probs=111.7

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc--CCCCc
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA--CDNVN   78 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p   78 (168)
                      +.||++   ...+.+++..+.+.||||||++++..++..+++++|++++|||++++.+++.+..|+..+....  ..+.|
T Consensus        37 ~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~p  116 (199)
T 2gf0_A           37 YIPTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIP  116 (199)
T ss_dssp             TSCCCCEEEEEEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSC
T ss_pred             ccCccccceeEEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCC
Confidence            345544   3445568888999999999999999999999999999999999999999999988888775543  23689


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +++|+||+|+.. +.+...++..++..++++++++||++|.|++++|+++.+.+..+..
T Consensus       117 iilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  174 (199)
T 2gf0_A          117 VMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNM  174 (199)
T ss_dssp             EEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHCSSSCE
T ss_pred             EEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHhhhhc
Confidence            999999999975 4566778888888889999999999999999999999987765443

>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=99.93  E-value=1.8e-25  Score=157.81  Aligned_cols=129  Identities=40%  Similarity=0.703  Sum_probs=116.7

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ....+.+++..+.+.||||||++++..++..+++++|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+
T Consensus        61 ~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl  140 (191)
T 3dz8_A           61 KVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDM  140 (191)
T ss_dssp             EEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC
T ss_pred             EEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC
Confidence            35566677888999999999999999999999999999999999999999999999999997765568999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      .+.+.+..+++..++..++++++++||++|.|++++|+++.+.+.++..
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~  189 (191)
T 3dz8_A          141 EEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMS  189 (191)
T ss_dssp             GGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHC-
T ss_pred             ccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            8777788888889999999999999999999999999999999887654

>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=99.93  E-value=4.1e-25  Score=157.41  Aligned_cols=133  Identities=35%  Similarity=0.540  Sum_probs=112.4

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC----C
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC----D   75 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~----~   75 (168)
                      +.||++    ...+.+++..+.+.||||||++++..++..+++++|++|+|||++++.++..+..|+..+.....    .
T Consensus        37 ~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~  116 (207)
T 1vg8_A           37 YKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPE  116 (207)
T ss_dssp             CCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGG
T ss_pred             CCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCC
Confidence            345554    44556678889999999999999999999999999999999999999999999999998855432    4


Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHH-hcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +.|+++|+||+|+.. +.+..+++..++. ..+++++++||++|.|++++|+++.+.+.++..
T Consensus       117 ~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  178 (207)
T 1vg8_A          117 NFPFVVLGNKIDLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQET  178 (207)
T ss_dssp             GSCEEEEEECTTSSC-CCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCcc-cccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhcc
Confidence            689999999999973 4566677777777 667899999999999999999999999887654

>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=99.93  E-value=4.8e-25  Score=152.21  Aligned_cols=130  Identities=32%  Similarity=0.583  Sum_probs=108.3

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+    ...+.+++..+.+.+|||||++++..++..+++++|++++|||++++.+++.+..|+..+......+.|+
T Consensus        35 ~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi  114 (170)
T 1z08_A           35 HITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICL  114 (170)
T ss_dssp             CCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEE
T ss_pred             CCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeE
Confidence            345554    4556678888999999999999999999999999999999999999999999999999886654457999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ++|+||+|+.+.+.+..+++..+++.++++++++||+++.|++++|+++.+.+.
T Consensus       115 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  168 (170)
T 1z08_A          115 CIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI  168 (170)
T ss_dssp             EEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             EEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHh
Confidence            999999999877778888888999999999999999999999999999998775

>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=99.93  E-value=1.8e-24  Score=149.94  Aligned_cols=131  Identities=24%  Similarity=0.296  Sum_probs=108.1

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchh--hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEE
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQER--FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVG   83 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~--~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~   83 (168)
                      +...+.+.+++..+.+.+|||||++.  +..++..+++.+|++++|||++++.+++.+..|+..+.... ..+.|+++|+
T Consensus        39 ~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~  118 (175)
T 2nzj_A           39 DVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVG  118 (175)
T ss_dssp             SEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEE
T ss_pred             ceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEE
Confidence            33456777889999999999999987  56677888999999999999999999999999998886642 3479999999


Q ss_pred             ecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ||+|+...+.+..+++..++..++++++++||++|.|++++|+++.+.+..+..
T Consensus       119 NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  172 (175)
T 2nzj_A          119 NKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLRRR  172 (175)
T ss_dssp             ECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHHHHC
T ss_pred             EChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHHhhc
Confidence            999998777788888888888889999999999999999999999999876544

>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=99.93  E-value=3e-24  Score=153.54  Aligned_cols=132  Identities=44%  Similarity=0.763  Sum_probs=115.2

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++..+.+.||||||++++..++..+++.+|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+ 
T Consensus        59 ~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-  137 (213)
T 3cph_A           59 IKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-  137 (213)
T ss_dssp             EEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTC-
T ss_pred             EEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC-
Confidence            4556678888999999999999999999999999999999999999999999999999987765557999999999999 


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCC
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEKP  142 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~~~  142 (168)
                      ..+.+..+++..++..++++++++||+++.|++++|.++.+.+.++.......
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~~~~~~  190 (213)
T 3cph_A          138 ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSNKLV  190 (213)
T ss_dssp             SSCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHHHHHHHHHHHHHHHTTSCC
T ss_pred             cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHhhhhcc
Confidence            44556777888888888999999999999999999999999988776544433

>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=99.93  E-value=1.9e-24  Score=150.46  Aligned_cols=136  Identities=28%  Similarity=0.442  Sum_probs=117.1

Q ss_pred             cccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcE
Q psy2646           4 LLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~pi   79 (168)
                      +.||.+.   ....+++..+.+.+|||||++++..++..+++++|++++|||++++.++..+..|+..+... ...+.|+
T Consensus        38 ~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~pi  117 (181)
T 2fn4_A           38 YDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPV  117 (181)
T ss_dssp             CCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCE
T ss_pred             cCCCcCceEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCE
Confidence            3445443   45667888899999999999999999999999999999999999999999999999888443 3457999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ++|+||+|+...+.+...++..++..++++++++||++|.|++++|+++.+.+.+.....
T Consensus       118 ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~~~~  177 (181)
T 2fn4_A          118 VLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQE  177 (181)
T ss_dssp             EEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHTTC-
T ss_pred             EEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHHhhccC
Confidence            999999999877778888888899888999999999999999999999999988765443

>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=99.93  E-value=4.5e-25  Score=158.76  Aligned_cols=134  Identities=24%  Similarity=0.445  Sum_probs=113.2

Q ss_pred             ccccccee---eeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTLQ---NKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~~---~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++..   .+.+++..+.+.||||+|+++|..++..+++++|++|+|||++++.+|.. +..|+..+... ..+.|+
T Consensus        56 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~-~~~~pi  134 (214)
T 3q3j_B           56 YVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDY-CPSTRV  134 (214)
T ss_dssp             CCCCSEEEEEEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHH-CTTSEE
T ss_pred             cCCeeeeeEEEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHh-CCCCCE
Confidence            45666543   34667888999999999999999999999999999999999999999999 68999998776 357999


Q ss_pred             EEEEecCCCCCC------------cccCHHHHHHHHHhcCC-CEEEEeccCCCC-HHHHHHHHHHHHHHHhcc
Q psy2646          80 LLVGNKNDQTSK------------KAVDYQVAKEYADHLKI-PFLETSAKNGAN-VEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        80 ivv~nK~Dl~~~------------~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~-i~~i~~~l~~~~~~~~~~  138 (168)
                      ++|+||+|+...            +.+..+++..++..+++ +++++||++|.| ++++|+++.+.+..+...
T Consensus       135 ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~~~~  207 (214)
T 3q3j_B          135 LLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKPSP  207 (214)
T ss_dssp             EEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHC----
T ss_pred             EEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEEeccCCCcccHHHHHHHHHHHHhccCcC
Confidence            999999999652            56888899999999998 999999999998 999999999988765443

>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=99.93  E-value=1.4e-24  Score=149.87  Aligned_cols=128  Identities=19%  Similarity=0.296  Sum_probs=108.6

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcc-cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEec
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRT-ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNK   85 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~-~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK   85 (168)
                      ...+.+.+++..+.+.+|||||++++.. ++..+++++|++++|||++++++++.+..|+..+.... ..+.|+++|+||
T Consensus        39 ~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK  118 (169)
T 3q85_A           39 TYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNK  118 (169)
T ss_dssp             EEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEEC
T ss_pred             eeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeC
Confidence            3456667789999999999999998876 77888999999999999999999999999999986654 247999999999


Q ss_pred             CCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +|+.+.+.+..+++..+++.++++++++||+++.|++++|+++.+.+..+
T Consensus       119 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~  168 (169)
T 3q85_A          119 SDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR  168 (169)
T ss_dssp             TTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             cchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHHHHHHHHhc
Confidence            99987778888999999999999999999999999999999999988764

>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=99.93  E-value=1.9e-24  Score=153.44  Aligned_cols=125  Identities=19%  Similarity=0.296  Sum_probs=111.4

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcc-cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRT-ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKND   87 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~-~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D   87 (168)
                      .+.+.+++..+.+.+|||+|++++.. ++..+++++|++|+|||++++.+|..+..|+..+.... ..+.|+++|+||+|
T Consensus        62 ~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~D  141 (195)
T 3cbq_A           62 ERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSD  141 (195)
T ss_dssp             EEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTT
T ss_pred             EEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechh
Confidence            45667889999999999999988764 77889999999999999999999999999999886653 24799999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +...+.+..+++..++..++++++++||+++.|++++|+++++.+..
T Consensus       142 l~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~lf~~l~~~i~~  188 (195)
T 3cbq_A          142 LARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRL  188 (195)
T ss_dssp             CTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHT
T ss_pred             ccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHHHHH
Confidence            98777788888889999889999999999999999999999988764

>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=99.93  E-value=1.4e-24  Score=149.66  Aligned_cols=123  Identities=44%  Similarity=0.727  Sum_probs=111.1

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++..+.+.+|||||++++..++..+++++|++++|||++++.++..+..|+..+.....++.|+++|+||+|+.
T Consensus        45 ~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~  124 (170)
T 1r2q_A           45 TQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLA  124 (170)
T ss_dssp             EEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG
T ss_pred             EEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCc
Confidence            45667788899999999999999999999999999999999999999999999999999877655689999999999997


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ..+.+..+++..++..++++++++||++|.|++++|+++.+.+
T Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~i~~~~  167 (170)
T 1r2q_A          125 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTS
T ss_pred             cccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            7667777888889988999999999999999999999998754

>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=99.93  E-value=2.1e-24  Score=148.87  Aligned_cols=125  Identities=47%  Similarity=0.798  Sum_probs=111.5

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++..+.+.+|||||++++..++..+++++|++++|||++++.++..+..|+..+......+.|+++|+||+|+.
T Consensus        42 ~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~  121 (170)
T 1g16_A           42 IKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME  121 (170)
T ss_dssp             EEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT
T ss_pred             EEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCC
Confidence            45566678889999999999999999999999999999999999999999999999999877655679999999999994


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                       .+.+..+++..+++.++++++++||++|.|++++|+++.+.+.++
T Consensus       122 -~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  166 (170)
T 1g16_A          122 -TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK  166 (170)
T ss_dssp             -TCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             -cCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence             445677888888888899999999999999999999999988764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.93  E-value=4.4e-25  Score=157.09  Aligned_cols=135  Identities=23%  Similarity=0.350  Sum_probs=112.2

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||.+   .....+++..+.+.||||||++++..++..+++++|++|+|||++++++++.+..|+..+.... ..+.|+
T Consensus        53 ~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi  132 (201)
T 3oes_A           53 YDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPV  132 (201)
T ss_dssp             CCCCSEEEEEEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCE
T ss_pred             CCCccceEEEEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCE
Confidence            345555   4555667788999999999999999999999999999999999999999999999999985543 347899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      ++|+||+|+...+.+...++..++..++++++++||++|.|++++|+++.+.+.+....
T Consensus       133 ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~~~~  191 (201)
T 3oes_A          133 VLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENS  191 (201)
T ss_dssp             EEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHHHC---
T ss_pred             EEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHhhhhh
Confidence            99999999987778888889999999999999999999999999999999998776544

>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=99.93  E-value=2.1e-24  Score=151.78  Aligned_cols=122  Identities=36%  Similarity=0.700  Sum_probs=109.8

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEecCCCCCCcccCHH
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC-DNVNKLLVGNKNDQTSKKAVDYQ   97 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~Dl~~~~~v~~~   97 (168)
                      .+.+.+|||||++++..++..+++++|++|+|||++++.++..+..|+..+..... .+.|+++|+||+|+...+.+..+
T Consensus        69 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~  148 (195)
T 3bc1_A           69 RIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEE  148 (195)
T ss_dssp             EEEEEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHH
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHH
Confidence            78999999999999999999999999999999999999999999999999876543 57999999999999876677788


Q ss_pred             HHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCC
Q psy2646          98 VAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE  140 (168)
Q Consensus        98 ~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~  140 (168)
                      ++..++..++++++++||+++.|++++|+++.+.+.++..+..
T Consensus       149 ~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~~~~  191 (195)
T 3bc1_A          149 EARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRMERSV  191 (195)
T ss_dssp             HHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHHHHHHhhhcc
Confidence            8888998889999999999999999999999999987765443

>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=99.93  E-value=2.6e-24  Score=151.86  Aligned_cols=128  Identities=39%  Similarity=0.603  Sum_probs=114.8

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++..+.+.||||||++++..++..+++++|++|+|||++++.++..+..|+..+......+.|+++|+||+|+.
T Consensus        64 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~  143 (193)
T 2oil_A           64 TRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLS  143 (193)
T ss_dssp             EEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGG
T ss_pred             EEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcc
Confidence            45566788899999999999999999999999999999999999999999999999998876545679999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ..+.+...++..++..++++++++||+++.|++++|+++.+.+.++..
T Consensus       144 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~  191 (193)
T 2oil_A          144 QAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVS  191 (193)
T ss_dssp             GGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            766777788888998899999999999999999999999999887643

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.92  E-value=1.6e-24  Score=153.21  Aligned_cols=126  Identities=42%  Similarity=0.767  Sum_probs=112.4

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++..+.+.||||||++++..++..+++++|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+.
T Consensus        65 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~  144 (192)
T 2il1_A           65 IKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCE  144 (192)
T ss_dssp             EEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG
T ss_pred             EEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc
Confidence            45566788889999999999999999999999999999999999999999999999988877655679999999999998


Q ss_pred             CCcccCHHHHHHHHHhc-CCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~-~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ..+.+..+++..+++.. +++++++||++|.|++++|+++.+.+.++
T Consensus       145 ~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~  191 (192)
T 2il1_A          145 TDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK  191 (192)
T ss_dssp             GGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             cccccCHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            76778878888888875 78999999999999999999999888653

>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=99.92  E-value=4.6e-24  Score=147.13  Aligned_cols=123  Identities=38%  Similarity=0.651  Sum_probs=111.6

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .....+++..+.+.+|||||++++..++..+++++|++++|||++++.++..+..|+..+.....+..|+++|+||+|+.
T Consensus        45 ~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~  124 (170)
T 1z0j_A           45 TKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLT  124 (170)
T ss_dssp             EEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCG
T ss_pred             EEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccc
Confidence            45566788889999999999999999999999999999999999999999999999999977656689999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ..+.+..+++..+++.++++++++||+++.|++++|+++.+.+
T Consensus       125 ~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~i~~~i  167 (170)
T 1z0j_A          125 DVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI  167 (170)
T ss_dssp             GGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             cccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHH
Confidence            7677778888889988999999999999999999999998765

>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=99.92  E-value=1.2e-24  Score=149.96  Aligned_cols=129  Identities=35%  Similarity=0.581  Sum_probs=113.0

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+    .....+++..+.+.+|||||++++..++..+++++|++++|||++++.++..+..|+..+......+.|+
T Consensus        32 ~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi  111 (170)
T 1ek0_A           32 KEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIII  111 (170)
T ss_dssp             CCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEE
T ss_pred             CCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCcE
Confidence            345554    4556778889999999999999999999999999999999999999999999999999987765568999


Q ss_pred             EEEEecCCCCCC---cccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSK---KAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~~---~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++++||+|+...   +.+..+++..++..++++++++||+++.|++++|+++.+.+
T Consensus       112 ilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  167 (170)
T 1ek0_A          112 ALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             EEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             EEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            999999998654   56777888888888899999999999999999999998654

>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=99.92  E-value=2.8e-24  Score=154.57  Aligned_cols=128  Identities=20%  Similarity=0.279  Sum_probs=110.7

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchh-hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQER-FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKN   86 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~   86 (168)
                      ..+.+.+++..+.+.+|||+|++. +..+...+++.+|++|+|||++++.+|+.+..|+..+.... ..+.|+++|+||+
T Consensus        76 ~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~  155 (211)
T 2g3y_A           76 YERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKS  155 (211)
T ss_dssp             EEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECT
T ss_pred             EEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEECh
Confidence            356677899999999999999886 55667788999999999999999999999999988875532 3479999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      |+...+.+..+++..++..++++++++||++|.|++++|+++++.+..+.
T Consensus       156 DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~elf~~l~~~i~~~~  205 (211)
T 2g3y_A          156 DLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRR  205 (211)
T ss_dssp             TCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             HHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            99876778888888888888999999999999999999999999886554

>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=99.92  E-value=1.5e-24  Score=153.24  Aligned_cols=131  Identities=35%  Similarity=0.598  Sum_probs=115.0

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+    ...+.+++..+.+.||||||++++..++..+++++|++|+|||++++.+++.+..|+..+......+.|+
T Consensus        52 ~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~pi  131 (192)
T 2fg5_A           52 ISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVM  131 (192)
T ss_dssp             CCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEE
T ss_pred             cCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcE
Confidence            445555    4456667888999999999999999999999999999999999999999999999999997765567999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ++|+||+|+...+.+..+++..+++.++++++++||+++.|++++|+++.+.+.+
T Consensus       132 iiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  186 (192)
T 2fg5_A          132 AIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPP  186 (192)
T ss_dssp             EEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHHHHHHHHTCC-
T ss_pred             EEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHHHh
Confidence            9999999997766778888889999999999999999999999999999987643

>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=99.92  E-value=1.8e-24  Score=152.68  Aligned_cols=132  Identities=20%  Similarity=0.263  Sum_probs=111.0

Q ss_pred             cccccceeee-----eeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCC------ChhhHHHHHHHHHHHHHh
Q psy2646           4 LLPYQTLQNK-----KEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCT------DQETFNNLKQWLEEIDRY   72 (168)
Q Consensus         4 ~~~t~~~~~~-----~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~------~~~s~~~~~~~~~~i~~~   72 (168)
                      +.||++....     .+++..+.+++|||||+++|..++..+++++|++|+|||++      +.+++..+..|+..+.. 
T Consensus        53 ~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~-  131 (198)
T 3t1o_A           53 DERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGL-  131 (198)
T ss_dssp             SCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTC-
T ss_pred             cccceeeeecccccccccCCceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhcc-
Confidence            3456654433     55678899999999999999999999999999999999999      55677788888877632 


Q ss_pred             cCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          73 ACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        73 ~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      ...+.|+++|+||+|+...  +..+++..+++.+++ +++++||++|.|++++|+++.+.+.++..+
T Consensus       132 ~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~~~  196 (198)
T 3t1o_A          132 TLDDVPIVIQVNKRDLPDA--LPVEMVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLARVAG  196 (198)
T ss_dssp             CTTSSCEEEEEECTTSTTC--CCHHHHHHHHCTTCCSCEEECBGGGTBTHHHHHHHHHHHHHHHHC-
T ss_pred             ccCCCCEEEEEEchhcccc--cCHHHHHHHHHhcCCceEEEEecCCCcCHHHHHHHHHHHHHHHhhc
Confidence            2457999999999999764  677888899999998 999999999999999999999999887654

>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=99.92  E-value=1.7e-24  Score=152.52  Aligned_cols=130  Identities=23%  Similarity=0.315  Sum_probs=110.2

Q ss_pred             cccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc---CCCC
Q psy2646           4 LLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA---CDNV   77 (168)
Q Consensus         4 ~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~   77 (168)
                      +.||++.   ..+.+++..+.++||||||+++|..+ ..+++++|++++|||++++++|+.+..|+..+....   ..+.
T Consensus        50 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~  128 (187)
T 3c5c_A           50 YDPNLEDTYSSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSI  128 (187)
T ss_dssp             CCTTCCEEEEEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred             cCCCccceeeEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCC
Confidence            4566653   45667889999999999999988875 679999999999999999999999999999986652   2579


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEec-cCCCCHHHHHHHHHHHHHH
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSA-KNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa-~~~~~i~~i~~~l~~~~~~  134 (168)
                      |+++|+||+|+...+.+..+++..+++.++++++++|| +++.|++++|+++++.+.+
T Consensus       129 piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~~lf~~l~~~i~~  186 (187)
T 3c5c_A          129 PALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREARR  186 (187)
T ss_dssp             CEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHHHHHHHHHHHHHC
T ss_pred             CEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHHHHHHHHHHHHhh
Confidence            99999999999877778888899999999999999999 8999999999999988753

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.92  E-value=9.2e-25  Score=154.61  Aligned_cols=136  Identities=17%  Similarity=0.264  Sum_probs=109.6

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC--------C
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC--------D   75 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--------~   75 (168)
                      +.||++.....+++..+.+.||||||++++..++..+++++|++|+|||++++++|..+..|+..+.....        .
T Consensus        47 ~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~  126 (199)
T 4bas_A           47 ITATVGYNVETFEKGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGG  126 (199)
T ss_dssp             CCCCSSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSC
T ss_pred             cccccceeEEEEEeCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccC
Confidence            57888888888888889999999999999999999999999999999999999999999998888744311        2


Q ss_pred             CCcEEEEEecCCCCCCcccC---HHHHHH-HHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          76 NVNKLLVGNKNDQTSKKAVD---YQVAKE-YADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~---~~~~~~-~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      +.|+++|+||+|+.......   ...... +++..+++++++||+++.|++++|++|.+.+.++..+.
T Consensus       127 ~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~~~  194 (199)
T 4bas_A          127 RVPFLFFANKMDAAGAKTAAELVEILDLTTLMGDHPFVIFASNGLKGTGVHEGFSWLQETASRQSGKA  194 (199)
T ss_dssp             BCCEEEEEECTTSTTCCCHHHHHHHHTHHHHHTTSCEEEEECBTTTTBTHHHHHHHHHHHHHHHC---
T ss_pred             CCCEEEEEECcCCCCCCCHHHHHHHhcchhhccCCeeEEEEeeCCCccCHHHHHHHHHHHHHHHhccc
Confidence            78999999999997653211   111111 12446789999999999999999999999998775443

>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=99.92  E-value=5.2e-24  Score=150.55  Aligned_cols=132  Identities=22%  Similarity=0.405  Sum_probs=114.2

Q ss_pred             cccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+.   ..+.+++..+.+.+|||||+++|..++..+++++|++|+|||++++.++..+ ..|+..+... ..+.|+
T Consensus        52 ~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~  130 (194)
T 3reg_A           52 YVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHY-IDTAKT  130 (194)
T ss_dssp             CCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-CTTSEE
T ss_pred             cCCeeeeeeEEEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCE
Confidence            4555553   3456788999999999999999999999999999999999999999999997 6788888655 457999


Q ss_pred             EEEEecCCCCC--CcccCHHHHHHHHHhcCCC-EEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          80 LLVGNKNDQTS--KKAVDYQVAKEYADHLKIP-FLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        80 ivv~nK~Dl~~--~~~v~~~~~~~~~~~~~~~-~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ++|+||+|+..  .+.+..+++..+++.++++ ++++||++|.|++++|+++.+.+..+.
T Consensus       131 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  190 (194)
T 3reg_A          131 VLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSNK  190 (194)
T ss_dssp             EEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSHHHHHHHHHHHHHCSC
T ss_pred             EEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCHHHHHHHHHHHHHhcC
Confidence            99999999975  3567888899999999987 999999999999999999999887554

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.92  E-value=2.4e-24  Score=153.34  Aligned_cols=133  Identities=24%  Similarity=0.427  Sum_probs=103.4

Q ss_pred             cccccc----eeeeeeCCe--EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC---
Q psy2646           4 LLPYQT----LQNKKEERT--RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC---   74 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~--~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---   74 (168)
                      +.||.+    ...+.+++.  .+.+.||||||++++..++..+++++|++|+|||++++.+++.+..|+..+.....   
T Consensus        51 ~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~  130 (208)
T 2yc2_C           51 YAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRE  130 (208)
T ss_dssp             ----------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTT
T ss_pred             CCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccc
Confidence            345554    455666776  89999999999999999999999999999999999999999999999999977654   


Q ss_pred             CCCcEEEEEecCCCCC-CcccCHHHHHHHHHhcCCCEEEEeccC-CCCHHHHHHHHHHHHHHHh
Q psy2646          75 DNVNKLLVGNKNDQTS-KKAVDYQVAKEYADHLKIPFLETSAKN-GANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        75 ~~~piivv~nK~Dl~~-~~~v~~~~~~~~~~~~~~~~~~vSa~~-~~~i~~i~~~l~~~~~~~~  136 (168)
                      .+.|+++|+||+|+.. .+.+..+++..+++.++++++++||++ +.|++++|+++.+.+.+..
T Consensus       131 ~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~gi~~l~~~i~~~~~~~~  194 (208)
T 2yc2_C          131 RPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNY  194 (208)
T ss_dssp             SCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC-------CHHHHHHHHHHHHHH
T ss_pred             cCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCcCHHHHHHHHHHHHHHHH
Confidence            5799999999999987 677888889999999999999999999 9999999999999887654

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.92  E-value=9e-24  Score=150.00  Aligned_cols=134  Identities=22%  Similarity=0.367  Sum_probs=113.2

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+   ...+.+++..+.+.||||||+++|..++..+++++|++|+|||++++.++..+. .|+..+... ..+.|+
T Consensus        49 ~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~  127 (201)
T 2q3h_A           49 YIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCH-CPKAPI  127 (201)
T ss_dssp             --CCSSEEEEEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-CSSSCE
T ss_pred             CCCcccceeEEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCE
Confidence            345554   334666888899999999999999999999999999999999999999999997 798888765 347999


Q ss_pred             EEEEecCCCCC------------CcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          80 LLVGNKNDQTS------------KKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        80 ivv~nK~Dl~~------------~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      ++|+||+|+..            .+.+..+++..+++.++. +++++||+++.|++++|+++.+.+.+...+
T Consensus       128 ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~~  199 (201)
T 2q3h_A          128 ILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGIQYSDT  199 (201)
T ss_dssp             EEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHHHHC-
T ss_pred             EEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEEEecCCCCCHHHHHHHHHHHHhccccc
Confidence            99999999864            245677888888888886 999999999999999999999998876543

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.92  E-value=3.3e-24  Score=149.11  Aligned_cols=126  Identities=26%  Similarity=0.394  Sum_probs=108.5

Q ss_pred             eeeeeeCC-eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC--CCCc-EEEEEec
Q psy2646          10 LQNKKEER-TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC--DNVN-KLLVGNK   85 (168)
Q Consensus        10 ~~~~~~~~-~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p-iivv~nK   85 (168)
                      .+.+.+++ ..+.+++|||||++++..++..+++++|++++|||++++++++.+..|+..+.....  ...| +++|+||
T Consensus        45 ~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK  124 (178)
T 2hxs_A           45 LRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNK  124 (178)
T ss_dssp             EEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEEC
T ss_pred             EEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEc
Confidence            44555665 678999999999999999999999999999999999999999999999988865421  2345 8999999


Q ss_pred             CCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +|+...+.+..+++..+++.++++++++||++|.|++++|+++.+.+.+.
T Consensus       125 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  174 (178)
T 2hxs_A          125 IDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGI  174 (178)
T ss_dssp             GGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHTTC
T ss_pred             cccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            99987667888888889988899999999999999999999999887543

>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=99.92  E-value=2e-24  Score=153.46  Aligned_cols=125  Identities=40%  Similarity=0.685  Sum_probs=109.9

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.+.+++..+.+.||||||++++..++..+++++|++|+|||++++.++..+..|+..+......+.|+++|+||+|+.
T Consensus        67 ~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~  146 (199)
T 2p5s_A           67 MKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIR  146 (199)
T ss_dssp             EEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGH
T ss_pred             EEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccc
Confidence            56677889999999999999999999999999999999999999999999999999998876655579999999999985


Q ss_pred             ------CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          90 ------SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        90 ------~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                            ..+.+..+++..++..++++++++||++|.|++++|.++.+.+.+
T Consensus       147 ~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gv~el~~~l~~~i~~  197 (199)
T 2p5s_A          147 DTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKK  197 (199)
T ss_dssp             HHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHTC
T ss_pred             cccccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence                  345677788888998889999999999999999999999988753

>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=99.92  E-value=5.5e-24  Score=146.47  Aligned_cols=130  Identities=30%  Similarity=0.498  Sum_probs=114.2

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    ...+.+++..+.+.+|||||++++..++..+++++|++++|||++++.+++.+..|+..+.... .+.|+
T Consensus        34 ~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~pi  112 (168)
T 1z2a_A           34 YKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEV-GDIPT  112 (168)
T ss_dssp             SSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHH-CSCCE
T ss_pred             CCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCE
Confidence            345544    4556678888999999999999999999999999999999999999999999999999886653 57899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ++|+||+|+.+.+.+..+++..+++.++++++++||+++.|++++|+++.+.+.+
T Consensus       113 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  167 (168)
T 1z2a_A          113 ALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ  167 (168)
T ss_dssp             EEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             EEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            9999999998766777788888998899999999999999999999999988753

>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=99.92  E-value=6.9e-24  Score=148.35  Aligned_cols=127  Identities=35%  Similarity=0.542  Sum_probs=113.7

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCCC
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQT   89 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl~   89 (168)
                      ..+.+++..+.+.||||||++++..++..+++.+|++++|||++++.++..+..|+..+.... ..+.|+++|+||+|+.
T Consensus        57 ~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~  136 (187)
T 2a9k_A           57 KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE  136 (187)
T ss_dssp             EEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGG
T ss_pred             EEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc
Confidence            445678888999999999999999999999999999999999999999999999999986654 3479999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ..+.+..+++..+++.++++++++||+++.|++++|+++.+.+.+++.
T Consensus       137 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~  184 (187)
T 2a9k_A          137 DKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKM  184 (187)
T ss_dssp             GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             ccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHHhhc
Confidence            766778888888999999999999999999999999999999887654

>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=99.92  E-value=3.7e-24  Score=147.06  Aligned_cols=124  Identities=36%  Similarity=0.554  Sum_probs=108.3

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCCC
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQT   89 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl~   89 (168)
                      ..+.+++..+.+.+|||||++++..++..+++++|++++|||++++.++..+..|+..+.... ..+.|+++|+||+|+.
T Consensus        43 ~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~  122 (168)
T 1u8z_A           43 KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE  122 (168)
T ss_dssp             EEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGG
T ss_pred             EEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECcccc
Confidence            345678888999999999999999999999999999999999999999999999999986654 3479999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +.+.+..+++..+++.++++++++||+++.|++++|+++.+.+.+
T Consensus       123 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  167 (168)
T 1u8z_A          123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             GGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             ccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHh
Confidence            766788888888998889999999999999999999999988753

>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=99.92  E-value=8.5e-24  Score=148.72  Aligned_cols=123  Identities=20%  Similarity=0.367  Sum_probs=107.7

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      .+.+.+++..+.++||||+|+++|.     +++++|++++|||++++.+|+.+..|+..+.... ..+.|+++++||+|+
T Consensus        57 ~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl  131 (184)
T 3ihw_A           57 KKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAI  131 (184)
T ss_dssp             EEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTC
T ss_pred             EEEEEECCEEEEEEEEECCCChhhh-----eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccc
Confidence            3467778999999999999998876     8899999999999999999999999999986653 247899999999999


Q ss_pred             C--CCcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          89 T--SKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        89 ~--~~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      .  ..+.+..+++..++..++ ++++++||++|.|++++|+++.+.+.++..
T Consensus       132 ~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gv~~lf~~l~~~i~~~~~  183 (184)
T 3ihw_A          132 SAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVALRK  183 (184)
T ss_dssp             BTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBTHHHHHHHHHHHHHHHC-
T ss_pred             ccccccccCHHHHHHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHHHHHHhc
Confidence            4  456788888999999887 899999999999999999999999887643

>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=99.92  E-value=4e-24  Score=148.57  Aligned_cols=130  Identities=34%  Similarity=0.548  Sum_probs=113.9

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    ...+.+++..+.+.+|||||++++..++..+++++|++++|||++++.++..+..|+..+......+.|+
T Consensus        43 ~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi  122 (179)
T 2y8e_A           43 YQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVII  122 (179)
T ss_dssp             CCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEE
T ss_pred             CCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcE
Confidence            345554    3455678888999999999999999999999999999999999999999999999999886665567999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ++|+||+|+...+.+...++..++..++++++++||+++.|++++|+++.+.+.
T Consensus       123 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  176 (179)
T 2y8e_A          123 MLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP  176 (179)
T ss_dssp             EEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHTCC
T ss_pred             EEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            999999999877778888888888888999999999999999999999987653

>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=99.92  E-value=9.2e-24  Score=148.69  Aligned_cols=124  Identities=40%  Similarity=0.706  Sum_probs=108.8

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhc-ccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKND   87 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~-~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D   87 (168)
                      ...+.+++..+.+.||||||++++. .++..+++++|++|+|||++++.+++.+..|+..+.... ..+.|+++|+||+|
T Consensus        59 ~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~D  138 (189)
T 1z06_A           59 ERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCD  138 (189)
T ss_dssp             EEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTT
T ss_pred             EEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcc
Confidence            4556678888999999999999998 889999999999999999999999999999999987664 45799999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCC---CCHHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNG---ANVEQAFLTMATEIK  133 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~---~~i~~i~~~l~~~~~  133 (168)
                      +...+.+..+++..++..++++++++||+++   .|++++|.++.+.+.
T Consensus       139 l~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~i~~l~~~l~~~i~  187 (189)
T 1z06_A          139 LRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLK  187 (189)
T ss_dssp             CGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHHHHHHC----
T ss_pred             ccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcccCHHHHHHHHHHHHh
Confidence            9877778888888999999999999999999   999999999988764

>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=99.91  E-value=2.7e-24  Score=154.47  Aligned_cols=119  Identities=39%  Similarity=0.740  Sum_probs=107.3

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEecCCCCCCcccCHH
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC-DNVNKLLVGNKNDQTSKKAVDYQ   97 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~Dl~~~~~v~~~   97 (168)
                      .+.+.||||||+++|..++..+++++|++|+|||++++.++..+..|+..+..... .+.|+++|+||+|+...+.+...
T Consensus        83 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~  162 (217)
T 2f7s_A           83 KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNER  162 (217)
T ss_dssp             EEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHH
T ss_pred             eEEEEEEECCCcHhHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHH
Confidence            78999999999999999999999999999999999999999999999888754432 57999999999999876678888


Q ss_pred             HHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          98 VAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        98 ~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ++..+++.++++++++||+++.|++++|+++.+.+.++..
T Consensus       163 ~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~~  202 (217)
T 2f7s_A          163 QARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRME  202 (217)
T ss_dssp             HHHHHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCcEEEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            8889999999999999999999999999999999887644

>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=99.91  E-value=6.3e-24  Score=145.79  Aligned_cols=125  Identities=29%  Similarity=0.506  Sum_probs=112.0

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      .+.+.+++..+.+.+|||||++++..++..+++++|++++|||++++.+++.+..|+..+.... ..+.|+++|+||+|+
T Consensus        41 ~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl  120 (167)
T 1kao_A           41 RKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDL  120 (167)
T ss_dssp             EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGG
T ss_pred             EEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcc
Confidence            5666778889999999999999999999999999999999999999999999999998886653 357999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ...+.+...++..++..++++++++||++|.|++++|+++.+.+.+
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  166 (167)
T 1kao_A          121 ESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMNY  166 (167)
T ss_dssp             GGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             cccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            8767788888888998889999999999999999999999988754

>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=99.91  E-value=3.2e-23  Score=146.37  Aligned_cols=129  Identities=22%  Similarity=0.380  Sum_probs=111.3

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+   ...+.+++..+.+.+|||||+++|..++..+++++|++|+|||++++++|..+. .|+..+... .++.|+
T Consensus        47 ~~~t~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~pi  125 (194)
T 2atx_A           47 YVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPF  125 (194)
T ss_dssp             CCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-STTCCE
T ss_pred             CCCcccceeEEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCE
Confidence            345554   345566788899999999999999999999999999999999999999999987 788888765 347999


Q ss_pred             EEEEecCCCCCC------------cccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSK------------KAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~------------~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ++|+||+|+...            +.+..+++..+++.+++ +++++||++|.|++++|+++.+.+.
T Consensus       126 ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          126 LLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             EEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            999999999753            35777888889988887 9999999999999999999998765

>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=99.91  E-value=9.4e-24  Score=145.17  Aligned_cols=129  Identities=31%  Similarity=0.484  Sum_probs=111.9

Q ss_pred             cccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||.+.   +...+++..+.+.+|||||++++..++..+++++|++++|||++++.+++.+..|+..+.... ..+.|+
T Consensus        32 ~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi  111 (167)
T 1c1y_A           32 YDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPM  111 (167)
T ss_dssp             CCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCE
T ss_pred             CCCCccceEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcE
Confidence            3455543   344567888999999999999999999999999999999999999999999999998886643 457999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhc-CCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++|+||+|+.+.+.+..+++..+++.+ +++++++||++|.|++++|+++.+.+
T Consensus       112 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  165 (167)
T 1c1y_A          112 ILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI  165 (167)
T ss_dssp             EEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             EEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHHHHHHH
Confidence            999999999877777888888888887 78999999999999999999999876

>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=99.91  E-value=2.4e-23  Score=144.97  Aligned_cols=128  Identities=18%  Similarity=0.308  Sum_probs=107.0

Q ss_pred             ccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc---CCCCc
Q psy2646           5 LPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA---CDNVN   78 (168)
Q Consensus         5 ~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~p   78 (168)
                      .||++   .+.+.+++..+.+++|||||+++     ..+++++|++|+|||++++++++.+..|+..+....   ..+.|
T Consensus        36 ~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~p  110 (178)
T 2iwr_A           36 EKTESEQYKKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLA  110 (178)
T ss_dssp             SSCSSSEEEEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCE
T ss_pred             CCCcceeEEEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCC
Confidence            45543   45667788999999999999986     458899999999999999999999999877665442   25789


Q ss_pred             EEEEEecCCCC--CCcccCHHHHHHHHHhc-CCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          79 KLLVGNKNDQT--SKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        79 iivv~nK~Dl~--~~~~v~~~~~~~~~~~~-~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +++|+||+|+.  ..+.+..+++..++..+ +++++++||++|.|++++|+++.+.+.+...
T Consensus       111 iilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~~  172 (178)
T 2iwr_A          111 LALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRK  172 (178)
T ss_dssp             EEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHHHHHHHHHHHHHHHHh
Confidence            99999999994  45567888888888776 6899999999999999999999999887544

>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=99.91  E-value=3e-23  Score=144.16  Aligned_cols=130  Identities=30%  Similarity=0.545  Sum_probs=110.2

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC----C
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC----D   75 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~----~   75 (168)
                      +.||.+    ...+.+++..+.+.+|||||++++..++..+++++|++++|||++++.++..+..|+..+.....    .
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~  115 (177)
T 1wms_A           36 LFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPE  115 (177)
T ss_dssp             ---CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTT
T ss_pred             CCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccC
Confidence            345554    44566788889999999999999999999999999999999999999999999999998865532    5


Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHH-hcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +.|+++|+||+|+. .+.+..+++..++. ..+++++++||++|.|++++|+++.+.+.+
T Consensus       116 ~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  174 (177)
T 1wms_A          116 SFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA  174 (177)
T ss_dssp             TSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            78999999999997 44567778888887 567899999999999999999999988764

>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=99.91  E-value=1.4e-23  Score=148.58  Aligned_cols=133  Identities=28%  Similarity=0.398  Sum_probs=115.4

Q ss_pred             cccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||.+.   ..+.+++..+.+.+|||||+++ ..++..+++++|++++|||++++++++.+..|+..+.... ..+.|+
T Consensus        57 ~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~pi  135 (196)
T 2atv_A           57 YDPTLESTYRHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTL  135 (196)
T ss_dssp             CCTTCCEEEEEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCE
T ss_pred             cCCCCCceEEEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcE
Confidence            3455543   3466788899999999999988 7778899999999999999999999999999999886653 357999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCC-CHHHHHHHHHHHHHHHhc
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA-NVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~-~i~~i~~~l~~~~~~~~~  137 (168)
                      ++|+||+|+...+.+..+++..+++.++++++++||+++. |++++|+++.+.+.++..
T Consensus       136 ilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~l~~~l~~~i~~~~~  194 (196)
T 2atv_A          136 ILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRRRM  194 (196)
T ss_dssp             EEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHHHHHC
T ss_pred             EEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHHHHHHHHHHHHhhcc
Confidence            9999999998767788888889998889999999999999 999999999999887654

>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=99.91  E-value=2.6e-23  Score=144.86  Aligned_cols=127  Identities=35%  Similarity=0.562  Sum_probs=98.9

Q ss_pred             eeeeeeC-CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEe
Q psy2646          10 LQNKKEE-RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC----DNVNKLLVGN   84 (168)
Q Consensus        10 ~~~~~~~-~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~piivv~n   84 (168)
                      ...+.++ +..+.+.+|||||++++..++..+++++|++|+|||++++.+++.+..|+..+.....    .+.|+++|+|
T Consensus        47 ~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~n  126 (182)
T 1ky3_A           47 TKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGN  126 (182)
T ss_dssp             EEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEE
T ss_pred             EEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEE
Confidence            3445555 5568999999999999999999999999999999999999999999999998865532    5789999999


Q ss_pred             cCCCCC-CcccCHHHHHHHHH-hcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          85 KNDQTS-KKAVDYQVAKEYAD-HLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        85 K~Dl~~-~~~v~~~~~~~~~~-~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      |+|+.. .+.+..+++..+++ ..+++++++||++|.|++++|+++.+.+.++.
T Consensus       127 K~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  180 (182)
T 1ky3_A          127 KIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN  180 (182)
T ss_dssp             CTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             CCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Confidence            999954 34567778888887 45789999999999999999999999887654

>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=99.91  E-value=3.5e-23  Score=145.87  Aligned_cols=132  Identities=39%  Similarity=0.683  Sum_probs=114.3

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCc
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVN   78 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p   78 (168)
                      +.||.+    .+.+.+++..+.+.||||||++++..++..+++++|++|+|||++++.++..+..|+..+.... ..+.|
T Consensus        44 ~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p  123 (195)
T 1x3s_A           44 LAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIV  123 (195)
T ss_dssp             CCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCE
T ss_pred             CCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCc
Confidence            345544    4556778899999999999999999999999999999999999999999999999999886643 34789


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      +++|+||+|+.. +.+..+++..++..++++++++||+++.|++++|+++.+.+.+..
T Consensus       124 ~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  180 (195)
T 1x3s_A          124 NMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTP  180 (195)
T ss_dssp             EEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHTSG
T ss_pred             EEEEEECCcCcc-cccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHhhh
Confidence            999999999954 456778888899889999999999999999999999999887543

>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=99.91  E-value=1.2e-24  Score=149.58  Aligned_cols=130  Identities=18%  Similarity=0.323  Sum_probs=103.1

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      +.||++.....++.+.+.+.+|||||++++..++..+++++|++++|||+++++++..+..|+..+... ...+.|+++|
T Consensus        28 ~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv  107 (164)
T 1r8s_A           28 TIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVF  107 (164)
T ss_dssp             CCCCSSCCEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEE
T ss_pred             ccCcCceeEEEEEECCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEE
Confidence            567888777677777789999999999999999999999999999999999999999999888887543 2357999999


Q ss_pred             EecCCCCCCcccCHHHHHHH-----HHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEY-----ADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~-----~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +||+|+.+..  ...+....     +...+++++++||++|.|++++|+++.+.+.++
T Consensus       108 ~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  163 (164)
T 1r8s_A          108 ANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ  163 (164)
T ss_dssp             EECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC---
T ss_pred             EECcCCcCCC--CHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHHHHHHHHHhhc
Confidence            9999997642  22222221     112346799999999999999999999887543

>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=99.91  E-value=5.2e-23  Score=146.37  Aligned_cols=129  Identities=24%  Similarity=0.479  Sum_probs=110.5

Q ss_pred             cccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+.   ..+.+++..+.+.||||||+++|..++..+++++|++++|||++++.++..+ ..|+..+... .++.|+
T Consensus        54 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~pi  132 (201)
T 2gco_A           54 YVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPI  132 (201)
T ss_dssp             CCCSSCCCCEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-STTCCE
T ss_pred             cCCcccceEEEEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCE
Confidence            3455443   4466788889999999999999999999999999999999999999999998 6788877665 357999


Q ss_pred             EEEEecCCCCCC------------cccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSK------------KAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~------------~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ++|+||+|+...            +.+..+++..+++.++. +++++||++|.|++++|+++.+.+.
T Consensus       133 ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          133 ILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGL  199 (201)
T ss_dssp             EEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            999999999764            45677788888888887 8999999999999999999998765

>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=99.91  E-value=2.5e-23  Score=149.54  Aligned_cols=132  Identities=27%  Similarity=0.504  Sum_probs=97.9

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+   ...+.+++..+.+.||||||+++|..++..+++++|++|+|||++++.+|+.+. .|+..+... ..+.|+
T Consensus        63 ~~~t~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~pi  141 (214)
T 2j1l_A           63 YTPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHF-CKKVPI  141 (214)
T ss_dssp             -CCCCCEEEEEEEEETTEEEEEEEEEC---------------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHH-CSSCCE
T ss_pred             CCCccceeEEEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHh-CCCCCE
Confidence            345544   344667889999999999999999999999999999999999999999999986 788888665 357999


Q ss_pred             EEEEecCCCCCCc------------ccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          80 LLVGNKNDQTSKK------------AVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        80 ivv~nK~Dl~~~~------------~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ++|+||+|+....            .+..+++..+++.+++ +++++||++|.|++++|+++.+.+.+..
T Consensus       142 ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~~~~~~  211 (214)
T 2j1l_A          142 IVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAEVALSSR  211 (214)
T ss_dssp             EEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHC-
T ss_pred             EEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence            9999999997542            5677788889988887 9999999999999999999999887643

>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=99.91  E-value=2.3e-23  Score=145.68  Aligned_cols=123  Identities=22%  Similarity=0.408  Sum_probs=107.9

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ...+.+++..+.+.+|||||+++|..++..+++++|++++|||++++.++..+. .|+..+... ..+.|+++|+||+|+
T Consensus        43 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl  121 (186)
T 1mh1_A           43 SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDL  121 (186)
T ss_dssp             EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-STTSCEEEEEECHHH
T ss_pred             EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHh-CCCCCEEEEeEcccc
Confidence            345667899999999999999999999999999999999999999999999987 688888665 347999999999998


Q ss_pred             CCC------------cccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          89 TSK------------KAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        89 ~~~------------~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ...            +.+..+++..+++.++. +++++||++|.|++++|+++.+.+.
T Consensus       122 ~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  179 (186)
T 1mh1_A          122 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  179 (186)
T ss_dssp             HTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             cccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecCCCccCHHHHHHHHHHHHh
Confidence            653            45677788888888886 9999999999999999999998875

>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=99.91  E-value=3.2e-23  Score=148.98  Aligned_cols=123  Identities=27%  Similarity=0.428  Sum_probs=107.2

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCH
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDY   96 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~   96 (168)
                      +..+.+.+|||||++++..++..++.++|++|+|||+++..+++.+..|+..+......+.|+++|+||+|+...+.+..
T Consensus        58 ~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~  137 (218)
T 4djt_A           58 GNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISK  137 (218)
T ss_dssp             SCEEEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCH
T ss_pred             CcEEEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCH
Confidence            44489999999999999999999999999999999999999999999999998776555689999999999987777888


Q ss_pred             HHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          97 QVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        97 ~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ..+..++...+++++++||++|.|++++|+++.+.+..+....
T Consensus       138 ~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~~~  180 (218)
T 4djt_A          138 KLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLI  180 (218)
T ss_dssp             HHHHHHTTTCCCEEEEEBTTTTBTTTHHHHHHHHHHHCCTTCC
T ss_pred             HHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHhcccccc
Confidence            8888888888999999999999999999999999987654433

>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=99.91  E-value=1.4e-23  Score=147.20  Aligned_cols=130  Identities=23%  Similarity=0.473  Sum_probs=111.0

Q ss_pred             cccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+.   ..+.+++..+.+.+|||||+++|..++..+++++|++|+|||++++++++.+ ..|+..+... .++.|+
T Consensus        36 ~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~-~~~~pi  114 (184)
T 1m7b_A           36 YVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKM  114 (184)
T ss_dssp             CCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-CTTCEE
T ss_pred             CCCccceeEEEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHH-CCCCCE
Confidence            4566553   3456678889999999999999999999999999999999999999999998 6888888665 357999


Q ss_pred             EEEEecCCCCCC------------cccCHHHHHHHHHhcC-CCEEEEecc-CCCCHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSK------------KAVDYQVAKEYADHLK-IPFLETSAK-NGANVEQAFLTMATEIKK  134 (168)
Q Consensus        80 ivv~nK~Dl~~~------------~~v~~~~~~~~~~~~~-~~~~~vSa~-~~~~i~~i~~~l~~~~~~  134 (168)
                      ++|+||+|+...            +.++.+++..+++.++ ++++++||+ ++.|++++|+++.+.+.+
T Consensus       115 ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          115 LLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             EEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             EEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEeeecCCCcCHHHHHHHHHHHHhc
Confidence            999999999642            4577788888998887 799999998 689999999999988764

>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=99.91  E-value=1.2e-22  Score=142.87  Aligned_cols=127  Identities=35%  Similarity=0.554  Sum_probs=101.1

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      ...+.+++..+.+.||||||++++..++..+++.+|++++|||+++..++..+..|+..+.... ..+.|+++|+||+|+
T Consensus        59 ~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl  138 (190)
T 3con_A           59 RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDL  138 (190)
T ss_dssp             EEEEEETTEEEEEEEEECCC-----------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTC
T ss_pred             EEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcC
Confidence            3456678888999999999999999999999999999999999999999999999999886653 247999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      .. +.+..+++.++++.++++++++||+++.|++++|+++.+.+.+.+.
T Consensus       139 ~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  186 (190)
T 3con_A          139 PT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRM  186 (190)
T ss_dssp             SC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHC-
T ss_pred             Cc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            76 4567788888998899999999999999999999999999876543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.91  E-value=1.4e-22  Score=143.45  Aligned_cols=114  Identities=39%  Similarity=0.652  Sum_probs=103.3

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVA   99 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~   99 (168)
                      +.+.||||||++++..++..+++.+|++|+|||++++.++..+..|+..+....  +.|+++|+||+| ...+.+..+++
T Consensus        93 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~--~~piilv~NK~D-~~~~~~~~~~~  169 (208)
T 3clv_A           93 IKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS--NYIIILVANKID-KNKFQVDILEV  169 (208)
T ss_dssp             EEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS--CCEEEEEEECTT-CC-CCSCHHHH
T ss_pred             eEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhC--CCcEEEEEECCC-cccccCCHHHH
Confidence            899999999999999999999999999999999999999999999999987653  489999999999 45556777888


Q ss_pred             HHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646         100 KEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus       100 ~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ..+++.++++++++||+++.|++++|+++.+.+.++.
T Consensus       170 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          170 QKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             HHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            8999999999999999999999999999999887664

>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=99.91  E-value=1.9e-23  Score=149.43  Aligned_cols=130  Identities=23%  Similarity=0.475  Sum_probs=111.0

Q ss_pred             cccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++.   ..+.+++..+.+.||||||+++|..++..+++++|++|+|||++++.+|..+ ..|+..+... ..+.|+
T Consensus        57 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~-~~~~pi  135 (205)
T 1gwn_A           57 YVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKM  135 (205)
T ss_dssp             CCCCSEEEEEEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-CTTCEE
T ss_pred             cCCccceeEEEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHH-CCCCCE
Confidence            4566553   3445678889999999999999999999999999999999999999999998 7898888665 357999


Q ss_pred             EEEEecCCCCC------------CcccCHHHHHHHHHhcC-CCEEEEecc-CCCCHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTS------------KKAVDYQVAKEYADHLK-IPFLETSAK-NGANVEQAFLTMATEIKK  134 (168)
Q Consensus        80 ivv~nK~Dl~~------------~~~v~~~~~~~~~~~~~-~~~~~vSa~-~~~~i~~i~~~l~~~~~~  134 (168)
                      ++|+||+|+..            .+.+..+++..+++.++ ++++++||+ ++.|++++|+++.+.+.+
T Consensus       136 ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          136 LLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             EEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEEeeeccCCcCHHHHHHHHHHHHhh
Confidence            99999999964            24577788888998887 799999999 689999999999988765

>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=99.91  E-value=1.3e-22  Score=143.64  Aligned_cols=128  Identities=20%  Similarity=0.285  Sum_probs=108.8

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchh-hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQER-FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKN   86 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~   86 (168)
                      ..+.+.+++..+.+.+|||+|++. +..++..+++.+|++++|||+++..+|+.+..|+..+.... ..+.|+++|+||+
T Consensus        45 ~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~  124 (192)
T 2cjw_A           45 YERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKS  124 (192)
T ss_dssp             EEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECT
T ss_pred             EEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEech
Confidence            346677899999999999999876 56677889999999999999999999999999988876542 3478999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      |+...+.+...++..++..++++++++||++|.|++++|+++.+.+..+.
T Consensus       125 Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~lf~~l~~~~~~~~  174 (192)
T 2cjw_A          125 DLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRR  174 (192)
T ss_dssp             TCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             hhhccccccHHHHHHHHHHhCCceEEeccccCCCHHHHHHHHHHHHHhhc
Confidence            99766677778888888888899999999999999999999999886554

>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=99.90  E-value=7.2e-23  Score=146.27  Aligned_cols=130  Identities=25%  Similarity=0.486  Sum_probs=108.4

Q ss_pred             ccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCCCCcEE
Q psy2646           5 LPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         5 ~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~pii   80 (168)
                      .||.+.   ..+.+++..+.+.||||||++++..++..+++++|++|+|||++++.++..+ ..|+..+... .++.|++
T Consensus        55 ~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~pii  133 (207)
T 2fv8_A           55 VPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHF-CPNVPII  133 (207)
T ss_dssp             ----CCEEEEEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHH-STTCCEE
T ss_pred             CCcccceEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCEE
Confidence            355443   3356788889999999999999999999999999999999999999999998 6788887665 3579999


Q ss_pred             EEEecCCCCCC------------cccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTSK------------KAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        81 vv~nK~Dl~~~------------~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +|+||+|+...            +.+..+++..++...+. +++++||++|.|++++|+++.+.+.+.
T Consensus       134 lv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~i~~~  201 (207)
T 2fv8_A          134 LVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQK  201 (207)
T ss_dssp             EEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHSC
T ss_pred             EEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999654            34677788888888887 899999999999999999999987643

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.90  E-value=5e-25  Score=156.55  Aligned_cols=126  Identities=72%  Similarity=1.081  Sum_probs=102.2

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ....+.+++..+.+.||||||++++..++..+++++|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+
T Consensus        71 ~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl  150 (199)
T 3l0i_B           71 KIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL  150 (199)
T ss_dssp             EEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSC
T ss_pred             EEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccC
Confidence            35666778888999999999999999999999999999999999999999999999999987665557999999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ...+.+...++..++..++++++++||+++.|++++|+++.+.+.+
T Consensus       151 ~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~l~~~l~~~l~~  196 (199)
T 3l0i_B          151 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKK  196 (199)
T ss_dssp             C--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHHHHHHHTTTTTT
T ss_pred             CccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            8766666666778888899999999999999999999999876643

>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=99.90  E-value=2e-22  Score=138.01  Aligned_cols=123  Identities=34%  Similarity=0.588  Sum_probs=108.8

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      ...+.+++..+.+.+|||||++++..++..+++.+|++++|||++++.++..+..|+..+.... ..+.|+++++||+|+
T Consensus        41 ~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl  120 (166)
T 2ce2_X           41 RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDL  120 (166)
T ss_dssp             EEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTC
T ss_pred             EEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhh
Confidence            4456678888999999999999999999999999999999999999999999999999886653 347999999999998


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .. +.+...+...+++.++++++++||+++.|++++|+++.+.+.
T Consensus       121 ~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  164 (166)
T 2ce2_X          121 AA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             SC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             hh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHH
Confidence            76 456677888888888999999999999999999999998875

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.90  E-value=1.6e-23  Score=144.48  Aligned_cols=129  Identities=27%  Similarity=0.380  Sum_probs=109.9

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc--CCCCc
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA--CDNVN   78 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p   78 (168)
                      +.||.+   .....+++..+.+.+|||||++++..++..+++.+|++++|||++++.+++.+..|+..+....  ..+.|
T Consensus        32 ~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~p  111 (172)
T 2erx_A           32 YIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIP  111 (172)
T ss_dssp             CCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCC
T ss_pred             CCCCccccEEEEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCC
Confidence            345544   3345567888999999999999999999999999999999999999999999999988886543  24789


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +++|+||+|+...+.+...++..++..++++++++||+++.|++++|+++.+.+
T Consensus       112 ii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  165 (172)
T 2erx_A          112 IMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLE  165 (172)
T ss_dssp             EEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             EEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHHHHHHHH
Confidence            999999999987677777788888888899999999999999999999998765

>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=99.90  E-value=2.1e-23  Score=148.25  Aligned_cols=126  Identities=21%  Similarity=0.272  Sum_probs=97.1

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....+..+++.+.+|||||++++..++..+++++|++++|||++++++|..+..|+..+.... ..+.|+++|
T Consensus        53 ~~~t~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv  132 (198)
T 1f6b_A           53 HVPTLHPTSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILIL  132 (198)
T ss_dssp             --CCCCCSCEEEEETTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEE
T ss_pred             cCCCCCceeEEEEECCEEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEE
Confidence            4466655444443333889999999999999999999999999999999999999999999998885532 357999999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHh-----------------cCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADH-----------------LKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~-----------------~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +||+|+..  .+..+++.++...                 .+++++++||++|.|++++|+++.+.
T Consensus       133 ~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          133 GNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             EECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             EECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEEEEEECCCCCCHHHHHHHHHHh
Confidence            99999975  4566666666542                 34679999999999999999999754

>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=99.90  E-value=2.9e-24  Score=165.03  Aligned_cols=135  Identities=19%  Similarity=0.191  Sum_probs=114.0

Q ss_pred             cccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC----------hhhHHHHHHHHHHHHH
Q psy2646           2 RLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD----------QETFNNLKQWLEEIDR   71 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~i~~   71 (168)
                      |...||+|.....++.+.+.+++|||+|+++++.+|..|+++++++|||||+++          .+++.+...|+..+..
T Consensus       175 ~~~~~T~Gi~~~~~~~~~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~  254 (353)
T 1cip_A          175 RTRVKTTGIVETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICN  254 (353)
T ss_dssp             TCCCCCCSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHT
T ss_pred             cccCceeceEEEEEeeCCeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHc
Confidence            456789998887777667999999999999999999999999999999999998          5679999999998865


Q ss_pred             hc-CCCCcEEEEEecCCCCCCc---------------ccCHHHHHHHHH-----------hcCCCEEEEeccCCCCHHHH
Q psy2646          72 YA-CDNVNKLLVGNKNDQTSKK---------------AVDYQVAKEYAD-----------HLKIPFLETSAKNGANVEQA  124 (168)
Q Consensus        72 ~~-~~~~piivv~nK~Dl~~~~---------------~v~~~~~~~~~~-----------~~~~~~~~vSa~~~~~i~~i  124 (168)
                      .. ..+.|++|++||+|+...+               .++.+++..++.           ..++.++++||+++.|+.++
T Consensus       255 ~~~~~~~piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~v  334 (353)
T 1cip_A          255 NKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFV  334 (353)
T ss_dssp             CGGGTTSEEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHH
T ss_pred             CccccCCcEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHH
Confidence            42 3579999999999985322               256677777775           35678999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2646         125 FLTMATEIKKRV  136 (168)
Q Consensus       125 ~~~l~~~~~~~~  136 (168)
                      |.++.+.+.+..
T Consensus       335 F~~v~~~i~~~~  346 (353)
T 1cip_A          335 FDAVTDVIIKNN  346 (353)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHH
Confidence            999999987654

>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=99.90  E-value=1.2e-23  Score=145.24  Aligned_cols=129  Identities=18%  Similarity=0.241  Sum_probs=103.1

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....+....+.+.+|||||++++..++..+++++|++++|||++++.++..+..|+..+.... ..+.|+++|
T Consensus        35 ~~~t~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv  114 (171)
T 1upt_A           35 TIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVF  114 (171)
T ss_dssp             CCCCSSEEEEEEEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEE
T ss_pred             cCCcCccceEEEEECCEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEE
Confidence            5677776665555557889999999999999999999999999999999999999999988888775432 257999999


Q ss_pred             EecCCCCCCcccCHHHHHH-----HHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKE-----YADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~-----~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +||+|+.....  ..+...     .+...+++++++||+++.|++++|+++.+.+.+
T Consensus       115 ~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  169 (171)
T 1upt_A          115 ANKQDMEQAMT--SSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS  169 (171)
T ss_dssp             EECTTSTTCCC--HHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             EECCCCcCCCC--HHHHHHHhCchhccCCceEEEECcCCCCcCHHHHHHHHHHHHhh
Confidence            99999976432  122222     122345689999999999999999999988754

>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=99.90  E-value=2.8e-23  Score=144.86  Aligned_cols=120  Identities=25%  Similarity=0.460  Sum_probs=98.2

Q ss_pred             eeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          13 KKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        13 ~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      +.+++..+.+++|||||+++|..++..+++++|++++|||++++.+++.+. .|+..+... ..+.|+++|+||+|+.+.
T Consensus        49 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~  127 (182)
T 3bwd_D           49 VVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHY-APGVPIVLVGTKLDLRDD  127 (182)
T ss_dssp             CC-------CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-CTTCCEEEEEECHHHHTC
T ss_pred             EEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEechhhhcC
Confidence            445677788999999999999999999999999999999999999999997 688888665 347999999999998654


Q ss_pred             cc----------cCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          92 KA----------VDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        92 ~~----------v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +.          +..+++..+++.++. +++++||++|.|++++|+++.+.+.
T Consensus       128 ~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          128 KQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             HHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             cccccccccCCCCCHHHHHHHHHHcCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            43          467788888888886 9999999999999999999998763

>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=99.89  E-value=6.2e-23  Score=144.92  Aligned_cols=126  Identities=19%  Similarity=0.237  Sum_probs=102.0

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....+..+++.+.+|||||++++..++..+++++|++++|||++++++|+.+..|+..+.... ..+.|+++|
T Consensus        51 ~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv  130 (190)
T 1m2o_B           51 LQPTWHPTSEELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVIL  130 (190)
T ss_dssp             CCCCCSCEEEEEEETTEEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEE
T ss_pred             cccCCCCCeEEEEECCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEE
Confidence            4566665544444334889999999999999999999999999999999999999999999998885432 357999999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHh------------cCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADH------------LKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~------------~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +||+|+..  .++.+++.+....            .+++++++||++|.|++++|+++.+.
T Consensus       131 ~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          131 GNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             EECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             EECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeECCcCCCHHHHHHHHHhh
Confidence            99999976  4555666555432            34689999999999999999999753

>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=99.89  E-value=1.1e-22  Score=145.22  Aligned_cols=122  Identities=21%  Similarity=0.390  Sum_probs=105.1

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ...+.+++..+.+.||||||+++|..++..+++++|++++|||++++.+++.+. .|+..+.... .+.|+++|+||+|+
T Consensus        68 ~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl  146 (204)
T 4gzl_A           68 SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDL  146 (204)
T ss_dssp             EEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHH
T ss_pred             EEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhh
Confidence            344566888899999999999999999999999999999999999999999997 7888886663 67999999999998


Q ss_pred             CCCcc------------cCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          89 TSKKA------------VDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        89 ~~~~~------------v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      .....            +..+++..+++.++. +++++||++|.|++++|+++.+.+
T Consensus       147 ~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          147 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             HTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             ccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            65432            677788888888885 599999999999999999998753

>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=99.89  E-value=6.4e-24  Score=150.24  Aligned_cols=128  Identities=18%  Similarity=0.292  Sum_probs=97.3

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....++.+.+.+.+|||||++++..++..+++++|++++|||+++++++..+..|+..+.... ..+.|+++|
T Consensus        57 ~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv  136 (192)
T 2b6h_A           57 TIPTIGFNVETVEYKNICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVF  136 (192)
T ss_dssp             EEEETTEEEEEEEETTEEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEE
T ss_pred             cCCcCceeEEEEEECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEE
Confidence            4577776666666667899999999999999999999999999999999999999999999988875432 347999999


Q ss_pred             EecCCCCCCcccCHHHHHHH-----HHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEY-----ADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~-----~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +||+|+.+..  ...+....     +...+++++++||++|.|++++|+++.+.+.
T Consensus       137 ~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~  190 (192)
T 2b6h_A          137 ANKQDMPNAM--PVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHELS  190 (192)
T ss_dssp             EECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHTT
T ss_pred             EECCCCCCCC--CHHHHHHHhCcccccCCceEEEECcCCCcCCHHHHHHHHHHHHh
Confidence            9999997642  22222211     1123467999999999999999999998764

>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=99.89  E-value=8.9e-23  Score=147.08  Aligned_cols=127  Identities=28%  Similarity=0.490  Sum_probs=109.4

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      .......+++..+.+.||||||++++..++..+++++|++|+|||++++.++..+..|+..+... ..+.|+++|+||+|
T Consensus        52 ~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~p~ilv~nK~D  130 (221)
T 3gj0_A           52 VHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV-CENIPIVLCGNKVD  130 (221)
T ss_dssp             EEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHH-STTCCEEEEEECTT
T ss_pred             EEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh-CCCCCEEEEEECCc
Confidence            34556667888999999999999999999999999999999999999999999999999999776 35799999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +.+....  .+...++...+++++++||++|.|++++|+++.+.+.....
T Consensus       131 l~~~~~~--~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~~~~~  178 (221)
T 3gj0_A          131 IKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPN  178 (221)
T ss_dssp             SSSCSSC--GGGCCHHHHHTCEEEECBGGGTBTTTHHHHHHHHHHHTCTT
T ss_pred             ccccccc--HHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhCcc
Confidence            9764332  24456777788999999999999999999999999876543

>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=99.89  E-value=2.7e-22  Score=141.28  Aligned_cols=129  Identities=19%  Similarity=0.271  Sum_probs=105.1

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC---CCCcEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC---DNVNKL   80 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~pii   80 (168)
                      +.||++.....+..+++.+.+|||||++++..++..+++++|++|+|||++++.++..+..|+..+.....   .+.|++
T Consensus        51 ~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~pii  130 (190)
T 2h57_A           51 ILPTIGFSIEKFKSSSLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPIL  130 (190)
T ss_dssp             CCCCSSEEEEEEECSSCEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEE
T ss_pred             cCCccceeEEEEEECCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEE
Confidence            56777766666655568999999999999999999999999999999999999999999999888865432   479999


Q ss_pred             EEEecCCCCCCcccCHHHHHHHHH-----hcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTSKKAVDYQVAKEYAD-----HLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +|+||+|+...  ...++...+..     ..+++++++||+++.|++++|+++.+.+.+
T Consensus       131 lv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  187 (190)
T 2h57_A          131 FFANKMDLRDA--VTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQT  187 (190)
T ss_dssp             EEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC--
T ss_pred             EEEeCcCcccC--CCHHHHHHHhChhhccCCceEEEEccCCCCcCHHHHHHHHHHHHHH
Confidence            99999999753  34455555442     235789999999999999999999987654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.89  E-value=1.7e-23  Score=147.24  Aligned_cols=130  Identities=17%  Similarity=0.234  Sum_probs=103.0

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....+..+.+.+.+|||||++++..++..+++++|++++|||+++++++..+..|+..+.... ..+.|+++|
T Consensus        50 ~~~t~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv  129 (189)
T 2x77_A           50 TVPTVGVNLETLQYKNISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIF  129 (189)
T ss_dssp             ECSSTTCCEEEEEETTEEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEE
T ss_pred             cCCCCceEEEEEEECCEEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEE
Confidence            4577776555555556899999999999999999999999999999999999999999988888775432 347999999


Q ss_pred             EecCCCCCCcccCHHHHHHH-----HHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEY-----ADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~-----~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +||+|+.+...  ..+....     +...+++++++||+++.|++++|+++.+.+.++
T Consensus       130 ~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  185 (189)
T 2x77_A          130 ANKQDLPDAAS--EAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERLREQ  185 (189)
T ss_dssp             EECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHHT
T ss_pred             EECCCCcCCCC--HHHHHHHhChhhccCCceEEEEccCCCccCHHHHHHHHHHHHHhc
Confidence            99999976422  1222221     123356899999999999999999999988654

>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=99.89  E-value=1e-22  Score=143.14  Aligned_cols=130  Identities=22%  Similarity=0.271  Sum_probs=98.9

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....+..+++.+.+|||||++++..++..+++++|++|+|||++++++++.+..|+..+.... ..+.|+++|
T Consensus        44 ~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv  123 (187)
T 1zj6_A           44 TSPTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIF  123 (187)
T ss_dssp             EECCSCSSCEEEEETTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEE
T ss_pred             CcCCCccceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEE
Confidence            3566665444444445889999999999999999999999999999999999999999999998886542 357999999


Q ss_pred             EecCCCCCCcccCHHHHHHHHH-----hcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYAD-----HLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +||+|+.+.  ....+......     ..+++++++||++|.|++++|+++.+.+...
T Consensus       124 ~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  179 (187)
T 1zj6_A          124 ANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKIR  179 (187)
T ss_dssp             EECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHHCC-
T ss_pred             EECCCCcCC--CCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHHHHHHHHHHHHHHH
Confidence            999999753  33344433332     3457899999999999999999999876443

>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=99.89  E-value=2.1e-23  Score=146.21  Aligned_cols=130  Identities=22%  Similarity=0.278  Sum_probs=100.0

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      +.||.+.....+....+.+.+|||||++++..++..+++++|++++|||+++++++..+..|+..+... ...+.|++++
T Consensus        44 ~~~t~g~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv  123 (181)
T 1fzq_A           44 ITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIF  123 (181)
T ss_dssp             EEEETTEEEEEEEETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEE
T ss_pred             ccCcCCeEEEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEE
Confidence            457777554444434688999999999999999999999999999999999999999999888877432 2357899999


Q ss_pred             EecCCCCCCcccCHHHHHHHH-----HhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYA-----DHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +||+|+.+...  .++.....     ...+++++++||++|.|++++|+++.+.+.++
T Consensus       124 ~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  179 (181)
T 1fzq_A          124 ANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNAK  179 (181)
T ss_dssp             EECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTC---
T ss_pred             EECcCcccCCC--HHHHHHHhCchhccCCceEEEEccCCCCCCHHHHHHHHHHHHHhc
Confidence            99999976433  22222221     12346799999999999999999999876543

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.89  E-value=1.7e-23  Score=158.91  Aligned_cols=137  Identities=19%  Similarity=0.220  Sum_probs=114.9

Q ss_pred             CcccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCC----------ChhhHHHHHHHHHHHH
Q psy2646           1 MRLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCT----------DQETFNNLKQWLEEID   70 (168)
Q Consensus         1 ~~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~i~   70 (168)
                      +|+..||+|.....++.+.+.+++|||+|+++++.+|..|+++++++|||||++          +.+++.+...|+..+.
T Consensus       148 lr~r~~TiGi~~~~~~~~~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~  227 (327)
T 3ohm_A          148 LRVRVPTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTII  227 (327)
T ss_dssp             TTCCCCCCSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHH
T ss_pred             hcccCceeeEEEEEEEeeceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHh
Confidence            366889999999999888899999999999999999999999999999999654          6678888888888886


Q ss_pred             Hhc-CCCCcEEEEEecCCCCCCc----------------ccCHHHHHHHH----------HhcCCCEEEEeccCCCCHHH
Q psy2646          71 RYA-CDNVNKLLVGNKNDQTSKK----------------AVDYQVAKEYA----------DHLKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        71 ~~~-~~~~piivv~nK~Dl~~~~----------------~v~~~~~~~~~----------~~~~~~~~~vSa~~~~~i~~  123 (168)
                      ... ..+.|+++++||+|+...+                .++.+++..++          ...++.++++||+++.|++.
T Consensus       228 ~~~~~~~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~  307 (327)
T 3ohm_A          228 TYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRF  307 (327)
T ss_dssp             TSGGGTTCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHH
T ss_pred             hhhccCCceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHH
Confidence            543 3579999999999986433                35667777773          23457789999999999999


Q ss_pred             HHHHHHHHHHHHhc
Q psy2646         124 AFLTMATEIKKRVT  137 (168)
Q Consensus       124 i~~~l~~~~~~~~~  137 (168)
                      +|..+.+.+.++.-
T Consensus       308 vF~~v~~~Il~~~l  321 (327)
T 3ohm_A          308 VFAAVKDTILQLNL  321 (327)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhH
Confidence            99999999987543

>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=99.89  E-value=2.2e-23  Score=146.83  Aligned_cols=129  Identities=25%  Similarity=0.370  Sum_probs=104.1

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....++...+.+.||||||++++..++..+++++|++|+|||+++++++..+..|+..+.... ..+.|+++|
T Consensus        51 ~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv  130 (188)
T 1zd9_A           51 MIPTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVL  130 (188)
T ss_dssp             CCCCCSEEEEEEEETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEE
T ss_pred             cCCCCceeEEEEEeCCEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEE
Confidence            5688888777777778899999999999999999999999999999999999999999998888875432 357999999


Q ss_pred             EecCCCCCCcccCHHHHHHHH-----HhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYA-----DHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +||+|+....  ...+.....     ...+++++++||++|.|++++|+++.+.+.+
T Consensus       131 ~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~  185 (188)
T 1zd9_A          131 GNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSKS  185 (188)
T ss_dssp             EECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTCC-
T ss_pred             EECCCCccCC--CHHHHHHHhChhhhccCCeeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            9999997542  222222211     1234679999999999999999999987644

>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=99.89  E-value=3.5e-22  Score=140.09  Aligned_cols=131  Identities=20%  Similarity=0.290  Sum_probs=104.8

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLL   81 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piiv   81 (168)
                      .+.||++.....+..+.+.+.+|||||++++..++..+++++|++++|||++++++++.+..|+..+.... ..+.|+++
T Consensus        45 ~~~~t~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piil  124 (186)
T 1ksh_A           45 TISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLI  124 (186)
T ss_dssp             SCCCCSSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEE
T ss_pred             cccccCccceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEE
Confidence            35678776655555456889999999999999999999999999999999999999999998888875432 35799999


Q ss_pred             EEecCCCCCCcccCHHHHHHHHH-----hcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          82 VGNKNDQTSKKAVDYQVAKEYAD-----HLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      |+||+|+.....  ..+..+...     ..+++++++||+++.|++++|+++.+.+.++
T Consensus       125 v~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          125 FANKQDLPGALS--CNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             EEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             EEeCccCCCCCC--HHHHHHHhChhhccCCceEEEEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            999999976432  233322221     2456899999999999999999999887643

>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=99.88  E-value=6.7e-21  Score=135.23  Aligned_cols=136  Identities=39%  Similarity=0.625  Sum_probs=117.0

Q ss_pred             ccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE
Q psy2646           5 LPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         5 ~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii   80 (168)
                      .||++    ...+.+++..+.+.+||++|++++..++..++.+++++++|+|+++..++..+..|+..+......+.|++
T Consensus        35 ~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~  114 (199)
T 2f9l_A           35 KSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIM  114 (199)
T ss_dssp             -CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEE
T ss_pred             CCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEE
Confidence            46654    45677889999999999999999999999999999999999999999999998889888765544578999


Q ss_pred             EEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCC
Q psy2646          81 LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE  140 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~  140 (168)
                      +++||+|+...+.+...++..++...++.++++||+++.|++++|+++.+.+.+......
T Consensus       115 ~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~~l~~~~~~~~~~~~  174 (199)
T 2f9l_A          115 LVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQ  174 (199)
T ss_dssp             EEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHHTSC
T ss_pred             EEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHHhhcc
Confidence            999999998766677778888998889999999999999999999999999987654443

>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=99.88  E-value=3.4e-22  Score=139.81  Aligned_cols=126  Identities=21%  Similarity=0.257  Sum_probs=99.0

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||.+.....+..+++.+.+|||||++++..++..+++++|++++|||+++++++..+..|+..+.... ..+.|+++|
T Consensus        49 ~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv  128 (181)
T 2h17_A           49 TSPTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIF  128 (181)
T ss_dssp             EECCSSSSCEEEEETTEEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEE
T ss_pred             cCCcCceeeEEEEECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEE
Confidence            3466665444444345889999999999999999999999999999999999999999999888875432 357999999


Q ss_pred             EecCCCCCCcccCHHHHHHHH-----HhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYA-----DHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +||+|+...  ....+.....     ...+++++++||++|.|++++|+++.+.
T Consensus       129 ~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          129 ANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             EECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHTC
T ss_pred             EECCCcccC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHHhh
Confidence            999999753  2333333332     2235689999999999999999999754

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.88  E-value=6.8e-23  Score=157.86  Aligned_cols=136  Identities=16%  Similarity=0.140  Sum_probs=105.5

Q ss_pred             cccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC----------hhhHHHHHHHHHHHHH
Q psy2646           2 RLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD----------QETFNNLKQWLEEIDR   71 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~i~~   71 (168)
                      ++..||+|+....+..+.+.+++|||+|+++++..|..|+++++++|||||+++          .+++.+...|+..+..
T Consensus       183 ~~r~~T~Gi~~~~~~~~~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~  262 (362)
T 1zcb_A          183 LARRPTKGIHEYDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVN  262 (362)
T ss_dssp             HCCCCCSSEEEEEEEETTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHT
T ss_pred             hccCCccceEEEEeeeCCeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhc
Confidence            456788888877777667999999999999999999999999999999999999          7799999999998865


Q ss_pred             hc-CCCCcEEEEEecCCCCCCc----------------ccCHHHHHHHH--------H---hcCCCEEEEeccCCCCHHH
Q psy2646          72 YA-CDNVNKLLVGNKNDQTSKK----------------AVDYQVAKEYA--------D---HLKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        72 ~~-~~~~piivv~nK~Dl~~~~----------------~v~~~~~~~~~--------~---~~~~~~~~vSa~~~~~i~~  123 (168)
                      .. ..+.|+|+++||+|+...+                .++.+++..++        .   ..++.++++||+++.|+.+
T Consensus       263 ~~~~~~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~  342 (362)
T 1zcb_A          263 NRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRL  342 (362)
T ss_dssp             CGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHH
T ss_pred             chhhCCCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHH
Confidence            42 3579999999999986322                25667776665        1   3457889999999999999


Q ss_pred             HHHHHHHHHHHHhc
Q psy2646         124 AFLTMATEIKKRVT  137 (168)
Q Consensus       124 i~~~l~~~~~~~~~  137 (168)
                      +|.++.+.+.+..-
T Consensus       343 vF~~v~~~i~~~~l  356 (362)
T 1zcb_A          343 VFRDVKDTILHDNL  356 (362)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999876543

>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=99.88  E-value=1.1e-22  Score=142.15  Aligned_cols=131  Identities=18%  Similarity=0.263  Sum_probs=99.6

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv   82 (168)
                      +.||++.....+..+.+.+.+|||||++++..++..+++++|++++|||++++.+++.+..|+..+.... ..+.|+++|
T Consensus        46 ~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv  125 (183)
T 1moz_A           46 TKPTIGFNVETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVF  125 (183)
T ss_dssp             ECSSTTCCEEEEEETTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEE
T ss_pred             cCCcCccceEEEEECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEE
Confidence            4567665544444445889999999999999999999999999999999999999999999988875542 357999999


Q ss_pred             EecCCCCCCcccCHHHHHHHHH-----hcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYAD-----HLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      +||+|+.+.  ....+......     ..+++++++||+++.|++++|+++.+.+.+++
T Consensus       126 ~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~q  182 (183)
T 1moz_A          126 ANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEEQ  182 (183)
T ss_dssp             EECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             EECCCCCCC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHHHHHHhcc
Confidence            999999753  23333333322     12357999999999999999999999887653

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.87  E-value=2e-22  Score=156.69  Aligned_cols=135  Identities=16%  Similarity=0.120  Sum_probs=108.1

Q ss_pred             cccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC----------hhhHHHHHHHHHHHHH
Q psy2646           2 RLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD----------QETFNNLKQWLEEIDR   71 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~i~~   71 (168)
                      ++.+||+|+....+..+.+.+++|||+|+++|+.+|..|+++++++|||||+++          .++|+.+..|+..+..
T Consensus       199 ~~r~~TiGi~~~~~~~~~v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~  278 (402)
T 1azs_C          199 RCRVLTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWN  278 (402)
T ss_dssp             HCCCCCCSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHT
T ss_pred             ccccceeeeEEEEeecCCccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHh
Confidence            345678887766665556899999999999999999999999999999999999          8899999999999866


Q ss_pred             hc-CCCCcEEEEEecCCCCCCcc---c---------------------------CHHHHHHHH-----Hh--------cC
Q psy2646          72 YA-CDNVNKLLVGNKNDQTSKKA---V---------------------------DYQVAKEYA-----DH--------LK  107 (168)
Q Consensus        72 ~~-~~~~piivv~nK~Dl~~~~~---v---------------------------~~~~~~~~~-----~~--------~~  107 (168)
                      .. ..+.|++|++||+|+...+.   +                           +.+++..++     ..        .+
T Consensus       279 ~~~~~~~piiLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~  358 (402)
T 1azs_C          279 NRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHY  358 (402)
T ss_dssp             CTTCSSCCEEEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSC
T ss_pred             cccCCCCeEEEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcc
Confidence            53 45799999999999854322   1                           124444443     21        24


Q ss_pred             CCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646         108 IPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus       108 ~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      +.++++||+++.||+++|.++.+.+.+..
T Consensus       359 ~~~~~TSA~d~~nV~~vF~~v~~~I~~~~  387 (402)
T 1azs_C          359 CYPHFTCAVDTENIRRVFNDCRDIIQRMH  387 (402)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             cEEEEEEeecCcCHHHHHHHHHHHHHHHH
Confidence            56789999999999999999998887654

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.87  E-value=4.2e-23  Score=156.22  Aligned_cols=129  Identities=16%  Similarity=0.206  Sum_probs=101.1

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcc---cchhhhcCCcEEEEEEeCCCh--hhHHHHHHHHHHHHHhcCCCC
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRT---ITSSYYRGAHGIIVVYDCTDQ--ETFNNLKQWLEEIDRYACDNV   77 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~---~~~~~~~~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~   77 (168)
                      .+.||++.....++ ..+.++||||||+++|..   .+..|+++++++|+|||+++.  +.+..+..|+..+... .++.
T Consensus        30 ~~~~Tig~~~~~v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~Ditd~~~~~~~~l~~~l~~~~~~-~~~i  107 (331)
T 3r7w_B           30 YLESTSNPSLEHFS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKV-NPSI  107 (331)
T ss_dssp             TCCCCCSCCCEEEC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEECCCSSCTTHHHHHHHHHHHHHHHH-CTTC
T ss_pred             eecCeeeeeeEEEc-cEEEEEEEECCCchhccchhhhhhhhccCCCEEEEEEECCchHHHHHHHHHHHHHHHhhc-CCCC
Confidence            36789998888774 458999999999999964   358899999999999999987  3444444445555443 4579


Q ss_pred             cEEEEEecCCCCCC-------cccCHHHHHHHHHh----cCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          78 NKLLVGNKNDQTSK-------KAVDYQVAKEYADH----LKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        78 piivv~nK~Dl~~~-------~~v~~~~~~~~~~~----~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      |++++|||+|+...       +.+..+++.++++.    ++++|+++||++ .++.++|..+++.+..
T Consensus       108 pillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eTSAkd-~nV~eAFs~iv~~li~  174 (331)
T 3r7w_B          108 NIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFD-HSIYEAFSRIVQKLIP  174 (331)
T ss_dssp             EEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECCCSSS-SHHHHHHHHHHTTSST
T ss_pred             cEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEeccCC-CcHHHHHHHHHHHHHh
Confidence            99999999999754       34666667777775    678999999998 5899999999876653

>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=99.87  E-value=3.6e-21  Score=146.11  Aligned_cols=124  Identities=19%  Similarity=0.358  Sum_probs=108.4

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ...+.+++..+.+.+|||||++++..++..+++++|++++|||++++.++..+. .|+..+.... .+.|+++|+||+|+
T Consensus       193 ~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl  271 (332)
T 2wkq_A          193 SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDL  271 (332)
T ss_dssp             EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTSCEEEEEECHHH
T ss_pred             EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhC-CCCcEEEEEEchhc
Confidence            345567888999999999999999999999999999999999999999999987 6888886653 47999999999998


Q ss_pred             CCC------------cccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          89 TSK------------KAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        89 ~~~------------~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ...            +.+...++..+++.+++ +++++||++|.|++++|+++.+.+..
T Consensus       272 ~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          272 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             HTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             ccccchhhhccccccccccHHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHhc
Confidence            643            45777888889998887 99999999999999999999988753

>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=99.87  E-value=1.2e-21  Score=138.80  Aligned_cols=114  Identities=24%  Similarity=0.347  Sum_probs=94.3

Q ss_pred             CeEEEEEEEeCCCchhhcccc---hhhhcCCcEEEEEEeCCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC-
Q psy2646          17 RTRTLIVIWDTAGQERFRTIT---SSYYRGAHGIIVVYDCTDQ--ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS-   90 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~---~~~~~~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~-   90 (168)
                      +..+.+++|||||+++|..+.   ..+++++|++|+|||+++.  +++..+..|+..+... ..+.|+++|+||+|+.+ 
T Consensus        66 ~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~-~~~~piilv~nK~Dl~~~  144 (196)
T 3llu_A           66 SSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKV-NPDMNFEVFIHKVDGLSD  144 (196)
T ss_dssp             TTSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHH-CTTCEEEEEEECGGGSCH
T ss_pred             CCeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhc-CCCCcEEEEEeccccCch
Confidence            677899999999999987665   8999999999999999997  6777777777776443 45899999999999865 


Q ss_pred             ------CcccCHHHHHHHHH----hcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          91 ------KKAVDYQVAKEYAD----HLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        91 ------~~~v~~~~~~~~~~----~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                            .+.+...++..+++    .++++++++||++ .|++++|..+++.+
T Consensus       145 ~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          145 DHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCTTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             hhhhHHHhHHHHHHHHHHHHhhhhcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence                  23455555667777    6678999999999 99999999998764

>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=99.86  E-value=4.8e-22  Score=139.56  Aligned_cols=131  Identities=19%  Similarity=0.302  Sum_probs=98.8

Q ss_pred             cccccceeeeee-------CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCC
Q psy2646           4 LLPYQTLQNKKE-------ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ-ETFNNLKQWLEEIDRYACD   75 (168)
Q Consensus         4 ~~~t~~~~~~~~-------~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~   75 (168)
                      +.||++......       ++..+.+.+|||+|+++|..++..++++++++++|||++++ .+++.+..|+..+... .+
T Consensus        33 ~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~-~~  111 (184)
T 2zej_A           33 QSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKAR-AS  111 (184)
T ss_dssp             ----CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHH-CT
T ss_pred             cceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhh-CC
Confidence            456666544332       24577899999999999999999999999999999999987 5799999999988665 34


Q ss_pred             CCcEEEEEecCCCCCCcccC---HHHHHHHHHhcCCC----EEEEeccCCC-CHHHHHHHHHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVD---YQVAKEYADHLKIP----FLETSAKNGA-NVEQAFLTMATEIKKR  135 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~---~~~~~~~~~~~~~~----~~~vSa~~~~-~i~~i~~~l~~~~~~~  135 (168)
                      +.|+++|+||+|+...+.+.   ...+..+++.++++    ++++||+++. +++++++.+.+.+...
T Consensus       112 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~~l~~~i~~~~~~~  179 (184)
T 2zej_A          112 SSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNF  179 (184)
T ss_dssp             TCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCTTSCCHHHHHHHHHHHHHHHCC
T ss_pred             CCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEecccCchhHHHHHHHHHHHHhcc
Confidence            78999999999997654432   23344566666776    9999999997 9999999988776543

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.86  E-value=4.8e-22  Score=152.65  Aligned_cols=134  Identities=16%  Similarity=0.197  Sum_probs=102.9

Q ss_pred             cccccceeeeee--CC----eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCC----------ChhhHHHHHHHHH
Q psy2646           4 LLPYQTLQNKKE--ER----TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCT----------DQETFNNLKQWLE   67 (168)
Q Consensus         4 ~~~t~~~~~~~~--~~----~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~   67 (168)
                      .++|.|+....+  ++    +.+.+++|||+|+++|+.+|..|+++++++|||||++          +.++|+.+..|+.
T Consensus       161 r~~T~Gi~e~~f~~~~~~~~~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~  240 (354)
T 2xtz_A          161 RVRTTGVVEIQFSPVGENKKSGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFD  240 (354)
T ss_dssp             CCCCCSEEEEEECCCCE------EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHH
T ss_pred             cccccceeeEEEEeccCccccceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHH
Confidence            345666665554  44    6799999999999999999999999999999999998          7789999999999


Q ss_pred             HHHHhc-CCCCcEEEEEecCCCCCCcc--c-------------------CHHHHHHHHHh----------------cCCC
Q psy2646          68 EIDRYA-CDNVNKLLVGNKNDQTSKKA--V-------------------DYQVAKEYADH----------------LKIP  109 (168)
Q Consensus        68 ~i~~~~-~~~~piivv~nK~Dl~~~~~--v-------------------~~~~~~~~~~~----------------~~~~  109 (168)
                      .+.... ..+.|+++++||+|+...+.  +                   +.+++..++..                ..+.
T Consensus       241 ~i~~~~~~~~~piiLvgNK~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~  320 (354)
T 2xtz_A          241 WVLKQPCFEKTSFMLFLNKFDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFK  320 (354)
T ss_dssp             HHHTCGGGSSCEEEEEEECHHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEE
T ss_pred             HHHhccccCCCeEEEEEECcchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceE
Confidence            886543 35799999999999853221  1                   13455555332                1245


Q ss_pred             EEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646         110 FLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus       110 ~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ++++||+++.|++++|.++.+.+.+...
T Consensus       321 ~~eTSA~d~~nV~~vF~~v~~~I~~~~l  348 (354)
T 2xtz_A          321 IYRTTALDQKLVKKTFKLVDETLRRRNL  348 (354)
T ss_dssp             EEECCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEeecchhHHHHHHHHHHHHHHHHH
Confidence            6899999999999999999998876543

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.86  E-value=3.6e-22  Score=152.36  Aligned_cols=128  Identities=19%  Similarity=0.321  Sum_probs=99.7

Q ss_pred             ccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEE
Q psy2646           5 LPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVG   83 (168)
Q Consensus         5 ~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~   83 (168)
                      .||++.....++...+.++||||||+++|..++..+++.+|++|+|||++++.+|..+..|+..+.... ..+.|+++|+
T Consensus       194 ~pT~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~  273 (329)
T 3o47_A          194 IPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFA  273 (329)
T ss_dssp             EEETTEEEEEEEETTEEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEE
T ss_pred             ccccceEEEEEecCcEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEE
Confidence            478888888888888999999999999999999999999999999999999999999988877764432 3579999999


Q ss_pred             ecCCCCCCcccCHHHHHHHH-----HhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          84 NKNDQTSKKAVDYQVAKEYA-----DHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ||+|+.....  ..+.....     ...+++++++||++|.|++++|++|.+.+.+
T Consensus       274 NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~el~~~l~~~l~~  327 (329)
T 3o47_A          274 NKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRN  327 (329)
T ss_dssp             ECTTSTTCCC--HHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHHHHHHHHHHHTC
T ss_pred             ECccCCcccC--HHHHHHHhchhhhhcCCCEEEEEECCCCcCHHHHHHHHHHHHHh
Confidence            9999976432  22222221     1234679999999999999999999988754

>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=99.85  E-value=3.8e-22  Score=151.99  Aligned_cols=133  Identities=17%  Similarity=0.155  Sum_probs=110.5

Q ss_pred             cccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCC----------ChhhHHHHHHHHHHHHH
Q psy2646           2 RLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCT----------DQETFNNLKQWLEEIDR   71 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~i~~   71 (168)
                      |+..||+|+....++.+.+.+++|||+|+++++.+|..|+++++++|||||++          +.+++.+...|+..+..
T Consensus       143 ~~~~~TiGi~~~~~~~~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~  222 (340)
T 4fid_A          143 HNRTKTTGIHEYDFVVKDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMT  222 (340)
T ss_dssp             HSCCCCCSCEEEEEESSSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHH
T ss_pred             ecccceeeeEEEEEEeeeeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhh
Confidence            45789999999999888899999999999999999999999999999999998          67889999999988865


Q ss_pred             hc-CCCCcEEEEEecCCCCCCcc---------------cCHHHHHHHHH-h--------------------------cCC
Q psy2646          72 YA-CDNVNKLLVGNKNDQTSKKA---------------VDYQVAKEYAD-H--------------------------LKI  108 (168)
Q Consensus        72 ~~-~~~~piivv~nK~Dl~~~~~---------------v~~~~~~~~~~-~--------------------------~~~  108 (168)
                      .. ..+.|+++++||+|+...+.               ...+++..++. .                          .++
T Consensus       223 ~~~~~~~piiLv~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~i  302 (340)
T 4fid_A          223 NEFLKGAVKLIFLNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKV  302 (340)
T ss_dssp             CGGGTTSEEEEEEECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEE
T ss_pred             hhccCCCeEEEEEECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcce
Confidence            43 35799999999999853211               13445544332 1                          236


Q ss_pred             CEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646         109 PFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus       109 ~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      .++++||+++.|++.+|..+.+.+.+
T Consensus       303 y~h~TsA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          303 YTNPTNATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             EEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEeeCcHHHHHHHHHHHHHHHH
Confidence            78999999999999999999999987

>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=99.75  E-value=5.7e-23  Score=146.35  Aligned_cols=121  Identities=23%  Similarity=0.443  Sum_probs=101.8

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ..+.+++..+.+++|||||++++..++..+++++|++|+|||++++.++..+. .|+..+... ..+.|+++|+||+|+.
T Consensus        69 ~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~-~~~~piilv~NK~Dl~  147 (204)
T 3th5_A           69 ANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLR  147 (204)
Confidence            34456677888999999999999999999999999999999999999999986 788777554 2378999999999997


Q ss_pred             CCc------------ccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          90 SKK------------AVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        90 ~~~------------~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ...            .+...++..+++.+++ +++++||++|.|++++|+++.+.+
T Consensus       148 ~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          148 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
Confidence            532            4455666677777786 899999999999999999998765

>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=99.83  E-value=2.3e-19  Score=126.66  Aligned_cols=129  Identities=40%  Similarity=0.623  Sum_probs=111.7

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    ...+.+++..+.+++||++|++++..++..+++.++++++|+|.++..+++.+..|+..+........|+
T Consensus        58 ~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i  137 (191)
T 1oix_A           58 SKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVI  137 (191)
T ss_dssp             CCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEE
T ss_pred             CCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcE
Confidence            345554    4567788999999999999999999999999999999999999999999999888888776554457899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++++||+|+...+.+...++..++...++.++++||+++.|++++|+++.+.+
T Consensus       138 ~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          138 MLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             EEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             EEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            99999999987666777888889988899999999999999999999998764

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.83  E-value=2.3e-20  Score=141.12  Aligned_cols=128  Identities=13%  Similarity=0.248  Sum_probs=104.0

Q ss_pred             cccccceeeeeeC-CeEEEEEEEeCCCchhh-----cccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc--CC
Q psy2646           4 LLPYQTLQNKKEE-RTRTLIVIWDTAGQERF-----RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA--CD   75 (168)
Q Consensus         4 ~~~t~~~~~~~~~-~~~~~l~l~Dt~G~~~~-----~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~   75 (168)
                      +.||++.....+. .+.+.+.+|||||++++     ..++..+++++|++|+|||++++++++.+..|...+....  .+
T Consensus        35 ~~~Ti~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~  114 (307)
T 3r7w_A           35 LGATIDVEHSHLRFLGNMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSP  114 (307)
T ss_dssp             CCCCCSEEEEEEEETTTEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCT
T ss_pred             cCCccceEEEEEEeCCceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCC
Confidence            5678877766654 23689999999999988     7788999999999999999999999999877766553321  45


Q ss_pred             CCcEEEEEecCCCCC--Ccc----cCHHHHHHHHHhcC---CCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTS--KKA----VDYQVAKEYADHLK---IPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        76 ~~piivv~nK~Dl~~--~~~----v~~~~~~~~~~~~~---~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +.|+++++||+|+..  .+.    +..+++.++++.++   ++++++||++ .++.++|..++..+
T Consensus       115 ~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~~~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          115 DAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             TCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEEEECCTTS-SHHHHHHHHHHHTT
T ss_pred             CCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEEEEeeecC-ChHHHHHHHHHHHH
Confidence            799999999999976  343    55567778888887   7999999999 89999998887644

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.83  E-value=1.1e-20  Score=139.30  Aligned_cols=117  Identities=20%  Similarity=0.273  Sum_probs=93.1

Q ss_pred             eCCeEEEEEEEe-----------------------CCCchhhcccchhhhc---------------------CCcEEEEE
Q psy2646          15 EERTRTLIVIWD-----------------------TAGQERFRTITSSYYR---------------------GAHGIIVV   50 (168)
Q Consensus        15 ~~~~~~~l~l~D-----------------------t~G~~~~~~~~~~~~~---------------------~~d~~i~v   50 (168)
                      +++..+.++|||                       ++|+++|..++..+++                     ++|++|+|
T Consensus        90 ~~~~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV  169 (255)
T 3c5h_A           90 EDCVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLG  169 (255)
T ss_dssp             ------CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEE
T ss_pred             cCCcEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEE
Confidence            467889999999                       7888888888888888                     89999999


Q ss_pred             EeCCCh--hhHHHHHHHHHHHHHh-cCCCCcEEEEEecCCCCCCcccCHHHHHHHHHh-cCCCEEEEeccCCCCHHHHHH
Q psy2646          51 YDCTDQ--ETFNNLKQWLEEIDRY-ACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADH-LKIPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        51 ~d~~~~--~s~~~~~~~~~~i~~~-~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~-~~~~~~~vSa~~~~~i~~i~~  126 (168)
                      ||++++  .+|+.+..|+..+... ...+.|+++|+||+|+...+.+  +++..++.. .+++++++||+++.|++++|+
T Consensus       170 ~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~  247 (255)
T 3c5h_A          170 IDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFS  247 (255)
T ss_dssp             EECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHH
T ss_pred             EECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHH
Confidence            999998  8999999999988654 2357999999999999765444  466667765 478999999999999999999


Q ss_pred             HHHHHHH
Q psy2646         127 TMATEIK  133 (168)
Q Consensus       127 ~l~~~~~  133 (168)
                      ++.+.+.
T Consensus       248 ~l~~~l~  254 (255)
T 3c5h_A          248 TLVQLID  254 (255)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            9998763

>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=99.80  E-value=6.2e-20  Score=131.39  Aligned_cols=119  Identities=22%  Similarity=0.311  Sum_probs=84.0

Q ss_pred             eeeCCe-EEEEEEEeCCCchhhcc-cchhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHH-HH--hcCCCCcEEEEEecC
Q psy2646          13 KKEERT-RTLIVIWDTAGQERFRT-ITSSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEI-DR--YACDNVNKLLVGNKN   86 (168)
Q Consensus        13 ~~~~~~-~~~l~l~Dt~G~~~~~~-~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i-~~--~~~~~~piivv~nK~   86 (168)
                      +.+++. .+.+.+|||||+++|.. ++..|++++|++|+|||+++.. ++.....|+..+ ..  ....+.|+++|+||+
T Consensus        46 ~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~  125 (214)
T 2fh5_B           46 YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQ  125 (214)
T ss_dssp             EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECT
T ss_pred             EEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECC
Confidence            444543 68899999999999988 8889999999999999999854 455555544443 22  123478999999999


Q ss_pred             CCCCCcccCH--HHHHHHHH---------------------------------hc--CCCEEEEeccCC------CCHHH
Q psy2646          87 DQTSKKAVDY--QVAKEYAD---------------------------------HL--KIPFLETSAKNG------ANVEQ  123 (168)
Q Consensus        87 Dl~~~~~v~~--~~~~~~~~---------------------------------~~--~~~~~~vSa~~~------~~i~~  123 (168)
                      |+........  ........                                 .+  +++|+++||++|      .|+++
T Consensus       126 Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~  205 (214)
T 2fh5_B          126 DIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQD  205 (214)
T ss_dssp             TSTTCCCHHHHHHHHHHHHHHHHHHCC------------CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHH
T ss_pred             CCCCcccHHHHHHHHHHHHHHHhccchhccccccCCccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHH
Confidence            9976433211  01111100                                 11  567999999999      99999


Q ss_pred             HHHHHHHH
Q psy2646         124 AFLTMATE  131 (168)
Q Consensus       124 i~~~l~~~  131 (168)
                      +|+++.+.
T Consensus       206 lf~~l~~~  213 (214)
T 2fh5_B          206 LEKWLAKI  213 (214)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99999865

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.79  E-value=2.6e-19  Score=134.97  Aligned_cols=120  Identities=19%  Similarity=0.205  Sum_probs=96.1

Q ss_pred             ccccccceeeee-eCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEE
Q psy2646           3 LLLPYQTLQNKK-EERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         3 ~~~~t~~~~~~~-~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~pii   80 (168)
                      .+.||++..... +..+. .+++|||  +++|+.+++.|++++|++|+|||+++++ ++..+..|+..+..   .+.|++
T Consensus        46 ~~~pTiGd~~~~~~~~~~-~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~~~l~~~~~---~~~pii  119 (301)
T 1u0l_A           46 NLKIYVGDRVEYTPDETG-SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIIDKFLVLAEK---NELETV  119 (301)
T ss_dssp             TCCCCTTCEEEEECCCSS-SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEE
T ss_pred             CCCCCCccEEEEEEcCCC-eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---CCCCEE
Confidence            367898843321 22222 6899999  8999999999999999999999999987 78888999987754   378999


Q ss_pred             EEEecCCCCCCcccCHHHHHHHHHhcC--CCEEEEeccCCCCHHHHHHHHHH
Q psy2646          81 LVGNKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~~~~~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      +|+||+|+.+.+.+  +++..+++.++  ++++++||++|.|++++|..+..
T Consensus       120 lv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          120 MVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             EEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             EEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            99999999764433  34556666666  89999999999999999987753

>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=99.79  E-value=1.4e-19  Score=124.73  Aligned_cols=107  Identities=16%  Similarity=0.151  Sum_probs=83.6

Q ss_pred             EEEEEEEeCCCchhhcc------cchhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRT------ITSSYYR--GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~------~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      +..+.+|||||++++..      +...|++  ++|++++|+|+++.+.   ...|+..+...   +.|+++|+||+|+..
T Consensus        49 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~---~~~~~~~~~~~---~~p~ilv~nK~Dl~~  122 (165)
T 2wji_A           49 GEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATALER---NLYLTLQLMEM---GANLLLALNKMDLAK  122 (165)
T ss_dssp             TEEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEEETTCHHH---HHHHHHHHHHT---TCCEEEEEECHHHHH
T ss_pred             CcEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEecCCchhH---hHHHHHHHHhc---CCCEEEEEEchHhcc
Confidence            36799999999987753      3356665  8999999999998543   34566666543   689999999999865


Q ss_pred             CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      .+.+.. ++..+++.++++++++||++|.|++++|+++.+.+
T Consensus       123 ~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v~~l~~~l~~~~  163 (165)
T 2wji_A          123 SLGIEI-DVDKLEKILGVKVVPLSAAKKMGIEELKKAISIAV  163 (165)
T ss_dssp             HTTCCC-CHHHHHHHHTSCEEECBGGGTBSHHHHHHHHHHHT
T ss_pred             ccChhh-HHHHHHHHhCCCEEEEEcCCCCCHHHHHHHHHHHh
Confidence            444432 35667778889999999999999999999998764

>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=99.79  E-value=8.6e-19  Score=126.89  Aligned_cols=118  Identities=22%  Similarity=0.229  Sum_probs=87.5

Q ss_pred             eEEEEEEEeCCCc------hh----hcccchhhhcCCcEEEEEEeCCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646          18 TRTLIVIWDTAGQ------ER----FRTITSSYYRGAHGIIVVYDCTDQETFN--NLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus        18 ~~~~l~l~Dt~G~------~~----~~~~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      ....+.||||||+      ++    +. .+..++..+|++|+|||++++.++.  ....|+..+... ..+.|+++|+||
T Consensus        74 ~~~~~~l~DtpG~~~~~~~~~~~~~~~-~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~-~~~~piilv~nK  151 (228)
T 2qu8_A           74 KLNKYQIIDTPGLLDRAFENRNTIEMT-TITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSV-FSNKSIVIGFNK  151 (228)
T ss_dssp             TTEEEEEEECTTTTTSCGGGCCHHHHH-HHHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTC-C-CCCEEEEEEC
T ss_pred             CCCeEEEEECCCCcCcccchhhhHHHH-HHHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHh-hcCCcEEEEEeC
Confidence            3478999999998      33    22 2234578899999999999987764  233455555432 237899999999


Q ss_pred             CCCCCCcccCHH---HHHHHHHhcC--CCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          86 NDQTSKKAVDYQ---VAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        86 ~Dl~~~~~v~~~---~~~~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +|+...+.+...   ....++...+  ++++++||++|.|++++|+++.+.+.+...
T Consensus       152 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~  208 (228)
T 2qu8_A          152 IDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGVGVEQAKITACELLKNDQA  208 (228)
T ss_dssp             GGGCC--CCCHHHHHHHHHHHHHCCSCEEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             cccCCchhhHHHHHHHHHHHHHhcCCCceEEEEecccCCCHHHHHHHHHHHHHHHHH
Confidence            999876666544   3455666666  899999999999999999999999876654

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.78  E-value=3.9e-18  Score=118.25  Aligned_cols=119  Identities=16%  Similarity=0.120  Sum_probs=85.1

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ...+.+++.  .+.+|||||+++|..++..++..+|++++|||+++....... .++..+.   ..+.|+++|+||+|+.
T Consensus        47 ~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~-~~l~~~~---~~~~p~ilv~nK~Dl~  120 (178)
T 2lkc_A           47 AYQVTVNDK--KITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTV-EAINHAK---AANVPIIVAINKMDKP  120 (178)
T ss_dssp             CCEEEETTE--EEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTCCCCHHHH-HHHHHHG---GGSCCEEEEEETTTSS
T ss_pred             EEEEEeCCc--eEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHH-HHHHHHH---hCCCCEEEEEECccCC
Confidence            444555554  577999999999999999999999999999999884221111 1222222   2368999999999997


Q ss_pred             CCcccCHHHHHHHHHh-------cC--CCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          90 SKKAVDYQVAKEYADH-------LK--IPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~-------~~--~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ..   ...+.......       ++  ++++++||++|.|++++|+++.+.+...+.
T Consensus       121 ~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~~  174 (178)
T 2lkc_A          121 EA---NPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLEMILLVSEMEEL  174 (178)
T ss_dssp             CS---CHHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSHHHHHHHHHHHHHHHHTTT
T ss_pred             cC---CHHHHHHHHHhcCcChhHcCCcccEEEEecCCCCCHHHHHHHHHHhhhhhcc
Confidence            53   12222222222       22  589999999999999999999988776543

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.76  E-value=2.1e-18  Score=139.21  Aligned_cols=116  Identities=21%  Similarity=0.332  Sum_probs=95.8

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCH
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDY   96 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~   96 (168)
                      +..+.+.+|||||++.|..++..+++.+|++|+|||+++.   +....|+..+... ..+.|+++|+||+|+...+.+..
T Consensus        95 ~~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~-~~~~pvilV~NK~Dl~~~~~v~~  170 (535)
T 3dpu_A           95 LKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSRTD---SNKHYWLRHIEKY-GGKSPVIVVMNKIDENPSYNIEQ  170 (535)
T ss_dssp             TTTCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEECGGGG---GGHHHHHHHHHHH-SSSCCEEEEECCTTTCTTCCCCH
T ss_pred             CceEEEEEEECCcHHHHHHHHHHHccCCcEEEEEEeCCCc---hhHHHHHHHHHHh-CCCCCEEEEEECCCcccccccCH
Confidence            4468999999999999999999999999999999999865   5567788888666 34689999999999987777787


Q ss_pred             HHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          97 QVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        97 ~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      +++..++...+++++++||++|.|++++|+++.+.+....
T Consensus       171 ~~~~~~~~~~~~~~~~vSA~~g~gi~eL~~~l~~~~~~~~  210 (535)
T 3dpu_A          171 KKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLHPD  210 (535)
T ss_dssp             HHHHHHCGGGTTCEEECCC-----CTTHHHHHHHHHTCTT
T ss_pred             HHHHHHHHhcCCceEEEecCcccCHHHHHHHHHHHHhccc
Confidence            8888888888999999999999999999999998876543

>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=99.75  E-value=1.6e-18  Score=121.47  Aligned_cols=114  Identities=24%  Similarity=0.306  Sum_probs=85.3

Q ss_pred             EEEEEeCCC-----------chhhcccchhhhcC-CcEEEEEEeCCChhhHHHH-HHHHHH--------H-HHhcCCCCc
Q psy2646          21 LIVIWDTAG-----------QERFRTITSSYYRG-AHGIIVVYDCTDQETFNNL-KQWLEE--------I-DRYACDNVN   78 (168)
Q Consensus        21 ~l~l~Dt~G-----------~~~~~~~~~~~~~~-~d~~i~v~d~~~~~s~~~~-~~~~~~--------i-~~~~~~~~p   78 (168)
                      .+.+|||||           ++.+..++..++++ +++++++|++.+..++..+ ..|...        + ......+.|
T Consensus        45 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p  124 (190)
T 2cxx_A           45 NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIP  124 (190)
T ss_dssp             TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCC
T ss_pred             CEEEEECCCccccccCCHHHHHHHHHHHHHHHHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCc
Confidence            588999999           67788888888887 7776666666666677665 455432        1 111234799


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCC-------EEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIP-------FLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~-------~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +++|+||+|+....   .+.+..+++.++.+       ++++||++|.|++++|+++.+.+.+...
T Consensus       125 iilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~  187 (190)
T 2cxx_A          125 TIVAVNKLDKIKNV---QEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQG  187 (190)
T ss_dssp             EEEEEECGGGCSCH---HHHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC--
T ss_pred             eEEEeehHhccCcH---HHHHHHHHHHhhhhhhccCCcEEEEecCCCCCHHHHHHHHHHhcchhhc
Confidence            99999999997654   45666777777764       7999999999999999999998876443

>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=99.75  E-value=3.5e-18  Score=126.21  Aligned_cols=120  Identities=20%  Similarity=0.157  Sum_probs=92.6

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccc------hhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTIT------SSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN   78 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~------~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p   78 (168)
                      |+..+...++..+..+.||||||+..+...+      ..|+  ..+|++++|+|+++.++.   ..|...+...   +.|
T Consensus        39 tv~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~~~~~---~~~~~~l~~~---~~p  112 (258)
T 3a1s_A           39 TVEKKEGVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNPEQS---LYLLLEILEM---EKK  112 (258)
T ss_dssp             CCEEEEEEEEETTEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTSCHHH---HHHHHHHHTT---TCC
T ss_pred             eEEEEEEEEEECCeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCchhhH---HHHHHHHHhc---CCC
Confidence            4455566666556889999999998876543      5565  589999999999986543   3355555443   799


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +++++||+|+...+.+. .....+++.++++++++||++|.|++++|+++.+.+.
T Consensus       113 vilv~NK~Dl~~~~~i~-~~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          113 VILAMTAIDEAKKTGMK-IDRYELQKHLGIPVVFTSSVTGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             EEEEEECHHHHHHTTCC-BCHHHHHHHHCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEEEEECcCCCCccchH-HHHHHHHHHcCCCEEEEEeeCCcCHHHHHHHHHHHhh
Confidence            99999999986544443 2356788888999999999999999999999988754

>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=99.74  E-value=1.1e-17  Score=126.44  Aligned_cols=123  Identities=18%  Similarity=0.142  Sum_probs=96.1

Q ss_pred             cceeeeeeCCe-EEEEEEEeCCCchhhc----------ccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCC
Q psy2646           8 QTLQNKKEERT-RTLIVIWDTAGQERFR----------TITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN   76 (168)
Q Consensus         8 ~~~~~~~~~~~-~~~l~l~Dt~G~~~~~----------~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~   76 (168)
                      .......+... ..++.||||||+..+.          ..+..+++.+|++++|+|+++..++.+...|+..+...   +
T Consensus        46 ~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~---~  122 (308)
T 3iev_A           46 RMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPL---N  122 (308)
T ss_dssp             CSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGG---C
T ss_pred             eeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhc---C
Confidence            33333334444 6889999999985433          45677889999999999999988888877777777553   6


Q ss_pred             CcEEEEEecCCCCCCcccCHHHHHHHHHhcC--CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          77 VNKLLVGNKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        77 ~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .|+++|+||+|+...+.........+.+.++  .+++++||++|.|++++|+++...+.
T Consensus       123 ~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~vSA~~g~gv~~L~~~l~~~l~  181 (308)
T 3iev_A          123 KPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGANLDELVKTILKYLP  181 (308)
T ss_dssp             CCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             CCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEEEeCCCCCCHHHHHHHHHHhCc
Confidence            8999999999997434444566667777765  78999999999999999999998764

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.74  E-value=2.1e-18  Score=120.84  Aligned_cols=118  Identities=15%  Similarity=0.147  Sum_probs=89.9

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhc------ccchhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEE
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFR------TITSSYYR--GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLV   82 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~------~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv   82 (168)
                      ....+...+..+.+|||||++++.      .++..++.  .+|++++|+|.++   ++....|+..+..   .+.|++++
T Consensus        45 ~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~---~~~piilv  118 (188)
T 2wjg_A           45 KEGEFEYNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATA---LERNLYLTLQLME---MGANLLLA  118 (188)
T ss_dssp             EEEEEEETTEEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEEEGGG---HHHHHHHHHHHHT---TTCCEEEE
T ss_pred             eEEEEEeCCcEEEEEECCCcCccccccHHHHHHHHHHhccCCCEEEEEecchh---HHHHHHHHHHHHh---cCCCEEEE
Confidence            333343344789999999998775      34566665  4999999999986   4555667766644   36899999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +||+|+...+.+. ..+..+++.++++++++||+++.|++++|+++.+.+...
T Consensus       119 ~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~~~~~  170 (188)
T 2wjg_A          119 LNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMGIEELKKAISIAVKDK  170 (188)
T ss_dssp             EECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBSHHHHHHHHHHHHTTC
T ss_pred             EEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCCHHHHHHHHHHHHHhc
Confidence            9999986544443 345677888889999999999999999999999887543

>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=99.73  E-value=1.8e-17  Score=116.70  Aligned_cols=118  Identities=14%  Similarity=0.204  Sum_probs=85.8

Q ss_pred             cceeeeeeCCeEEEEEEEeCCC----------chhhcccchhhhcCC---cEEEEEEeCCChhhHHHHHHHHHHHHHhcC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAG----------QERFRTITSSYYRGA---HGIIVVYDCTDQETFNNLKQWLEEIDRYAC   74 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G----------~~~~~~~~~~~~~~~---d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~   74 (168)
                      .......+++   .+.+|||||          ++.+..++..+++.+   |++++|+|++++.++.+.. ++..+..   
T Consensus        60 ~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---  132 (195)
T 1svi_A           60 QTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---  132 (195)
T ss_dssp             CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH---
T ss_pred             eeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---
Confidence            3344444444   589999999          778888888888877   9999999999876666532 2222322   


Q ss_pred             CCCcEEEEEecCCCCCCcccCH--HHHHH-HHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          75 DNVNKLLVGNKNDQTSKKAVDY--QVAKE-YADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        75 ~~~piivv~nK~Dl~~~~~v~~--~~~~~-~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      .+.|+++|+||+|+...+.+..  +++.+ +....+.+++++||+++.|++++|+++.+.+
T Consensus       133 ~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l  193 (195)
T 1svi_A          133 YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCceEEEEccCCCCHHHHHHHHHHHh
Confidence            3689999999999977554432  22222 2223457999999999999999999998765

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.73  E-value=6e-18  Score=115.37  Aligned_cols=104  Identities=15%  Similarity=0.141  Sum_probs=76.0

Q ss_pred             EEEEEEeCCCchh-------hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCc
Q psy2646          20 TLIVIWDTAGQER-------FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        20 ~~l~l~Dt~G~~~-------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~   92 (168)
                      ..+.+|||||++.       +...+..+++.+|++++|+|+++..+... ..+...+..   .+.|+++|+||+|+...+
T Consensus        49 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~p~ilv~nK~Dl~~~~  124 (161)
T 2dyk_A           49 GRFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAVDGRAELTQAD-YEVAEYLRR---KGKPVILVATKVDDPKHE  124 (161)
T ss_dssp             EEEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEEESSSCCCHHH-HHHHHHHHH---HTCCEEEEEECCCSGGGG
T ss_pred             ceEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEEECCCcccHhH-HHHHHHHHh---cCCCEEEEEECcccccch
Confidence            4788999999987       34455678899999999999998533322 112222222   268999999999996542


Q ss_pred             ccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          93 AVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        93 ~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                          +++.+++ .+++ +++++||+++.|++++|+++.+.+
T Consensus       125 ----~~~~~~~-~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          125 ----LYLGPLY-GLGFGDPIPTSSEHARGLEELLEAIWERL  160 (161)
T ss_dssp             ----GGCGGGG-GGSSCSCEECBTTTTBSHHHHHHHHHHHC
T ss_pred             ----HhHHHHH-hCCCCCeEEEecccCCChHHHHHHHHHhC
Confidence                2233444 5666 899999999999999999998753

>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=99.72  E-value=3.2e-18  Score=127.27  Aligned_cols=118  Identities=18%  Similarity=0.150  Sum_probs=91.9

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhc------ccchhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFR------TITSSYYR--GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN   78 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~------~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p   78 (168)
                      |+..+...++. ...+.+|||||++++.      .++..|+.  .+|++++|+|+++.++.   ..|...+...   +.|
T Consensus        37 tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~~e~~---~~~~~~l~~~---~~p  109 (272)
T 3b1v_A           37 TVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVVDATNLERN---LYLTTQLIET---GIP  109 (272)
T ss_dssp             CCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGGHHHH---HHHHHHHHHT---CSC
T ss_pred             cEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEecCCchHhH---HHHHHHHHhc---CCC
Confidence            45556667776 6789999999998876      34566775  69999999999986543   3455555443   789


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +++++||+|+...+.+. .....+++.++++++++||++|.|++++|+++.+.+
T Consensus       110 ~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~~  162 (272)
T 3b1v_A          110 VTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTGVDQVVKKAAHTT  162 (272)
T ss_dssp             EEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBSHHHHHHHHHHSC
T ss_pred             EEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCCHHHHHHHHHHHH
Confidence            99999999986544443 345677888899999999999999999999998764

>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=99.72  E-value=1.6e-18  Score=120.45  Aligned_cols=113  Identities=16%  Similarity=0.136  Sum_probs=82.5

Q ss_pred             eeeeeCCeEEEEEEEeCCCchhhccc--------chhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEE
Q psy2646          11 QNKKEERTRTLIVIWDTAGQERFRTI--------TSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLV   82 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~~~~~~--------~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv   82 (168)
                      ..+.+++  ..+.+|||||++++...        ...+++++|++++|||+++..+++ ...|+..+......+.|+++|
T Consensus        45 ~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~-~~~~~~~~~~~~~~~~p~ilv  121 (172)
T 2gj8_A           45 EHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVD-PAEIWPEFIARLPAKLPITVV  121 (172)
T ss_dssp             EEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCS-HHHHCHHHHHHSCTTCCEEEE
T ss_pred             EEEEECC--eEEEEEECCCcccchhHHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHH-HHHHHHHHHHhcccCCCEEEE
Confidence            4455565  35889999998653211        123688999999999999887765 346777775554457999999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +||+|+.+.. .      .++...+.+++++||+++.|++++|+++.+.+.
T Consensus       122 ~NK~Dl~~~~-~------~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~  165 (172)
T 2gj8_A          122 RNKADITGET-L------GMSEVNGHALIRLSARTGEGVDVLRNHLKQSMG  165 (172)
T ss_dssp             EECHHHHCCC-C------EEEEETTEEEEECCTTTCTTHHHHHHHHHHHC-
T ss_pred             EECccCCcch-h------hhhhccCCceEEEeCCCCCCHHHHHHHHHHHhh
Confidence            9999985421 1      122234678999999999999999999987754

>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=99.71  E-value=4.1e-18  Score=125.71  Aligned_cols=116  Identities=14%  Similarity=0.060  Sum_probs=85.4

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcc----------cchhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRT----------ITSSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN   76 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~----------~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~   76 (168)
                      ..+...+...+..+.||||||...+..          ++..|+  .++|++|+|+|+++.+++..+.   ..+..   .+
T Consensus        37 ~~~~~~~~~~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~~~~~~~l~---~~l~~---~~  110 (256)
T 3iby_A           37 EKKTGEFLLGEHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDACHLERHLYLT---SQLFE---LG  110 (256)
T ss_dssp             EEEEEEEEETTEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEEEGGGHHHHHHHH---HHHTT---SC
T ss_pred             EEEEEEEEECCeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeCCCchhHHHHH---HHHHH---cC
Confidence            344444443335899999999987764          456677  8999999999999866554433   33322   27


Q ss_pred             CcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          77 VNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        77 ~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      .|+++++||+|+...+.+.. ....+.+.++++++++||++|.|++++|+++.+.
T Consensus       111 ~pvilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          111 KPVVVALNMMDIAEHRGISI-DTEKLESLLGCSVIPIQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             SCEEEEEECHHHHHHTTCEE-CHHHHHHHHCSCEEECBGGGTBSHHHHHHHHHTC
T ss_pred             CCEEEEEEChhcCCcCCcHH-HHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            89999999999865433321 2345777789999999999999999999999875

>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=99.69  E-value=4.7e-17  Score=129.05  Aligned_cols=115  Identities=18%  Similarity=0.140  Sum_probs=88.1

Q ss_pred             EEEEEEeCCC----------chhhcccchh-hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          20 TLIVIWDTAG----------QERFRTITSS-YYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        20 ~~l~l~Dt~G----------~~~~~~~~~~-~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ..++||||||          +++|..++.. +++.+|++|+|+|+++..+. ....|...+...   +.|+++|+||+|+
T Consensus       243 ~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llviD~~~~~~~-~~~~~~~~~~~~---~~~~ilv~NK~Dl  318 (456)
T 4dcu_A          243 QEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIE-QDKRIAGYAHEA---GKAVVIVVNKWDA  318 (456)
T ss_dssp             EEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCH-HHHHHHHHHHHT---TCEEEEEEECGGG
T ss_pred             ceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhhCCEEEEEEeCCCCcCH-HHHHHHHHHHHc---CCCEEEEEEChhc
Confidence            3789999999          6777766554 78999999999999875332 223455555443   6899999999999


Q ss_pred             CCCcccCHHHHHHHHHhc-----CCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          89 TSKKAVDYQVAKEYADHL-----KIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~-----~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      ...+....++..+.+...     +++++++||++|.|++++|+++.+.+.....+
T Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~~~~  373 (456)
T 4dcu_A          319 VDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASENHSLR  373 (456)
T ss_dssp             SCCCSSHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHHTCC
T ss_pred             CCCchHHHHHHHHHHHHhcccCCCCCEEEEcCCCCcCHHHHHHHHHHHHHHhccc
Confidence            876666666666555443     47999999999999999999999888765543

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.69  E-value=1.8e-16  Score=111.18  Aligned_cols=108  Identities=13%  Similarity=0.246  Sum_probs=80.3

Q ss_pred             EEEEEeCCC----------chhhcccchhhhcCC---cEEEEEEeCCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646          21 LIVIWDTAG----------QERFRTITSSYYRGA---HGIIVVYDCTDQET--FNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus        21 ~l~l~Dt~G----------~~~~~~~~~~~~~~~---d~~i~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      .+.+|||||          ++.+..++..+++.+   |++++|+|+++..+  ...+..|+...      +.|+++|+||
T Consensus        69 ~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~------~~p~i~v~nK  142 (195)
T 3pqc_A           69 KYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL------NIPFTIVLTK  142 (195)
T ss_dssp             TEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT------TCCEEEEEEC
T ss_pred             cEEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc------CCCEEEEEEC
Confidence            578999999          777778888888776   99999999987533  33333343322      6899999999


Q ss_pred             CCCCCCcc--cCHHHHHHHHHhc-CCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          86 NDQTSKKA--VDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        86 ~Dl~~~~~--v~~~~~~~~~~~~-~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +|+.....  ...+++..++... +++++++||+++.|++++|+++.+.+.+
T Consensus       143 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          143 MDKVKMSERAKKLEEHRKVFSKYGEYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             GGGSCGGGHHHHHHHHHHHHHSSCCSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             hhcCChHHHHHHHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            99975432  2233445555553 4799999999999999999999987643

>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=99.68  E-value=2.2e-17  Score=122.92  Aligned_cols=120  Identities=16%  Similarity=0.147  Sum_probs=86.1

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhccc----------chhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTI----------TSSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC   74 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~----------~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~   74 (168)
                      |+..+...+...+..+.+|||||+..+...          +..|+  ..+|++|+|+|+++.+....   |...+...  
T Consensus        37 t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~~~~~~~---~~~~l~~~--  111 (274)
T 3i8s_A           37 TVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERNLY---LTLQLLEL--  111 (274)
T ss_dssp             SSEEEEEEEECSSCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEGGGHHHHHH---HHHHHHHH--
T ss_pred             eEEEEEEEEEeCCCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecCCChHHHHH---HHHHHHhc--
Confidence            344444555444567889999999876632          23333  79999999999998655443   34444443  


Q ss_pred             CCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          75 DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        75 ~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                       +.|+++|+||+|+.+.+.+. .....+.+.++++++++||++|.|++++|+++.+.+.
T Consensus       112 -~~p~ivv~NK~Dl~~~~~~~-~~~~~l~~~lg~~~i~~SA~~g~gi~el~~~i~~~~~  168 (274)
T 3i8s_A          112 -GIPCIVALNMLDIAEKQNIR-IEIDALSARLGCPVIPLVSTRGRGIEALKLAIDRYKA  168 (274)
T ss_dssp             -TCCEEEEEECHHHHHHTTEE-ECHHHHHHHHTSCEEECCCGGGHHHHHHHHHHHTCCC
T ss_pred             -CCCEEEEEECccchhhhhHH-HHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence             68999999999986543332 1245677778999999999999999999999876543

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.67  E-value=3.7e-16  Score=127.13  Aligned_cols=112  Identities=21%  Similarity=0.259  Sum_probs=90.3

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~   95 (168)
                      ++..+.+.||||||+.+|...+..+++.+|++|+|||+++..+......|.....    .+.|+++++||+|+....  .
T Consensus        67 ~g~~~~l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~--~  140 (599)
T 3cb4_D           67 DGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAAD--P  140 (599)
T ss_dssp             TSCEEEEEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--H
T ss_pred             CCCeEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCccccc--H
Confidence            5667899999999999999888999999999999999998766666666665542    268999999999997643  2


Q ss_pred             HHHHHHHHHhcCC---CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          96 YQVAKEYADHLKI---PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        96 ~~~~~~~~~~~~~---~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .....++.+.+++   +++++||++|.|++++|+++.+.+.
T Consensus       141 ~~v~~ei~~~lg~~~~~vi~vSAktg~GI~~Ll~~I~~~lp  181 (599)
T 3cb4_D          141 ERVAEEIEDIVGIDATDAVRCSAKTGVGVQDVLERLVRDIP  181 (599)
T ss_dssp             HHHHHHHHHHTCCCCTTCEEECTTTCTTHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHhCCCcceEEEeecccCCCchhHHHHHhhcCC
Confidence            2334456666665   5999999999999999999987653

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.67  E-value=1.2e-16  Score=114.71  Aligned_cols=125  Identities=14%  Similarity=0.120  Sum_probs=84.6

Q ss_pred             ccceeeeeeC-CeEEEEEEEeCCC----------chhhcccchhhhcC---CcEEEEEEeCCChhhHHHHHHHHHHHHHh
Q psy2646           7 YQTLQNKKEE-RTRTLIVIWDTAG----------QERFRTITSSYYRG---AHGIIVVYDCTDQETFNNLKQWLEEIDRY   72 (168)
Q Consensus         7 t~~~~~~~~~-~~~~~l~l~Dt~G----------~~~~~~~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~i~~~   72 (168)
                      |.......+. .....+.||||||          ++.+..++..|++.   +|++++|+|+++..+.. ...|+..+.. 
T Consensus        65 t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~-~~~~~~~l~~-  142 (223)
T 4dhe_A           65 TQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTEL-DRRMIEWFAP-  142 (223)
T ss_dssp             CCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHH-HHHHHHHHGG-
T ss_pred             ccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHH-HHHHHHHHHh-
Confidence            3444455555 4557899999999          45556666677766   78899999998753322 2334444443 


Q ss_pred             cCCCCcEEEEEecCCCCCCcccCH--HHHHH-HHHh------cCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          73 ACDNVNKLLVGNKNDQTSKKAVDY--QVAKE-YADH------LKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        73 ~~~~~piivv~nK~Dl~~~~~v~~--~~~~~-~~~~------~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                        .+.|+++|+||+|+.....+..  ..... +...      .+.+++++||+++.|++++|+++.+.+...
T Consensus       143 --~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          143 --TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDAGYAGKLTVQLFSALKRTGLDDAHALIESWLRPA  212 (223)
T ss_dssp             --GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC--
T ss_pred             --cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhcccCCCCeEEEeecCCCcCHHHHHHHHHHhcCcc
Confidence              3689999999999976433211  11222 2221      457899999999999999999999887544

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.66  E-value=9.3e-16  Score=118.08  Aligned_cols=127  Identities=14%  Similarity=0.127  Sum_probs=93.9

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcc---------cchhhhcCCcEEEEEEeCCChh--hHHHHHHHHHHHHHhcCC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRT---------ITSSYYRGAHGIIVVYDCTDQE--TFNNLKQWLEEIDRYACD   75 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~---------~~~~~~~~~d~~i~v~d~~~~~--s~~~~~~~~~~i~~~~~~   75 (168)
                      |.......+......+.+|||||...+..         ....+...+|++++|+|+++..  +++....|+..+.... .
T Consensus       201 t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~-~  279 (357)
T 2e87_A          201 TRGINVGQFEDGYFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEF-K  279 (357)
T ss_dssp             SSCEEEEEEEETTEEEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHT-T
T ss_pred             eeceeEEEEEecCceEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhc-C
Confidence            34444444443456799999999854321         1123445799999999998876  6777788888886643 2


Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      +.|+++|+||+|+.....+  .+...++...+++++++||++|.|++++|+++.+.+....
T Consensus       280 ~~piilV~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~iSA~~g~gi~~l~~~i~~~l~~~~  338 (357)
T 2e87_A          280 DLPFLVVINKIDVADEENI--KRLEKFVKEKGLNPIKISALKGTGIDLVKEEIIKTLRPLA  338 (357)
T ss_dssp             TSCEEEEECCTTTCCHHHH--HHHHHHHHHTTCCCEECBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccCChHHH--HHHHHHHHhcCCCeEEEeCCCCcCHHHHHHHHHHHHHHHH
Confidence            7899999999999764433  3455566677899999999999999999999999886543

>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=99.66  E-value=1.4e-16  Score=118.34  Aligned_cols=122  Identities=22%  Similarity=0.184  Sum_probs=89.1

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcc------cchhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRT------ITSSYY--RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~------~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +......+...+..+.+|||||+..+..      ++..|+  .++|++++|+|+++.+   ....|...+...  ...|+
T Consensus        38 ~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~---~~~~~~~~~~~~--~~~p~  112 (271)
T 3k53_A           38 VEKKEGIMEYREKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTCLM---RNLFLTLELFEM--EVKNI  112 (271)
T ss_dssp             CEEEEEEEEETTEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGGHH---HHHHHHHHHHHT--TCCSE
T ss_pred             EEeeEEEEEECCceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCCcch---hhHHHHHHHHhc--CCCCE
Confidence            3344444443445699999999988766      456666  6899999999999853   333444444443  13899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ++++||+|+...+.+.. ....+.+.++++++++||.+|.|+.++|+++...+...
T Consensus       113 ilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~~~~Sa~~g~gi~~l~~~i~~~~~~~  167 (271)
T 3k53_A          113 ILVLNKFDLLKKKGAKI-DIKKMRKELGVPVIPTNAKKGEGVEELKRMIALMAEGK  167 (271)
T ss_dssp             EEEEECHHHHHHHTCCC-CHHHHHHHHSSCEEECBGGGTBTHHHHHHHHHHHHHTC
T ss_pred             EEEEEChhcCcccccHH-HHHHHHHHcCCcEEEEEeCCCCCHHHHHHHHHHHHhcc
Confidence            99999999864333332 25567778899999999999999999999999877543

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.66  E-value=1.4e-16  Score=125.67  Aligned_cols=113  Identities=19%  Similarity=0.149  Sum_probs=85.2

Q ss_pred             EEEEEEeCCCc----------hhhcccch-hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          20 TLIVIWDTAGQ----------ERFRTITS-SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        20 ~~l~l~Dt~G~----------~~~~~~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ..++||||||+          ++|..++. .+++.+|++++|+|+++..++++. .|+..+...   +.|+++++||+|+
T Consensus       223 ~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~~---~~~iiiv~NK~Dl  298 (436)
T 2hjg_A          223 QEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHEA---GKAVVIVVNKWDA  298 (436)
T ss_dssp             EEEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHHT---TCEEEEEEECGGG
T ss_pred             eEEEEEECCCcCcCccccchHHHHHHHHHHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHHc---CCcEEEEEECccC
Confidence            35899999998          45544443 478899999999999998777765 466666443   6899999999999


Q ss_pred             CCCcccCHHHHHH-HHH----hcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          89 TSKKAVDYQVAKE-YAD----HLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        89 ~~~~~v~~~~~~~-~~~----~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      .+.+....++... +..    ..+++++++||++|.|++++|+.+.+.+....
T Consensus       299 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~SA~tg~~v~~l~~~i~~~~~~~~  351 (436)
T 2hjg_A          299 VDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASENHS  351 (436)
T ss_dssp             SCCCTTHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHHT
T ss_pred             CCcchHHHHHHHHHHHHhcccCCCCCEEEEecccCCCHHHHHHHHHHHHHHhh
Confidence            7655544333322 222    23579999999999999999999998877654

>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=99.66  E-value=1.8e-17  Score=118.86  Aligned_cols=103  Identities=17%  Similarity=0.269  Sum_probs=76.8

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcC----CcEEEEEEeCC-ChhhHHHHHHHHHHHHHh----cCCCCcEEEEEecCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRG----AHGIIVVYDCT-DQETFNNLKQWLEEIDRY----ACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~----~d~~i~v~d~~-~~~s~~~~~~~~~~i~~~----~~~~~piivv~nK~Dl   88 (168)
                      ....+.+|||||++++...+..+++.    +|++|+|||++ +++++..+..|+..+...    ...+.|+++|+||+|+
T Consensus        53 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  132 (218)
T 1nrj_B           53 DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL  132 (218)
T ss_dssp             GGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTS
T ss_pred             eCceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHh
Confidence            45678999999999998888888887    89999999999 888899888888887543    2357999999999999


Q ss_pred             CCCcccC------HHHHHHHHHhcCCCEEEEeccCCCC
Q psy2646          89 TSKKAVD------YQVAKEYADHLKIPFLETSAKNGAN  120 (168)
Q Consensus        89 ~~~~~v~------~~~~~~~~~~~~~~~~~vSa~~~~~  120 (168)
                      ...+.+.      .+++..++...+++++++||+++.+
T Consensus       133 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~Sa~~~~~  170 (218)
T 1nrj_B          133 FTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEE  170 (218)
T ss_dssp             TTCCCHHHHHHHHHHHHHHHHHHHHHHHHC--------
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHHhccccccccccccc
Confidence            8765543      3445566666677899999998865

>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=99.66  E-value=7.1e-16  Score=125.38  Aligned_cols=112  Identities=19%  Similarity=0.264  Sum_probs=90.5

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~   95 (168)
                      ++..+.+.||||||+.+|...+..+++.+|++|+|||+++..+.+....|.....    .+.|+++++||+|+....  .
T Consensus        69 dg~~~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~--~  142 (600)
T 2ywe_A           69 DGNTYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSAD--V  142 (600)
T ss_dssp             TSCEEEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--H
T ss_pred             CCCeEEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccC--H
Confidence            4567899999999999998888889999999999999999877777777765542    368999999999997643  2


Q ss_pred             HHHHHHHHHhcCC---CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          96 YQVAKEYADHLKI---PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        96 ~~~~~~~~~~~~~---~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .....++.+.+++   +++++||++|.|++++|+++.+.+.
T Consensus       143 ~~v~~el~~~lg~~~~~vi~vSAktg~GI~~Lle~I~~~lp  183 (600)
T 2ywe_A          143 DRVKKQIEEVLGLDPEEAILASAKEGIGIEEILEAIVNRIP  183 (600)
T ss_dssp             HHHHHHHHHTSCCCGGGCEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHhhCCCcccEEEEEeecCCCchHHHHHHHHhcc
Confidence            2334456666665   4999999999999999999987653

>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=99.65  E-value=3.9e-16  Score=124.14  Aligned_cols=110  Identities=21%  Similarity=0.158  Sum_probs=73.6

Q ss_pred             EEEEEEEeCCCchhhcccc--------hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTIT--------SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~--------~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      ++.+.||||||+.++...+        ..+++.+|++++|||++++.++..+..+...+...  .+.|+++|+||+|+..
T Consensus       280 g~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l--~~~piIvV~NK~Dl~~  357 (476)
T 3gee_A          280 KTMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAAH--PAAKFLTVANKLDRAA  357 (476)
T ss_dssp             TEEEEEEC--------------------CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHC--TTSEEEEEEECTTSCT
T ss_pred             CeEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhc--CCCCEEEEEECcCCCC
Confidence            3679999999998765443        34788999999999999987775433333333332  2689999999999976


Q ss_pred             CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .....   ...+.+....+++++||++|.|++++|+++.+.+.
T Consensus       358 ~~~~~---~~~l~~~~~~~~i~vSAktg~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          358 NADAL---IRAIADGTGTEVIGISALNGDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             TTHHH---HHHHHHHHTSCEEECBTTTTBSHHHHHHHHTHHHH
T ss_pred             ccchh---HHHHHhcCCCceEEEEECCCCCHHHHHHHHHHHHh
Confidence            54432   12344332378999999999999999999998876

>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=99.63  E-value=4.3e-16  Score=119.17  Aligned_cols=111  Identities=16%  Similarity=0.300  Sum_probs=88.4

Q ss_pred             EEEEEEeCCCchh----hcccchhhhc---CCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhc--CCCCcEEEEEecCC
Q psy2646          20 TLIVIWDTAGQER----FRTITSSYYR---GAHGIIVVYDCTD---QETFNNLKQWLEEIDRYA--CDNVNKLLVGNKND   87 (168)
Q Consensus        20 ~~l~l~Dt~G~~~----~~~~~~~~~~---~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~--~~~~piivv~nK~D   87 (168)
                      ..+.||||||..+    +..++..|++   .+|++|+|||+++   .++++.+..|+..+..+.  ....|+++|+||+|
T Consensus       206 ~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~D  285 (342)
T 1lnz_A          206 RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMD  285 (342)
T ss_dssp             CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTT
T ss_pred             ceEEEecCCCCcccccccchhHHHHHHHHHhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECcc
Confidence            5799999999743    3345555655   4999999999998   788999999999887653  24799999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcC--CCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +...+    +....+.+.++  .+++++||+++.|++++++++.+.+.+
T Consensus       286 l~~~~----e~~~~l~~~l~~~~~v~~iSA~tg~gi~eL~~~l~~~l~~  330 (342)
T 1lnz_A          286 MPEAA----ENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLEN  330 (342)
T ss_dssp             STTHH----HHHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTS
T ss_pred             CCCCH----HHHHHHHHHhhcCCCEEEEECCCCcCHHHHHHHHHHHHhh
Confidence            86532    34455666665  789999999999999999999988754

>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=99.63  E-value=8e-16  Score=120.23  Aligned_cols=112  Identities=20%  Similarity=0.216  Sum_probs=87.1

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--H
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--Y   96 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--~   96 (168)
                      ...+.||||||+++|...+..++..+|++|+|+|+++..++.....++..+....  ..|+++++||+|+.+.....  .
T Consensus        74 ~~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~  151 (403)
T 3sjy_A           74 LRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQY  151 (403)
T ss_dssp             EEEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHH
T ss_pred             cceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECccccchHHHHHHH
Confidence            3789999999999999988999999999999999998766777777777665542  35899999999997643221  1


Q ss_pred             HHHHHHHHhc---CCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          97 QVAKEYADHL---KIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        97 ~~~~~~~~~~---~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++..++....   +++++++||++|.|++++++++...+
T Consensus       152 ~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l  190 (403)
T 3sjy_A          152 RQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  190 (403)
T ss_dssp             HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHHHhhCCCCCEEEEEECCCCcChHHHHHHHHHhC
Confidence            2222333222   47899999999999999999998755

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.63  E-value=1.3e-16  Score=125.08  Aligned_cols=107  Identities=17%  Similarity=0.148  Sum_probs=85.1

Q ss_pred             EEEEEeCCCchhhcccc-------hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc
Q psy2646          21 LIVIWDTAGQERFRTIT-------SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA   93 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~-------~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~   93 (168)
                      .+.||||||++++..+.       ..++..+|++|+|||++..   .....|+..+...   +.|+++|+||+|+.....
T Consensus        84 ~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~~~~---~~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~  157 (423)
T 3qq5_A           84 PVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAPT---PYEDDVVNLFKEM---EIPFVVVVNKIDVLGEKA  157 (423)
T ss_dssp             EEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEECSSSCC---HHHHHHHHHHHHT---TCCEEEECCCCTTTTCCC
T ss_pred             eEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEEEEEeCCCh---HHHHHHHHHHHhc---CCCEEEEEeCcCCCCccH
Confidence            78999999998876553       4478899999999999433   2335566666555   689999999999987554


Q ss_pred             cCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          94 VDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        94 v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      .  +....+++.++++++++||++|.|++++|+++.+.+...
T Consensus       158 ~--~~~~~l~~~~g~~v~~vSAktg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          158 E--ELKGLYESRYEAKVLLVSALQKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             T--HHHHHSSCCTTCCCCCCSSCCTTSTTTHHHHHHHHSCCC
T ss_pred             H--HHHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHhhhhh
Confidence            3  455566777789999999999999999999999887433

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.61  E-value=1.7e-15  Score=117.03  Aligned_cols=123  Identities=7%  Similarity=0.015  Sum_probs=91.4

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEe
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-LLVGN   84 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ivv~n   84 (168)
                      .|+......++.....+.||||||+++|.......++.+|++|+|+| +. ..+.....++..+...   +.|. ++++|
T Consensus        46 iTi~~~~~~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~-g~~~qt~e~~~~~~~~---~i~~~ivvvN  120 (370)
T 2elf_A           46 TSSDITMYNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQ-GLDAHTGECIIALDLL---GFKHGIIALT  120 (370)
T ss_dssp             EESSSEEEEECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TT-CCCHHHHHHHHHHHHT---TCCEEEEEEC
T ss_pred             EEEEeeEEEEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CC-CCcHHHHHHHHHHHHc---CCCeEEEEEE
Confidence            45666666677666789999999999987777778899999999999 43 3455556666555444   5677 89999


Q ss_pred             -cCCCCCCcccCH--HHHHHHHHhcC---CCEEE--EeccC---CCCHHHHHHHHHHHHHH
Q psy2646          85 -KNDQTSKKAVDY--QVAKEYADHLK---IPFLE--TSAKN---GANVEQAFLTMATEIKK  134 (168)
Q Consensus        85 -K~Dl~~~~~v~~--~~~~~~~~~~~---~~~~~--vSa~~---~~~i~~i~~~l~~~~~~  134 (168)
                       |+|+ +.+.+..  +++..+.+.++   +++++  +||++   +.|++++++.+...+..
T Consensus       121 NK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~gi~~L~~~l~~~~~~  180 (370)
T 2elf_A          121 RSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEGVDELKARINEVAEK  180 (370)
T ss_dssp             CGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTTHHHHHHHHHHHHHH
T ss_pred             eccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCCHHHHHHHHHhhccc
Confidence             9999 5332222  34444554443   68999  99999   99999999999887654

>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=99.61  E-value=6.3e-15  Score=117.34  Aligned_cols=113  Identities=24%  Similarity=0.182  Sum_probs=83.1

Q ss_pred             eeeeCCeEEEEEEEeCCCch-hhcc--------cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEE
Q psy2646          12 NKKEERTRTLIVIWDTAGQE-RFRT--------ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLV   82 (168)
Q Consensus        12 ~~~~~~~~~~l~l~Dt~G~~-~~~~--------~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv   82 (168)
                      .+.+++  ..+.||||||.. ++..        ....+++.+|++|+|||++++.++++.. ++..+     .+.|+++|
T Consensus       285 ~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~-il~~l-----~~~piivV  356 (482)
T 1xzp_A          285 EIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRK-ILERI-----KNKRYLVV  356 (482)
T ss_dssp             EEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEE
T ss_pred             EEecCC--eEEEEEECCCccccchhhHHHHHHHHHHHHhhcccEEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEE
Confidence            344444  578999999987 5542        1245788999999999999887766533 33322     36899999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +||+|+...  +..++...+.. .+++++++||++|.|++++|+++.+.+...
T Consensus       357 ~NK~DL~~~--~~~~~~~~~~~-~~~~~i~iSAktg~Gi~eL~~~l~~~~~~~  406 (482)
T 1xzp_A          357 INKVDVVEK--INEEEIKNKLG-TDRHMVKISALKGEGLEKLEESIYRETQEI  406 (482)
T ss_dssp             EEECSSCCC--CCHHHHHHHHT-CSTTEEEEEGGGTCCHHHHHHHHHHHTHHH
T ss_pred             EECcccccc--cCHHHHHHHhc-CCCcEEEEECCCCCCHHHHHHHHHHHHhhh
Confidence            999999653  34444444432 457899999999999999999999986643

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.60  E-value=3.4e-15  Score=112.52  Aligned_cols=111  Identities=16%  Similarity=0.107  Sum_probs=89.0

Q ss_pred             CCeEEEEEEEe-CCC-----chhhcccchhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          16 ERTRTLIVIWD-TAG-----QERFRTITSSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        16 ~~~~~~l~l~D-t~G-----~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      -|+.+.+++|| +.|     +++++.+.+.+++++|++++|+|+++++ ++..+..|+..+...   +.|+++|+||+|+
T Consensus        46 vGD~V~~~~~~~~~g~I~~i~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~~---~~~~ilV~NK~DL  122 (302)
T 2yv5_A           46 AGDYVWGEVVDPNTFAIEEVEERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEYF---KVEPVIVFNKIDL  122 (302)
T ss_dssp             BTCEEEEEEEETTEEEEEEECCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHHT---TCEEEEEECCGGG
T ss_pred             CceEEEEEEccCCeEEEEeeCChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHhC---CCCEEEEEEcccC
Confidence            45667788887 433     6788888899999999999999999886 888888999877543   7899999999999


Q ss_pred             CCCcccC-HHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHH
Q psy2646          89 TSKKAVD-YQVAKEYADHLKIPFLETSAKNGANVEQAFLTMA  129 (168)
Q Consensus        89 ~~~~~v~-~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~  129 (168)
                      .+...+. .++...+.+.++++++++||+++.|+++++..+.
T Consensus       123 ~~~~~v~~~~~~~~~~~~~g~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          123 LNEEEKKELERWISIYRDAGYDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHTT
T ss_pred             CCccccHHHHHHHHHHHHCCCeEEEEECCCCCCHHHHHhhcc
Confidence            7643222 3445556667789999999999999999998654

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.60  E-value=6.3e-15  Score=118.56  Aligned_cols=80  Identities=18%  Similarity=0.095  Sum_probs=64.1

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......++.+++.+.||||||+.+|...+..+++.+|++|+|+|+++..+......|. .+..   .++|+++++||+
T Consensus        69 Ti~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~-~~~~---~~iPiivviNK~  144 (528)
T 3tr5_A           69 SVTTSVMQFPYKDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLME-VCRL---RHTPIMTFINKM  144 (528)
T ss_dssp             SSSSSEEEEEETTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHH-HHHT---TTCCEEEEEECT
T ss_pred             eEEEeEEEEEeCCEEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEeCC
Confidence            555666667667789999999999999998899999999999999999876665554443 3322   368999999999


Q ss_pred             CCCC
Q psy2646          87 DQTS   90 (168)
Q Consensus        87 Dl~~   90 (168)
                      |+..
T Consensus       145 Dl~~  148 (528)
T 3tr5_A          145 DRDT  148 (528)
T ss_dssp             TSCC
T ss_pred             CCcc
Confidence            9864

>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=99.59  E-value=2.7e-15  Score=119.61  Aligned_cols=109  Identities=17%  Similarity=0.219  Sum_probs=83.2

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCccc
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD---QETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAV   94 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v   94 (168)
                      ....+.||||||+++|...+..++..+|++|+|+|+++   +++.+.+.    .+...   +.|+++++||+|+.+....
T Consensus        71 ~~~~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~----~~~~~---~ip~IvviNK~Dl~~~~~~  143 (482)
T 1wb1_A           71 ENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHML----ILDHF---NIPIIVVITKSDNAGTEEI  143 (482)
T ss_dssp             TTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHH----HHHHT---TCCBCEEEECTTSSCHHHH
T ss_pred             CCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCCCccHHHHHHHH----HHHHc---CCCEEEEEECCCcccchhH
Confidence            34689999999999998888889999999999999987   34444332    23222   6888999999999753221


Q ss_pred             --CHHHHHHHHHhc----CCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          95 --DYQVAKEYADHL----KIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        95 --~~~~~~~~~~~~----~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                        ..++...+....    +++++++||++|.|+++++++|...+.
T Consensus       144 ~~~~~~l~~~l~~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          144 KRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             HHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhcccccceEEEEECcCCCCHHHHHHHHHHhhc
Confidence              123344455444    579999999999999999999998776

>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=99.59  E-value=3.3e-15  Score=119.20  Aligned_cols=115  Identities=17%  Similarity=0.161  Sum_probs=79.3

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHH------HHHHHHHHHHHhcCCCCcEE
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFN------NLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~------~~~~~~~~i~~~~~~~~pii   80 (168)
                      |+......++.....+.||||||+++|...+..++..+|++|+|||+++..++.      .....+......  ...|++
T Consensus        98 Ti~~~~~~~~~~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~--~~~~iI  175 (483)
T 3p26_A           98 TVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL--GIHNLI  175 (483)
T ss_dssp             SCCCCEEEEECSSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT--TCCCEE
T ss_pred             ceEeeeEEEecCCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc--CCCcEE
Confidence            555666777777889999999999999999999999999999999999864322      222222222222  235699


Q ss_pred             EEEecCCCCCCcccCHHHH----HHHHHhc-----CCCEEEEeccCCCCHHH
Q psy2646          81 LVGNKNDQTSKKAVDYQVA----KEYADHL-----KIPFLETSAKNGANVEQ  123 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~~~----~~~~~~~-----~~~~~~vSa~~~~~i~~  123 (168)
                      +++||+|+.+.+....++.    ..+...+     +++++++||++|.|+.+
T Consensus       176 vviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          176 IAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             EEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             EEEECcCcccchHHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            9999999976333222222    2233333     36899999999999975

>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=99.59  E-value=1.9e-15  Score=113.87  Aligned_cols=111  Identities=20%  Similarity=0.157  Sum_probs=79.2

Q ss_pred             eCCeEEEEEEEeCCCchh--------hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHH-HHHHHhcCCCCcEEEEEec
Q psy2646          15 EERTRTLIVIWDTAGQER--------FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWL-EEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus        15 ~~~~~~~l~l~Dt~G~~~--------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~-~~i~~~~~~~~piivv~nK   85 (168)
                      +..+..++.||||||..+        +......+++.+|++++|||+++..+..  ..|+ ..+... ..+.|+++|+||
T Consensus        50 ~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~-~~~~p~ilV~NK  126 (301)
T 1wf3_A           50 LTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPE--DELVARALKPL-VGKVPILLVGNK  126 (301)
T ss_dssp             EEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHH--HHHHHHHHGGG-TTTSCEEEEEEC
T ss_pred             EEeCCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEEEECCCCCChH--HHHHHHHHHhh-cCCCCEEEEEEC
Confidence            334467899999999875        3445567889999999999998764433  2343 444333 246899999999


Q ss_pred             CCCCCCcccCHHHHHHHHHh-cC-CCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADH-LK-IPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~-~~-~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +|+......    ....... .+ .+++++||++|.|++++|+++...+
T Consensus       127 ~Dl~~~~~~----~~~~~~~~~~~~~~~~iSA~~g~gv~~l~~~l~~~l  171 (301)
T 1wf3_A          127 LDAAKYPEE----AMKAYHELLPEAEPRMLSALDERQVAELKADLLALM  171 (301)
T ss_dssp             GGGCSSHHH----HHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHHTTC
T ss_pred             cccCCchHH----HHHHHHHhcCcCcEEEEeCCCCCCHHHHHHHHHHhc
Confidence            999754320    1222222 23 4789999999999999999998765

>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=99.59  E-value=1.1e-14  Score=113.89  Aligned_cols=108  Identities=21%  Similarity=0.266  Sum_probs=75.0

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh----hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc-
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ----ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA-   93 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~-   93 (168)
                      ...+.||||||+++|...+...+..+|++|+|+|+++.    ++++.+.    .+...  ...|+++++||+|+..... 
T Consensus        80 ~~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~l--~~~~iivv~NK~Dl~~~~~~  153 (408)
T 1s0u_A           80 LRRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLM----ALEIL--GIDKIIIVQNKIDLVDEKQA  153 (408)
T ss_dssp             EEEEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHH----HHHHT--TCCCEEEEEECTTSSCTTTT
T ss_pred             ccEEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHH----HHHHc--CCCeEEEEEEccCCCCHHHH
Confidence            37899999999999887777778889999999999953    4444333    22222  1358999999999976433 


Q ss_pred             -cCHHHHHHHHHh---cCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          94 -VDYQVAKEYADH---LKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        94 -v~~~~~~~~~~~---~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                       ...+++.++.+.   .+++++++||++|.|+++++++|...+
T Consensus       154 ~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i  196 (408)
T 1s0u_A          154 EENYEQIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFI  196 (408)
T ss_dssp             TTHHHHHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhC
Confidence             233455566654   257999999999999999999988654

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.58  E-value=9.4e-15  Score=115.32  Aligned_cols=118  Identities=16%  Similarity=0.141  Sum_probs=82.6

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhh---HH---HHHHHHHHHHHhcCCCCc-
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQET---FN---NLKQWLEEIDRYACDNVN-   78 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~~---~~~~~~~~i~~~~~~~~p-   78 (168)
                      .|+......++..+..+.||||||+++|...+..++..+|++|+|+|+++...   |+   .....+..+...   +.| 
T Consensus        81 iTid~~~~~~~~~~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~---~v~~  157 (439)
T 3j2k_7           81 KTVEVGRAYFETEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTA---GVKH  157 (439)
T ss_pred             ceEEEeEEEEecCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHc---CCCe
Confidence            45666666677777899999999999999888889999999999999987531   11   222222222222   566 


Q ss_pred             EEEEEecCCCCCCc--c----cCHHHHHHHHHhcC------CCEEEEeccCCCCHHHHHH
Q psy2646          79 KLLVGNKNDQTSKK--A----VDYQVAKEYADHLK------IPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        79 iivv~nK~Dl~~~~--~----v~~~~~~~~~~~~~------~~~~~vSa~~~~~i~~i~~  126 (168)
                      +++++||+|+....  .    ....+...+.+.++      ++++++||++|.|+.++++
T Consensus       158 iIvviNK~Dl~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          158 LIVLINKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             EEEEeecCCCcccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            99999999985321  1    11123334444443      5799999999999999766

>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=99.58  E-value=3.5e-15  Score=117.65  Aligned_cols=114  Identities=15%  Similarity=0.103  Sum_probs=81.3

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .....++.....+.||||||+++|...+..++..+|++|+|+|+++... .....++..+...  .-.|+++++||+|+.
T Consensus        94 ~~~~~~~~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~-~qt~~~l~~~~~~--~~~~iIvviNK~Dl~  170 (434)
T 1zun_B           94 VAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQ-TQTRRHSYIASLL--GIKHIVVAINKMDLN  170 (434)
T ss_dssp             CEEEEEECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSC-HHHHHHHHHHHHT--TCCEEEEEEECTTTT
T ss_pred             eeeeEeecCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCc-HHHHHHHHHHHHc--CCCeEEEEEEcCcCC
Confidence            3344455566789999999999998888889999999999999997532 2333444444333  123699999999997


Q ss_pred             CCcc--c--CHHHHHHHHHhcC-----CCEEEEeccCCCCHHHHHH
Q psy2646          90 SKKA--V--DYQVAKEYADHLK-----IPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        90 ~~~~--v--~~~~~~~~~~~~~-----~~~~~vSa~~~~~i~~i~~  126 (168)
                      +...  +  ...+...+++.++     ++++++||++|.|+.+++.
T Consensus       171 ~~~~~~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~  216 (434)
T 1zun_B          171 GFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKSE  216 (434)
T ss_dssp             TSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCCT
T ss_pred             cccHHHHHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCcccccc
Confidence            5321  1  1234455666666     6899999999999988544

>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=99.57  E-value=5.9e-15  Score=116.49  Aligned_cols=106  Identities=21%  Similarity=0.293  Sum_probs=76.6

Q ss_pred             EEEEEEeCCCchh---------hcccchhhhcCCcEEEEEEeCCChhhHHH--HHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646          20 TLIVIWDTAGQER---------FRTITSSYYRGAHGIIVVYDCTDQETFNN--LKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        20 ~~l~l~Dt~G~~~---------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ..+++|||||++.         +...+..+++++|++++|||+++..+..+  +..|+.   ..   +.|+++|+||+|+
T Consensus        49 ~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il~V~D~~~~~~~~d~~i~~~l~---~~---~~p~ilv~NK~D~  122 (439)
T 1mky_A           49 KTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLR---KS---TVDTILVANKAEN  122 (439)
T ss_dssp             EEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHH---HH---TCCEEEEEESCCS
T ss_pred             eEEEEEECCCccccccchHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHH---Hc---CCCEEEEEeCCCC
Confidence            4688999999764         23445678999999999999987544332  233332   22   6899999999997


Q ss_pred             CCCcccCHHHH-HHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVA-KEYADHLKI-PFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        89 ~~~~~v~~~~~-~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ...  . .... .++. .+++ +++++||.+|.|+.++|+++...+...
T Consensus       123 ~~~--~-~~~~~~~~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          123 LRE--F-EREVKPELY-SLGFGEPIPVSAEHNINLDTMLETIIKKLEEK  167 (439)
T ss_dssp             HHH--H-HHHTHHHHG-GGSSCSCEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             ccc--c-HHHHHHHHH-hcCCCCEEEEeccCCCCHHHHHHHHHHhcccc
Confidence            432  1 1222 3343 4566 789999999999999999999888653

>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=99.57  E-value=2.9e-15  Score=117.12  Aligned_cols=110  Identities=13%  Similarity=0.110  Sum_probs=80.4

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEec
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNK   85 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK   85 (168)
                      |+......++.....+.||||||+++|...+..++..+|++|+|+|+++... .....++..+...   +.| +++++||
T Consensus        62 Ti~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~-~qt~~~l~~~~~~---~ip~iivviNK  137 (405)
T 2c78_A           62 TINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQV---GVPYIVVFMNK  137 (405)
T ss_dssp             CCSCEEEEEECSSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCC-HHHHHHHHHHHHT---TCCCEEEEEEC
T ss_pred             CEEeeeeEeccCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEEEC
Confidence            4445556666666789999999999998888889999999999999987643 3345555555443   578 8999999


Q ss_pred             CCCCCCcc-c--CHHHHHHHHHhcC-----CCEEEEeccCCCC
Q psy2646          86 NDQTSKKA-V--DYQVAKEYADHLK-----IPFLETSAKNGAN  120 (168)
Q Consensus        86 ~Dl~~~~~-v--~~~~~~~~~~~~~-----~~~~~vSa~~~~~  120 (168)
                      +|+..... +  ...+...+.+.++     ++++++||++|.|
T Consensus       138 ~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~~  180 (405)
T 2c78_A          138 VDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLALE  180 (405)
T ss_dssp             GGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHH
T ss_pred             ccccCcHHHHHHHHHHHHHHHHHhcccccCCCEEEccHHHhhh
Confidence            99974221 1  1124445555554     6899999999987

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=99.56  E-value=1.7e-15  Score=107.29  Aligned_cols=105  Identities=9%  Similarity=0.023  Sum_probs=69.0

Q ss_pred             CCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHH----HHhc-CCCCcEEEEEecC-CCCCCcccCHHHHH
Q psy2646          27 TAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI----DRYA-CDNVNKLLVGNKN-DQTSKKAVDYQVAK  100 (168)
Q Consensus        27 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i----~~~~-~~~~piivv~nK~-Dl~~~~~v~~~~~~  100 (168)
                      .+||+.++++|+.|+.++|++|||+|.+|.+.++ ...-+..+    .... ..+.|++|++||. |+++  .++..++.
T Consensus       109 ~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~--Ams~~EI~  185 (227)
T 3l82_B          109 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLA  185 (227)
T ss_dssp             --------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSC--BCCHHHHH
T ss_pred             cCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccC--CCCHHHHH
Confidence            4589999999999999999999999999875433 33333222    1211 2578999999995 7754  34444443


Q ss_pred             HHHH----hcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646         101 EYAD----HLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus       101 ~~~~----~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +...    .+.+.+..|||.+|+|+.+.++||...+..
T Consensus       186 e~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~  223 (227)
T 3l82_B          186 HELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVES  223 (227)
T ss_dssp             HHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTT
T ss_pred             HHcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHh
Confidence            3221    234789999999999999999999976643

>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=99.56  E-value=6.8e-15  Score=114.74  Aligned_cols=121  Identities=15%  Similarity=0.089  Sum_probs=84.4

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEec
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNK   85 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK   85 (168)
                      |+......++.....+.||||||+++|...+..+++.+|++|+|+|+++....+. ..++..+...   +.| +++++||
T Consensus        53 Ti~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt-~e~l~~~~~~---~vp~iivviNK  128 (397)
T 1d2e_A           53 TINAAHVEYSTAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQT-REHLLLARQI---GVEHVVVYVNK  128 (397)
T ss_dssp             EEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHH-HHHHHHHHHT---TCCCEEEEEEC
T ss_pred             EEEeeeEEeccCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCCCHHH-HHHHHHHHHc---CCCeEEEEEEC
Confidence            4444555566666789999999999998888888999999999999998533332 2233333333   678 6899999


Q ss_pred             CCCCCCcc-c--CHHHHHHHHHhcC-----CCEEEEeccCCCC----------HHHHHHHHHHH
Q psy2646          86 NDQTSKKA-V--DYQVAKEYADHLK-----IPFLETSAKNGAN----------VEQAFLTMATE  131 (168)
Q Consensus        86 ~Dl~~~~~-v--~~~~~~~~~~~~~-----~~~~~vSa~~~~~----------i~~i~~~l~~~  131 (168)
                      +|+.+... +  ...+..++.+.++     ++++++||++|.|          +.++++.+...
T Consensus       129 ~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~  192 (397)
T 1d2e_A          129 ADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTY  192 (397)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHH
T ss_pred             cccCCCHHHHHHHHHHHHHHHHHcCCCcccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHh
Confidence            99974221 1  1234555666555     6899999999765          66666666554

>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=99.56  E-value=3.2e-15  Score=117.90  Aligned_cols=120  Identities=14%  Similarity=0.099  Sum_probs=81.5

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh----cCCC-CcEE
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY----ACDN-VNKL   80 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~----~~~~-~pii   80 (168)
                      .|+......++.....+.||||||+++|...+..++..+|++|+|||+++ .+|+....|..+..++    ...+ .|++
T Consensus        70 iTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~ii  148 (435)
T 1jny_A           70 VTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLI  148 (435)
T ss_dssp             -------CEEECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCE
T ss_pred             ceeEeeEEEEecCCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEE
Confidence            35555555666777889999999999999888889999999999999998 6676443332222111    0113 4689


Q ss_pred             EEEecCCCCCCc--c----cCHHHHHHHHHhcC-----CCEEEEeccCCCCHHHHHH
Q psy2646          81 LVGNKNDQTSKK--A----VDYQVAKEYADHLK-----IPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        81 vv~nK~Dl~~~~--~----v~~~~~~~~~~~~~-----~~~~~vSa~~~~~i~~i~~  126 (168)
                      +++||+|+.+..  .    ...+++..++..++     ++++++||++|.|+.+++.
T Consensus       149 vviNK~Dl~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          149 VAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             EEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             EEEEcccCCCccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            999999997521  1    11234555666555     6799999999999986654

>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=99.55  E-value=1e-15  Score=121.69  Aligned_cols=120  Identities=18%  Similarity=0.128  Sum_probs=68.0

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChh---hHHHHHHHHHHHHHhcCCCCc-EEE
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE---TFNNLKQWLEEIDRYACDNVN-KLL   81 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~~~~~~~~i~~~~~~~~p-iiv   81 (168)
                      .|+......+......+.||||||+++|...+..++..+|++|+|||+++..   +|+....+...+......++| +++
T Consensus       107 iTi~~~~~~~~~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iiv  186 (467)
T 1r5b_A          107 KTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVV  186 (467)
T ss_dssp             ------CCEEECSSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEE
T ss_pred             ceEEeeeEEEecCCeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEE
Confidence            4555554455545678999999999999988888899999999999999752   332211222222111122577 999


Q ss_pred             EEecCCCCCCc----c--cCHHHHHHHHHhc-------CCCEEEEeccCCCCHHHHH
Q psy2646          82 VGNKNDQTSKK----A--VDYQVAKEYADHL-------KIPFLETSAKNGANVEQAF  125 (168)
Q Consensus        82 v~nK~Dl~~~~----~--v~~~~~~~~~~~~-------~~~~~~vSa~~~~~i~~i~  125 (168)
                      ++||+|+....    .  ....+...+.+.+       +++++++||++|.|+.+++
T Consensus       187 viNK~Dl~~~~~~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          187 VINKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             EEECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             EEECccCCCccccHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            99999996421    0  1112344555554       3569999999999998766

>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=99.54  E-value=2.5e-14  Score=111.93  Aligned_cols=108  Identities=21%  Similarity=0.280  Sum_probs=79.2

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh----hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc-
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ----ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA-   93 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~-   93 (168)
                      ...+.||||||+++|.......+..+|++|+|+|+++.    ++.+.+.    .+....  ..|+++++||+|+..... 
T Consensus        82 ~~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~~~--~~~iivviNK~Dl~~~~~~  155 (410)
T 1kk1_A           82 VRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLM----ALQIIG--QKNIIIAQNKIELVDKEKA  155 (410)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHH----HHHHHT--CCCEEEEEECGGGSCHHHH
T ss_pred             ccEEEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHH----HHHHcC--CCcEEEEEECccCCCHHHH
Confidence            37899999999999887767778889999999999953    3444333    222221  358999999999976432 


Q ss_pred             -cCHHHHHHHHHh---cCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          94 -VDYQVAKEYADH---LKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        94 -v~~~~~~~~~~~---~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                       ...+++..+.+.   .+++++++||++|.|+++++++|...+
T Consensus       156 ~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~  198 (410)
T 1kk1_A          156 LENYRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  198 (410)
T ss_dssp             HHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhC
Confidence             122344455543   357999999999999999999988654

>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=1.5e-13  Score=111.88  Aligned_cols=107  Identities=18%  Similarity=0.160  Sum_probs=78.9

Q ss_pred             EEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--
Q psy2646          21 LIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD---QETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--   95 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--   95 (168)
                      .+.||||||++.|..++..+++.+|++|+|||+++   +++++.+..    +..   .+.|+++++||+|+.......  
T Consensus        71 ~i~liDTPGhe~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~----l~~---~~vPiIVViNKiDl~~~~~~~~~  143 (594)
T 1g7s_A           71 GLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM---YRTPFVVAANKIDRIHGWRVHEG  143 (594)
T ss_dssp             EEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHH----HHH---TTCCEEEEEECGGGSTTCCCCTT
T ss_pred             CEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHH----HHH---cCCeEEEEecccccccccccccC
Confidence            59999999999999999999999999999999998   566655432    222   368999999999986421100  


Q ss_pred             -----------H---H-------HHHHHHHhc---------------CCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          96 -----------Y---Q-------VAKEYADHL---------------KIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        96 -----------~---~-------~~~~~~~~~---------------~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                                 .   .       +........               .++++++||++|.|+.++++++...+..
T Consensus       144 ~~~~e~sa~~~~~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~  218 (594)
T 1g7s_A          144 RPFMETFSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQ  218 (594)
T ss_dssp             CCHHHHHTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHhHHHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhccc
Confidence                       0   0       011111111               1489999999999999999999987754

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.52  E-value=7.2e-15  Score=115.90  Aligned_cols=116  Identities=18%  Similarity=0.126  Sum_probs=77.1

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCch--------hhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQE--------RFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~--------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii   80 (168)
                      ......++..+..+.+|||||++        ++...+..+++.+|++|+|+|+.+..+..+  .++..+.+  ..+.|++
T Consensus        40 d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d--~~~~~~l~--~~~~pvi  115 (436)
T 2hjg_A           40 DRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAAD--EEVAKILY--RTKKPVV  115 (436)
T ss_dssp             -CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEEETTTCSCHHH--HHHHHHHT--TCCSCEE
T ss_pred             ceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHH--HHHHHHHH--HcCCCEE
Confidence            34445555556689999999985        566677889999999999999988655443  23333222  2478999


Q ss_pred             EEEecCCCCCCcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +|+||+|+.....    ...++. .+++ +++++||.+|.|+.++++++...+.
T Consensus       116 lv~NK~D~~~~~~----~~~~~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~~l~  164 (436)
T 2hjg_A          116 LAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLGLGDLLDAVAEHFK  164 (436)
T ss_dssp             EEEECCCC---------CCCSSG-GGSSCCCEECBTTTTBTHHHHHHHHHHTGG
T ss_pred             EEEECccCccchh----hHHHHH-HcCCCCeEEEeCcCCCChHHHHHHHHHhcC
Confidence            9999999864321    111222 3454 7899999999999999999988764

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.51  E-value=1.9e-15  Score=121.51  Aligned_cols=109  Identities=17%  Similarity=0.202  Sum_probs=80.0

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc--cCHH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA--VDYQ   97 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~--v~~~   97 (168)
                      ..+.||||||++.|..++..++..+|++|+|||+++......... +..+.   ..+.|+++++||+|+.....  +. .
T Consensus        52 ~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg~~~qt~e~-l~~~~---~~~vPiIVViNKiDl~~~~~~~v~-~  126 (537)
T 3izy_P           52 EKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVES-IQHAK---DAHVPIVLAINKCDKAEADPEKVK-K  126 (537)
T ss_dssp             SCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSCCCHHHHHH-HHHHH---TTTCCEEECCBSGGGTTTSCCSSS-S
T ss_pred             CEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCCCccHHHHHH-HHHHH---HcCCcEEEEEecccccccchHHHH-H
Confidence            478999999999999999999999999999999998644433332 22232   33689999999999874321  11 1


Q ss_pred             HHHHH---HHhc--CCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          98 VAKEY---ADHL--KIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        98 ~~~~~---~~~~--~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +...+   +..+  .++++++||++|.|++++|+++...+.
T Consensus       127 ~l~~~~~~~e~~~~~~~iv~vSAktG~GI~eLle~I~~l~~  167 (537)
T 3izy_P          127 ELLAYDVVCEDYGGDVQAVHVSALTGENMMALAEATIALAE  167 (537)
T ss_dssp             HHHHTTSCCCCSSSSEEECCCCSSSSCSSHHHHHHHHHHHT
T ss_pred             HHHhhhhhHHhcCCCceEEEEECCCCCCchhHHHHHHHhhh
Confidence            22111   1222  258999999999999999999987654

>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=99.50  E-value=1.7e-14  Score=114.35  Aligned_cols=112  Identities=14%  Similarity=0.104  Sum_probs=73.0

Q ss_pred             eeeeCCeEEEEEEEeCCCchhhcccc--------hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEE
Q psy2646          12 NKKEERTRTLIVIWDTAGQERFRTIT--------SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG   83 (168)
Q Consensus        12 ~~~~~~~~~~l~l~Dt~G~~~~~~~~--------~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~   83 (168)
                      .+.+++  ..+.||||||..++...+        ..+++.+|++++|+|++++.+... ..|+..+     ...|+++|+
T Consensus       266 ~i~~~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~-~~i~~~l-----~~~piivV~  337 (462)
T 3geh_A          266 QLVVGG--IPVQVLDTAGIRETSDQVEKIGVERSRQAANTADLVLLTIDAATGWTTGD-QEIYEQV-----KHRPLILVM  337 (462)
T ss_dssp             EEEETT--EEEEECC--------------------CCCCSCSEEEEEEETTTCSCHHH-HHHHHHH-----TTSCEEEEE
T ss_pred             EEEECC--EEEEEEECCccccchhHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHH-HHHHHhc-----cCCcEEEEE
Confidence            344555  568999999986654333        236789999999999998765544 3444444     236999999


Q ss_pred             ecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ||+|+.....+.  ....+.  .+.+++++||++|.|++++++++.+.+...
T Consensus       338 NK~Dl~~~~~~~--~~~~~~--~~~~~i~iSAktg~Gi~eL~~~i~~~~~~~  385 (462)
T 3geh_A          338 NKIDLVEKQLIT--SLEYPE--NITQIVHTAAAQKQGIDSLETAILEIVQTG  385 (462)
T ss_dssp             ECTTSSCGGGST--TCCCCT--TCCCEEEEBTTTTBSHHHHHHHHHHHHTTS
T ss_pred             ECCCCCcchhhH--HHHHhc--cCCcEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            999997654432  111111  347899999999999999999999887654

>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=99.50  E-value=6e-14  Score=105.66  Aligned_cols=114  Identities=18%  Similarity=0.127  Sum_probs=80.4

Q ss_pred             eCCeEEEEEEEeCCCch---------hhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646          15 EERTRTLIVIWDTAGQE---------RFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus        15 ~~~~~~~l~l~Dt~G~~---------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      +.....++.+|||||..         .+......+++.+|++++|+|+++.   .....|+.....  ..+.|+++++||
T Consensus        51 ~~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~~---~~~~~~i~~~l~--~~~~P~ilvlNK  125 (301)
T 1ega_A           51 HTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRW---TPDDEMVLNKLR--EGKAPVILAVNK  125 (301)
T ss_dssp             EEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTCC---CHHHHHHHHHHH--SSSSCEEEEEES
T ss_pred             EEECCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEEEEEeCCCC---CHHHHHHHHHHH--hcCCCEEEEEEC
Confidence            34445789999999987         3344556778999999999999762   222233332222  236899999999


Q ss_pred             CCCCCCcccCHHHHHHHHHhcCC-CEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADHLKI-PFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~~~~-~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +|+...+......+..+.+.++. .++++||+++.|++++++.+...+.
T Consensus       126 ~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g~~v~~l~~~i~~~l~  174 (301)
T 1ega_A          126 VDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLP  174 (301)
T ss_dssp             TTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTCC
T ss_pred             cccCccHHHHHHHHHHHHHhcCcCceEEEECCCCCCHHHHHHHHHHhCC
Confidence            99876222222344456666665 6999999999999999999886543

>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=99.50  E-value=3.5e-14  Score=121.59  Aligned_cols=120  Identities=13%  Similarity=0.086  Sum_probs=84.3

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEecC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNKN   86 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~   86 (168)
                      +....+.++.....+.||||||+++|......++..+|++|+|||+++... .....++..+...   ++| +|+++||+
T Consensus       347 Idva~v~f~~~~~kI~IIDTPGHedF~~~mi~gas~AD~aILVVDAtdGv~-~QTrEhL~ll~~l---gIP~IIVVINKi  422 (1289)
T 3avx_A          347 INTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPM-PQTREHILLGRQV---GVPYIIVFLNKC  422 (1289)
T ss_dssp             -CCSCEEEECSSCEEEEEECCCHHHHHHHHHHTSCCCSEEEEEEETTTCSC-TTHHHHHHHHHHH---TCSCEEEEEECC
T ss_pred             EEEEEEEEcCCCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEcCCccCc-HHHHHHHHHHHHc---CCCeEEEEEeec
Confidence            334445566667889999999999998888888999999999999997532 2333444444433   578 79999999


Q ss_pred             CCCCCccc---CHHHHHHHHHhcC-----CCEEEEeccCC--------CCHHHHHHHHHHH
Q psy2646          87 DQTSKKAV---DYQVAKEYADHLK-----IPFLETSAKNG--------ANVEQAFLTMATE  131 (168)
Q Consensus        87 Dl~~~~~v---~~~~~~~~~~~~~-----~~~~~vSa~~~--------~~i~~i~~~l~~~  131 (168)
                      |+.+....   ...++..+.+.++     ++++++||++|        .|+.++++++...
T Consensus       423 DLv~d~e~le~i~eEi~elLk~~G~~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~  483 (1289)
T 3avx_A          423 DMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSY  483 (1289)
T ss_dssp             TTCCCHHHHHHHHHHHHHHHHHTTSCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHT
T ss_pred             ccccchhhHHHHHHHHHHHHHhccccccceeEEEEEeccCCCCCccccccchhhHhHHhhh
Confidence            99753221   1234555666554     68999999999        3466666666543

>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=99.49  E-value=3.1e-14  Score=112.90  Aligned_cols=116  Identities=16%  Similarity=0.136  Sum_probs=81.8

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChh---hHH---HHHHHHHHHHHhcCCCCc-
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE---TFN---NLKQWLEEIDRYACDNVN-   78 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~---~~~~~~~~i~~~~~~~~p-   78 (168)
                      .|+......++.....+.||||||+++|...+..++..+|++|+|||+++..   +|+   ....++..+...   +.| 
T Consensus        71 iTi~~~~~~~~~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~---~v~~  147 (458)
T 1f60_A           71 ITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTL---GVRQ  147 (458)
T ss_dssp             CCCSCSCEEEECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHT---TCCE
T ss_pred             cEEEEEEEEEecCCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHc---CCCe
Confidence            4566666667777789999999999999888888999999999999999752   221   222233333222   455 


Q ss_pred             EEEEEecCCCCCCcc--c--CHHHHHHHHHhcC-----CCEEEEeccCCCCHHHH
Q psy2646          79 KLLVGNKNDQTSKKA--V--DYQVAKEYADHLK-----IPFLETSAKNGANVEQA  124 (168)
Q Consensus        79 iivv~nK~Dl~~~~~--v--~~~~~~~~~~~~~-----~~~~~vSa~~~~~i~~i  124 (168)
                      +++++||+|+.+...  +  ..+++..+.+.++     ++++++||++|.|+.++
T Consensus       148 iivviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          148 LIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             EEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             EEEEEEccccccCCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            999999999973111  1  1233444555554     68999999999998754

>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=99.49  E-value=2.7e-13  Score=104.52  Aligned_cols=122  Identities=18%  Similarity=0.132  Sum_probs=83.9

Q ss_pred             eeeeeCCeEEEEEEEeCCCch---------hhcccchhhhcCCcEEEEEEeCCChh--hHHHHHHHHHHHHHhcCCCCcE
Q psy2646          11 QNKKEERTRTLIVIWDTAGQE---------RFRTITSSYYRGAHGIIVVYDCTDQE--TFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus        11 ~~~~~~~~~~~l~l~Dt~G~~---------~~~~~~~~~~~~~d~~i~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      ..+.+++  ..+.+|||+|.-         .|...+. .+..+|++++|+|++++.  .......|...+......+.|+
T Consensus       219 ~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~tl~-~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~  295 (364)
T 2qtf_A          219 YAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVTLS-EAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPI  295 (364)
T ss_dssp             EEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHHHH-GGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCE
T ss_pred             EEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHHHH-HHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCE
Confidence            4455556  568899999962         2333322 578899999999999876  5555555665555543457899


Q ss_pred             EEEEecCCCCCCcccC-HHHHHHHHHhc---CCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVD-YQVAKEYADHL---KIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~-~~~~~~~~~~~---~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ++|+||+|+.+..... ...+..++..+   +.+++++||+++.|++++++++.+.+...
T Consensus       296 ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~SA~~g~gi~~L~~~I~~~l~~~  355 (364)
T 2qtf_A          296 LVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLELLRDKIYQLATQL  355 (364)
T ss_dssp             EEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEEECCCCcCHHHHHHHHHHHhccc
Confidence            9999999986542100 11222233433   24689999999999999999998876654

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=99.49  E-value=3.7e-14  Score=105.05  Aligned_cols=107  Identities=7%  Similarity=0.045  Sum_probs=74.2

Q ss_pred             CCCchhhcccchhhhcCCcEEEEEEeCCChhhHH---HHHHHHHHHHHh-cCCCCcEEEEEec-CCCCCCcccCHHHHHH
Q psy2646          27 TAGQERFRTITSSYYRGAHGIIVVYDCTDQETFN---NLKQWLEEIDRY-ACDNVNKLLVGNK-NDQTSKKAVDYQVAKE  101 (168)
Q Consensus        27 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~---~~~~~~~~i~~~-~~~~~piivv~nK-~Dl~~~~~v~~~~~~~  101 (168)
                      .+||+.++++|+.|+.++||+|||+|.+|.+.++   ++.++...+... ...+.|++|++|| .|+++.  ++..++.+
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A--ms~~EI~e  271 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR--MPCFYLAH  271 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB--CCHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC--CCHHHHHH
Confidence            5789999999999999999999999999886433   222221222221 1357999999996 688653  44444333


Q ss_pred             HHH----hcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646         102 YAD----HLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus       102 ~~~----~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ...    ...+.+..|||.+|+|+.+.++|+...+..+
T Consensus       272 ~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k  309 (312)
T 3l2o_B          272 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESK  309 (312)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC-
T ss_pred             HcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHhh
Confidence            211    1346799999999999999999999876543

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.47  E-value=2e-14  Score=117.53  Aligned_cols=116  Identities=17%  Similarity=0.189  Sum_probs=79.7

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChh---hH---HHHHHHHHHHHHhcCCCCcEE
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE---TF---NNLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~---~~~~~~~~~i~~~~~~~~pii   80 (168)
                      |+......++.....+.||||||+++|...+..+++.+|++|+|||+++..   ++   ......+......  ...|++
T Consensus       232 Tid~~~~~~~~~~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~l--gi~~iI  309 (611)
T 3izq_1          232 TVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL--GIHNLI  309 (611)
T ss_dssp             CCSCSCCEEECSSCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTT--TCCEEE
T ss_pred             eEeeeeEEEecCCceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHc--CCCeEE
Confidence            555666667777789999999999999988888999999999999998742   11   1112222222221  124599


Q ss_pred             EEEecCCCCCCcccCHH----HHHHHHHhc-----CCCEEEEeccCCCCHHHH
Q psy2646          81 LVGNKNDQTSKKAVDYQ----VAKEYADHL-----KIPFLETSAKNGANVEQA  124 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~----~~~~~~~~~-----~~~~~~vSa~~~~~i~~i  124 (168)
                      ||+||+|+.........    +...+....     +++++++||++|.|+.++
T Consensus       310 VVvNKiDl~~~~~~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          310 IAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             EEEECTTTTTTCHHHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             EEEecccccchhHHHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            99999999763222222    233333333     368999999999999876

>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=99.47  E-value=6.1e-15  Score=117.64  Aligned_cols=105  Identities=17%  Similarity=0.275  Sum_probs=76.1

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC--cc
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ---ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK--KA   93 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~--~~   93 (168)
                      +..+.||||||++.|..++..++..+|++|+|||+++.   ++.+.+    ..+..   .+.|+++++||+|+.+.  ..
T Consensus        50 ~~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g~~~qT~e~l----~~~~~---~~vPiIVviNKiDl~~~~~~~  122 (501)
T 1zo1_I           50 NGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAI----QHAKA---AQVPVVVAVNKIDKPEADPDR  122 (501)
T ss_dssp             SSCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTBSCTTTHHHH----HHHHH---TTCCEEEEEECSSSSTTCCCC
T ss_pred             CEEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccCccHHHHHHH----HHHHh---cCceEEEEEEeccccccCHHH
Confidence            35789999999999999999999999999999999873   343332    22222   36899999999999642  11


Q ss_pred             cCHH--HHHHHHHhcC--CCEEEEeccCCCCHHHHHHHHHH
Q psy2646          94 VDYQ--VAKEYADHLK--IPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        94 v~~~--~~~~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      +...  +...+.+.++  ++++++||++|.|++++|+++..
T Consensus       123 v~~~l~~~~~~~~~~~~~~~~v~vSAktG~gI~eLle~I~~  163 (501)
T 1zo1_I          123 VKNELSQYGILPEEWGGESQFVHVSAKAGTGIDELLDAILL  163 (501)
T ss_dssp             TTCCCCCCCCCTTCCSSSCEEEECCTTTCTTCTTHHHHTTT
T ss_pred             HHHHHHHhhhhHHHhCCCccEEEEeeeeccCcchhhhhhhh
Confidence            1100  0001122233  68999999999999999999874

>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=99.46  E-value=2.2e-13  Score=107.48  Aligned_cols=119  Identities=20%  Similarity=0.196  Sum_probs=79.4

Q ss_pred             eeeeCCeEEEEEEEeCCCchhhcccc------------hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646          12 NKKEERTRTLIVIWDTAGQERFRTIT------------SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus        12 ~~~~~~~~~~l~l~Dt~G~~~~~~~~------------~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      .+.+++.  .+.+|||+|..++....            ..+++.+|++++++|+++..+..+. .+...+..   .+.|+
T Consensus       222 ~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~~---~~~~~  295 (439)
T 1mky_A          222 EVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQ-RMAGLMER---RGRAS  295 (439)
T ss_dssp             EEEETTE--EEEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEE
T ss_pred             EEEECCE--EEEEEECCCCccccccchhhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCE
Confidence            3445555  57899999985433221            2467789999999999876555442 23333332   36899


Q ss_pred             EEEEecCCCCCCcccCHHHHHH-HHH----hcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKE-YAD----HLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~-~~~----~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ++++||+|+...+.....+... +..    ....+++++||++|.|++++|+.+.+.+....
T Consensus       296 ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~~  357 (439)
T 1mky_A          296 VVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYASYT  357 (439)
T ss_dssp             EEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             EEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEEEEECCCCCCHHHHHHHHHHHHHhhc
Confidence            9999999997654433333322 222    23479999999999999999999998776653

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.45  E-value=2.1e-14  Score=110.69  Aligned_cols=127  Identities=15%  Similarity=0.193  Sum_probs=70.6

Q ss_pred             cccceeeeee----CCeEEEEEEEeCCCc-------hhhcccch-------hhhcCCc-------------EEEEEEeCC
Q psy2646           6 PYQTLQNKKE----ERTRTLIVIWDTAGQ-------ERFRTITS-------SYYRGAH-------------GIIVVYDCT   54 (168)
Q Consensus         6 ~t~~~~~~~~----~~~~~~l~l~Dt~G~-------~~~~~~~~-------~~~~~~d-------------~~i~v~d~~   54 (168)
                      ||++.....+    ++..+.+.+|||||.       +.|..++.       .|++.++             +++|+++..
T Consensus        77 ~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~  156 (361)
T 2qag_A           77 RTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPF  156 (361)
T ss_dssp             -CEEEEEEEEC----CEEEEEEEEC--------------CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSS
T ss_pred             CceeEEEEEEEeecCCcccceEEEEeccccccCccHHHHHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecC
Confidence            5555443333    355678999999999       77777776       6665543             455555542


Q ss_pred             ChhhHHHHH-HHHHHHHHhcCCCCcEEEEEecCCCCCCcccCH--HHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          55 DQETFNNLK-QWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDY--QVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        55 ~~~s~~~~~-~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~--~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                       ..++..+. .|+..+    ..++|+|+|+||+|+...+.+..  ..+..++..++++++++||+++.+ ++.|.++.+.
T Consensus       157 -~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~  230 (361)
T 2qag_A          157 -GHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRL  230 (361)
T ss_dssp             -SSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCHHHHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHH
T ss_pred             -CCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHH
Confidence             23344433 333333    35789999999999977555443  456667777789999999999999 9999999998


Q ss_pred             HHHHhcc
Q psy2646         132 IKKRVTK  138 (168)
Q Consensus       132 ~~~~~~~  138 (168)
                      +....+.
T Consensus       231 i~~~ip~  237 (361)
T 2qag_A          231 LKASIPF  237 (361)
T ss_dssp             HHHTCSC
T ss_pred             HHhcCCC
Confidence            8876553

>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=99.43  E-value=2.6e-13  Score=99.81  Aligned_cols=117  Identities=13%  Similarity=0.064  Sum_probs=74.6

Q ss_pred             eEEEEEEEeCCCchhhcccc-----------hhhhcCCcEEEEEEeCCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEe-
Q psy2646          18 TRTLIVIWDTAGQERFRTIT-----------SSYYRGAHGIIVVYDCTDQET-FNNLKQWLEEIDRYACDNVNKLLVGN-   84 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~-----------~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~piivv~n-   84 (168)
                      .+..+.||||||+..+....           ..+++.+|++|+|+|+++... ...+..++..+... ....|+++++| 
T Consensus        69 ~~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~-~~~~~~i~vv~n  147 (260)
T 2xtp_A           69 GNREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGE-DAMGHTIVLFTH  147 (260)
T ss_dssp             TTEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCG-GGGGGEEEEEEC
T ss_pred             CCCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCc-hhhccEEEEEEc
Confidence            34679999999987653322           236789999999999986322 22232333333111 11346666666 


Q ss_pred             cCCCCCCcccCH-------HHHHHHHHhcCCC---E--EEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          85 KNDQTSKKAVDY-------QVAKEYADHLKIP---F--LETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        85 K~Dl~~~~~v~~-------~~~~~~~~~~~~~---~--~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      |+|+... .+..       .++..+....+..   +  +++||+++.|++++|+++.+.+....
T Consensus       148 K~Dl~~~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~~  210 (260)
T 2xtp_A          148 KEDLNGG-SLMDYMHDSDNKALSKLVAACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLMEKN  210 (260)
T ss_dssp             GGGGTTC-CHHHHHHHCCCHHHHHHHHHTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             ccccCCc-cHHHHHHhcchHHHHHHHHHhCCeEEEecCcccccccHHHHHHHHHHHHHHHHhCC
Confidence            9999743 2222       2234455555432   2  78999999999999999999887644

>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=99.39  E-value=1.2e-12  Score=107.96  Aligned_cols=79  Identities=11%  Similarity=0.064  Sum_probs=60.9

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......+....+.+.||||||+.+|...+..+++.+|++++|+|+++..... ...++..+...   +.|+++++||+
T Consensus        61 ti~~~~~~~~~~~~~~nliDTpG~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~q-t~~~~~~~~~~---~ip~ilv~NKi  136 (665)
T 2dy1_A           61 TVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVG-TERAWTVAERL---GLPRMVVVTKL  136 (665)
T ss_dssp             CCSCEEEEEEETTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHH-HHHHHHHHHHT---TCCEEEEEECG
T ss_pred             eEEecceEEeeCCEEEEEEeCCCccchHHHHHHHHhhcCcEEEEEcCCcccchh-HHHHHHHHHHc---cCCEEEEecCC
Confidence            445556666666789999999999999888889999999999999988653332 23444444333   68999999999


Q ss_pred             CCC
Q psy2646          87 DQT   89 (168)
Q Consensus        87 Dl~   89 (168)
                      |+.
T Consensus       137 D~~  139 (665)
T 2dy1_A          137 DKG  139 (665)
T ss_dssp             GGC
T ss_pred             chh
Confidence            986

>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=99.39  E-value=1.7e-13  Score=108.58  Aligned_cols=117  Identities=18%  Similarity=0.100  Sum_probs=77.8

Q ss_pred             cceeeeeeCCeEEEEEEEeCCC--------chhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAG--------QERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G--------~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      .......++..+..+.+|||||        ++++...+..+++++|++|+|+|..+..+.  ...++..+..  ..+.|+
T Consensus        59 ~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~~~~--~d~~l~~~l~--~~~~pv  134 (456)
T 4dcu_A           59 RDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTA--ADEEVAKILY--RTKKPV  134 (456)
T ss_dssp             --CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEEESSSCSCH--HHHHHHHHHT--TCCSCE
T ss_pred             eeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCCCCCCh--HHHHHHHHHH--HcCCCE
Confidence            3344555666667899999999        777777888899999999999998764322  2233333322  247899


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ++|+||+|+.....    ...++. .++ -..+++||.+|.|+.++++++...+.
T Consensus       135 ilV~NK~D~~~~~~----~~~e~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~~l~  184 (456)
T 4dcu_A          135 VLAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLGLGDLLDAVAEHFK  184 (456)
T ss_dssp             EEEEECC-------------CCSG-GGSSSSEEECCTTTCTTHHHHHHHHHTTGG
T ss_pred             EEEEECccchhhhh----hHHHHH-HcCCCceEEeecccccchHHHHHHHHhhcc
Confidence            99999999864321    111111 123 25789999999999999999987654

>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=99.38  E-value=3.1e-12  Score=92.98  Aligned_cols=115  Identities=13%  Similarity=0.139  Sum_probs=74.1

Q ss_pred             eEEEEEEEeCCCc-----------hhhcccchhhhcCCcEEEEEEeCCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646          18 TRTLIVIWDTAGQ-----------ERFRTITSSYYRGAHGIIVVYDCTDQET--FNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus        18 ~~~~l~l~Dt~G~-----------~~~~~~~~~~~~~~d~~i~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      .+..+.||||||.           +.+...+..++.++|++|+|+|+++...  ...+..+...+...  ...|+++|+|
T Consensus        76 ~~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~--~~~~~iiv~n  153 (239)
T 3lxx_A           76 KETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGER--ARSFMILIFT  153 (239)
T ss_dssp             TTEEEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHH--HGGGEEEEEE
T ss_pred             CCceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhh--ccceEEEEEe
Confidence            3457899999994           3445555666778999999999876433  22222222222111  1369999999


Q ss_pred             cCCCCCCcccC------HHHHHHHHHhcCCCEEEEeccCC-----CCHHHHHHHHHHHHHH
Q psy2646          85 KNDQTSKKAVD------YQVAKEYADHLKIPFLETSAKNG-----ANVEQAFLTMATEIKK  134 (168)
Q Consensus        85 K~Dl~~~~~v~------~~~~~~~~~~~~~~~~~vSa~~~-----~~i~~i~~~l~~~~~~  134 (168)
                      |+|+.....+.      .+.+..+.+..+..++.+++..+     .++.++|..+...+.+
T Consensus       154 K~D~~~~~~~~~~i~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          154 RKDDLGDTNLHDYLREAPEDIQDLMDIFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             CGGGC------------CHHHHHHHHHHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCccCCcccHHHHHHhchHHHHHHHHHcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHH
Confidence            99986544433      13466677778888888877654     5788888888776654

>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=99.38  E-value=1.5e-12  Score=107.95  Aligned_cols=82  Identities=24%  Similarity=0.261  Sum_probs=62.9

Q ss_pred             ccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646           5 LPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus         5 ~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      .+|+......+..+.+.+.||||||+.+|...+..+++.+|++|+|+|+++..+......|.. +...   +.|+++++|
T Consensus        62 giTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~~---~~p~ivviN  137 (691)
T 1dar_A           62 GITITAAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEKY---KVPRIAFAN  137 (691)
T ss_dssp             -----CCEEEEEETTEEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHHT---TCCEEEEEE
T ss_pred             ccccccceEEEEECCeEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHHc---CCCEEEEEE
Confidence            456666666666667899999999999998888999999999999999998777666555543 3333   689999999


Q ss_pred             cCCCCC
Q psy2646          85 KNDQTS   90 (168)
Q Consensus        85 K~Dl~~   90 (168)
                      |+|+..
T Consensus       138 KiD~~~  143 (691)
T 1dar_A          138 KMDKTG  143 (691)
T ss_dssp             CTTSTT
T ss_pred             CCCccc
Confidence            999864

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.37  E-value=2.8e-13  Score=100.62  Aligned_cols=113  Identities=12%  Similarity=0.152  Sum_probs=62.3

Q ss_pred             CCeEEEEEEEeCCCch-------hhcccc-------hhhhc-------------CCcEEEEEEeCCChhhHHHHHHHHHH
Q psy2646          16 ERTRTLIVIWDTAGQE-------RFRTIT-------SSYYR-------------GAHGIIVVYDCTDQETFNNLKQWLEE   68 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~-------~~~~~~-------~~~~~-------------~~d~~i~v~d~~~~~s~~~~~~~~~~   68 (168)
                      ++..+.+.||||||..       .+..++       ..|+.             .+|+++++++.+..........++..
T Consensus        61 ~~~~~~l~liDTpG~~d~~~~~~~~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~  140 (274)
T 3t5d_A           61 GGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKR  140 (274)
T ss_dssp             --CCEEEEEEECCCCSCCSCCTTTTHHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHH
T ss_pred             CCeEEEEEEEECCCccccccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHH
Confidence            4555799999999973       222222       33333             37899999977653211222234444


Q ss_pred             HHHhcCCCCcEEEEEecCCCCCCcccCH--HHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          69 IDRYACDNVNKLLVGNKNDQTSKKAVDY--QVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        69 i~~~~~~~~piivv~nK~Dl~~~~~v~~--~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +.    .+.|+++|+||+|+.....+..  ..+.......+++++++||.++.|+.++++++...+
T Consensus       141 l~----~~~pvi~V~nK~D~~~~~e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          141 LH----EKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             HT----TTSCEEEEESSGGGSCHHHHHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHTC
T ss_pred             Hh----ccCCEEEEEeccCCCCHHHHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcCC
Confidence            42    2689999999999865433221  233344556789999999999999999998887643

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.37  E-value=8.9e-13  Score=92.35  Aligned_cols=77  Identities=19%  Similarity=0.347  Sum_probs=64.0

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcC----CcEEEEEEeCC-ChhhHHHHHHHHHHHHHh----cCCCCcEEEEEecCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRG----AHGIIVVYDCT-DQETFNNLKQWLEEIDRY----ACDNVNKLLVGNKNDQ   88 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~----~d~~i~v~d~~-~~~s~~~~~~~~~~i~~~----~~~~~piivv~nK~Dl   88 (168)
                      ..+.+.+|||||++.+...+..++..    +|++|+|||++ +.+++..+..|+..+...    ...+.|+++|+||+|+
T Consensus        89 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  168 (193)
T 2ged_A           89 DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL  168 (193)
T ss_dssp             CCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTS
T ss_pred             cCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHh
Confidence            45678999999999998888888876    89999999999 889999988888877443    2347999999999999


Q ss_pred             CCCccc
Q psy2646          89 TSKKAV   94 (168)
Q Consensus        89 ~~~~~v   94 (168)
                      .+.+.+
T Consensus       169 ~~~~~~  174 (193)
T 2ged_A          169 FTARPP  174 (193)
T ss_dssp             TTCCCH
T ss_pred             cCCCCH
Confidence            765443

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.34  E-value=1.2e-13  Score=112.56  Aligned_cols=113  Identities=16%  Similarity=0.181  Sum_probs=58.6

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChh---hH---HHHHHHHHHHHHhcCCCCc-E
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE---TF---NNLKQWLEEIDRYACDNVN-K   79 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~---~~~~~~~~~i~~~~~~~~p-i   79 (168)
                      |+......+......+.||||||+++|...+..++..+|++|+|||+++..   .+   ......+..+...   +.| +
T Consensus       242 Tid~~~~~~~~~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~l---gip~i  318 (592)
T 3mca_A          242 TMDVASTTFESDKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRAL---GISEI  318 (592)
T ss_dssp             -----------------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHS---SCCCE
T ss_pred             eEEeeEEEEEeCCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHc---CCCeE
Confidence            444555556666788999999999999888888999999999999998532   11   1112222222222   455 9


Q ss_pred             EEEEecCCCCCCcccC----HHHHHHHH-HhcCC-----CEEEEeccCCCCHH
Q psy2646          80 LLVGNKNDQTSKKAVD----YQVAKEYA-DHLKI-----PFLETSAKNGANVE  122 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~----~~~~~~~~-~~~~~-----~~~~vSa~~~~~i~  122 (168)
                      |+++||+|+.+.....    ..+...+. ..+++     +++++||++|.|+.
T Consensus       319 IvviNKiDl~~~~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          319 VVSVNKLDLMSWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             EEEEECGGGGTTCHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             EEEEeccccccccHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            9999999986521111    12233344 44444     79999999999997

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.33  E-value=3.2e-13  Score=101.06  Aligned_cols=111  Identities=16%  Similarity=0.126  Sum_probs=75.1

Q ss_pred             EEEEEEeCCCch-------------hhcccchhhhcCCcEEE-EEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646          20 TLIVIWDTAGQE-------------RFRTITSSYYRGAHGII-VVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus        20 ~~l~l~Dt~G~~-------------~~~~~~~~~~~~~d~~i-~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      ..+.||||||..             .+..++..|++.++++| +|+|+++..+..+...++..+.   ..+.|+++|+||
T Consensus       125 ~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~---~~~~~~i~V~NK  201 (299)
T 2aka_B          125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVD---PQGQRTIGVITK  201 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHC---TTCSSEEEEEEC
T ss_pred             CCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhC---CCCCeEEEEEEc
Confidence            579999999963             34556778888998777 6899987544333334444443   236899999999


Q ss_pred             CCCCCCcccCHHHHHHHHHhc--C-CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADHL--K-IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~~--~-~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +|+..................  + .+++++||+++.|++++|+++.....
T Consensus       202 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~~~  252 (299)
T 2aka_B          202 LDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAERK  252 (299)
T ss_dssp             GGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHHHH
T ss_pred             cccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHHHH
Confidence            999764332222211100011  2 36789999999999999999987443

>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=99.33  E-value=8.3e-12  Score=100.51  Aligned_cols=80  Identities=19%  Similarity=0.127  Sum_probs=58.9

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......++.+.+.+.||||||+.+|...+..+++.+|++|+|+|+++..... ...++..+.   ..+.|+++++||+
T Consensus        69 Ti~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~-t~~~~~~~~---~~~ipiivviNK~  144 (529)
T 2h5e_A           69 SITTSVMQFPYHDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDR-TRKLMEVTR---LRDTPILTFMNKL  144 (529)
T ss_dssp             -CCTTEEEEEETTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHH-HHHHHHHHT---TTTCCEEEEEECT
T ss_pred             ceeeeEEEEEECCeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHH-HHHHHHHHH---HcCCCEEEEEcCc
Confidence            334445556666788999999999999888888999999999999998753222 222333332   2378999999999


Q ss_pred             CCCC
Q psy2646          87 DQTS   90 (168)
Q Consensus        87 Dl~~   90 (168)
                      |+..
T Consensus       145 Dl~~  148 (529)
T 2h5e_A          145 DRDI  148 (529)
T ss_dssp             TSCC
T ss_pred             CCcc
Confidence            9864

>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=99.31  E-value=1.6e-11  Score=101.92  Aligned_cols=68  Identities=22%  Similarity=0.275  Sum_probs=54.4

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      .+.+.||||||+.+|...+..+++.+|++|+|||+++.........|. ....   .+.|+++++||+|+..
T Consensus        81 ~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~-~~~~---~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7           81 PHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWR-QANK---YKVPRIAFVNKMDRMG  148 (704)
T ss_pred             ceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHH-HHHH---cCCCEEEEEeCCCccc
Confidence            389999999999999888899999999999999999875544444343 2322   3689999999999853

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.27  E-value=2.3e-11  Score=100.82  Aligned_cols=80  Identities=20%  Similarity=0.235  Sum_probs=61.5

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......+..+.+.+.||||||+.+|...+..+++.+|++|+|+|+++..+......|.. +...   +.|+++++||+
T Consensus        62 Ti~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~~---~~p~ilviNK~  137 (693)
T 2xex_A           62 TITSAATTAAWEGHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATTY---GVPRIVFVNKM  137 (693)
T ss_dssp             --CCSEEEEEETTEEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHHT---TCCEEEEEECT
T ss_pred             eEeeeeEEEEECCeeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHHc---CCCEEEEEECC
Confidence            4444455555556889999999999998888899999999999999998766665555443 4333   68999999999


Q ss_pred             CCCC
Q psy2646          87 DQTS   90 (168)
Q Consensus        87 Dl~~   90 (168)
                      |+..
T Consensus       138 Dl~~  141 (693)
T 2xex_A          138 DKLG  141 (693)
T ss_dssp             TSTT
T ss_pred             Cccc
Confidence            9864

>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=99.26  E-value=1.9e-12  Score=99.66  Aligned_cols=113  Identities=14%  Similarity=0.162  Sum_probs=77.9

Q ss_pred             EEEEEEEeCCCchhh-------------cccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646          19 RTLIVIWDTAGQERF-------------RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~-------------~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      ...+.||||||..++             ..+...|++++|++|+++|..+.+...  ..|+..+......+.|+++|+||
T Consensus       135 ~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~~~~~l~~~~~~~~~~~i~V~nK  212 (360)
T 3t34_A          135 VVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--SDAIKISREVDPSGDRTFGVLTK  212 (360)
T ss_dssp             SCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--CHHHHHHHHSCTTCTTEEEEEEC
T ss_pred             CCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--HHHHHHHHHhcccCCCEEEEEeC
Confidence            346899999998776             445678899999999999876543221  23344443333446899999999


Q ss_pred             CCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +|+.............+...++.+|+++++.++.++++.+........
T Consensus       213 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~~~~~  260 (360)
T 3t34_A          213 IDLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIAARKR  260 (360)
T ss_dssp             GGGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHHHHHH
T ss_pred             CccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCHHHHHHH
Confidence            999765444434343344456789999999999888776655444433

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.25  E-value=1.4e-11  Score=102.12  Aligned_cols=111  Identities=17%  Similarity=0.228  Sum_probs=79.2

Q ss_pred             EEEEEeCCCchhh---cccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHH
Q psy2646          21 LIVIWDTAGQERF---RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQ   97 (168)
Q Consensus        21 ~l~l~Dt~G~~~~---~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~   97 (168)
                      .+.||||||....   ...+..+++.+|++|+|+|++++.+..+...|...+..   .+.|+++|+||+|+.....++.+
T Consensus       175 ~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~---~~~~iiiVlNK~Dl~~~~~~~~e  251 (695)
T 2j69_A          175 GIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKG---RGLTVFFLVNAWDQVRESLIDPD  251 (695)
T ss_dssp             TEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTT---SCCCEEEEEECGGGGGGGCSSTT
T ss_pred             CeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHh---hCCCEEEEEECcccccccccChh
Confidence            5899999997653   34556788999999999999988777776666544432   26789999999998643311110


Q ss_pred             ----------HHHH-----HHHh--------cCCCEEEEecc--------------CCCCHHHHHHHHHHHHHH
Q psy2646          98 ----------VAKE-----YADH--------LKIPFLETSAK--------------NGANVEQAFLTMATEIKK  134 (168)
Q Consensus        98 ----------~~~~-----~~~~--------~~~~~~~vSa~--------------~~~~i~~i~~~l~~~~~~  134 (168)
                                ....     +...        ...+++++||+              ++.|+.+++..+...+..
T Consensus       252 e~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~  325 (695)
T 2j69_A          252 DVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTR  325 (695)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHH
Confidence                      1111     1111        12479999999              999999999999887754

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.24  E-value=8.4e-11  Score=92.00  Aligned_cols=115  Identities=15%  Similarity=0.152  Sum_probs=82.9

Q ss_pred             EEEEEEeCCCchh----hcccchhh---hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEecCCCCC
Q psy2646          20 TLIVIWDTAGQER----FRTITSSY---YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA--CDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        20 ~~l~l~Dt~G~~~----~~~~~~~~---~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~piivv~nK~Dl~~   90 (168)
                      ..+.+||+||..+    +..+...+   +..++.+++++|++ ..++..+..|..++..+.  ....|.++++||+|+..
T Consensus       205 ~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~  283 (416)
T 1udx_A          205 ERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLE  283 (416)
T ss_dssp             CEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSC
T ss_pred             ceEEEEeccccccchhhhhhhhHHHHHHHHHHHhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhh
Confidence            5689999999743    22233333   45799999999998 556777776666664432  12578999999999875


Q ss_pred             CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          91 KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      .  .............+++++.+||.++.|++++++++.+.+.....
T Consensus       284 ~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi~eL~~~i~~~l~~~~~  328 (416)
T 1udx_A          284 E--EAVKALADALAREGLAVLPVSALTGAGLPALKEALHALVRSTPP  328 (416)
T ss_dssp             H--HHHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHHHHHHTSCC
T ss_pred             H--HHHHHHHHHHHhcCCeEEEEECCCccCHHHHHHHHHHHHHhccc
Confidence            4  22233444555567899999999999999999999998876443

>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=99.15  E-value=6.4e-11  Score=89.20  Aligned_cols=113  Identities=16%  Similarity=0.200  Sum_probs=70.2

Q ss_pred             EEEEEEEeCCCchh-------------hcccchhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646          19 RTLIVIWDTAGQER-------------FRTITSSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~-------------~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      ...+.||||||..+             +...+..+++.+|++++|+|..+.. .......+...+.   ..+.|+++|+|
T Consensus       130 ~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~---~~~~~~i~v~N  206 (315)
T 1jwy_B          130 VVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVD---PEGKRTIGVIT  206 (315)
T ss_dssp             SCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHC---SSCSSEEEEEE
T ss_pred             CCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhC---CCCCcEEEEEc
Confidence            35799999999753             4455677899999999999974332 1111122333332   23689999999


Q ss_pred             cCCCCCCcccCHHHHHHHHHhcCCCEEEEeccC------CCCHHHHHHHHHHHHHH
Q psy2646          85 KNDQTSKKAVDYQVAKEYADHLKIPFLETSAKN------GANVEQAFLTMATEIKK  134 (168)
Q Consensus        85 K~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~------~~~i~~i~~~l~~~~~~  134 (168)
                      |+|+.................++..++++++.+      +.|+.++++.+...+..
T Consensus       207 K~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          207 KLDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             CTTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             CcccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            999875443221222110012225666666544      68889998888777653

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.14  E-value=9.7e-11  Score=86.31  Aligned_cols=87  Identities=15%  Similarity=0.008  Sum_probs=58.7

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhc---------CCcEEEEEEeCCChhhHHHH-HHHHHHHHHhcCC-
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYR---------GAHGIIVVYDCTDQETFNNL-KQWLEEIDRYACD-   75 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~---------~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~-   75 (168)
                      |.......+...+..+.||||||++++....+.+++         ++|++++|++++... +... ..|+..+...... 
T Consensus        71 t~~~~~~~~~~~~~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~  149 (262)
T 3def_A           71 GLRPVMVSRTMGGFTINIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKE  149 (262)
T ss_dssp             CCCCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGG
T ss_pred             ceeeEEEEEEECCeeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchh
Confidence            344444445445568999999999887766555554         789999999998654 3322 3566666544222 


Q ss_pred             -CCcEEEEEecCCCCCCccc
Q psy2646          76 -NVNKLLVGNKNDQTSKKAV   94 (168)
Q Consensus        76 -~~piivv~nK~Dl~~~~~v   94 (168)
                       ..|+++|+||+|+...+..
T Consensus       150 ~~~~~ivv~nK~Dl~~~~~~  169 (262)
T 3def_A          150 IWCKTLLVLTHAQFSPPDEL  169 (262)
T ss_dssp             GGGGEEEEEECTTCCCSTTC
T ss_pred             hhcCEEEEEeCcccCCCCCc
Confidence             2499999999998644333

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.11  E-value=3.4e-10  Score=91.51  Aligned_cols=80  Identities=16%  Similarity=0.110  Sum_probs=62.6

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+.+..+.+..+++.+.|.||||+..|..-....++-+|++|+|+|+...-.-+....| ....+.   ++|.++++||+
T Consensus        87 TI~s~~~~~~~~~~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~-~~a~~~---~lp~i~fINK~  162 (548)
T 3vqt_A           87 SVTTSVMQFPYRDRVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLM-DVCRMR---ATPVMTFVNKM  162 (548)
T ss_dssp             -CTTTEEEEEETTEEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHH-HHHHHT---TCCEEEEEECT
T ss_pred             cEeeceEEEEECCEEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHH-HHHHHh---CCceEEEEecc
Confidence            45566777777888999999999999988888899999999999999976444443444 333333   69999999999


Q ss_pred             CCCC
Q psy2646          87 DQTS   90 (168)
Q Consensus        87 Dl~~   90 (168)
                      |...
T Consensus       163 Dr~~  166 (548)
T 3vqt_A          163 DREA  166 (548)
T ss_dssp             TSCC
T ss_pred             cchh
Confidence            9753

>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=99.11  E-value=3.4e-10  Score=80.14  Aligned_cols=107  Identities=14%  Similarity=0.191  Sum_probs=71.9

Q ss_pred             EEEEEeCCCchh----------hcccchhhh---cCCcEEEEEEeCCChhhHHH--HHHHHHHHHHhcCCCCcEEEEEec
Q psy2646          21 LIVIWDTAGQER----------FRTITSSYY---RGAHGIIVVYDCTDQETFNN--LKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus        21 ~l~l~Dt~G~~~----------~~~~~~~~~---~~~d~~i~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      .+.+|||||...          +......++   ..++++++++|+++..++.+  +..|+   ..   .+.|+++++||
T Consensus        73 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~---~~---~~~~~~~v~nK  146 (210)
T 1pui_A           73 GKRLVDLPGYGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWA---VD---SNIAVLVLLTK  146 (210)
T ss_dssp             TEEEEECCCCC------CCHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHH---HH---TTCCEEEEEEC
T ss_pred             CEEEEECcCCcccccCHHHHHHHHHHHHHHHHhhhcccEEEEEEECCCCCchhHHHHHHHH---HH---cCCCeEEEEec
Confidence            478999999742          222233344   57899999999987654432  22222   22   26899999999


Q ss_pred             CCCCCCc--ccCHHHHHHHHHhcC--CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          86 NDQTSKK--AVDYQVAKEYADHLK--IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        86 ~Dl~~~~--~v~~~~~~~~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +|+.+..  +.....+..++...+  +.++++||+++.|++++++++.+.+.
T Consensus       147 ~D~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~Sal~~~~~~~l~~~l~~~~~  198 (210)
T 1pui_A          147 ADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWFS  198 (210)
T ss_dssp             GGGSCHHHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHHC
T ss_pred             ccCCCchhHHHHHHHHHHHHHhcCCCCceEEEeecCCCCHHHHHHHHHHHHh
Confidence            9986532  111234445555443  57889999999999999999987653

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.10  E-value=2.1e-10  Score=84.15  Aligned_cols=109  Identities=16%  Similarity=0.034  Sum_probs=68.7

Q ss_pred             EEEEEEeCCCchhhcccch------hhhcCCcEEEEEEeCCChh---hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          20 TLIVIWDTAGQERFRTITS------SYYRGAHGIIVVYDCTDQE---TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~------~~~~~~d~~i~v~d~~~~~---s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      +.+.||||||+.++.....      ..+.. +++|+++|+....   .+.....+......  ..+.|+++|+||+|+..
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~--~~~~p~~iv~NK~D~~~  185 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDL--RLGATTIPALNKVDLLS  185 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHH--HHTSCEEEEECCGGGCC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhc--ccCCCeEEEEecccccc
Confidence            5799999999976543322      24456 8899999876432   22222111111111  12689999999999865


Q ss_pred             CcccCHHHHHH----------------------------HHHhcC--CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKE----------------------------YADHLK--IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        91 ~~~v~~~~~~~----------------------------~~~~~~--~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ...+  .+...                            ++..++  .+++++||+++.|++++++++.+.+.
T Consensus       186 ~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~  256 (262)
T 1yrb_A          186 EEEK--ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  256 (262)
T ss_dssp             HHHH--HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cccH--HHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhc
Confidence            4321  11111                            122333  48999999999999999999987764

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.09  E-value=1.2e-10  Score=83.30  Aligned_cols=106  Identities=16%  Similarity=0.198  Sum_probs=69.7

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHH
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQV   98 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~   98 (168)
                      ...+.+|||+|+.....   .+....+.+++|+|+++....  ...+...   .   +.|+++++||+|+.........+
T Consensus       108 ~~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~~--~~~~~~~---~---~~~~iiv~NK~Dl~~~~~~~~~~  176 (221)
T 2wsm_A          108 DCDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDDV--VEKHPEI---F---RVADLIVINKVALAEAVGADVEK  176 (221)
T ss_dssp             TCSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTTH--HHHCHHH---H---HTCSEEEEECGGGHHHHTCCHHH
T ss_pred             CCCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcchh--hhhhhhh---h---hcCCEEEEecccCCcchhhHHHH
Confidence            35788999999511111   112357889999998765321  1111111   1   47899999999986432234455


Q ss_pred             HHHHHHhc--CCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          99 AKEYADHL--KIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        99 ~~~~~~~~--~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ........  +.+++++||++|.|++++|+++...+...
T Consensus       177 ~~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~  215 (221)
T 2wsm_A          177 MKADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVH  215 (221)
T ss_dssp             HHHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC--
T ss_pred             HHHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHH
Confidence            55555443  47899999999999999999999877554

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.08  E-value=2.7e-10  Score=87.96  Aligned_cols=97  Identities=24%  Similarity=0.304  Sum_probs=72.4

Q ss_pred             CchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHH----HHHH
Q psy2646          29 GQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAK----EYAD  104 (168)
Q Consensus        29 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~----~~~~  104 (168)
                      ..++|..++..+++.++++++|+|+++++     ..|...+.+. ..+.|+++|+||+|+.... ...+...    .+++
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~-~~~~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~~~  127 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRF-VGNNKVLLVGNKADLIPKS-VKHDKVKHWMRYSAK  127 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHH-SSSSCEEEEEECGGGSCTT-SCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHH-hCCCcEEEEEEChhcCCcc-cCHHHHHHHHHHHHH
Confidence            45788899999999999999999999853     3344455444 2378999999999996532 2333333    3355


Q ss_pred             hcCC---CEEEEeccCCCCHHHHHHHHHHHH
Q psy2646         105 HLKI---PFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus       105 ~~~~---~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ..++   +++++||++|.|++++++.+....
T Consensus       128 ~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          128 QLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             HTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            6676   799999999999999999987643

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.07  E-value=3.5e-11  Score=90.55  Aligned_cols=116  Identities=16%  Similarity=0.193  Sum_probs=66.0

Q ss_pred             CeEEEEEEEeCCCc-------hhhcccch-------hhhcC-------------CcEEEEEEeCCChhhHHHHHHHHHHH
Q psy2646          17 RTRTLIVIWDTAGQ-------ERFRTITS-------SYYRG-------------AHGIIVVYDCTDQETFNNLKQWLEEI   69 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~-------~~~~~~~~-------~~~~~-------------~d~~i~v~d~~~~~s~~~~~~~~~~i   69 (168)
                      +....+.+|||+|.       +.+..+..       .+++.             +++++++.+.+.. +++...  ...+
T Consensus        73 ~~~~~ltv~Dt~g~~~~~~~~e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~-~Ld~~~--~~~l  149 (301)
T 2qnr_A           73 GVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGH-GLKPLD--VAFM  149 (301)
T ss_dssp             -CCEEEEEEEEC-----------CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSS-SCCHHH--HHHH
T ss_pred             CcccCcchhhhhhhhhhcCcHHHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCccc-CCCHHH--HHHH
Confidence            44568999999998       55555544       44433             3446666654321 122222  1223


Q ss_pred             HHhcCCCCcEEEEEecCCCCCCccc--CHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          70 DRYACDNVNKLLVGNKNDQTSKKAV--DYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        70 ~~~~~~~~piivv~nK~Dl~~~~~v--~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ... ....|+++|+||.|+...+++  ..+++.++++.++++++++||+++ |++++|.++.+.+....+
T Consensus       150 ~~l-~~~~~iilV~~K~Dl~~~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~~p  217 (301)
T 2qnr_A          150 KAI-HNKVNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKASIP  217 (301)
T ss_dssp             HHH-TTTSCEEEEECCGGGSCHHHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHTTCS
T ss_pred             HHH-HhcCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcCCC
Confidence            232 246799999999999764433  235677788888999999999999 999999999998875543

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.05  E-value=7.5e-11  Score=90.64  Aligned_cols=106  Identities=15%  Similarity=0.195  Sum_probs=71.7

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHH
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQ   97 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~   97 (168)
                      .++.+.||||||...   .....+..+|++++|+|.+..+.+..+.   ..     ....|+++|+||+|+.+..... .
T Consensus       170 ~~~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~---~~-----~~~~p~ivVlNK~Dl~~~~~~~-~  237 (355)
T 3p32_A          170 AGFDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIK---KG-----VLELADIVVVNKADGEHHKEAR-L  237 (355)
T ss_dssp             TTCCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCC---TT-----SGGGCSEEEEECCCGGGHHHHH-H
T ss_pred             CCCCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHH---Hh-----HhhcCCEEEEECCCCcChhHHH-H
Confidence            346799999999532   2233468999999999987654432221   00     1246899999999986432221 1


Q ss_pred             HHHHHHH----------hcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          98 VAKEYAD----------HLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        98 ~~~~~~~----------~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ....+..          .++.+++++||++|.|++++++++.+.+...
T Consensus       238 ~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~~  285 (355)
T 3p32_A          238 AARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQVL  285 (355)
T ss_dssp             HHHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHh
Confidence            1112221          1257899999999999999999999887653

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.00  E-value=9.2e-10  Score=81.37  Aligned_cols=85  Identities=12%  Similarity=0.019  Sum_probs=55.3

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchh-------h--hcCCcEEEEEEeCCChhhHHH-HHHHHHHHHHhcCCC--C
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSS-------Y--YRGAHGIIVVYDCTDQETFNN-LKQWLEEIDRYACDN--V   77 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~-------~--~~~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~--~   77 (168)
                      .....++.....+.||||||..++..+...       +  ...+|++++|+|++.. ++.. ...|+..+......+  .
T Consensus        77 ~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~  155 (270)
T 1h65_A           77 PVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWN  155 (270)
T ss_dssp             CEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGG
T ss_pred             eEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCccccc
Confidence            334445555678999999999776543321       1  3479999999998753 2332 235666664432222  6


Q ss_pred             cEEEEEecCCCCCCcccC
Q psy2646          78 NKLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~   95 (168)
                      |+++|+||+|+......+
T Consensus       156 ~iivV~nK~Dl~~~~~~~  173 (270)
T 1h65_A          156 KAIVALTHAQFSPPDGLP  173 (270)
T ss_dssp             GEEEEEECCSCCCGGGCC
T ss_pred             CEEEEEECcccCCcCCCC
Confidence            999999999997654433

>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=98.99  E-value=5.2e-10  Score=87.16  Aligned_cols=49  Identities=18%  Similarity=0.144  Sum_probs=32.7

Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~  126 (168)
                      .+|+++++||.|+....  ......+.....+.+++++||..+.++.++++
T Consensus       214 ~kP~i~v~NK~D~~~~~--~l~~l~~~~~~~~~~vv~iSA~~e~~l~~L~~  262 (397)
T 1wxq_A          214 NKPMVIAANKADAASDE--QIKRLVREEEKRGYIVIPTSAAAELTLRKAAK  262 (397)
T ss_dssp             HSCEEEEEECGGGSCHH--HHHHHHHHHHHTTCEEEEECHHHHHHHHSCSS
T ss_pred             CCCEEEEEeCccccchH--HHHHHHHHHhhcCCcEEEEeccchhhHHHHHh
Confidence            48999999999986211  11222222222367899999999998876543

>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=98.99  E-value=4.6e-10  Score=94.90  Aligned_cols=70  Identities=20%  Similarity=0.299  Sum_probs=58.9

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ++..+.+.||||||+.+|...+..+++.+|++|+|||+++..++.....|.... .   .+.|+++++||+|+.
T Consensus        94 ~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~-~---~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           94 DGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL-G---ERIKPVVVINKVDRA  163 (842)
T ss_dssp             CSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH-H---TTCEEEEEEECHHHH
T ss_pred             cCCCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH-H---cCCCeEEEEECCCcc
Confidence            345889999999999999999999999999999999999987777765555433 2   368999999999985

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.94  E-value=8.2e-10  Score=85.27  Aligned_cols=98  Identities=18%  Similarity=0.263  Sum_probs=70.7

Q ss_pred             CCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHH----HH
Q psy2646          28 AGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKE----YA  103 (168)
Q Consensus        28 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~----~~  103 (168)
                      ..+++|..++..++..++++++|+|++++++     .|...+.+. ..+.|+++|+||+|+.... ...+...+    +.
T Consensus        56 ~~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~-l~~~piilV~NK~DLl~~~-~~~~~~~~~l~~~~  128 (369)
T 3ec1_A           56 LDDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRF-AADNPILLVGNKADLLPRS-VKYPKLLRWMRRMA  128 (369)
T ss_dssp             ---CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHH-CTTSCEEEEEECGGGSCTT-CCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHH-hCCCCEEEEEEChhcCCCc-cCHHHHHHHHHHHH
Confidence            3578899999999999999999999998763     233333333 2368999999999996542 22233333    34


Q ss_pred             HhcCC---CEEEEeccCCCCHHHHHHHHHHHH
Q psy2646         104 DHLKI---PFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus       104 ~~~~~---~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +..++   +++.+||++|.|++++++.+....
T Consensus       129 ~~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          129 EELGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             HTTTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HHcCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            55665   689999999999999999887654

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.90  E-value=1e-09  Score=90.29  Aligned_cols=79  Identities=16%  Similarity=0.153  Sum_probs=61.3

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+.+....+..+++.+.|.||||+.+|..-....++-+|++|+|+|+...-.-+. ...+......   ++|.++++||+
T Consensus        54 TI~s~~~~~~~~~~~iNlIDTPGH~DF~~Ev~raL~~~DgavlVVDa~~GV~~qT-~~v~~~a~~~---~lp~i~~INKm  129 (638)
T 3j25_A           54 TIQTGITSFQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQT-RILFHALRKM---GIPTIFFINKI  129 (638)
T ss_dssp             CSSCCCCCCBCSSCBCCCEECCCSSSTHHHHHHHHTTCSEEECCEESSCTTCSHH-HHHHHHHHHH---TCSCEECCEEC
T ss_pred             cEEeeeEEEEECCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEeCCCCCcHHH-HHHHHHHHHc---CCCeEEEEecc
Confidence            4556667777888899999999999998888889999999999999987533232 2333334444   68999999999


Q ss_pred             CCC
Q psy2646          87 DQT   89 (168)
Q Consensus        87 Dl~   89 (168)
                      |..
T Consensus       130 Dr~  132 (638)
T 3j25_A          130 DQN  132 (638)
T ss_dssp             CSS
T ss_pred             ccc
Confidence            974

>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=98.89  E-value=1e-10  Score=89.79  Aligned_cols=109  Identities=13%  Similarity=0.093  Sum_probs=66.8

Q ss_pred             EEEEEEEeCCCch-------------hhcccchhhhcCCcEEEE-EEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEe
Q psy2646          19 RTLIVIWDTAGQE-------------RFRTITSSYYRGAHGIIV-VYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGN   84 (168)
Q Consensus        19 ~~~l~l~Dt~G~~-------------~~~~~~~~~~~~~d~~i~-v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~n   84 (168)
                      ...+.||||||..             .+..+...|+..++.+|+ ++|++....-.+...++..+   ...+.|+++|+|
T Consensus       129 ~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~~---~~~~~~~i~V~N  205 (353)
T 2x2e_A          129 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKVAKEV---DPQGQRTIGVIT  205 (353)
T ss_dssp             CCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHHH---CTTCTTEEEEEE
T ss_pred             CCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHHh---CcCCCceEEEec
Confidence            3579999999963             345566778877765555 55655422212222233333   234789999999


Q ss_pred             cCCCCCCcccCHHHHHH--HHHhcC-CCEEEEeccCCCCHHHHHHHHHH
Q psy2646          85 KNDQTSKKAVDYQVAKE--YADHLK-IPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        85 K~Dl~~~~~v~~~~~~~--~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      |+|+.............  +...++ .+++++||+++.|++++++++..
T Consensus       206 K~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          206 KLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             CGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             cccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            99997543311111110  000123 25678999999999999999876

>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=98.86  E-value=2e-09  Score=82.23  Aligned_cols=105  Identities=16%  Similarity=0.169  Sum_probs=66.6

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCH--
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDY--   96 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~--   96 (168)
                      ++.+.||||||.....   ......+|++++|+|++..+.+..+..   ..  .   +.|.++|+||+|+.+...+..  
T Consensus       148 ~~~i~liDTpG~~~~~---~~~~~~aD~vl~Vvd~~~~~~~~~l~~---~~--~---~~p~ivv~NK~Dl~~~~~~~~~~  216 (341)
T 2p67_A          148 GYDVVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIKK---GL--M---EVADLIVINKDDGDNHTNVAIAR  216 (341)
T ss_dssp             TCSEEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCCH---HH--H---HHCSEEEECCCCTTCHHHHHHHH
T ss_pred             CCCEEEEeCCCccchH---HHHHHhCCEEEEEEeCCccHHHHHHHH---hh--h---cccCEEEEECCCCCChHHHHHHH
Confidence            4679999999975433   235689999999999976533221111   11  1   357899999999865322211  


Q ss_pred             HHHHHHHHh-------cCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          97 QVAKEYADH-------LKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        97 ~~~~~~~~~-------~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      .+.......       +..+++++||++|.|++++++++.+.+..
T Consensus       217 ~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~~  261 (341)
T 2p67_A          217 HMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKTA  261 (341)
T ss_dssp             HHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence            112221111       13578999999999999999999987753

>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=98.84  E-value=6.7e-09  Score=77.36  Aligned_cols=102  Identities=17%  Similarity=0.135  Sum_probs=68.7

Q ss_pred             EEeCCCch-hhcccchhhhcCCcEEEEEEeCCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHH
Q psy2646          24 IWDTAGQE-RFRTITSSYYRGAHGIIVVYDCTDQETFN--NLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAK  100 (168)
Q Consensus        24 l~Dt~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~  100 (168)
                      +-..||+. .........++.+|++++|+|+.++.+..  .+..|+        .+.|.++|+||+|+.....  .+...
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~~~~--~~~~~   72 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKADAAV--TQQWK   72 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSCHHH--HHHHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCCHHH--HHHHH
Confidence            44567875 33334456789999999999999986654  233322        3689999999999965321  12223


Q ss_pred             HHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646         101 EYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus       101 ~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      .+.+..+++++++||.++.|+.++++.+...+...
T Consensus        73 ~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~~  107 (282)
T 1puj_A           73 EHFENQGIRSLSINSVNGQGLNQIVPASKEILQEK  107 (282)
T ss_dssp             HHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             HHHHhcCCcEEEEECCCcccHHHHHHHHHHHHHHH
Confidence            34445578999999999999999999888777643

>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=98.81  E-value=3.2e-09  Score=83.15  Aligned_cols=107  Identities=12%  Similarity=0.157  Sum_probs=52.5

Q ss_pred             EEEEEEeCCCchhhc-------c------------------cchhhhcCCc--EEEEEEeCCChhhHHHHH-HHHHHHHH
Q psy2646          20 TLIVIWDTAGQERFR-------T------------------ITSSYYRGAH--GIIVVYDCTDQETFNNLK-QWLEEIDR   71 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~-------~------------------~~~~~~~~~d--~~i~v~d~~~~~s~~~~~-~~~~~i~~   71 (168)
                      ..+.+||++|...+.       .                  +...++.+++  +++|+.+.+. .++.... .|+..+. 
T Consensus        88 ~~Ltv~Dt~g~~~~~~~~~~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~-~~L~~~d~~~lk~L~-  165 (418)
T 2qag_C           88 LLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSG-HGLKPLDIEFMKRLH-  165 (418)
T ss_dssp             EEEEEEECC-----------CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-C-CSCCHHHHHHHHHHT-
T ss_pred             cceeeeechhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcc-cCCCHHHHHHHHHHh-
Confidence            478999999986531       1                  1123445544  4555554431 1232222 4555552 


Q ss_pred             hcCCCCcEEEEEecCCCCCCcccCH--HHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          72 YACDNVNKLLVGNKNDQTSKKAVDY--QVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        72 ~~~~~~piivv~nK~Dl~~~~~v~~--~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                         .+.|+|+|+||+|+...+.+..  ..+...+..++++++++|+.++.++.++|..+...
T Consensus       166 ---~~v~iIlVinK~Dll~~~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~  224 (418)
T 2qag_C          166 ---EKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR  224 (418)
T ss_dssp             ---TTSEEEEEEESTTSSCHHHHHHHHHHHHHHHHHHTCCCCCCC-----------------
T ss_pred             ---ccCcEEEEEEcccCccHHHHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhh
Confidence               3689999999999876555543  45666777789999999999999999887776643

>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=98.68  E-value=3.9e-07  Score=70.00  Aligned_cols=43  Identities=12%  Similarity=0.042  Sum_probs=30.6

Q ss_pred             CCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccC
Q psy2646          75 DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKN  117 (168)
Q Consensus        75 ~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~  117 (168)
                      ...|+++++|+.|..-........+..++...+.+++++||+.
T Consensus       198 t~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~~  240 (363)
T 1jal_A          198 TLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI  240 (363)
T ss_dssp             TTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             cCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechHH
Confidence            3589999999998642112223556677777788999999764

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=98.68  E-value=1.1e-07  Score=79.04  Aligned_cols=68  Identities=22%  Similarity=0.322  Sum_probs=53.6

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      +.+.+.|.||||+-.|..-....++-+|++|+|+|+...-.-+...-|.. ..+.   ++|.++++||+|..
T Consensus        83 ~~~~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~-a~~~---~lp~i~~iNKiDr~  150 (709)
T 4fn5_A           83 DNYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQ-ANKY---GVPRIVYVNKMDRQ  150 (709)
T ss_dssp             CCEEEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHHH---TCCEEEEEECSSST
T ss_pred             CCEEEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHH-HHHc---CCCeEEEEcccccc
Confidence            46899999999999998877888999999999999987644333333333 3333   68999999999974

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=98.67  E-value=1.2e-07  Score=72.70  Aligned_cols=104  Identities=14%  Similarity=0.173  Sum_probs=64.1

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHH
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQV   98 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~   98 (168)
                      ++.+.|+||+|...   ........+|.+++|+|++..+....+.   ..+     ...|.++++||+|+.+..... ..
T Consensus       166 ~~~~iliDT~Gi~~---~~~~l~~~~d~vl~V~d~~~~~~~~~i~---~~i-----l~~~~ivVlNK~Dl~~~~~~~-~~  233 (349)
T 2www_A          166 GYDIILIETVGVGQ---SEFAVADMVDMFVLLLPPAGGDELQGIK---RGI-----IEMADLVAVTKSDGDLIVPAR-RI  233 (349)
T ss_dssp             TCSEEEEECCCC-----CHHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHHHH-HH
T ss_pred             CCCEEEEECCCcch---hhhhHHhhCCEEEEEEcCCcchhHHHhH---HHH-----HhcCCEEEEeeecCCCchhHH-HH
Confidence            45789999999631   1234578899999999998654322111   111     146889999999985321110 11


Q ss_pred             HHHHHH----------hcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          99 AKEYAD----------HLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        99 ~~~~~~----------~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ...+..          .+..+++.+||+++.|++++++++...+..
T Consensus       234 ~~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~~  279 (349)
T 2www_A          234 QAEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQDL  279 (349)
T ss_dssp             HHHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            112211          124578999999999999999999887643

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.63  E-value=9.9e-09  Score=83.04  Aligned_cols=70  Identities=20%  Similarity=0.232  Sum_probs=52.8

Q ss_pred             EEEEEeCCCchh-----------hcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          21 LIVIWDTAGQER-----------FRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        21 ~l~l~Dt~G~~~-----------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      .+.||||||...           |...+..++..+|++|+|+|+++.........|+..+...   +.|+++|+||+|+.
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~---~~pvilVlNK~Dl~  231 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGH---EDKIRVVLNKADMV  231 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTC---GGGEEEEEECGGGS
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhc---CCCEEEEEECCCcc
Confidence            589999999864           4455667889999999999998754445555666655332   57999999999987


Q ss_pred             CCcc
Q psy2646          90 SKKA   93 (168)
Q Consensus        90 ~~~~   93 (168)
                      ....
T Consensus       232 ~~~e  235 (550)
T 2qpt_A          232 ETQQ  235 (550)
T ss_dssp             CHHH
T ss_pred             CHHH
Confidence            5433

>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=98.56  E-value=1.6e-08  Score=84.30  Aligned_cols=106  Identities=16%  Similarity=0.137  Sum_probs=68.9

Q ss_pred             EEEEEeCCCchh-------------hcccchhhh-cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          21 LIVIWDTAGQER-------------FRTITSSYY-RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        21 ~l~l~Dt~G~~~-------------~~~~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      ++.|+||||...             +..+...|+ ..+|++++|+|++....-.+...++..+.   ..+.|+++|+||+
T Consensus       151 qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~---~~g~pvIlVlNKi  227 (772)
T 3zvr_A          151 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVD---PQGQRTIGVITKL  227 (772)
T ss_dssp             SEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHC---TTCSSEEEEEECT
T ss_pred             ceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHH---hcCCCEEEEEeCc
Confidence            578999999643             222334455 57899999999986533233323444443   2368999999999


Q ss_pred             CCCCCcccCHHHHHHHHHh----cC-CCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADH----LK-IPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~----~~-~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      |+........... . .+.    ++ .+++.+||++|.|++++++++...
T Consensus       228 Dlv~~~~~~~~il-~-~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          228 DLMDEGTDARDVL-E-NKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             TSSCTTCCSHHHH-T-TCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             ccCCcchhhHHHH-H-HHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            9876443322111 1 111    12 356789999999999999988763

>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=98.44  E-value=1.1e-06  Score=67.71  Aligned_cols=51  Identities=12%  Similarity=0.020  Sum_probs=35.5

Q ss_pred             CCcEEEEEecCCCC--CC-cccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHH
Q psy2646          76 NVNKLLVGNKNDQT--SK-KAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        76 ~~piivv~nK~Dl~--~~-~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~  126 (168)
                      ..|+++++||.|..  .. +......+..+++..+.+++++||+...++.++.+
T Consensus       201 ~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~iSAk~E~el~eL~~  254 (368)
T 2dby_A          201 AKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVVSARLEAELAELSG  254 (368)
T ss_dssp             GSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEECHHHHHHHHTSCH
T ss_pred             cCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEeechhHHHHHHhch
Confidence            47999999999742  21 12234556677777789999999988665555443

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.42  E-value=1.5e-07  Score=70.87  Aligned_cols=90  Identities=11%  Similarity=0.154  Sum_probs=61.1

Q ss_pred             cccchhhhcCCcEEEEEEeCCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCccc--CHHHHHHHHHhcCCCE
Q psy2646          34 RTITSSYYRGAHGIIVVYDCTDQET-FNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAV--DYQVAKEYADHLKIPF  110 (168)
Q Consensus        34 ~~~~~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v--~~~~~~~~~~~~~~~~  110 (168)
                      +.+.+..++++|.+++|+|+.++.. ...+..++....   ..++|.++|+||+|+......  .......+....++++
T Consensus        77 ~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~---~~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v  153 (307)
T 1t9h_A           77 NELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVE---ANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDV  153 (307)
T ss_dssp             CEETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHH---TTTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCE
T ss_pred             hhhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHH---HCCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeE
Confidence            4455667899999999999997643 334444444332   236889999999999764220  0122333444557899


Q ss_pred             EEEeccCCCCHHHHHH
Q psy2646         111 LETSAKNGANVEQAFL  126 (168)
Q Consensus       111 ~~vSa~~~~~i~~i~~  126 (168)
                      +.+||.++.|+++++.
T Consensus       154 ~~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          154 YLTSSKDQDSLADIIP  169 (307)
T ss_dssp             EECCHHHHTTCTTTGG
T ss_pred             EEEecCCCCCHHHHHh
Confidence            9999999988776554

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.41  E-value=7.7e-07  Score=67.83  Aligned_cols=104  Identities=13%  Similarity=0.173  Sum_probs=64.0

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHH
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQV   98 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~   98 (168)
                      +.++.|+||+|...-   .......+|.+++++|+...+....+..   .+.     ..|.++++||+|+..........
T Consensus       147 ~~~~iliDT~Gi~~~---~~~v~~~~d~vl~v~d~~~~~~~~~i~~---~i~-----~~~~ivvlNK~Dl~~~~~~s~~~  215 (337)
T 2qm8_A          147 GFDVILVETVGVGQS---ETAVADLTDFFLVLMLPGAGDELQGIKK---GIF-----ELADMIAVNKADDGDGERRASAA  215 (337)
T ss_dssp             TCCEEEEEECSSSSC---HHHHHTTSSEEEEEECSCC------CCT---THH-----HHCSEEEEECCSTTCCHHHHHHH
T ss_pred             CCCEEEEECCCCCcc---hhhHHhhCCEEEEEEcCCCcccHHHHHH---HHh-----ccccEEEEEchhccCchhHHHHH
Confidence            467999999997431   1234578999999999875432211111   111     23567778999975322221111


Q ss_pred             HHHHHH----------hcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          99 AKEYAD----------HLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        99 ~~~~~~----------~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ...+..          .+..+++.+||+++.|++++++.+.+...
T Consensus       216 ~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          216 ASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            222221          12457899999999999999999988764

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.37  E-value=1.8e-07  Score=68.95  Aligned_cols=93  Identities=12%  Similarity=0.037  Sum_probs=59.9

Q ss_pred             CCCchhh-cccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHh
Q psy2646          27 TAGQERF-RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADH  105 (168)
Q Consensus        27 t~G~~~~-~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~  105 (168)
                      -||+... .......++++|+++.|+|+.++.+.....  +. +    . +.|.++|+||+|+.....  .+....+.+.
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~--l~-l----l-~k~~iivlNK~DL~~~~~--~~~~~~~~~~   73 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYG--VD-F----S-RKETIILLNKVDIADEKT--TKKWVEFFKK   73 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTT--SC-C----T-TSEEEEEEECGGGSCHHH--HHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChH--HH-h----c-CCCcEEEEECccCCCHHH--HHHHHHHHHH
Confidence            3565422 123355788999999999999886543211  11 1    1 689999999999975321  1222334445


Q ss_pred             cCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646         106 LKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus       106 ~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      .++++ .+||.++.|++++++.+..
T Consensus        74 ~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           74 QGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             TTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             cCCeE-EEECCCCcCHHHHHHHHHH
Confidence            67888 9999999999998887654

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.32  E-value=4e-07  Score=64.99  Aligned_cols=59  Identities=17%  Similarity=0.186  Sum_probs=46.4

Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHHhc--CCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYADHL--KIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~--~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ..|.++++||+|+.+......++...++..+  +.+++++||++|.|++++|+++.+.+..
T Consensus       164 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          164 KTADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             TTCSEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             hcCCEEEEeccccCchhHHHHHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            4688999999998654334556666666543  5789999999999999999999987754

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=98.18  E-value=8.5e-06  Score=62.48  Aligned_cols=85  Identities=16%  Similarity=0.198  Sum_probs=56.0

Q ss_pred             hhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC-HHHHHHHHHhcCCCEEEEeccC
Q psy2646          40 YYRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD-YQVAKEYADHLKIPFLETSAKN  117 (168)
Q Consensus        40 ~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~-~~~~~~~~~~~~~~~~~vSa~~  117 (168)
                      .+.++|.+++|.+.. |. +...+..++......   +.|.++|+||+|+....... .+.........|++++.+||.+
T Consensus       127 i~anvD~v~iv~a~~-P~~~~~~i~r~L~~a~~~---~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~  202 (358)
T 2rcn_A          127 IAANIDQIVIVSAIL-PELSLNIIDRYLVGCETL---QVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHT  202 (358)
T ss_dssp             EEECCCEEEEEEEST-TTCCHHHHHHHHHHHHHH---TCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTT
T ss_pred             HHhcCCEEEEEEeCC-CCCCHHHHHHHHHHHHhc---CCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            368999999886654 43 344455555444333   67889999999997542200 1112223345688999999999


Q ss_pred             CCCHHHHHHHH
Q psy2646         118 GANVEQAFLTM  128 (168)
Q Consensus       118 ~~~i~~i~~~l  128 (168)
                      +.|++++...+
T Consensus       203 ~~gl~~L~~~~  213 (358)
T 2rcn_A          203 QDGLKPLEEAL  213 (358)
T ss_dssp             TBTHHHHHHHH
T ss_pred             CcCHHHHHHhc
Confidence            99998877643

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=97.91  E-value=0.0002  Score=55.27  Aligned_cols=117  Identities=9%  Similarity=0.042  Sum_probs=64.7

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcc----cc---hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc--CCCC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRT----IT---SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA--CDNV   77 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~----~~---~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~   77 (168)
                      |+......+...+.+++|.||||.-+-..    +.   -..++.+|++++|+|++++.  .+...+...+....  ..+.
T Consensus       106 T~~~~~g~~~~~~~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~ad~il~vvD~~~p~--~~~~~i~~EL~~~~~~l~~k  183 (376)
T 4a9a_A          106 TLVTVPGVIRYKGAKIQMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLFIILDVNKPL--HHKQIIEKELEGVGIRLNKT  183 (376)
T ss_dssp             CCCEEEEEEEETTEEEEEEECGGGCCC-----CHHHHHHHHHHHCSEEEEEEETTSHH--HHHHHHHHHHHHTTEEETCC
T ss_pred             eeeeeeEEEEeCCcEEEEEeCCCccCCchhhhHHHHHHHHHHHhcCccccccccCccH--HHHHHHHHHHHHhhHhhccC
Confidence            44444444444556899999999743211    11   23467899999999999863  23333333332221  2357


Q ss_pred             cEEEEEecCCCCC--------CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHH
Q psy2646          78 NKLLVGNKNDQTS--------KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAF  125 (168)
Q Consensus        78 piivv~nK~Dl~~--------~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~  125 (168)
                      |.+++.||.|...        ...++.++...+...+.+..-++-...+...+++.
T Consensus       184 ~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~kpv~~~~nv~eddl~  239 (376)
T 4a9a_A          184 PPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINSAEIAFRCDATVDDLI  239 (376)
T ss_dssp             CCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCSEEEEECSCCCHHHHH
T ss_pred             ChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccCCCeeecccCCHHHHH
Confidence            8899999999642        12244555555555544432222223333444443

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.34  E-value=0.00019  Score=57.48  Aligned_cols=103  Identities=17%  Similarity=0.134  Sum_probs=61.9

Q ss_pred             eEEEEEEEeCCCchhhc-ccchh---h--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEecCCCCC
Q psy2646          18 TRTLIVIWDTAGQERFR-TITSS---Y--YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-LLVGNKNDQTS   90 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~-~~~~~---~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ivv~nK~Dl~~   90 (168)
                      ..+.+.|+||||..... .++..   .  +..+|.+++|+|+......   ......+..    ..|+ ++|+||.|...
T Consensus       182 ~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~---~~~a~~~~~----~~~i~gvVlNK~D~~~  254 (504)
T 2j37_W          182 ENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQAC---EAQAKAFKD----KVDVASVIVTKLDGHA  254 (504)
T ss_dssp             TTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTH---HHHHHHHHH----HHCCCCEEEECTTSCC
T ss_pred             CCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccH---HHHHHHHHh----hcCceEEEEeCCcccc
Confidence            34679999999975321 11111   1  2278999999999865321   112222322    1564 89999999864


Q ss_pred             CcccCHHHHHHHHHhcCCCE------------------EEEeccCCCC-HHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKEYADHLKIPF------------------LETSAKNGAN-VEQAFLTMATE  131 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~~~------------------~~vSa~~~~~-i~~i~~~l~~~  131 (168)
                      ....    ........+.|+                  +.+|+..|.| +.++++++...
T Consensus       255 ~~g~----~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          255 KGGG----ALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CCTH----HHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             chHH----HHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            3221    112233334443                  3468888988 98888888755

>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=96.67  E-value=0.029  Score=43.42  Aligned_cols=42  Identities=12%  Similarity=0.066  Sum_probs=28.6

Q ss_pred             CCcEEEEEecCCCC-C-CcccCHHHHHHHHHhcC--CCEEEEeccC
Q psy2646          76 NVNKLLVGNKNDQT-S-KKAVDYQVAKEYADHLK--IPFLETSAKN  117 (168)
Q Consensus        76 ~~piivv~nK~Dl~-~-~~~v~~~~~~~~~~~~~--~~~~~vSa~~  117 (168)
                      ..|+++++|+.|.. . ...--...+.+++...+  .+++.+||..
T Consensus       224 ~kp~~y~~Nv~e~~~~~~~~~~~~~~~~~~~~~~p~~~~v~~sa~~  269 (392)
T 1ni3_A          224 AKPVIYLVNMSERDFLRQKNKYLPKIKKWIDENSPGDTLIPMSVAF  269 (392)
T ss_dssp             GSCEEEEEECCHHHHTTTCCSSHHHHHHHHHTTSTTCCEEEECHHH
T ss_pred             cCceEEEEEecchhhcccchHHHHHHHHHHHhcCCCCeEEEEEhHH
Confidence            48999999999832 1 11112355666776665  7899999886

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=96.63  E-value=0.00094  Score=51.82  Aligned_cols=37  Identities=16%  Similarity=0.150  Sum_probs=24.1

Q ss_pred             EEEEEEeCCCchhhcc-------cchhhhcCCcEEEEEEeCCCh
Q psy2646          20 TLIVIWDTAGQERFRT-------ITSSYYRGAHGIIVVYDCTDQ   56 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~-------~~~~~~~~~d~~i~v~d~~~~   56 (168)
                      ..++||||||..++.+       .+..+++++|++++|+|+.+.
T Consensus        86 ~~i~lvDtpGl~~~as~~~glg~~~l~~ir~aD~Il~VvD~~~~  129 (396)
T 2ohf_A           86 AFLNVVDIAGLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFED  129 (396)
T ss_dssp             CEEEEEECCC-----------CCHHHHHHHTSSSEEEEEEC---
T ss_pred             cccEEEECCCcccccchhhHHHHHHHHHHHhcCeEEEEEecCCC
Confidence            3599999999876543       345678999999999999754

>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=96.09  E-value=0.021  Score=44.88  Aligned_cols=90  Identities=20%  Similarity=0.136  Sum_probs=53.9

Q ss_pred             EEEEEEeCCCchhhcc-----cch-hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc
Q psy2646          20 TLIVIWDTAGQERFRT-----ITS-SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA   93 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~-----~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~   93 (168)
                      +.+.|+||+|......     +.. .....+|.+++|+|+......   ......+...   -.+..+|.||.|..... 
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a---~~~a~~f~~~---~~i~gVIlTKlD~~~~g-  255 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQA---YNQALAFKEA---TPIGSIIVTKLDGSAKG-  255 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGH---HHHHHHHHHS---CTTEEEEEECCSSCSSH-
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhH---HHHHHHHHhh---CCCeEEEEECCCCcccc-
Confidence            6789999999643211     111 123357999999999864322   2222333222   24557999999975432 


Q ss_pred             cCHHHHHHHHHhcCCCEEEEeccCCCCH
Q psy2646          94 VDYQVAKEYADHLKIPFLETSAKNGANV  121 (168)
Q Consensus        94 v~~~~~~~~~~~~~~~~~~vSa~~~~~i  121 (168)
                         -.+..+....+.|+.+++.  |+++
T Consensus       256 ---G~~ls~~~~~g~PI~fig~--Ge~v  278 (443)
T 3dm5_A          256 ---GGALSAVAATGAPIKFIGT--GEKI  278 (443)
T ss_dssp             ---HHHHHHHHTTCCCEEEEEC--SSST
T ss_pred             ---cHHHHHHHHHCCCEEEEEc--CCCh
Confidence               2234455567899988885  5544

>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=95.72  E-value=0.031  Score=41.56  Aligned_cols=92  Identities=15%  Similarity=0.122  Sum_probs=56.7

Q ss_pred             EEEEEEEeCCCchh--hcc-cch-----hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEecCCCC
Q psy2646          19 RTLIVIWDTAGQER--FRT-ITS-----SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNKNDQT   89 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~--~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~Dl~   89 (168)
                      .+.+.|.||||...  ... +..     ..+..+|.+++|+|+....   +.......+..    ..| ..+|.||.|..
T Consensus       180 ~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~---~~~~~~~~~~~----~~~i~gvVlnk~D~~  252 (297)
T 1j8m_F          180 KMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQ---KAYDLASKFNQ----ASKIGTIIITKMDGT  252 (297)
T ss_dssp             TCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGG---GHHHHHHHHHH----TCTTEEEEEECGGGC
T ss_pred             CCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchH---HHHHHHHHHHh----hCCCCEEEEeCCCCC
Confidence            45789999999765  211 111     1245789999999987432   22222222221    355 67899999974


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~  123 (168)
                      ..    ......+....+.|+.+++  .|+++++
T Consensus       253 ~~----~g~~~~~~~~~~~pi~~i~--~Ge~v~d  280 (297)
T 1j8m_F          253 AK----GGGALSAVAATGATIKFIG--TGEKIDE  280 (297)
T ss_dssp             TT----HHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             cc----hHHHHHHHHHHCcCEEEEe--CCCChhh
Confidence            32    2234456677789998887  5666644

>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=95.70  E-value=0.031  Score=38.56  Aligned_cols=85  Identities=14%  Similarity=0.039  Sum_probs=54.0

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEecCCCCCCcccCHH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA--CDNVNKLLVGNKNDQTSKKAVDYQ   97 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~piivv~nK~Dl~~~~~v~~~   97 (168)
                      +.+.|+|+|+..  .......+..+|.+|+++..+...  ..+..++..+....  .++.++.+|.|+.|....  .. .
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~~--~~-~  148 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD--FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMAT--ML-N  148 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT--HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTEE--EE-H
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH--HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCch--HH-H
Confidence            678999999865  333455677799999999877543  56666666664432  335788999999984321  22 2


Q ss_pred             HHHHHHHhcCCCEE
Q psy2646          98 VAKEYADHLKIPFL  111 (168)
Q Consensus        98 ~~~~~~~~~~~~~~  111 (168)
                      +..++.+.++.+++
T Consensus       149 ~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          149 VLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHTCCBC
T ss_pred             HHHHHHHHcCCcee
Confidence            33344444554443

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=95.30  E-value=0.14  Score=36.30  Aligned_cols=87  Identities=11%  Similarity=0.082  Sum_probs=58.4

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHH
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQV   98 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~   98 (168)
                      .+.+.|+|+|+..  .......+..+|.+|+++..+ ..+...+..++..+.........+.+|.|+.+....  ...  
T Consensus       118 ~yD~viiD~p~~~--~~~~~~~l~~ad~viiv~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~~~--~~~--  190 (245)
T 3ea0_A          118 FYDYIIVDFGASI--DHVGVWVLEHLDELCIVTTPS-LQSLRRAGQLLKLCKEFEKPISRIEIILNRADTNSR--ITS--  190 (245)
T ss_dssp             HCSEEEEEEESSC--CTTHHHHGGGCSEEEEEECSS-HHHHHHHHHHHHHHHTCSSCCSCEEEEEESTTSCTT--SCH--
T ss_pred             hCCEEEEeCCCCC--chHHHHHHHHCCEEEEEecCc-HHHHHHHHHHHHHHHHhCCCccceEEEEecCCCCCC--CCH--
Confidence            4678999999864  234455677899999998775 556777777777775543334568899999985432  332  


Q ss_pred             HHHHHHhcCCCEEEE
Q psy2646          99 AKEYADHLKIPFLET  113 (168)
Q Consensus        99 ~~~~~~~~~~~~~~v  113 (168)
                       ..+.+.++.+++..
T Consensus       191 -~~~~~~~~~~v~~~  204 (245)
T 3ea0_A          191 -DEIEKVIGRPISKR  204 (245)
T ss_dssp             -HHHHHHHTSCEEEE
T ss_pred             -HHHHHHhCCCeEEE
Confidence             23445567777654

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=95.00  E-value=0.13  Score=35.89  Aligned_cols=86  Identities=12%  Similarity=0.106  Sum_probs=54.9

Q ss_pred             EEEEEEEeCCCc-hhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHH
Q psy2646          19 RTLIVIWDTAGQ-ERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQ   97 (168)
Q Consensus        19 ~~~l~l~Dt~G~-~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~   97 (168)
                      .+.+.|.|+|+. ..  ......+..+|.+|+++..+ ..+...+..++..+....  +.++.++.|+.|..... . ..
T Consensus        67 ~yD~viiD~p~~~~~--~~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~~-~-~~  139 (209)
T 3cwq_A           67 KYQNIVIDTQARPED--EDLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLG--NNRFRILLTIIPPYPSK-D-GD  139 (209)
T ss_dssp             GCSEEEEEEECCCSS--SHHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTC--SSSEEEEECSBCCTTSC-H-HH
T ss_pred             cCCEEEEeCCCCcCc--HHHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhcc--CCCEEEEEEecCCccch-H-HH
Confidence            456889999986 42  23345677899999998776 445666666666665532  46789999999854311 1 23


Q ss_pred             HHHHHHHhcCCCEE
Q psy2646          98 VAKEYADHLKIPFL  111 (168)
Q Consensus        98 ~~~~~~~~~~~~~~  111 (168)
                      +..+..+.++.+++
T Consensus       140 ~~~~~l~~~g~~v~  153 (209)
T 3cwq_A          140 EARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHHTTCCBC
T ss_pred             HHHHHHHHcCCchh
Confidence            34444444665544

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=94.67  E-value=0.0029  Score=48.61  Aligned_cols=94  Identities=14%  Similarity=0.156  Sum_probs=51.5

Q ss_pred             EEEEeCCCchhhcccc-------hhhh---cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          22 IVIWDTAGQERFRTIT-------SSYY---RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        22 l~l~Dt~G~~~~~~~~-------~~~~---~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      +.++||||......+.       ...+   +..+.++++++.....-+..+..    +......+.|+++++||.|....
T Consensus       214 ~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~~~~  289 (369)
T 3ec1_A          214 ATLYDTPGIINHHQMAHFVDARDLKIITPKREIHPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELTVHR  289 (369)
T ss_dssp             CEEEECCSCCCCSSGGGGSCTTTHHHHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEE
T ss_pred             eEEEeCCCcCcHHHHHHHHhHHHHHHHhcccccCceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCccccc
Confidence            7899999964322111       1122   67899999998843211111100    11111346899999999997643


Q ss_pred             cccCHHHHHHHHHhcCCCEEEEeccCCCC
Q psy2646          92 KAVDYQVAKEYADHLKIPFLETSAKNGAN  120 (168)
Q Consensus        92 ~~v~~~~~~~~~~~~~~~~~~vSa~~~~~  120 (168)
                      .... .....+.+..+..+.+.++....+
T Consensus       290 ~~~~-~~~~~~~~~~g~~l~p~~~~~~~~  317 (369)
T 3ec1_A          290 TKLE-KADSLYANQLGELLSPPSKRYAAE  317 (369)
T ss_dssp             EEGG-GHHHHHHHHBTTTBCSSCGGGTTT
T ss_pred             ccHH-HHHHHHHHhcCCccCCCCchhhhh
Confidence            3332 223345555666555555554333

>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=94.46  E-value=0.11  Score=40.84  Aligned_cols=91  Identities=18%  Similarity=0.100  Sum_probs=54.0

Q ss_pred             EEEEEEEeCCCchh--hcc-----cch-hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          19 RTLIVIWDTAGQER--FRT-----ITS-SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~--~~~-----~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      .+.+.|.||||...  ...     +.. ......+.+++|+|+.......   .....+...   -.+..++.||.|...
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~---~~a~~f~~~---~~~~gVIlTKlD~~a  252 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAY---DLASRFHQA---SPIGSVIITKMDGTA  252 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGH---HHHHHHHHH---CSSEEEEEECGGGCS
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHH---HHHHHHhcc---cCCcEEEEecccccc
Confidence            46788999999643  111     111 0122468999999998643222   222333322   245789999999753


Q ss_pred             CcccCHHHHHHHHHhcCCCEEEEeccCCCCH
Q psy2646          91 KKAVDYQVAKEYADHLKIPFLETSAKNGANV  121 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i  121 (168)
                      .-    -.+..+....+.|+.+++.  |+++
T Consensus       253 ~~----G~als~~~~~g~Pi~fig~--Ge~v  277 (433)
T 3kl4_A          253 KG----GGALSAVVATGATIKFIGT--GEKI  277 (433)
T ss_dssp             CH----HHHHHHHHHHTCEEEEEEC--CSSS
T ss_pred             cc----hHHHHHHHHHCCCEEEEEC--CCCh
Confidence            21    2334455567899988885  6554

>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=94.26  E-value=0.17  Score=39.58  Aligned_cols=85  Identities=20%  Similarity=0.162  Sum_probs=49.0

Q ss_pred             eEEEEEEEeCCCchhhcc-cch-----hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC-c-EEEEEecCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRT-ITS-----SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNV-N-KLLVGNKNDQT   89 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-p-iivv~nK~Dl~   89 (168)
                      ..+.+.|+||||...... +..     ..+..+|.+++|+|+.....   .......+    .... | ..+|.||+|..
T Consensus       179 ~~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~----~~~~~~i~gvVlnK~D~~  251 (432)
T 2v3c_C          179 KKADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AGIQAKAF----KEAVGEIGSIIVTKLDGS  251 (432)
T ss_dssp             SSCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HHHHHHHH----HTTSCSCEEEEEECSSSC
T ss_pred             hCCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HHHHHHHH----hhcccCCeEEEEeCCCCc
Confidence            446789999999754211 111     11236899999999875431   22222222    1234 5 89999999975


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEE
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLET  113 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~v  113 (168)
                      ...    .....+....+.++.++
T Consensus       252 ~~~----g~~l~~~~~~~~pi~~i  271 (432)
T 2v3c_C          252 AKG----GGALSAVAETKAPIKFI  271 (432)
T ss_dssp             STT----HHHHHHHHHSSCCEEEE
T ss_pred             cch----HHHHHHHHHHCCCEEEe
Confidence            321    12334555667776665

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=94.01  E-value=0.17  Score=36.35  Aligned_cols=69  Identities=13%  Similarity=0.141  Sum_probs=44.4

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHH---hcCCCCcEE-EEEecCCCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR---YACDNVNKL-LVGNKNDQT   89 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~---~~~~~~pii-vv~nK~Dl~   89 (168)
                      ..+.+.|+|+|+...  ......+..+|.+|+++..+. .++..+..++..+..   ....+.+++ +|.|+.|..
T Consensus       110 ~~yD~iiiD~pp~~~--~~~~~~l~~aD~viiv~~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~N~~~~~  182 (257)
T 1wcv_1          110 EGYDLVLLDAPPSLS--PLTLNALAAAEGVVVPVQAEY-YALEGVAGLLATLEEVRAGLNPRLRLLGILVTMYDGR  182 (257)
T ss_dssp             TTCSEEEEECCSSCC--HHHHHHHHHCSEEEEEEESST-HHHHHHHHHHHHHHHHHHHTCTTCEEEEEEEESBCTT
T ss_pred             cCCCEEEEeCCCCCC--HHHHHHHHHCCeEEEEecCch-HHHHHHHHHHHHHHHHHHHhCCCceEEEEEEEeECCC
Confidence            456799999998642  222345667999999998874 344544444444432   223456764 899999853

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=93.29  E-value=0.0027  Score=48.76  Aligned_cols=89  Identities=9%  Similarity=0.076  Sum_probs=47.6

Q ss_pred             EEEEeCCCchhhccc----chh----h--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          22 IVIWDTAGQERFRTI----TSS----Y--YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        22 l~l~Dt~G~~~~~~~----~~~----~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      +.++||||......+    ...    +  .+..+.++++++.....-+..+..    +......+.|+++++||.|....
T Consensus       213 ~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----~d~l~~~~~~~~~v~nk~d~~~~  288 (368)
T 3h2y_A          213 SSLYDTPGIINHHQMAHYVGKQSLKLITPTKEIKPMVFQLNEEQTLFFSGLAR----FDYVSGGRRAFTCHFSNRLTIHR  288 (368)
T ss_dssp             CEEEECCCBCCTTSGGGGSCHHHHHHHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEE
T ss_pred             eEEEeCCCcCcHHHHHHHhhHHHHHHhccccccCceEEEEcCCCEEEEcceEE----EEEecCCCceEEEEecCcccccc
Confidence            789999997533211    111    1  356788999998743211111100    11111346899999999997653


Q ss_pred             cccCHHHHHHHHHhcCCCEEEEec
Q psy2646          92 KAVDYQVAKEYADHLKIPFLETSA  115 (168)
Q Consensus        92 ~~v~~~~~~~~~~~~~~~~~~vSa  115 (168)
                      ... ......+.+..+..+++.++
T Consensus       289 ~~~-~~~~~~~~~~~g~~l~p~~~  311 (368)
T 3h2y_A          289 TKL-EKADELYKNHAGDLLSPPTP  311 (368)
T ss_dssp             EEH-HHHHHHHHHHBTTTBCSSCH
T ss_pred             ccH-HHHHHHHHHHhCCccCCCch
Confidence            332 12233345555654444443

>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=93.01  E-value=0.22  Score=35.87  Aligned_cols=65  Identities=8%  Similarity=-0.014  Sum_probs=46.2

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      .+.+.|+|+|+..  .......+..+|.+|+++..+. .+...+..++..+... ..+.++.+|.|+.+
T Consensus       144 ~yD~viiD~pp~~--~~~~~~~l~~aD~vivv~~~~~-~s~~~~~~~~~~l~~~-~~~~~~~vv~N~~~  208 (267)
T 3k9g_A          144 KYDYIVIDTNPSL--DVTLKNALLCSDYVIIPMTAEK-WAVESLDLFNFFVRKL-NLFLPIFLIITRFK  208 (267)
T ss_dssp             TCSEEEEEECSSC--SHHHHHHHTTCSEEEEEEESCT-THHHHHHHHHHHHHTT-TCCCCEEEEEEEEC
T ss_pred             CCCEEEEECcCCc--cHHHHHHHHHCCeEEEEeCCCh-HHHHHHHHHHHHHHHH-hccCCEEEEEeccc
Confidence            4678999999864  2233456677999999998864 4566666666666544 34568889999994

>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=92.61  E-value=0.15  Score=36.78  Aligned_cols=91  Identities=16%  Similarity=0.103  Sum_probs=52.4

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEecCCCCC----Cc
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL-LVGNKNDQTS----KK   92 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii-vv~nK~Dl~~----~~   92 (168)
                      ..+.+.|+|+|+......+....+..+|.+|+++..+. .+...+...+..+...   +.+++ +|.|+.|...    .+
T Consensus       127 ~~yD~ViID~pp~~~~~~~~~~~~~~aD~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~gvV~N~~~~~~~~~~~~  202 (262)
T 2ph1_A          127 GELDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQE-LTAVIVEKAINMAEET---NTSVLGLVENMSYFVCPNCGHK  202 (262)
T ss_dssp             CSCSEEEEECCSSSSSHHHHHHHHHCCSEEEEEECSSS-CCHHHHHHHHHHHHTT---TCCEEEEEETTCCEECTTTCCE
T ss_pred             cCCCEEEEECcCCCchHHHHHHhhccCCeEEEEecCcc-chHHHHHHHHHHHHhC---CCCEEEEEECCCccCCcccccc
Confidence            45779999999864211111112236899999987764 3455566556655433   56766 9999987411    11


Q ss_pred             -cc-CHHHHHHHHHhcCCCEEE
Q psy2646          93 -AV-DYQVAKEYADHLKIPFLE  112 (168)
Q Consensus        93 -~v-~~~~~~~~~~~~~~~~~~  112 (168)
                       .+ .......+.+.++.+++.
T Consensus       203 ~~~~~~~~~~~~~~~~g~~~~~  224 (262)
T 2ph1_A          203 SYIFGEGKGESLAKKYNIGFFT  224 (262)
T ss_dssp             ECTTCCCCHHHHHHHTTCSEEE
T ss_pred             cccccccHHHHHHHHcCCCeEE
Confidence             01 111234566667777664

>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=92.52  E-value=0.61  Score=33.32  Aligned_cols=84  Identities=12%  Similarity=0.039  Sum_probs=52.7

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHH
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQV   98 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~   98 (168)
                      .+.+.|+|+|+...  ......+..+|.+|+++..+ ..+...+..++..+....  ...+.+|.|+.+.....    ..
T Consensus       110 ~yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~~----~~  180 (263)
T 1hyq_A          110 STDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPE-ISSITDGLKTKIVAERLG--TKVLGVVVNRITTLGIE----MA  180 (263)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSS-HHHHHHHHHHHHHHHHHT--CEEEEEEEEEECTTTHH----HH
T ss_pred             hCCEEEEeCCCCCC--hHHHHHHHHCCEEEEEeCCC-hhHHHHHHHHHHHHHhcC--CCeeEEEEccCCccccc----ch
Confidence            35789999997543  23344577899999998765 445666666666665541  24566899999853321    23


Q ss_pred             HHHHHHhcCCCEE
Q psy2646          99 AKEYADHLKIPFL  111 (168)
Q Consensus        99 ~~~~~~~~~~~~~  111 (168)
                      ...+.+.++.+++
T Consensus       181 ~~~~~~~~~~~~~  193 (263)
T 1hyq_A          181 KNEIEAILEAKVI  193 (263)
T ss_dssp             HHHHHHHTTSCEE
T ss_pred             HHHHHHHhCCCeE
Confidence            3345555665544

>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=92.33  E-value=0.58  Score=32.78  Aligned_cols=67  Identities=7%  Similarity=-0.036  Sum_probs=46.0

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      .+.+.|+|+|+...  ......+..+|.+|+++..+ ..+...+..++..+....  ...+.+|.|+.+...
T Consensus       111 ~yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~  177 (237)
T 1g3q_A          111 KFDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKKAG--LAILGFVLNRYGRSD  177 (237)
T ss_dssp             GCSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHHTT--CEEEEEEEEEETSCT
T ss_pred             cCCEEEEECCCCcC--HHHHHHHHHCCeEEEEecCC-cccHHHHHHHHHHHHhCC--CceEEEEEecCCccc
Confidence            46789999998643  23345678899999998765 446666666666665441  245678999998543

>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=92.08  E-value=0.4  Score=33.76  Aligned_cols=65  Identities=12%  Similarity=0.021  Sum_probs=45.8

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      ..+.+.|+|+|+...  ......+..+|.+|+++..+ ..++..+..+...+....  -..+.++.|+.+
T Consensus       130 ~~yD~viiD~pp~~~--~~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~~~--~~~~~~v~N~~~  194 (254)
T 3kjh_A          130 DKKEAVVMDMGAGIE--HLTRGTAKAVDMMIAVIEPN-LNSIKTGLNIEKLAGDLG--IKKVRYVINKVR  194 (254)
T ss_dssp             TCCSEEEEEECTTCT--TCCHHHHTTCSEEEEEECSS-HHHHHHHHHHHHHHHHHT--CSCEEEEEEEEC
T ss_pred             CCCCEEEEeCCCccc--HHHHHHHHHCCEEEEecCCC-HHHHHHHHHHHHHHHHcC--CccEEEEEeCCC
Confidence            346789999998643  24456678899999999875 456666666666554442  245789999987

>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=90.83  E-value=0.34  Score=34.48  Aligned_cols=67  Identities=9%  Similarity=0.031  Sum_probs=46.2

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc------CCCCcEEEEEecCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA------CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~------~~~~piivv~nK~Dl   88 (168)
                      .+.+.|+|+|+...  ......+..+|.+|++++.+ ..+...+..++..+....      .....+.+|.|+.|.
T Consensus       113 ~yD~viiD~p~~~~--~~~~~~l~~ad~vi~v~~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~N~~~~  185 (260)
T 3q9l_A          113 DFEFIVCDSPAGIE--TGALMALYFADEAIITTNPE-VSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNP  185 (260)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHTCSEEEEEECSS-HHHHHHHHHHHHHHTTSSHHHHTTCSCCEEEEEEEEECH
T ss_pred             CCCEEEEcCCCCCC--HHHHHHHHhCCEEEEEecCC-hhHHHHHHHHHHHHHHhccccccccCCcceEEEEecCCc
Confidence            56789999998532  34455677899999999775 456666666666663321      022577899999874

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=90.02  E-value=0.52  Score=34.47  Aligned_cols=68  Identities=13%  Similarity=0.140  Sum_probs=41.9

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHH---hcCCCCcE-EEEEecCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR---YACDNVNK-LLVGNKNDQT   89 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~---~~~~~~pi-ivv~nK~Dl~   89 (168)
                      .+.+.|+|+|+....  .....+..+|.+|+++..+. .+...+..++..+..   ....+.++ -+|.|+.|..
T Consensus       154 ~yD~IiiD~pp~~~~--~~~~~l~~aD~viiv~~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~n~~~~~  225 (298)
T 2oze_A          154 DYDLIIIDTVPTPSV--YTNNAIVASDYVMIPLQAEE-ESTNNIQNYISYLIDLQEQFNPGLDMIGFVPYLVDTD  225 (298)
T ss_dssp             GCSEEEEEECSSCSH--HHHHHHHHCSEEEEEECGGG-CCHHHHHHHHHHHHHHHHHHCTTCEEEEEEEEESCTT
T ss_pred             CCCEEEEECCCCccH--HHHHHHHHCCeEEEEecCcH-HHHHHHHHHHHHHHHHHHHhCCCCeEEEEEEEEECCC
Confidence            467899999986432  12334556999999997753 234444444444422   22346674 5899999854

>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=89.12  E-value=3.4  Score=32.08  Aligned_cols=106  Identities=14%  Similarity=0.176  Sum_probs=56.4

Q ss_pred             EEEEEeCCCchhhcccchhh-----hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC------
Q psy2646          21 LIVIWDTAGQERFRTITSSY-----YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT------   89 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~~~~-----~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~------   89 (168)
                      .+.+||++|..........+     +...+..++ ++....+. ..+ .+...+...   +.|+++|.||.|+.      
T Consensus       121 ~ltv~D~~g~~~~~~~~~~~L~~~~L~~~~~~~~-lS~G~~~k-qrv-~la~aL~~~---~~p~~lV~tkpdlllLDEPt  194 (413)
T 1tq4_A          121 NVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFII-ISATRFKK-NDI-DIAKAISMM---KKEFYFVRTKVDSDITNEAD  194 (413)
T ss_dssp             TEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEE-EESSCCCH-HHH-HHHHHHHHT---TCEEEEEECCHHHHHHHHHT
T ss_pred             CeeehHhhcccchHHHHHHHHHHcCCCccCCeEE-eCCCCccH-HHH-HHHHHHHhc---CCCeEEEEecCcccccCccc
Confidence            47899999854211111122     233455555 77763211 111 122222222   68999999999862      


Q ss_pred             -CCcccCHHH----HHHHH----HhcC---CCEEEEec--cCCCCHHHHHHHHHHHH
Q psy2646          90 -SKKAVDYQV----AKEYA----DHLK---IPFLETSA--KNGANVEQAFLTMATEI  132 (168)
Q Consensus        90 -~~~~v~~~~----~~~~~----~~~~---~~~~~vSa--~~~~~i~~i~~~l~~~~  132 (168)
                       .-......+    ...+.    ...+   ..++.+|+  .++.|++++.+.+...+
T Consensus       195 sgLD~~~~~~l~~~l~~l~~~~l~~~g~~~~~iiliSsh~l~~~~~e~L~d~I~~~L  251 (413)
T 1tq4_A          195 GEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDL  251 (413)
T ss_dssp             TCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHS
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHHHhcCCCCCcEEEEecCcCCccCHHHHHHHHHHhC
Confidence             111112222    22232    1222   36788999  66667999888887665

>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=88.74  E-value=0.57  Score=34.10  Aligned_cols=66  Identities=17%  Similarity=0.152  Sum_probs=42.4

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEecCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL-LVGNKNDQT   89 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii-vv~nK~Dl~   89 (168)
                      .+.+.|+|+|+..... ........+|++|+|+..+. .+...+...+..+...   +.+++ +|.|+.|..
T Consensus       191 ~yD~VIIDtpp~~~~~-d~~~l~~~aD~vilVv~~~~-~~~~~~~~~~~~l~~~---~~~~~GvVlN~~~~~  257 (271)
T 3bfv_A          191 NYNFVIIDTPPVNTVT-DAQLFSKFTGNVVYVVNSEN-NNKDEVKKGKELIEAT---GAKLLGVVLNRMPKD  257 (271)
T ss_dssp             HCSEEEEECCCTTTCS-HHHHHHHHHCEEEEEEETTS-CCHHHHHHHHHHHHTT---TCEEEEEEEEEECC-
T ss_pred             CCCEEEEeCCCCchHH-HHHHHHHHCCEEEEEEeCCC-CcHHHHHHHHHHHHhC---CCCEEEEEEeCCcCC
Confidence            3578999999864321 11234567999999998864 2455555555555433   45665 889999853

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=88.45  E-value=1.3  Score=33.61  Aligned_cols=48  Identities=8%  Similarity=0.124  Sum_probs=31.4

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHH
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEI   69 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i   69 (168)
                      .+.+.|+|+|+.-  .......+..+|.+|+++..+ ..++..+..++..+
T Consensus       153 ~yD~VIID~pP~l--~~~~~~aL~~aD~viip~~~~-~~s~~~~~~l~~~l  200 (361)
T 3pg5_A          153 RYDVIFFDVGPSL--GPFNRTVLLGCDAFVTPTATD-LFSFHAFGNLARWF  200 (361)
T ss_dssp             CCSEEEEECCSCC--SHHHHHHHTTCSEEEEEECCS-HHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCc--CHHHHHHHHHCCEEEEEecCC-hHHHHHHHHHHHHH
Confidence            5789999999753  233445667799999999776 34444444433333

>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=86.61  E-value=5.6  Score=28.72  Aligned_cols=88  Identities=16%  Similarity=0.164  Sum_probs=50.1

Q ss_pred             EEEEEEEeCCCchhhcccc-hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCc-EEEEEecCCCCCCcccC
Q psy2646          19 RTLIVIWDTAGQERFRTIT-SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVN-KLLVGNKNDQTSKKAVD   95 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p-iivv~nK~Dl~~~~~v~   95 (168)
                      .+.+.|+|+||......+. ......+|.+|+++..+ ..++..+..++..+.... ..+.+ .-+|.|+.+..    ..
T Consensus       118 ~yD~ViID~~~~~~~~~~~~~~~~~~aD~viiv~~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~----~~  192 (289)
T 2afh_E          118 DLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGE-MMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTD----RE  192 (289)
T ss_dssp             TCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECSS-HHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCT----TH
T ss_pred             CCCEEEEeCCCccccchhhhhhhhhhCCEEEEEecCC-HHHHHHHHHHHHHHHHHHhcCCCceEEEEEecCCch----hH
Confidence            4779999999853222111 12235799999888765 445666666666554432 12455 45788998632    12


Q ss_pred             HHHHHHHHHhcCCCEE
Q psy2646          96 YQVAKEYADHLKIPFL  111 (168)
Q Consensus        96 ~~~~~~~~~~~~~~~~  111 (168)
                      ......+.+.++.+++
T Consensus       193 ~~~~~~l~~~~g~~~l  208 (289)
T 2afh_E          193 DELIIALANKLGTQMI  208 (289)
T ss_dssp             HHHHHHHHHHHTSCEE
T ss_pred             HHHHHHHHHHcCcccc
Confidence            2334445555565554

>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=86.57  E-value=2.3  Score=31.20  Aligned_cols=68  Identities=13%  Similarity=0.017  Sum_probs=43.8

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      .+.+.|+|+|+.-... -.......+|++|+|+..+.. +...+...+..+....  ...+-+|.|+.|...
T Consensus       201 ~yD~VIIDtpp~~~~~-da~~l~~~aD~vllVv~~~~~-~~~~~~~~~~~l~~~g--~~~~GvVlN~v~~~~  268 (286)
T 3la6_A          201 NYDLVLIDTPPILAVT-DAAIVGRHVGTTLMVARYAVN-TLKEVETSLSRFEQNG--IPVKGVILNSIFRRA  268 (286)
T ss_dssp             HCSEEEEECCCTTTCT-HHHHHTTTCSEEEEEEETTTS-BHHHHHHHHHHHHHTT--CCCCEEEEEEECCCC
T ss_pred             CCCEEEEcCCCCcchH-HHHHHHHHCCeEEEEEeCCCC-cHHHHHHHHHHHHhCC--CCEEEEEEcCccccc
Confidence            3568999999864321 123356679999999988743 3455555556554442  234578899998643

>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=85.75  E-value=2.5  Score=31.11  Aligned_cols=92  Identities=16%  Similarity=0.109  Sum_probs=48.2

Q ss_pred             EEEEEEEeCCCchhhcc--cch----hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCc
Q psy2646          19 RTLIVIWDTAGQERFRT--ITS----SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~--~~~----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~   92 (168)
                      .+.+.|+||||......  +..    ...-.++.+++++|....   .+.......+...   -...-+|.||.|....-
T Consensus       180 ~~D~viiDtpp~~~~d~~~~~~l~~~~~~~~~~~~~lv~~~~~~---~~~~~~~~~~~~~---~~i~givlnk~d~~~~~  253 (295)
T 1ls1_A          180 ARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG---QEALSVARAFDEK---VGVTGLVLTKLDGDARG  253 (295)
T ss_dssp             TCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT---HHHHHHHHHHHHH---TCCCEEEEECGGGCSSC
T ss_pred             CCCEEEEeCCCCccccHHHHHHHHHHhhhcCCCEEEEEEeCCCc---HHHHHHHHHHhhc---CCCCEEEEECCCCCccH
Confidence            35789999998643211  111    011248888999998632   1111112222211   12346789999964321


Q ss_pred             ccCHHHHHHHHHhcCCCEEEEeccCCCCHH
Q psy2646          93 AVDYQVAKEYADHLKIPFLETSAKNGANVE  122 (168)
Q Consensus        93 ~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~  122 (168)
                          -....+....+.|+.+++  .|++++
T Consensus       254 ----g~~~~~~~~~~~pi~~i~--~g~~~~  277 (295)
T 1ls1_A          254 ----GAALSARHVTGKPIYFAG--VSEKPE  277 (295)
T ss_dssp             ----HHHHHHHHHHCCCEEEEC--------
T ss_pred             ----HHHHHHHHHHCcCEEEEe--CCCCcc
Confidence                234456667789988877  444443

>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=84.71  E-value=4.4  Score=30.03  Aligned_cols=92  Identities=26%  Similarity=0.263  Sum_probs=50.8

Q ss_pred             EEEEEEeCCCchhhcc-cc------hhhh-----cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646          20 TLIVIWDTAGQERFRT-IT------SSYY-----RGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~-~~------~~~~-----~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      ..+.|.||||...... +.      ...+     ...+.+++|+|....  .+.+.. ...+...  .+ ..-+|.||.|
T Consensus       187 ~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~--~~~l~~-a~~~~~~--~~-i~gvVlTk~D  260 (306)
T 1vma_A          187 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNGLVQ-AKIFKEA--VN-VTGIILTKLD  260 (306)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHHHHH-HHHHHHH--SC-CCEEEEECGG
T ss_pred             CCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCC--HHHHHH-HHHHHhc--CC-CCEEEEeCCC
Confidence            4588999999632111 00      1111     247889999998733  122221 1222222  12 2356789999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~  123 (168)
                      -...-.    .+..+....+.|+.+++  .|+.+++
T Consensus       261 ~~~~gG----~~l~~~~~~~~Pi~~i~--~Ge~~~d  290 (306)
T 1vma_A          261 GTAKGG----ITLAIARELGIPIKFIG--VGEKAED  290 (306)
T ss_dssp             GCSCTT----HHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CccchH----HHHHHHHHHCCCEEEEe--CCCChhh
Confidence            643222    25566777789998887  4444444

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=84.41  E-value=2.5  Score=31.60  Aligned_cols=92  Identities=23%  Similarity=0.312  Sum_probs=51.7

Q ss_pred             EEEEEEEeCCCchhhcc-cc-h-----hh-----hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC-cEEEEEec
Q psy2646          19 RTLIVIWDTAGQERFRT-IT-S-----SY-----YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNV-NKLLVGNK   85 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~-~~-~-----~~-----~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-piivv~nK   85 (168)
                      .+.+.|.||||...... +. .     ..     -..+|.+++++++...  .+.+..    +.... ... ..-+|.||
T Consensus       191 ~yD~VIIDTpg~l~~~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~~--~~~l~~----~~~~~-~~~~i~GvVltk  263 (320)
T 1zu4_A          191 NYDLLLIDTAGRLQNKTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATTG--QNGVIQ----AEEFS-KVADVSGIILTK  263 (320)
T ss_dssp             TCSEEEEECCCCGGGHHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGGT--HHHHHH----HHHHT-TTSCCCEEEEEC
T ss_pred             CCCEEEEcCCCcccccHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCc--HHHHHH----HHHHh-hcCCCcEEEEeC
Confidence            46789999999754211 10 0     01     1247899999998742  222222    22221 122 33578999


Q ss_pred             CCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~  123 (168)
                      .|-...-    -.+..+....+.|+.++.  .|+++++
T Consensus       264 ~d~~~~~----g~~~~~~~~~~~Pi~~i~--~Ge~~~d  295 (320)
T 1zu4_A          264 MDSTSKG----GIGLAIKELLNIPIKMIG--VGEKVDD  295 (320)
T ss_dssp             GGGCSCT----THHHHHHHHHCCCEEEEE--CSSSTTC
T ss_pred             CCCCCch----hHHHHHHHHHCcCEEEEe--CCCCccc
Confidence            9964321    134456667788888776  4444443

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=84.27  E-value=7  Score=30.49  Aligned_cols=84  Identities=13%  Similarity=0.057  Sum_probs=46.4

Q ss_pred             EEEEEEEeCCCchhhcc-cch-----hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEecCCCCCC
Q psy2646          19 RTLIVIWDTAGQERFRT-ITS-----SYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNKNDQTSK   91 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~Dl~~~   91 (168)
                      .+.+.|.||||...... +..     ..+..++.+++|+|+.....   +......+..    ..+ .-+|.||.|....
T Consensus       183 ~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~---~~~~~~~f~~----~l~i~gvVlnK~D~~~~  255 (433)
T 2xxa_A          183 FYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQD---AANTAKAFNE----ALPLTGVVLTKVDGDAR  255 (433)
T ss_dssp             TCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTT---HHHHHHHHHH----HSCCCCEEEECTTSSSC
T ss_pred             CCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHH---HHHHHHHHhc----cCCCeEEEEecCCCCcc
Confidence            46789999999754321 111     12447889999999875422   2222222322    234 3578999997432


Q ss_pred             cccCHHHHHHHHHhcCCCEEEE
Q psy2646          92 KAVDYQVAKEYADHLKIPFLET  113 (168)
Q Consensus        92 ~~v~~~~~~~~~~~~~~~~~~v  113 (168)
                      ..    ....+....+.|+.++
T Consensus       256 ~g----~~l~i~~~~~~Pi~~i  273 (433)
T 2xxa_A          256 GG----AALSIRHITGKPIKFL  273 (433)
T ss_dssp             CT----HHHHHHHHHCCCEEEE
T ss_pred             HH----HHHHHHHHHCCCeEEE
Confidence            21    2334444556655444

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=83.85  E-value=0.71  Score=33.67  Aligned_cols=35  Identities=17%  Similarity=0.138  Sum_probs=26.6

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTD   55 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   55 (168)
                      .+.+.|+|+|+..  .......+..+|.+|+++..+.
T Consensus       103 ~yD~viiD~p~~~--~~~~~~~l~~aD~viiv~~~~~  137 (286)
T 2xj4_A          103 ECDFILIDTPGGD--SAITRMAHGRADLVVTPMNDSF  137 (286)
T ss_dssp             HCSEEEEECCSSC--CHHHHHHHHTCSEEEEEEESSH
T ss_pred             cCCEEEEcCCCCc--cHHHHHHHHHCCEEEEEEcCCc
Confidence            4678999999864  3344567788999999998763

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=81.60  E-value=2.1  Score=31.55  Aligned_cols=66  Identities=17%  Similarity=0.058  Sum_probs=40.5

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEecCCCC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNKNDQT   89 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~Dl~   89 (168)
                      .+.+.|+|+|+...... .......+|++|+|+..+.. +...+...+..+...   +.+ +-+|.|+.|..
T Consensus       213 ~yD~VIIDtpp~~~~~d-~~~l~~~ad~vilV~~~~~~-~~~~~~~~~~~l~~~---~~~~~GvVlN~~~~~  279 (299)
T 3cio_A          213 HYDLVIVDTPPMLAVSD-AAVVGRSVGTSLLVARFGLN-TAKEVSLSMQRLEQA---GVNIKGAILNGVIKR  279 (299)
T ss_dssp             HCSEEEEECCCTTTCTH-HHHHGGGCSEEEEEEETTTS-CTTHHHHHHHHHHHT---TCCCCCEEEEECCCC
T ss_pred             CCCEEEEcCCCCchhHH-HHHHHHHCCEEEEEEcCCCC-hHHHHHHHHHHHHhC---CCCeEEEEEeCCccC
Confidence            35689999998643211 12344679999999987643 344444455555443   333 34778999854

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=81.53  E-value=12  Score=26.51  Aligned_cols=88  Identities=16%  Similarity=0.188  Sum_probs=51.8

Q ss_pred             EEEEEEEeCCCchhhcccc-hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcC-CCCcE-EEEEecCCCCCCcccC
Q psy2646          19 RTLIVIWDTAGQERFRTIT-SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC-DNVNK-LLVGNKNDQTSKKAVD   95 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~pi-ivv~nK~Dl~~~~~v~   95 (168)
                      .+.+.|+|+||......+. ......+|.+|+++..+ ..++..+..++..+..... .+.++ .+|.|+.+..    ..
T Consensus       115 ~yD~iiiD~~~~~~~~~~~~~~~~~~aD~viiv~~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~----~~  189 (269)
T 1cp2_A          115 DLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGE-MMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVA----NE  189 (269)
T ss_dssp             TCSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSS-HHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSS----CC
T ss_pred             CCCEEEEeCCchhhhhhhhhhhhHhhCCEEEEeecCc-hhhHHHHHHHHHHHHHHHhcCCCcEEEEEeecCCcc----hh
Confidence            4679999999853222111 11224699999988765 4566666666666654421 24554 6889998632    12


Q ss_pred             HHHHHHHHHhcCCCEE
Q psy2646          96 YQVAKEYADHLKIPFL  111 (168)
Q Consensus        96 ~~~~~~~~~~~~~~~~  111 (168)
                      ......+.+.++.+++
T Consensus       190 ~~~~~~l~~~~~~~v~  205 (269)
T 1cp2_A          190 YELLDAFAKELGSQLI  205 (269)
T ss_dssp             HHHHHHHHHHHTCCEE
T ss_pred             HHHHHHHHHHcCCccc
Confidence            3344455555666554

---

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	168
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	9e-34
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	1e-32
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	2e-31
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	3e-30
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-29
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	2e-29
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	4e-29
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	5e-29
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-28
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-28
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	2e-27
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	3e-27
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	4e-27
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	1e-24
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	2e-24
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	2e-24
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	9e-23
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	4e-21
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	1e-20
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	2e-20
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	1e-19
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	3e-19
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	5e-18
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	7e-18
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	9e-18
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	2e-17
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	4e-17
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	4e-17
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	7e-17
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	7e-17
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	2e-16
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	4e-16
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	6e-16
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	1e-15
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	1e-15
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	2e-15
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	2e-14
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	5e-14
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	6e-14
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	6e-14
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	9e-14
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	9e-13
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	9e-13
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	2e-12
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	3e-12
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	9e-11
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	6e-10
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	1e-09
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	4e-09
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	8e-09
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	2e-08
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	1e-07
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	1e-06
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	3e-06

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  115 bits (288), Expect = 9e-34
 Identities = 56/117 (47%), Positives = 84/117 (71%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + IWDTAGQERFRTIT++YYRGA GI++VYD T++++F+N++ W+  I+ +A  +V K++
Sbjct: 57  LQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMI 116

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
           +GNK D   K+ V  +  ++ A    I F+ETSAK   NVE AF T+A +IK ++ K
Sbjct: 117 LGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK 173

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  111 bits (279), Expect = 1e-32
 Identities = 50/113 (44%), Positives = 79/113 (69%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + +WDTAGQERFR++T +YYR AH ++++YD T++ +F+N++ WL EI  YA  +V  +L
Sbjct: 58  LQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALML 117

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           +GNK D   ++ V  +  ++ A    +PF+ETSAK G NV+ AF  +A E+K+
Sbjct: 118 LGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKR 170

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  109 bits (272), Expect = 2e-31
 Identities = 59/115 (51%), Positives = 81/115 (70%), Gaps = 1/115 (0%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + IWDTAGQERFRTIT++YYRGA GII+VYD TD+ TF N+KQW + ++ +A D    LL
Sbjct: 53  LQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLL 112

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV 136
           VGNK+D  ++  V     +  A  L IPF+E+SAKN  NV + F T+A  I++++
Sbjct: 113 VGNKSDMETRV-VTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 166

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  106 bits (264), Expect = 3e-30
 Identities = 53/114 (46%), Positives = 76/114 (66%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + IWDTAGQER+RTIT++YYRGA G I++YD T++E+FN ++ W  +I  Y+ DN   LL
Sbjct: 56  LQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLL 115

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           VGNK D   ++ V  +  ++ ADHL   F E SAK+  NV+Q F  +   I ++
Sbjct: 116 VGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEK 169

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  104 bits (260), Expect = 2e-29
 Identities = 53/119 (44%), Positives = 80/119 (67%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
             IWDTAGQER+R ITS+YYRGA G ++VYD     T+ N+++WL+E+  +A  N+  +L
Sbjct: 55  AQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIML 114

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE 140
           VGNK+D    +AV    A+ +A+   + F+ETSA +  NVE+AF  + TEI + V++ +
Sbjct: 115 VGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQ 173

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  104 bits (260), Expect = 2e-29
 Identities = 79/129 (61%), Positives = 97/129 (75%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + IWDTAGQERFRTITSSYYRG+HGII+VYD TDQE+FN +K WL+EIDRYA   V KLL
Sbjct: 57  LQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLL 116

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEK 141
           VGNK D   K+ V+Y VAKE+AD  K+PFLETSA +  NVE AFLTMA +IK+ +++   
Sbjct: 117 VGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNL 176

Query: 142 PSSESDAKK 150
             +    + 
Sbjct: 177 NETTQKKED 185

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  103 bits (257), Expect = 4e-29
 Identities = 54/119 (45%), Positives = 75/119 (63%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + IWDTAGQERFR++T SYYRGA G ++VYD T +ET+N L  WL +    A  N+  +L
Sbjct: 56  LQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIIL 115

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE 140
            GNK D  + + V +  A  +A   ++ FLETSA  G NVE+AF+  A +I  ++   E
Sbjct: 116 CGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESGE 174

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  103 bits (256), Expect = 5e-29
 Identities = 54/111 (48%), Positives = 73/111 (65%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + IWDTAGQERFR +T SYYRGA G ++VYD T + T+N+L  WL +       N   +L
Sbjct: 55  LQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIIL 114

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           +GNK D  +++ V Y+ AK++A+   + FLE SAK G NVE AFL  A +I
Sbjct: 115 IGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 165

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  101 bits (253), Expect = 2e-28
 Identities = 54/115 (46%), Positives = 80/115 (69%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQE FR+IT SYYRGA G ++VYD T +ETFN+L  WLE+  +++  N+  +L+G
Sbjct: 56  IWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIG 115

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
           NK+D  S++ V  +  + +A    + F+ETSAK   NVE+AF+  A EI +++ +
Sbjct: 116 NKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQ 170

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  101 bits (252), Expect = 2e-28
 Identities = 54/111 (48%), Positives = 77/111 (69%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + IWDTAGQERFR+IT SYYR A+ +I+ YD T +E+F  L +WL EI++YA + V  +L
Sbjct: 56  LQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVL 115

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           VGNK D   ++ V  Q A+E+++   + +LETSAK   NVE+ FL +A  +
Sbjct: 116 VGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 166

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 99.5 bits (247), Expect = 2e-27
 Identities = 45/114 (39%), Positives = 64/114 (56%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + IWDTAGQERFRT+T SYYRGA G+I+VYD T ++TF  L  WL E++ Y   N    +
Sbjct: 58  LAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNM 117

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           +         + VD     ++A    + F+E SAK    V+ AF  +  +I + 
Sbjct: 118 LVGNKIDKENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQT 171

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 99.2 bits (246), Expect = 3e-27
 Identities = 47/115 (40%), Positives = 78/115 (67%), Gaps = 1/115 (0%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLVG 83
           WDTAGQERFR++T++++R A G ++++D T Q++F N++ W+ ++     C+N + +L+G
Sbjct: 69  WDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIG 128

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK 138
           NK D   ++ V+ + A+E AD   IP+ ETSA  G NVE+A  T+   I KR+ +
Sbjct: 129 NKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQ 183

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 98.1 bits (243), Expect = 4e-27
 Identities = 43/109 (39%), Positives = 65/109 (59%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDTAGQERFR++  SY R +   +VVYD T+  +F    +W++++      +V  +LVG
Sbjct: 53  LWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVG 112

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           NK D   K+ V  +  +  A  L + F+ETSAK G NV+Q F  +A  +
Sbjct: 113 NKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score = 91.9 bits (227), Expect = 1e-24
 Identities = 44/112 (39%), Positives = 64/112 (57%), Gaps = 1/112 (0%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLVG 83
            DTAGQE +  I  +Y+R   G + V+  T+ E+F     + E+I R    +NV  LLVG
Sbjct: 57  LDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVG 116

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           NK+D   K+ V  + AK  AD   + ++ETSAK  ANV++ F  +  EI+ R
Sbjct: 117 NKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 91.2 bits (225), Expect = 2e-24
 Identities = 41/111 (36%), Positives = 66/111 (59%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERF  +   YYR ++G I+VYD TD+++F  +K W++E+ +   + +   +VG
Sbjct: 56  IWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVG 115

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D   ++ V  Q A+ YA+ +      TSAK    +E+ FL +   + +
Sbjct: 116 NKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 166

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 91.2 bits (225), Expect = 2e-24
 Identities = 53/111 (47%), Positives = 74/111 (66%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQER+ ++   YYRGA   IVVYD T++E+F   K W++E+ R A  N+   L G
Sbjct: 59  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSG 118

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D  +K+AVD+Q A+ YAD   + F+ETSAK   NV + F+ +A ++ K
Sbjct: 119 NKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 86.9 bits (214), Expect = 9e-23
 Identities = 35/110 (31%), Positives = 60/110 (54%), Gaps = 1/110 (0%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLVG 83
            DTAG E+F ++   Y +   G I+VY   +Q++F ++K   ++I R    + V  +LVG
Sbjct: 56  LDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVG 115

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK 133
           NK D  S++ V     +  A+    PF+ETSAK+   V++ F  +  ++ 
Sbjct: 116 NKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN 165

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 82.4 bits (202), Expect = 4e-21
 Identities = 43/115 (37%), Positives = 61/115 (53%), Gaps = 3/115 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAGQERF ++   YYR A   +VVYD T  ++F   + W++E+   A  ++   LVG
Sbjct: 56  IWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVG 115

Query: 84  NKNDQTSKKAVDYQVAKE---YADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           NK D   +        +E    A+   + F ETSAK G NV   FL +  +I  +
Sbjct: 116 NKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPLK 170

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 81.6 bits (200), Expect = 1e-20
 Identities = 47/110 (42%), Positives = 69/110 (62%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           IWDTAG ERFR +   YYRG+   I+VYD T +ETF+ LK W+ E+ ++   ++   + G
Sbjct: 57  IWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAG 116

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK 133
           NK D T  + V  + AK+YAD +   F+ETSAKN  N+ + F+ ++  I 
Sbjct: 117 NKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 166

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 80.8 bits (198), Expect = 2e-20
 Identities = 41/114 (35%), Positives = 66/114 (57%), Gaps = 2/114 (1%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKL 80
           + I DTAGQE +  +   Y R   G + V+   + ++F ++ Q+ E+I R    D+V  +
Sbjct: 53  LDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMV 112

Query: 81  LVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           LVGNK D  ++  V+ + A++ A    IP++ETSAK    VE AF T+  EI++
Sbjct: 113 LVGNKCDLAART-VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 78.8 bits (193), Expect = 1e-19
 Identities = 37/113 (32%), Positives = 61/113 (53%), Gaps = 4/113 (3%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CDNVNK 79
           IWDTAGQERFR++ + +YRG+   ++ +   D ++F NL  W +E   YA     ++   
Sbjct: 59  IWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPF 118

Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           +++GNK D + ++    +      D+   P+ ETSAK+  NV  AF      +
Sbjct: 119 VILGNKIDISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 171

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 77.7 bits (190), Expect = 3e-19
 Identities = 38/112 (33%), Positives = 58/112 (51%), Gaps = 2/112 (1%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLVG 83
            DTAG E+F  +   Y +   G  +VY  T Q TFN+L+   E+I R    ++V  +LVG
Sbjct: 56  LDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVG 115

Query: 84  NKNDQTSKKAVDYQVAKEYA-DHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D   ++ V  +  +  A       FLE+SAK+  NV + F  +  +I +
Sbjct: 116 NKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score = 74.6 bits (182), Expect = 5e-18
 Identities = 24/114 (21%), Positives = 44/114 (38%), Gaps = 4/114 (3%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLLV 82
           +WD  GQ++ R +   YY G  G+I V DC D++  +  +Q L  I       +   L+ 
Sbjct: 60  VWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIF 119

Query: 83  GNK---NDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK 133
            NK    D      +  ++              + A +G  + +    + +  K
Sbjct: 120 ANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 173

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 74.3 bits (181), Expect = 7e-18
 Identities = 37/112 (33%), Positives = 60/112 (53%), Gaps = 1/112 (0%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC-DNVNKLLVG 83
            DTAGQE F  +   Y R   G ++V+  TD+ +F  + ++  +I R    D    +L+G
Sbjct: 58  LDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIG 117

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           NK D   ++ V  +  ++ A  LK+ ++E SAK   NV+QAF  +   I+K 
Sbjct: 118 NKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRKF 169

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 74.3 bits (181), Expect = 9e-18
 Identities = 26/124 (20%), Positives = 44/124 (35%), Gaps = 13/124 (10%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + +WDTAGQE +  +    Y      ++ +      +F N++       R+ C N   +L
Sbjct: 55  LGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL 114

Query: 82  VGNKNDQTSKKAVD------------YQVAKEYADHLK-IPFLETSAKNGANVEQAFLTM 128
           VG K D    K               Y      A  +  + +LE SA     ++  F   
Sbjct: 115 VGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEA 174

Query: 129 ATEI 132
              +
Sbjct: 175 IRAV 178

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 73.1 bits (178), Expect = 2e-17
 Identities = 45/113 (39%), Positives = 72/113 (63%), Gaps = 5/113 (4%)

Query: 22  IVIWDTAGQERF-RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK 79
           I +WDTAGQERF +++   YYR  H ++ VYD T+  +F++L  W+EE  ++   +++ +
Sbjct: 53  IQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPR 112

Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAK---NGANVEQAFLTMA 129
           +LVGNK D  S   V   +A+++AD   +P  ETSAK   +  +VE  F+T+A
Sbjct: 113 ILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA 165

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 72.4 bits (176), Expect = 4e-17
 Identities = 36/112 (32%), Positives = 58/112 (51%), Gaps = 1/112 (0%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVG 83
            DTAGQE F  +   Y R  HG ++V+   D+++FN + +   +I R    D+   +LVG
Sbjct: 59  LDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVG 118

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           NK D  S++ V    A  +     + + E SAK   NV++AF  +   ++K 
Sbjct: 119 NKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKY 170

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score = 72.7 bits (177), Expect = 4e-17
 Identities = 24/118 (20%), Positives = 43/118 (36%), Gaps = 4/118 (3%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKL 80
           + +WD  GQ   R     YY     +I V D TD++  +   + L  + +     +   L
Sbjct: 63  LNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALL 122

Query: 81  LVGNKND---QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           +  NK D     S   V  ++            + +SA  G  + +    +   IK+ 
Sbjct: 123 VFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 180

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 71.7 bits (174), Expect = 7e-17
 Identities = 39/111 (35%), Positives = 58/111 (52%), Gaps = 1/111 (0%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           +++WDTAGQE F  IT +YYRGA   ++V+  TD+E+F  +  W  E       ++   L
Sbjct: 53  LMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSW-REKVVAEVGDIPTAL 111

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           V NK D      +  + A+  A  LK+ F  TS K   NV + F  +A + 
Sbjct: 112 VQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKH 162

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 71.6 bits (174), Expect = 7e-17
 Identities = 37/113 (32%), Positives = 58/113 (51%), Gaps = 2/113 (1%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK-LLVG 83
            DTAGQE F  +   Y R   G ++VY  TD+ +F ++ ++ + I R         +LV 
Sbjct: 57  LDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVA 116

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNG-ANVEQAFLTMATEIKKR 135
           NK D    + V     KE A    IP++ETSAK+   NV++ F  +   I+++
Sbjct: 117 NKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 169

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 70.8 bits (172), Expect = 2e-16
 Identities = 22/121 (18%), Positives = 44/121 (36%), Gaps = 13/121 (10%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGN 84
           +DTAGQE +  +    Y      ++ +   +  +F N+K+      +    NV  LL+G 
Sbjct: 62  YDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGT 121

Query: 85  KNDQTSKKA------------VDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATE 131
           + D                  +  +  ++ A  +    ++E SA     ++  F      
Sbjct: 122 QIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIA 181

Query: 132 I 132
           I
Sbjct: 182 I 182

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 69.6 bits (169), Expect = 4e-16
 Identities = 35/113 (30%), Positives = 53/113 (46%), Gaps = 2/113 (1%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK--LLV 82
            DT G  +F  +        H  I+VY  T +++   LK   E+I     D  +   +LV
Sbjct: 55  TDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLV 114

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           GNK D++  + V    A+  A   K  F+ETSAK   NV++ F  +    K+R
Sbjct: 115 GNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRR 167

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score = 68.9 bits (167), Expect = 6e-16
 Identities = 21/115 (18%), Positives = 44/115 (38%), Gaps = 4/115 (3%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
             +WD  GQ++ R +   Y++   G+I V D  D+E  N  ++ L  +          LL
Sbjct: 46  FTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLL 105

Query: 82  VGNKN----DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
           V        +  +   +  ++      H       T A +G  + +    ++ ++
Sbjct: 106 VFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 68.6 bits (166), Expect = 1e-15
 Identities = 41/119 (34%), Positives = 66/119 (55%), Gaps = 6/119 (5%)

Query: 23  VIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK--- 79
            +WDTAGQERF+++  ++YRGA   ++VYD T+  +F N+K W +E   +A  N  +   
Sbjct: 55  QVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFP 114

Query: 80  -LLVGNKNDQTSKKAVDYQVAKEY--ADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
            +++GNK D    K +  + + +        IP   TSAKN  NV+ AF  +A    ++
Sbjct: 115 FVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQ 173

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 68.5 bits (166), Expect = 1e-15
 Identities = 25/133 (18%), Positives = 48/133 (36%), Gaps = 13/133 (9%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + ++DTAGQE +  +    Y      +V +      +F N+K+       + C     LL
Sbjct: 53  LGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL 112

Query: 82  VGNKNDQTSKKAV------------DYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTM 128
           VG + D     +               + A++ A  LK + ++E SA     ++  F   
Sbjct: 113 VGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEA 172

Query: 129 ATEIKKRVTKDEK 141
                +     + 
Sbjct: 173 ILAALEPPEPKKS 185

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 68.2 bits (165), Expect = 2e-15
 Identities = 46/121 (38%), Positives = 67/121 (55%), Gaps = 4/121 (3%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CDNVNK 79
           IWDTAGQERF+++  ++YRGA   ++V+D T   TF  L  W +E    A     +N   
Sbjct: 55  IWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPF 114

Query: 80  LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD 139
           +++GNK D  +++    +          IP+ ETSAK   NVEQAF T+A    K+ T+ 
Sbjct: 115 VVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEV 174

Query: 140 E 140
           E
Sbjct: 175 E 175

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.0 bits (157), Expect = 2e-14
 Identities = 28/100 (28%), Positives = 46/100 (46%), Gaps = 2/100 (2%)

Query: 38  SSYYRGAHGIIVVYDCTDQETFNNLKQWLE-EIDRYACDNVNKLLVGNKNDQTSKKAVDY 96
             + R   G ++VYD TD+ +F  +        +     NV  +LVGNK D    + V  
Sbjct: 67  EGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVST 126

Query: 97  QVAKEYADHLKIPFLETSAKNG-ANVEQAFLTMATEIKKR 135
           +  ++ A  L   F E SA  G  N+ + F  +  E+++R
Sbjct: 127 EEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRR 166

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 63.9 bits (154), Expect = 5e-14
 Identities = 23/117 (19%), Positives = 44/117 (37%), Gaps = 4/117 (3%)

Query: 23  VIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLL 81
            IWD  GQ+  R+   +Y+    G+I V D  D++   + ++ L+ +           L+
Sbjct: 49  NIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLI 108

Query: 82  VGNKNDQTSKKAVDYQVAKEYADHLK---IPFLETSAKNGANVEQAFLTMATEIKKR 135
             NK D     + +        D ++         SA  G ++      +  +I  R
Sbjct: 109 FANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR 165

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 63.8 bits (154), Expect = 6e-14
 Identities = 24/113 (21%), Positives = 37/113 (32%), Gaps = 4/113 (3%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           +WD  GQ + R    SY+     +I V D  D++ F    Q L E+        V  L+ 
Sbjct: 64  VWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIF 123

Query: 83  GNKND---QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
            NK D         +   +               SA  G  V+     +   +
Sbjct: 124 ANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 63.9 bits (154), Expect = 6e-14
 Identities = 25/116 (21%), Positives = 45/116 (38%), Gaps = 4/116 (3%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEE-IDRYACDNVNKL 80
            ++WD  GQE  R+  ++YY     +IVV D TD+E  +  ++ L + +          L
Sbjct: 61  FLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLL 120

Query: 81  LVGNKND---QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK 133
           +  NK D     +   +   +        +       A  G  + Q    M + +K
Sbjct: 121 IFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLK 176

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 63.5 bits (153), Expect = 9e-14
 Identities = 25/124 (20%), Positives = 49/124 (39%), Gaps = 13/124 (10%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
           + +WDTAG E +  +    Y     I++ +     ++  N+ +      ++ C NV  +L
Sbjct: 52  LALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIIL 111

Query: 82  VGNKNDQTSKKAVD------------YQVAKEYADHLK-IPFLETSAKNGANVEQAFLTM 128
           VGNK D  + +                +  ++ A+ +    ++E SAK    V + F   
Sbjct: 112 VGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMA 171

Query: 129 ATEI 132
               
Sbjct: 172 TRAA 175

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.5 bits (145), Expect = 9e-13
 Identities = 31/119 (26%), Positives = 53/119 (44%), Gaps = 3/119 (2%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLV 82
           ++D   Q+  R +           ++VY  TD+ +F    +   ++ R    D+V  +LV
Sbjct: 52  VYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILV 111

Query: 83  GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDEK 141
           GNK+D    + V     +  A      F+ETSA    NV+  F  +  +I+ R  +D K
Sbjct: 112 GNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR--RDSK 168

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.5 bits (145), Expect = 9e-13
 Identities = 23/97 (23%), Positives = 45/97 (46%), Gaps = 1/97 (1%)

Query: 40  YYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC-DNVNKLLVGNKNDQTSKKAVDYQV 98
             +     ++VY  TD+ +F    +   ++ R    +++  +LVGNK+D    + V    
Sbjct: 74  CMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSE 133

Query: 99  AKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
            +  A      F+ETSA    NV++ F  +  +++ R
Sbjct: 134 GRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLR 170

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 59.7 bits (143), Expect = 2e-12
 Identities = 25/126 (19%), Positives = 47/126 (37%), Gaps = 14/126 (11%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG 83
           +WDT+G   +  +    Y  +  +++ +D +  ET +++ +  +   +  C N   LLVG
Sbjct: 54  LWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVG 113

Query: 84  NKND------------QTSKKAVDYQVAKEYADHLKI-PFLETSAKNGAN-VEQAFLTMA 129
            K+D               +  V Y      A  +    ++E SA    N V   F    
Sbjct: 114 CKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVAT 173

Query: 130 TEIKKR 135
                +
Sbjct: 174 LACVNK 179

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 59.4 bits (142), Expect = 3e-12
 Identities = 32/111 (28%), Positives = 52/111 (46%), Gaps = 1/111 (0%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWL-EEIDRYACDNVNKLLVG 83
            DTAGQ+ +     +Y    +G I+VY  T  ++F  +K    + +D      +  +LVG
Sbjct: 57  VDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVG 116

Query: 84  NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           NK D   ++ + Y+  K  A+     FLE+SAK        F  +  E +K
Sbjct: 117 NKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEK 167

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.4 bits (132), Expect = 9e-11
 Identities = 33/110 (30%), Positives = 55/110 (50%), Gaps = 3/110 (2%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGN 84
           WDTAGQE+F  +   YY  A   I+++D T + T+ N+  W  +     C+N+  +L GN
Sbjct: 57  WDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRD-LVRVCENIPIVLCGN 115

Query: 85  KNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK 134
           K D   K       +  +     + + + SAK+  N E+ FL +A ++  
Sbjct: 116 KVDI--KDRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIG 163

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 53.2 bits (126), Expect = 6e-10
 Identities = 21/118 (17%), Positives = 39/118 (33%), Gaps = 4/118 (3%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQET-FNNLKQWLEEIDRYACDNVNKL 80
             +WD  G    R     YY     +I V D  D++    +  + +  ++         +
Sbjct: 51  FQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILV 110

Query: 81  LVGNKNDQTSKKAVD---YQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR 135
           +  NK D             +        K    +TSA  G  +++A   +   +K R
Sbjct: 111 VFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 168

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.3 bits (124), Expect = 1e-09
 Identities = 17/107 (15%), Positives = 43/107 (40%), Gaps = 6/107 (5%)

Query: 40  YYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDN-----VNKLLVGNKNDQTSKKAV 94
           +   A  +I V+   D+ +F  + +   ++     +      +  +   ++   +S + V
Sbjct: 67  FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVV 126

Query: 95  DYQVAKEYA-DHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE 140
               A+    D  +  + ET A  G NV++ F  +A ++     + +
Sbjct: 127 GDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQQ 173

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 50.5 bits (119), Expect = 4e-09
 Identities = 27/115 (23%), Positives = 42/115 (36%), Gaps = 4/115 (3%)

Query: 23  VIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC-DNVNKLL 81
            +WD  GQ RFR++   Y RG   I+ + D  DQE     K  L  +        +  L+
Sbjct: 50  KLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLV 109

Query: 82  VGNKNDQTSKKAVD---YQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK 133
           +GNK D            ++        +I     S K   N++     +    K
Sbjct: 110 LGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSK 164

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 50.1 bits (118), Expect = 8e-09
 Identities = 15/115 (13%), Positives = 33/115 (28%), Gaps = 11/115 (9%)

Query: 22  IVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLL 81
              +D  G  + R +   Y+   +GI+ + D  D E F+  +  L+ +   A       +
Sbjct: 46  FTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFV 105

Query: 82  VGNKNDQTSKKAVDYQVAKE-----------YADHLKIPFLETSAKNGANVEQAF 125
           +            + ++                    +     S        +AF
Sbjct: 106 ILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAF 160

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 49.6 bits (117), Expect = 2e-08
 Identities = 18/149 (12%), Positives = 39/149 (26%), Gaps = 37/149 (24%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQET-----------FNNLKQWLEEIDRY 72
           + D  GQ   R      +     I+ +   ++ +              +   +   I   
Sbjct: 49  MVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYP 108

Query: 73  ACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHL-------------------------- 106
              N + +L  NK D   +K +   +   + ++                           
Sbjct: 109 WFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDK 168

Query: 107 KIPFLETSAKNGANVEQAFLTMATEIKKR 135
            I    T A +  N+   F  +   I + 
Sbjct: 169 IIYSHFTCATDTENIRFVFAAVKDTILQL 197

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 47.0 bits (110), Expect = 1e-07
 Identities = 25/124 (20%), Positives = 45/124 (36%), Gaps = 16/124 (12%)

Query: 25  WDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYAC-DNVNKLLVG 83
           +D  G  + R +  +Y    +GI+ + DC D E     K+ L+ +       NV  L++G
Sbjct: 62  FDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILG 121

Query: 84  NKNDQTSKKAVD---------------YQVAKEYADHLKIPFLETSAKNGANVEQAFLTM 128
           NK D+    + +                 V+ +  +   +     S        + F  M
Sbjct: 122 NKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWM 181

Query: 129 ATEI 132
           A  I
Sbjct: 182 AQYI 185

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.5 bits (104), Expect = 1e-06
 Identities = 15/123 (12%), Positives = 36/123 (29%), Gaps = 13/123 (10%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY----------- 72
           + D  GQ   R      +     I+ +   ++ +      +    +              
Sbjct: 48  MVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNR 107

Query: 73  ACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI 132
              NV+ +L  NK D   +K     +   + +    P      +    + + F     + 
Sbjct: 108 VFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQK--FLVECFRGKRRDQ 165

Query: 133 KKR 135
           ++R
Sbjct: 166 QQR 168

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 43.0 bits (100), Expect = 3e-06
 Identities = 22/149 (14%), Positives = 41/149 (27%), Gaps = 37/149 (24%)

Query: 24  IWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQ-----------WLEEIDRY 72
           ++D  GQ   R      + G   II     +D +      +           +    +  
Sbjct: 46  MFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNK 105

Query: 73  ACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHL-------------------------- 106
              + + +L  NK D   +K     +   Y ++                           
Sbjct: 106 WFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTK 165

Query: 107 KIPFLETSAKNGANVEQAFLTMATEIKKR 135
           +I    T A +  NV+  F  +   I K 
Sbjct: 166 EIYTHFTCATDTKNVQFVFDAVTDVIIKN 194

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	168
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.95
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.95
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.95
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.95
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.95
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.95
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.95
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.95
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.94
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.94
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.94
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.94
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.93
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.93
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.92
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.92
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.92
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.92
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.92
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.91
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.91
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.91
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.91
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.9
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.9
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.9
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.9
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.88
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.88
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.8
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.76
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.76
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.73
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.71
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.7
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.69
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.64
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.63
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.59
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.56
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.55
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.52
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.51
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.48
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.45
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.44
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.41
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.39
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.36
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.36
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.35
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.21
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.21
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.19
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.11
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.1
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.0
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	98.98
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	98.93
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.88
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.87
d1nrjb_	209	Signal recognition particle receptor beta-subunit	98.8
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.63
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.62
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.36
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.33
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.28
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.01
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	97.96
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	97.89
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.8
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	97.53
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	96.45
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	96.16
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	95.83
d2qy9a2	211	GTPase domain of the signal recognition particle r	94.14
d1okkd2	207	GTPase domain of the signal recognition particle r	94.08
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	93.81
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	93.61
d1vmaa2	213	GTPase domain of the signal recognition particle r	93.23
d1j8yf2	211	GTPase domain of the signal sequence recognition p	90.48
d1ls1a2	207	GTPase domain of the signal sequence recognition p	90.06
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	89.22
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	87.42
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	84.36
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	84.03

>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=99.96  E-value=2.9e-29  Score=172.89  Aligned_cols=129  Identities=22%  Similarity=0.301  Sum_probs=110.3

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKND   87 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D   87 (168)
                      ..+.+.+++..+.+.+||++|++++..++..+++++|++|+|||++++.+|+.+..|+..+.... ...+|+++||||+|
T Consensus        37 ~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~D  116 (168)
T d2gjsa1          37 YDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSD  116 (168)
T ss_dssp             EEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTT
T ss_pred             ecceeeccccccceeeeecccccccceecccchhhhhhhceeccccccccccccccccchhhcccccccceEEEeecccc
Confidence            34567789999999999999999999999999999999999999999999999999999986654 45689999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +...++++..++..+++.++++++++||++|.|++++|+++++.+..++.
T Consensus       117 l~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~~~i~~~~~  166 (168)
T d2gjsa1         117 LVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRD  166 (168)
T ss_dssp             CGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             hhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHhh
Confidence            98888889999999999999999999999999999999999998877654

>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=99.95  E-value=1.4e-27  Score=164.60  Aligned_cols=129  Identities=42%  Similarity=0.695  Sum_probs=117.7

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      +...+.+.+++..+.+.+|||||+++|..+++.++++++++++|||++++.++..+..|+..+.+......|+++||||+
T Consensus        41 ~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~  120 (171)
T d2ew1a1          41 DFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKI  120 (171)
T ss_dssp             EEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECG
T ss_pred             eEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeec
Confidence            34457777889999999999999999999999999999999999999999999999999999877656679999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      |+...+.+..+++..+++.+++++++|||++|.|++++|.+++..+...
T Consensus       121 D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1         121 DLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISE  169 (171)
T ss_dssp             GGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHHHHHHHHHHh
Confidence            9988778888899999999999999999999999999999999887754

>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=99.95  E-value=1.2e-27  Score=164.87  Aligned_cols=127  Identities=43%  Similarity=0.732  Sum_probs=115.6

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      ...+.+..++..+.+++|||||++++..++..+++++|++|+|||+++++++..+..|+..+........|+++++||+|
T Consensus        42 ~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D  121 (169)
T d3raba_          42 FKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCD  121 (169)
T ss_dssp             EEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTT
T ss_pred             eeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecc
Confidence            33556667888899999999999999999999999999999999999999999999999888666567899999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +.+.+.++.+++..+++.++++++++||++|.|++++|+++++.+.+
T Consensus       122 ~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~e  168 (169)
T d3raba_         122 MEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICE  168 (169)
T ss_dssp             CGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHT
T ss_pred             cccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            98888888899999999999999999999999999999999998765

>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=99.95  E-value=3.9e-27  Score=162.24  Aligned_cols=132  Identities=30%  Similarity=0.502  Sum_probs=118.8

Q ss_pred             ccccc---ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQ---TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~---~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||.   ..+.+.+++..+.+.+||++|++++..++..+++++|++++|||+++++||+.+..|+..+.+.. ..+.|+
T Consensus        33 ~~~t~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~  112 (169)
T d1x1ra1          33 YDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPM  112 (169)
T ss_dssp             CCTTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCE
T ss_pred             cCcceeeccccccccccccccccccccccccccccchhhhhhhccEEEEecccccchhhhccchhhHHHHhhccccCccE
Confidence            45555   35667789999999999999999999999999999999999999999999999999999986653 457999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCC-CHHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA-NVEQAFLTMATEIKKR  135 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~-~i~~i~~~l~~~~~~~  135 (168)
                      +++|||+|+...+.++.+++.++++.++++++++||+++. ||+++|..+++.+.++
T Consensus       113 ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~~l~~~i~~~  169 (169)
T d1x1ra1         113 ILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ  169 (169)
T ss_dssp             EEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHHHC
T ss_pred             EEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHHHHHHHHHhC
Confidence            9999999999888899999999999999999999999886 9999999999988753

>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=99.95  E-value=2.5e-27  Score=162.74  Aligned_cols=132  Identities=24%  Similarity=0.345  Sum_probs=118.9

Q ss_pred             ccccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCc
Q psy2646           3 LLLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVN   78 (168)
Q Consensus         3 ~~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p   78 (168)
                      .+.||++   .+.+.+++..+.+.+||++|.+++..++..+++++|++|+|||++++++|+.+..|+..+.... ..+.|
T Consensus        32 ~~~~t~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p  111 (167)
T d1xtqa1          32 SYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIP  111 (167)
T ss_dssp             CCCSSCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCC
T ss_pred             ccCcceecccceEEecCcEEEEeeecccccccccccccchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccc
Confidence            3567765   4467889999999999999999999999999999999999999999999999999999986654 45799


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ++++|||+|+...+.++.++++++++.++++|+++||++|.|++++|+.+++.+.+
T Consensus       112 iilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~~li~~~~K  167 (167)
T d1xtqa1         112 IMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEK  167 (167)
T ss_dssp             EEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             eeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHHhcC
Confidence            99999999998888899999999999999999999999999999999999987753

>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=99.95  E-value=3.6e-27  Score=162.96  Aligned_cols=128  Identities=29%  Similarity=0.466  Sum_probs=117.2

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQ   88 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl   88 (168)
                      .+.+.+++..+.+.+||++|++++..++..+++++|++|+|||++++.+|+.+..|+..+.+.. ..+.|+++||||+|+
T Consensus        44 ~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl  123 (173)
T d2fn4a1          44 TKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADL  123 (173)
T ss_dssp             EEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGG
T ss_pred             eeEeccCCeeeeeeccccccccccccccchhhccceeeeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeech
Confidence            5678889999999999999999999999999999999999999999999999999999886543 457899999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ...+.+..+++..+++.+++++++|||++|.|++++|+.+++.+.+++.
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~k~~~  172 (173)
T d2fn4a1         124 ESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQE  172 (173)
T ss_dssp             GGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             hhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHhc
Confidence            8877888889999999999999999999999999999999999876543

>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=99.95  E-value=1.9e-27  Score=163.71  Aligned_cols=132  Identities=35%  Similarity=0.513  Sum_probs=116.0

Q ss_pred             ccccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCc
Q psy2646           3 LLLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVN   78 (168)
Q Consensus         3 ~~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p   78 (168)
                      .+.||++.   +.+.+++..+.+.+||++|++++..++..+++++|++++|||++++++|+.+..|+..+.+.. ..+.|
T Consensus        32 ~~~~T~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p  111 (168)
T d1u8za_          32 DYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVP  111 (168)
T ss_dssp             CCCTTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSC
T ss_pred             ccCCccccccccccccccccccccccccccccchhhhhhhcccccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCc
Confidence            35677753   456689999999999999999999999999999999999999999999999999999986653 56799


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +++||||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++++.+.+
T Consensus       112 iiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~~  167 (168)
T d1u8za_         112 FLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             EEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             EEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHHHC
Confidence            99999999998888899999999999999999999999999999999999988754

>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=99.95  E-value=2.4e-27  Score=162.95  Aligned_cols=128  Identities=33%  Similarity=0.589  Sum_probs=109.2

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      ....+....++..+.+.+||++|++++..++..+++++|++|+|||+++++||+.+..|+..+........|++++|||+
T Consensus        39 ~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~  118 (167)
T d1z08a1          39 SFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKI  118 (167)
T ss_dssp             EEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECG
T ss_pred             chheeeeccCCccceeeeeccCCcceecccchhhccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeecccc
Confidence            33455666688899999999999999999999999999999999999999999999999988866555678999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      |+...+.++.+++..+++.+++++++|||++|.|++++|.+|++.+.+
T Consensus       119 Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1         119 DLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE  166 (167)
T ss_dssp             GGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             ccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHHHHHHHHhh
Confidence            998888899999999999999999999999999999999999988753

>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=99.95  E-value=3.6e-27  Score=161.54  Aligned_cols=129  Identities=30%  Similarity=0.498  Sum_probs=116.2

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    ......++..+.+.+|||+|++++..++..+++++|++++|||++++++|+.+..|+..+... .++.|+
T Consensus        31 ~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~i  109 (164)
T d1z2aa1          31 YKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAE-VGDIPT  109 (164)
T ss_dssp             SSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHH-HCSCCE
T ss_pred             cccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEEEeccchhhhhhccccccccccc-CCCceE
Confidence            445554    455666788999999999999999999999999999999999999999999999999998766 357999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ++||||+|+.+.+.+..+++.++++.++++++++||++|.|++++|+++++.+.
T Consensus       110 ilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~l  163 (164)
T d1z2aa1         110 ALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHL  163 (164)
T ss_dssp             EEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHH
T ss_pred             EEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHHHHHh
Confidence            999999999888889989999999999999999999999999999999998875

>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=99.95  E-value=1.3e-26  Score=159.11  Aligned_cols=129  Identities=42%  Similarity=0.675  Sum_probs=117.8

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG   83 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~   83 (168)
                      ..+++......+++..+.+.+||++|++++..++..+++++|++|+|||+++.++|..+..|+..+........|++++|
T Consensus        37 ~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvg  116 (166)
T d1z0fa1          37 IGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIG  116 (166)
T ss_dssp             CCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEE
T ss_pred             ccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEc
Confidence            34455667788899999999999999999999999999999999999999999999999999999877767789999999


Q ss_pred             ecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ||+|+.....+..+++..+++.+++++++|||++|.|++++|+++++.+
T Consensus       117 nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~i~~~i  165 (166)
T d1z0fa1         117 NKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI  165 (166)
T ss_dssp             ECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             ccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            9999988778888899999999999999999999999999999999875

>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=99.95  E-value=1.3e-26  Score=160.15  Aligned_cols=132  Identities=40%  Similarity=0.654  Sum_probs=119.1

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      .....+..++..+.+.+|||||++++..+++.++++++++|+|||+++++++..+..|+..+......+.|+++++||+|
T Consensus        42 ~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D  121 (174)
T d2bmea1          42 FGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKD  121 (174)
T ss_dssp             EEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGG
T ss_pred             eeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecccchhHHHHhhhhcccccccCCceEEEEEEeccc
Confidence            33455566788999999999999999999999999999999999999999999999999998777667899999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      +.....+....+..++..++++++++||++|.|++++|.++++.+.++...+
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~~l~~~i~~~~~~~  173 (174)
T d2bmea1         122 LDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESG  173 (174)
T ss_dssp             GGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHHSC
T ss_pred             ccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHHHHHHHhcC
Confidence            9877788888888999999999999999999999999999999998876543

>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=99.94  E-value=3.5e-26  Score=157.92  Aligned_cols=136  Identities=40%  Similarity=0.650  Sum_probs=122.6

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG   83 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~   83 (168)
                      ..++........++..+.+.+||++|++.+..+++.+++.+|++|+|||++++.+|+.+..|+..+......+.|+++||
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~  115 (173)
T d2a5ja1          36 IGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIG  115 (173)
T ss_dssp             CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEE
T ss_pred             eeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEe
Confidence            34555567777788899999999999999999999999999999999999999999999999999877666789999999


Q ss_pred             ecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      ||+|+...+.+..+++..+++.++++++++||++|.|++++|.++++.+.++....
T Consensus       116 nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i~~~i~~~~~~~  171 (173)
T d2a5ja1         116 NKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQG  171 (173)
T ss_dssp             ECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHHHTT
T ss_pred             cCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHHHHcc
Confidence            99999887788888999999999999999999999999999999999988776543

>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=99.94  E-value=1.5e-26  Score=159.75  Aligned_cols=130  Identities=43%  Similarity=0.757  Sum_probs=104.7

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      ...+.+.+++..+.+.+|||||++++..++..+++++|++|+|||++++.+++.+..|...+......+.|+++++||.|
T Consensus        43 ~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D  122 (173)
T d2fu5c1          43 FKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCD  122 (173)
T ss_dssp             EEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--
T ss_pred             EEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEeccc
Confidence            34567788899999999999999999999999999999999999999999999999999998766667899999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +...+....+++..++..+++++++|||++|.|++++|+++++.+..+..
T Consensus       123 ~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~~l~~~i~~k~~  172 (173)
T d2fu5c1         123 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMD  172 (173)
T ss_dssp             CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHHHH
T ss_pred             chhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHHHHHHHhcC
Confidence            98877787788888999999999999999999999999999999987654

>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=99.94  E-value=5e-26  Score=159.90  Aligned_cols=133  Identities=59%  Similarity=0.928  Sum_probs=119.7

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+    ...+.+++..+.+.+|||||+++|..+|..++++++++|+|||+++++++..+..|...+........|+
T Consensus        35 ~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~i  114 (194)
T d2bcgy1          35 YISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLK  114 (194)
T ss_dssp             CCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEE
T ss_pred             cCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceE
Confidence            445544    4566778999999999999999999999999999999999999999999999999998887766678999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ++++||+|+.....+..++...++...+++++++||++|.|++++|+++++.+.+..
T Consensus       115 ilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~f~~l~~~i~~~~  171 (194)
T d2bcgy1         115 LLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESM  171 (194)
T ss_dssp             EEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             EEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHHHHHHHHHHHHHh
Confidence            999999999988888888888999999999999999999999999999999887654

>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=99.94  E-value=2.7e-26  Score=158.96  Aligned_cols=131  Identities=21%  Similarity=0.389  Sum_probs=111.7

Q ss_pred             ccccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           3 LLLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         3 ~~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      .+.||++   .+...++++.+.+.+||++|++.|..++..+++++|++|+|||+++++||+.+..|...+.....++.|+
T Consensus        30 ~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~pi  109 (177)
T d1kmqa_          30 VYVPTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI  109 (177)
T ss_dssp             SCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCE
T ss_pred             CcCCceeeeccccccccccceeeeccccCccchhcccchhhcccchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCce
Confidence            3567765   3446778999999999999999999999999999999999999999999998877655553433568999


Q ss_pred             EEEEecCCCCC------------CcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTS------------KKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~------------~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +|+|||+|+..            .+.++.+++..+++.++ ++|++|||++|.|++++|+.+++.+.
T Consensus       110 ilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         110 ILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAAL  176 (177)
T ss_dssp             EEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHh
Confidence            99999999863            24577888999999888 58999999999999999999998875

>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=99.94  E-value=6.5e-26  Score=156.80  Aligned_cols=133  Identities=40%  Similarity=0.633  Sum_probs=119.2

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEec
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNK   85 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK   85 (168)
                      .+.....+.+++..+.+.+||++|+++|..++..+++.+|++|+|||+++++||..+..|+..+......+.|+++||||
T Consensus        39 ~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK  118 (175)
T d2f9la1          39 VEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNK  118 (175)
T ss_dssp             CEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEEC
T ss_pred             ceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEee
Confidence            34456777788999999999999999999999999999999999999999999999999999997776678999999999


Q ss_pred             CCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          86 NDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      +|+.+.+.........+...++.+++++||++|.|++++|+++++.+.+...+
T Consensus       119 ~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~l~~~i~~~~~~  171 (175)
T d2f9la1         119 SDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQ  171 (175)
T ss_dssp             TTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHHT
T ss_pred             ecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHHHHHHHHHHHhhh
Confidence            99987767777777788888899999999999999999999999998766554

>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=99.94  E-value=2.7e-27  Score=163.08  Aligned_cols=131  Identities=27%  Similarity=0.377  Sum_probs=115.8

Q ss_pred             ccccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc--CCCC
Q psy2646           3 LLLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA--CDNV   77 (168)
Q Consensus         3 ~~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~   77 (168)
                      .+.||++   .....+++..+.+.+||++|++++...+..+++++|++++|||+++++++..+..|+..+....  ....
T Consensus        30 ~~~~T~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~  109 (171)
T d2erxa1          30 SYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESI  109 (171)
T ss_dssp             SCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CC
T ss_pred             ccCcceeeccccceeeccccceeccccccccccccccccccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCC
Confidence            3567776   4466778999999999999999999999999999999999999999999999999998885543  3578


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      |+++||||+|+...+.++.+++.++++.++++++++||++|.|++++|+.|++.+.
T Consensus       110 piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~~~  165 (171)
T d2erxa1         110 PIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEK  165 (171)
T ss_dssp             CEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTCC
T ss_pred             cEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHHH
Confidence            99999999999887889989999999999999999999999999999999997653

>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=99.94  E-value=5.8e-26  Score=158.48  Aligned_cols=130  Identities=19%  Similarity=0.259  Sum_probs=110.4

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii   80 (168)
                      +.||++   .+.+.+++..+.+.+||++|++.|..++..+++++|++++|||+++++||+.+..|.....+....+.|++
T Consensus        38 ~~~Ti~~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~i  117 (185)
T d2atxa1          38 YVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFL  117 (185)
T ss_dssp             CCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEE
T ss_pred             CCCceeeeeeEEEeeCCceEEeecccccccchhhhhhhhcccccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCCee
Confidence            455554   55556788899999999999999999999999999999999999999999987665555433335689999


Q ss_pred             EEEecCCCCC------------CcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTS------------KKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        81 vv~nK~Dl~~------------~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +||||+|+..            .+.++.+++.++++.++ ++|+||||++|.|++++|+.+++.+.
T Consensus       118 lvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         118 LIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             EEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEEecCCCCcCHHHHHHHHHHHHc
Confidence            9999999863            45678889999998887 79999999999999999999998874

>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=99.94  E-value=2.7e-26  Score=157.00  Aligned_cols=129  Identities=34%  Similarity=0.556  Sum_probs=115.3

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.|+.+    ......++..+.+.+||++|++++..++..+++++|++++|||++++.+++.+..|+..+......+.|+
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~i  108 (164)
T d1yzqa1          29 YQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVII  108 (164)
T ss_dssp             CCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEE
T ss_pred             cccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEeeccccccchhhhHhhHHHHHHhcCCCceE
Confidence            445554    3355557888999999999999999999999999999999999999999999999999987766678999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++||||.|+.+.+.+..+++..+++.+++++++|||++|.|++++|++|++++
T Consensus       109 ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~l  161 (164)
T d1yzqa1         109 MLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL  161 (164)
T ss_dssp             EEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHS
T ss_pred             EEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHhh
Confidence            99999999987778888899999999999999999999999999999998764

>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=99.94  E-value=1.1e-25  Score=157.79  Aligned_cols=130  Identities=21%  Similarity=0.275  Sum_probs=110.1

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii   80 (168)
                      +.||++   .....++++.+.+.+||++|+++|..++..+++++|++++|||+++++||+.+..|+.........+.|++
T Consensus        32 ~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~  111 (191)
T d2ngra_          32 YVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFL  111 (191)
T ss_dssp             CCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEE
T ss_pred             cCCceeeecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecccccchHHHHHHHHHHHHHHHhhcCCCCceE
Confidence            556765   34556688999999999999999999999999999999999999999999999875555544435689999


Q ss_pred             EEEecCCCCC------------CcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTS------------KKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        81 vv~nK~Dl~~------------~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +++||+|+..            .+.+..+++..+++.++ ++|+++||++|.|++++|+.+++.+.
T Consensus       112 lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~V~e~f~~l~~~~~  177 (191)
T d2ngra_         112 LVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL  177 (191)
T ss_dssp             EEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             EEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHh
Confidence            9999999852            34578889999998864 89999999999999999999987653

>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=99.94  E-value=5.2e-26  Score=156.13  Aligned_cols=123  Identities=38%  Similarity=0.651  Sum_probs=113.1

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      ......++....+.+||++|++++..++..++++++++|+|||++++++|+.+..|+..+........|+++||||+|+.
T Consensus        43 ~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~  122 (167)
T d1z0ja1          43 TKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLT  122 (167)
T ss_dssp             EEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCG
T ss_pred             cccccccccccceeeeecCCchhhhHHHHHHHhhccceEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhc
Confidence            44555678888999999999999999999999999999999999999999999999988877767789999999999998


Q ss_pred             CCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          90 SKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        90 ~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ..+.+..+++.++++.++++|+++||++|.|++++|.++++.+
T Consensus       123 ~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~l~~~i  165 (167)
T d1z0ja1         123 DVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI  165 (167)
T ss_dssp             GGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             cccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHhC
Confidence            8788898999999999999999999999999999999998875

>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=99.94  E-value=8.5e-26  Score=155.61  Aligned_cols=127  Identities=30%  Similarity=0.477  Sum_probs=112.0

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKND   87 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~D   87 (168)
                      ..+.+.+++..+.+.+||++|.+++...+..+++++|++++|||.+++++|+.+..|+..+.... ....|+++||||+|
T Consensus        42 ~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~D  121 (171)
T d2erya1          42 YTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKAD  121 (171)
T ss_dssp             EEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTT
T ss_pred             eeeeeeecccccccccccccccccccccccccccccceEEEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccc
Confidence            36677789999999999999999999999999999999999999999999999999998875543 45789999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +...+.+..+++.++++.+++++++|||++|.|++++|.++++.+.+.
T Consensus       122 l~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~k~  169 (171)
T d2erya1         122 LDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRKF  169 (171)
T ss_dssp             CTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             hhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence            988888999999999999999999999999999999999999988654

>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=99.94  E-value=4.9e-26  Score=156.52  Aligned_cols=133  Identities=28%  Similarity=0.383  Sum_probs=114.5

Q ss_pred             ccccccce---eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCc
Q psy2646           3 LLLPYQTL---QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVN   78 (168)
Q Consensus         3 ~~~~t~~~---~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p   78 (168)
                      .+.||++.   +....++..+.+.+||++|++.+. ....++++++++++|||++++++|..+..|+..+.... ..+.|
T Consensus        30 ~~~pTi~~~~~~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p  108 (168)
T d2atva1          30 EYDPTLESTYRHQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVT  108 (168)
T ss_dssp             CCCTTCCEEEEEEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCC
T ss_pred             ccCCceeccccccccccccceEEEEeecccccccc-cchhhhcccccceeecccCCccchhhhhhhcccccccccccCcc
Confidence            46777764   355668999999999999998764 45678999999999999999999999998877664432 45799


Q ss_pred             EEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCC-CHHHHHHHHHHHHHHHh
Q psy2646          79 KLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGA-NVEQAFLTMATEIKKRV  136 (168)
Q Consensus        79 iivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~-~i~~i~~~l~~~~~~~~  136 (168)
                      +++||||+|+...+.++.+++.++++.++++|+++||++|. ||+++|..+++.+.+++
T Consensus       109 iilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~l~~~i~~~r  167 (168)
T d2atva1         109 LILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRRR  167 (168)
T ss_dssp             EEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHHHHH
T ss_pred             eeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHHHHHHHHHhc
Confidence            99999999998878899999999999999999999999998 59999999999888764

>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=99.94  E-value=1.8e-25  Score=153.86  Aligned_cols=125  Identities=40%  Similarity=0.748  Sum_probs=106.8

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ....+.+++..+.+.+|||||++++..++..+++++|++++|||+++++++..+..|+..+........|+++++||.|+
T Consensus        45 ~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~  124 (170)
T d2g6ba1          45 RNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDS  124 (170)
T ss_dssp             EEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCST
T ss_pred             EEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeech
Confidence            34456678899999999999999999999999999999999999999999999999998886665667899999999999


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      .....++.+++..+++.++++++++||++|.|++++|+++++.+.
T Consensus       125 ~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~l~~~i~  169 (170)
T d2g6ba1         125 AHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELK  169 (170)
T ss_dssp             TSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHcC
Confidence            888889989999999999999999999999999999999998875

>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=99.94  E-value=1.1e-25  Score=154.89  Aligned_cols=130  Identities=42%  Similarity=0.664  Sum_probs=115.9

Q ss_pred             cccccce----eeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQTL----QNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~~----~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+.    .....++..+.+.+||++|+++|..++..+++++|+++++||.++.++|+.+..|...+.+...++.|+
T Consensus        35 ~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~i  114 (170)
T d1r2qa_          35 QESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVI  114 (170)
T ss_dssp             CCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEE
T ss_pred             cccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchhhHHHHHHHHhhhhhhccCCCceE
Confidence            3455543    344457888999999999999999999999999999999999999999999999999987766778999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +++|||+|+...+.++.+++..+++.++++++++||++|.|++++|++|++.+.
T Consensus       115 ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l~~~i~  168 (170)
T d1r2qa_         115 ALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP  168 (170)
T ss_dssp             EEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTSC
T ss_pred             EeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            999999999888889999999999999999999999999999999999987653

>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=99.93  E-value=8.2e-26  Score=155.15  Aligned_cols=130  Identities=31%  Similarity=0.487  Sum_probs=114.6

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||++   ...+.+++..+.+.+||++|++.+..++..+++++|++|+|||++++++|+.+..|+..+.+.. .++.|+
T Consensus        32 ~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~  111 (167)
T d1c1ya_          32 YDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPM  111 (167)
T ss_dssp             CCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCE
T ss_pred             cCCccccccceeEEeeeeEEEeccccccCcccccccccccccccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeE
Confidence            556665   3444668899999999999999999999999999999999999999999999999999886643 467999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhc-CCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      ++||||+|+.....+..+++..+++.+ +++++++||++|.|++++|+++++.+.
T Consensus       112 ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_         112 ILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             EEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             EEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHHHHHHhc
Confidence            999999999888788888888888774 689999999999999999999998764

>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=99.93  E-value=1.6e-25  Score=154.48  Aligned_cols=126  Identities=21%  Similarity=0.334  Sum_probs=111.0

Q ss_pred             ceeeeeeCCeEEEEEEEeCC---CchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEe
Q psy2646           9 TLQNKKEERTRTLIVIWDTA---GQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGN   84 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~---G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~n   84 (168)
                      ..+.+.++++.+.+.+||++   |+++|  ++..+++++|++|+|||++++.+++.+..|...+.... ..+.|+++|||
T Consensus        42 ~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgn  119 (172)
T d2g3ya1          42 YERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGN  119 (172)
T ss_dssp             EEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEE
T ss_pred             ceeeeccCCceeeeeeeccccccccccc--cccccccccceeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEec
Confidence            35677889999999999976   56655  56778999999999999999999999999999886543 45799999999


Q ss_pred             cCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          85 KNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        85 K~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      |+|+...+.++.+++.++++.++++++++||++|.|++++|+++++.+..++
T Consensus       120 K~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~~f~~l~~~i~~rr  171 (172)
T d2g3ya1         120 KSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRR  171 (172)
T ss_dssp             CTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             cccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHHHHHHHHHHHHHcc
Confidence            9999888889999999999999999999999999999999999999987664

>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=99.93  E-value=3.8e-26  Score=159.33  Aligned_cols=120  Identities=40%  Similarity=0.761  Sum_probs=109.5

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEecCCCCCCcccCH
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNKNDQTSKKAVDY   96 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl~~~~~v~~   96 (168)
                      ..+.+.+|||+|+++|..++..+++++|++|+|||++++.+++.+..|+..+.... ....|+++||||.|+...+.+..
T Consensus        62 ~~~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~  141 (186)
T d2f7sa1          62 FKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNE  141 (186)
T ss_dssp             EEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCH
T ss_pred             ceEEeccccCCcchhhHHHHHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchH
Confidence            45789999999999999999999999999999999999999999999998875443 45689999999999988888999


Q ss_pred             HHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          97 QVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        97 ~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      +++.++++.++++++++||++|.|++++|+++++.+.++..
T Consensus       142 ~e~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~~k~~  182 (186)
T d2f7sa1         142 RQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRME  182 (186)
T ss_dssp             HHHHHHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999887654

>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=99.93  E-value=3.8e-26  Score=157.42  Aligned_cols=128  Identities=27%  Similarity=0.488  Sum_probs=111.2

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||++    .+.+.+++..+.+.+|||+|++++..++..+++++|++++|||+++++||+.+..|+..+.+. ..+.|+
T Consensus        32 ~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~-~~~~pi  110 (170)
T d1i2ma_          32 YVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV-CENIPI  110 (170)
T ss_dssp             EEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHH-HCSCCE
T ss_pred             cccceeccccccccccccccccccccccccccccceecchhcccccchhhccccccccccchhHHHHHHHhhc-cCCCce
Confidence            456665    455666788899999999999999999999999999999999999999999999999998765 357999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ++||||+|+...+..  .+...++..++++++++||++|.|++++|.+|++.+..
T Consensus       111 ilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~  163 (170)
T d1i2ma_         111 VLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIG  163 (170)
T ss_dssp             EEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHHHHHHT
T ss_pred             eeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHcc
Confidence            999999999765443  34456788889999999999999999999999998864

>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=99.93  E-value=1.2e-25  Score=154.19  Aligned_cols=130  Identities=28%  Similarity=0.491  Sum_probs=116.4

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||++   .....+++..+.+.+||++|++.+..++..+++++|++++|||++++++|..+..|+..+.... ..+.|+
T Consensus        32 ~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~pi  111 (167)
T d1kaoa_          32 YDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPV  111 (167)
T ss_dssp             CCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCE
T ss_pred             cCCceeeeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCCE
Confidence            445554   6667788999999999999999999999999999999999999999999999999999886543 457999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +|||||+|+...+.+..+++..+++.++++++++||++|.|++++|+++++++.
T Consensus       112 ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_         112 ILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             EEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             EEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHHHHHHHc
Confidence            999999999887788888999999999999999999999999999999998764

>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=99.92  E-value=1.5e-24  Score=148.52  Aligned_cols=126  Identities=47%  Similarity=0.796  Sum_probs=113.5

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCC
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQ   88 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl   88 (168)
                      ..+.+.+++..+.+.+|||||+++|..++..+++++|++++|||++++++++.+..|+..+........|++++++|.|+
T Consensus        40 ~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~  119 (166)
T d1g16a_          40 KIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM  119 (166)
T ss_dssp             EEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC
T ss_pred             EEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhh
Confidence            35666778999999999999999999999999999999999999999999999999988887776678899999999998


Q ss_pred             CCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          89 TSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        89 ~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      .. +....+++..+++.+++++++|||++|.|++++|++|++.+.++
T Consensus       120 ~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~~~i~~k  165 (166)
T d1g16a_         120 ET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK  165 (166)
T ss_dssp             TT-CCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             hh-hhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHHHHHHHhc
Confidence            65 45667888899999999999999999999999999999988765

>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=99.92  E-value=5.4e-25  Score=152.81  Aligned_cols=131  Identities=20%  Similarity=0.366  Sum_probs=111.1

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii   80 (168)
                      +.||++   .+...+++..+.+.+||++|++.+..++..+++++|++|+|||+++++||+.+..|+.........+.|++
T Consensus        31 ~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~ii  110 (179)
T d1m7ba_          31 YVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKML  110 (179)
T ss_dssp             CCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEE
T ss_pred             cCCceeecccccccccceEEeeccccccccccccccccchhhhhhhhheeeecccCCCHHHHHHHHHHHHhccCCcceEE
Confidence            456654   45566789999999999999999999999999999999999999999999998876655433335689999


Q ss_pred             EEEecCCCCC------------CcccCHHHHHHHHHhcC-CCEEEEeccCCC-CHHHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTS------------KKAVDYQVAKEYADHLK-IPFLETSAKNGA-NVEQAFLTMATEIKK  134 (168)
Q Consensus        81 vv~nK~Dl~~------------~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~-~i~~i~~~l~~~~~~  134 (168)
                      +||||+|+..            .+.++.+++..+++.++ .+|+||||++|. +++++|+.+++.+.+
T Consensus       111 lVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         111 LVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             EEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             EEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCCCCcCHHHHHHHHHHHHhc
Confidence            9999999852            45688889999998887 589999999998 499999999998875

>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=99.92  E-value=1.3e-24  Score=149.45  Aligned_cols=129  Identities=35%  Similarity=0.573  Sum_probs=114.8

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcE
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNK   79 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi   79 (168)
                      +.||.+    .+.+.+++..+.+.+||++|++++..++..+++++|++++|||++++++|+.+..|+..+........|+
T Consensus        32 ~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~  111 (170)
T d1ek0a_          32 KEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIII  111 (170)
T ss_dssp             CCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEE
T ss_pred             ccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEEEeCCcccchhhhhhhhhhhccccccccce
Confidence            456665    4567778999999999999999999999999999999999999999999999999998876666668999


Q ss_pred             EEEEecCCCCC---CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTS---KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        80 ivv~nK~Dl~~---~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++++||.|+..   .+.+..+++.++++.++++|+++||++|.|++++|.+|++++
T Consensus       112 ~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F~~i~~~i  167 (170)
T d1ek0a_         112 ALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             EEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             eeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHh
Confidence            99999999753   467888999999999999999999999999999999998654

>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=99.92  E-value=3e-24  Score=148.57  Aligned_cols=128  Identities=39%  Similarity=0.700  Sum_probs=114.8

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEec
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNK   85 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK   85 (168)
                      +...+.+.+++..+.+.+|||||++++..++..+++++|++++|||++++.+++.+..|+..+.... ....|+++++||
T Consensus        43 ~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk  122 (177)
T d1x3sa1          43 DFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNK  122 (177)
T ss_dssp             EEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEEC
T ss_pred             cceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeec
Confidence            3356677788999999999999999999999999999999999999999999999999999986654 446899999999


Q ss_pred             CCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      .|... +.+...++..+++.++++++++||++|.|++++|+++++.+.+.
T Consensus       123 ~d~~~-~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f~~l~~~l~~~  171 (177)
T d1x3sa1         123 IDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQT  171 (177)
T ss_dssp             TTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             ccccc-ccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHHHHHHHHccC
Confidence            99754 56888899999999999999999999999999999999988865

>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=99.92  E-value=2.9e-24  Score=147.16  Aligned_cols=130  Identities=33%  Similarity=0.553  Sum_probs=114.4

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK   79 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi   79 (168)
                      +.||++   ...+..++..+.+.+||++|++.+...+..++++++++++|||++++.+|+.+..|+..+.... ..++|+
T Consensus        32 ~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi  111 (166)
T d1ctqa_          32 YDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM  111 (166)
T ss_dssp             CCCCSEEEEEEEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCE
T ss_pred             cCCccceeeccceeeeceeeeeeeeeccCccccccchhhhhhcccccceeecccccccHHHHHHHHHHHHHhcCCCCCeE
Confidence            456665   3455567889999999999999999999999999999999999999999999999999986654 457999


Q ss_pred             EEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          80 LLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        80 ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      ++|+||+|+.. +.+..+++.++++.++++++++||++|.|++++|.++++.+.+
T Consensus       112 ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~i~~~i~~  165 (166)
T d1ctqa_         112 VLVGNKCDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             EEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             EEEeccccccc-ccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHHh
Confidence            99999999865 4677888999999999999999999999999999999988753

>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=99.92  E-value=4.1e-24  Score=147.42  Aligned_cols=121  Identities=37%  Similarity=0.598  Sum_probs=97.1

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEecCCCCCC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~piivv~nK~Dl~~~   91 (168)
                      +.....+.+|||+|++++..++..+++.+++++++||++++.+|+.+..|+..+....    ..+.|+++++||+|+...
T Consensus        48 ~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~  127 (175)
T d1ky3a_          48 GDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEES  127 (175)
T ss_dssp             SSCCEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGG
T ss_pred             CcccccceeeccCCchhhhhHHHHHhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhh
Confidence            4555789999999999999999999999999999999999999999999999885542    247899999999999764


Q ss_pred             -cccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          92 -KAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        92 -~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                       +.++.+++.++++.++ ++++++||++|.|++++|+++++.+.+++
T Consensus       128 ~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         128 KKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN  174 (175)
T ss_dssp             GCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             hcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHHhcc
Confidence             4477788889998886 89999999999999999999999888765

>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=99.91  E-value=7.1e-24  Score=147.42  Aligned_cols=130  Identities=21%  Similarity=0.328  Sum_probs=108.4

Q ss_pred             cccccc---eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE
Q psy2646           4 LLPYQT---LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         4 ~~~t~~---~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii   80 (168)
                      +.||++   .+.+.+++..+.+.+||++|++.|..++..+++++|++++|||++++++|+.+..|+....+....+.|++
T Consensus        34 ~~~ti~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~~~~~pii  113 (183)
T d1mh1a_          34 YIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPII  113 (183)
T ss_dssp             CCCCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEE
T ss_pred             cccceeeceeeeeeccCcceEEEeecccccccchhhhhhcccccceeeeeeccchHHHHHHHHHHHHHHHHHhCCCCcEE
Confidence            456654   45566789999999999999999999999999999999999999999999999764444433335679999


Q ss_pred             EEEecCCCCCC------------cccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTSK------------KAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        81 vv~nK~Dl~~~------------~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +|+||+|+...            ..+...++..+++.++ ++|+||||++|.|++++|+.+++.+.
T Consensus       114 lvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~SAk~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         114 LVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             EEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             EEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcCCCCCcCHHHHHHHHHHHHc
Confidence            99999997543            2345667778888877 79999999999999999999998875

>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=99.91  E-value=1.7e-23  Score=142.92  Aligned_cols=122  Identities=39%  Similarity=0.688  Sum_probs=107.0

Q ss_pred             cceeeeeeCCeEEEEEEEeCCCchhhcc-cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEec
Q psy2646           8 QTLQNKKEERTRTLIVIWDTAGQERFRT-ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVGNK   85 (168)
Q Consensus         8 ~~~~~~~~~~~~~~l~l~Dt~G~~~~~~-~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK   85 (168)
                      ...+...+......+.+||++|.+.+.. .++.+++++|++|+|||++++++|+.+..|+..+.+.. ..+.|++|||||
T Consensus        39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK  118 (165)
T d1z06a1          39 FRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNK  118 (165)
T ss_dssp             EEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEEC
T ss_pred             cceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEecc
Confidence            3356677789999999999999887654 57789999999999999999999999999999986654 457999999999


Q ss_pred             CCCCCCcccCHHHHHHHHHhcCCCEEEEeccCC---CCHHHHHHHHH
Q psy2646          86 NDQTSKKAVDYQVAKEYADHLKIPFLETSAKNG---ANVEQAFLTMA  129 (168)
Q Consensus        86 ~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~---~~i~~i~~~l~  129 (168)
                      +|+.+.+.++.+++.++++.+++++++|||+++   .||+++|.+|+
T Consensus       119 ~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e~F~~lA  165 (165)
T d1z06a1         119 CDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA  165 (165)
T ss_dssp             TTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHHHHHHC
T ss_pred             ccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHHHHHHhC
Confidence            999888889999999999999999999999874   59999999873

>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=99.91  E-value=2.4e-23  Score=143.93  Aligned_cols=125  Identities=18%  Similarity=0.299  Sum_probs=105.6

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc---CCCCcEEEEEec
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA---CDNVNKLLVGNK   85 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~piivv~nK   85 (168)
                      ..+.+.+++..+.+.+|||+|+.++     .|++++|++|+|||+++++||+.+..|+..+....   ....|+++|+||
T Consensus        41 ~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k  115 (175)
T d2bmja1          41 YKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQ  115 (175)
T ss_dssp             EEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEEC
T ss_pred             EEEEeecCceEEEEEEeeccccccc-----ccccccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeee
Confidence            3566788999999999999998764     37899999999999999999999999998885543   346899999999


Q ss_pred             CCCC--CCcccCHHHHHHHHHh-cCCCEEEEeccCCCCHHHHHHHHHHHHHHHhcc
Q psy2646          86 NDQT--SKKAVDYQVAKEYADH-LKIPFLETSAKNGANVEQAFLTMATEIKKRVTK  138 (168)
Q Consensus        86 ~Dl~--~~~~v~~~~~~~~~~~-~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~  138 (168)
                      .|+.  ..+.++.+++..++.. ++++|++|||+++.|++++|..+++.+......
T Consensus       116 ~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~~~~  171 (175)
T d2bmja1         116 DRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQ  171 (175)
T ss_dssp             TTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHHHHHHHHHHHHHHHHH
T ss_pred             cCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHHHHHHHHHHHHHhhhh
Confidence            8875  3456788888888654 568999999999999999999999988876543

>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=99.91  E-value=3.4e-23  Score=144.01  Aligned_cols=133  Identities=35%  Similarity=0.532  Sum_probs=111.4

Q ss_pred             cccccc----eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc----CC
Q psy2646           4 LLPYQT----LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CD   75 (168)
Q Consensus         4 ~~~t~~----~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~----~~   75 (168)
                      +.||++    .+.....+..+.+.+||++|...+...+..++..+|+++++||++++.++..+..|+..+....    ..
T Consensus        31 ~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~  110 (184)
T d1vg8a_          31 YKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPE  110 (184)
T ss_dssp             CCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGG
T ss_pred             cCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEeecccchhhhhcchhhHHHHHHHhcccccc
Confidence            445554    4566667888999999999999999999999999999999999999999999999998885542    23


Q ss_pred             CCcEEEEEecCCCCCCcccCHHHHHHHHH-hcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646          76 NVNKLLVGNKNDQTSKKAVDYQVAKEYAD-HLKIPFLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        76 ~~piivv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      ++|+++||||+|+.+. .+..++...++. ..++++++|||++|.|++++|+++++.+.++..
T Consensus       111 ~ip~ilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~i~~~~~  172 (184)
T d1vg8a_         111 NFPFVVLGNKIDLENR-QVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQET  172 (184)
T ss_dssp             GSCEEEEEECTTSSCC-CSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEEeeccccc-chhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHHHHHHHHHHhccc
Confidence            6899999999999764 456666666654 457999999999999999999999998887654

>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=99.90  E-value=7.5e-24  Score=144.78  Aligned_cols=131  Identities=19%  Similarity=0.274  Sum_probs=107.2

Q ss_pred             cccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHH-hcCCCCcEE
Q psy2646           2 RLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKL   80 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~pii   80 (168)
                      ..+.||++.....++.+.+.+.+||+||++.++..+..+++.+++++++||+++..++..+..++..... ....+.|++
T Consensus        28 ~~~~~t~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~i  107 (165)
T d1ksha_          28 DTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLL  107 (165)
T ss_dssp             SSCCCCSSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEE
T ss_pred             CcccceEeeeeeeccccccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceE
Confidence            3577999999999988889999999999999999999999999999999999999999888777665533 334579999


Q ss_pred             EEEecCCCCCCcccCHHHHHHHH-----HhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          81 LVGNKNDQTSKKAVDYQVAKEYA-----DHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +|+||+|+.+...+.  +.....     ...++++++|||++|.|++++|+||++++..
T Consensus       108 iv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~i~~  164 (165)
T d1ksha_         108 IFANKQDLPGALSCN--AIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISS  164 (165)
T ss_dssp             EEEECTTSTTCCCHH--HHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             EEEeccccccccCHH--HHHHHHHhhhhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHc
Confidence            999999997654432  222221     2224679999999999999999999988764

>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=99.90  E-value=9.6e-23  Score=140.48  Aligned_cols=124  Identities=31%  Similarity=0.568  Sum_probs=109.4

Q ss_pred             ceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEe
Q psy2646           9 TLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA----CDNVNKLLVGN   84 (168)
Q Consensus         9 ~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~piivv~n   84 (168)
                      ..+...+++..+.+.+||++|..++...+..++..++++++++|.+++.+++.+..|+..+....    ..+.|+++|||
T Consensus        44 ~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgn  123 (174)
T d1wmsa_          44 LNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGN  123 (174)
T ss_dssp             EEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEE
T ss_pred             eeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEecc
Confidence            35566678889999999999999999999999999999999999999999999999998885542    34689999999


Q ss_pred             cCCCCCCcccCHHHHHHHHHhc-CCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          85 KNDQTSKKAVDYQVAKEYADHL-KIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        85 K~Dl~~~~~v~~~~~~~~~~~~-~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      |+|+.+ +.+..+++..+++.. +++|+++||++|.|++++|+++++.+.
T Consensus       124 K~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~il  172 (174)
T d1wmsa_         124 KIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVL  172 (174)
T ss_dssp             CTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             ccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHHHHHHHHHHHHh
Confidence            999965 568888999999876 489999999999999999999998875

>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=99.90  E-value=1.1e-24  Score=151.39  Aligned_cols=132  Identities=18%  Similarity=0.253  Sum_probs=104.3

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLL   81 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piiv   81 (168)
                      ...||.+.....++.+.+.+.+||+||++.+..++..++.++|++++|||++++.++.....|+..+... ...+.|+++
T Consensus        44 ~~~~t~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~pili  123 (182)
T d1moza_          44 TTKPTIGFNVETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLV  123 (182)
T ss_dssp             EECSSTTCCEEEEEETTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEE
T ss_pred             ccccccceEEEEEeeCCEEEEEEecccccccchhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEE
Confidence            3568888888888888899999999999999999999999999999999999999999998888776333 245799999


Q ss_pred             EEecCCCCCCcccCHHHHHH-----HHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          82 VGNKNDQTSKKAVDYQVAKE-----YADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~~~~~~-----~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      ++||+|+...  .+..+...     .+...++++++|||++|+|++++|++|++.+.+++
T Consensus       124 v~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~~~~l~~~i~~~~  181 (182)
T d1moza_         124 FANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEEQ  181 (182)
T ss_dssp             EEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             EEEeeccccc--cCHHHHHHHHHHHHHhhCCCEEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            9999999653  22233322     22334568999999999999999999999987754

>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=99.90  E-value=2.5e-24  Score=147.23  Aligned_cols=128  Identities=23%  Similarity=0.339  Sum_probs=106.0

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLL   81 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piiv   81 (168)
                      .+.||++.....++.+.+.+.+||+||++.+...|..++.+++++++|||+++..+|.....|+..+... ...+.|+++
T Consensus        30 ~~~~T~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~l  109 (164)
T d1zd9a1          30 DMIPTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLV  109 (164)
T ss_dssp             SCCCCCSEEEEEEEETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEE
T ss_pred             cccccceeeeeeeeeeeEEEEEeeccccccccccccccccccchhhcccccccccccchhhhhhhhhhhhhcccCCcEEE
Confidence            4679999988888888899999999999999999999999999999999999999999999888877443 256799999


Q ss_pred             EEecCCCCCCcccCHHHHHH-----HHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          82 VGNKNDQTSKKAVDYQVAKE-----YADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~~~~~~-----~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ++||+|+.+...  ..+..+     .+...+++++++||++|.|++++|+||++.+
T Consensus       110 v~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~~~~l~~~~  163 (164)
T d1zd9a1         110 LGNKRDLPGALD--EKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHS  163 (164)
T ss_dssp             EEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTC
T ss_pred             EEeccccchhhh--HHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHHHHHHHHcc
Confidence            999999975432  222222     1223456899999999999999999998753

>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=99.88  E-value=4.4e-23  Score=142.24  Aligned_cols=126  Identities=22%  Similarity=0.277  Sum_probs=101.8

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      +.|+.+.....++.+++.+.+||++|++++...|..+++.+|++|+|||+++..++..+..|+..+... ...+.|++++
T Consensus        44 ~~~~~~~~~~~i~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv  123 (176)
T d1fzqa_          44 ITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIF  123 (176)
T ss_dssp             EEEETTEEEEEEEETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEE
T ss_pred             ceeeeeeeEEEeccCCeeEeEeeccccccchhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEE
Confidence            456677777777777789999999999999999999999999999999999999999998888776443 2457899999


Q ss_pred             EecCCCCCCcccCHHHHHH-----HHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKE-----YADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~-----~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +||+|+.....  .....+     .++..+++++++||++|.|++++|+||+++
T Consensus       124 ~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         124 ANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             EECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             EEecccccccc--HHHHHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHHhc
Confidence            99999976432  222222     223345689999999999999999999875

>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=99.88  E-value=3e-23  Score=142.92  Aligned_cols=127  Identities=20%  Similarity=0.345  Sum_probs=103.3

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-cCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRY-ACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~piivv   82 (168)
                      ..||.+..........+.+.+||+||++.++..+..++++++++|+|||+++.+++..+..|+..+... .....|++++
T Consensus        40 ~~~t~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv  119 (173)
T d1e0sa_          40 TIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIF  119 (173)
T ss_dssp             EEEETTEEEEEEEETTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEE
T ss_pred             ccceeeeeEEEeeccceeeEEecCCCcchhhhHHHhhhcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeee
Confidence            457778888788778899999999999999999999999999999999999999999998888776443 2457999999


Q ss_pred             EecCCCCCCcccCHHHHHH-----HHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKE-----YADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~-----~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      +||+|+.....  ..+...     .+...++.+++|||++|+|++++|+||...+
T Consensus       120 ~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         120 ANKQDLPDAMK--PHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             EECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             eeccccccccc--HHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHhc
Confidence            99999975322  222222     2233456799999999999999999998764

>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=99.80  E-value=4e-20  Score=124.71  Aligned_cols=128  Identities=19%  Similarity=0.316  Sum_probs=100.4

Q ss_pred             ccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEE
Q psy2646           5 LPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVG   83 (168)
Q Consensus         5 ~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~   83 (168)
                      .++........+...+.+.+||++|...+...+..+++.++++++++|.+++.++..+..|+..+.... ....|+++++
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~  108 (160)
T d1r8sa_          29 IPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFA  108 (160)
T ss_dssp             CCCSSCCEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEE
T ss_pred             ccceeeEEEEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEe
Confidence            344455566677888999999999999998899999999999999999999999999988887774432 4578999999


Q ss_pred             ecCCCCCCcccC---HHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          84 NKNDQTSKKAVD---YQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        84 nK~Dl~~~~~v~---~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ||.|+.......   ......+++..+++++++||++|+|++++|++|++++
T Consensus       109 ~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~l~~~l  160 (160)
T d1r8sa_         109 NKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL  160 (160)
T ss_dssp             ECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             ecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHHHHhcC
Confidence            999987532211   1111123334467899999999999999999998763

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.76  E-value=1e-18  Score=121.42  Aligned_cols=132  Identities=19%  Similarity=0.159  Sum_probs=98.4

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHH-----------HHHHHHHHHHHh
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFN-----------NLKQWLEEIDRY   72 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~-----------~~~~~~~~i~~~   72 (168)
                      ..||.+..+..++...+.+++|||+|+++|..+|..|++.++++++++|.++.+++.           ....|...+...
T Consensus        26 ~~~t~~~~~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~  105 (195)
T d1svsa1          26 HEAGTGIVETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNK  105 (195)
T ss_dssp             HSCCCSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCG
T ss_pred             CCCCccEEEEEEEeeeeeeeeeccccccccccchhhcccCCceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhccc
Confidence            368899999999999999999999999999999999999999999999999876552           223344444333


Q ss_pred             cCCCCcEEEEEecCCCCCCc---------------ccCHHHHH-----HHHHh------cCCCEEEEeccCCCCHHHHHH
Q psy2646          73 ACDNVNKLLVGNKNDQTSKK---------------AVDYQVAK-----EYADH------LKIPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        73 ~~~~~piivv~nK~Dl~~~~---------------~v~~~~~~-----~~~~~------~~~~~~~vSa~~~~~i~~i~~  126 (168)
                      .....|+++++||+|+...+               .....+..     .+.+.      ..+.++++||+++.||+++|+
T Consensus       106 ~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~  185 (195)
T d1svsa1         106 WFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFD  185 (195)
T ss_dssp             GGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHH
T ss_pred             ccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHHHHHHHHHhcccCCCcceeEEEEeECCHhHHHHHH
Confidence            35678999999999862110               11112211     12221      135678999999999999999


Q ss_pred             HHHHHHHHH
Q psy2646         127 TMATEIKKR  135 (168)
Q Consensus       127 ~l~~~~~~~  135 (168)
                      .+.+.+.++
T Consensus       186 ~v~~~il~~  194 (195)
T d1svsa1         186 AVTDVIIKN  194 (195)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            999888764

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.76  E-value=2.8e-19  Score=124.74  Aligned_cols=133  Identities=17%  Similarity=0.121  Sum_probs=102.7

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChh-----------hHHHHHHHHHHHHHh
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE-----------TFNNLKQWLEEIDRY   72 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-----------s~~~~~~~~~~i~~~   72 (168)
                      +.||+|.....++...+.+++||++|++.+...|..++.++++++++||.++..           .++....|...+...
T Consensus        29 ~~pTiG~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~  108 (200)
T d2bcjq2          29 GVPTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYP  108 (200)
T ss_dssp             CCCCCSCEEEEEECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCG
T ss_pred             CCceeeEEEEEEeccceeeeeccccccccccccccccccccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhh
Confidence            679999999999999999999999999999999999999999999999998753           344555666666554


Q ss_pred             cCCCCcEEEEEecCCCCCCc----------------ccCHHHHHHHHH----------hcCCCEEEEeccCCCCHHHHHH
Q psy2646          73 ACDNVNKLLVGNKNDQTSKK----------------AVDYQVAKEYAD----------HLKIPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        73 ~~~~~piivv~nK~Dl~~~~----------------~v~~~~~~~~~~----------~~~~~~~~vSa~~~~~i~~i~~  126 (168)
                      ...+.|+++++||.|+...+                .........+..          ...+.++++||++|.|++++|+
T Consensus       109 ~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~  188 (200)
T d2bcjq2         109 WFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFA  188 (200)
T ss_dssp             GGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHHHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHH
T ss_pred             hccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHHHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHH
Confidence            45689999999999973211                111222222221          1124578999999999999999


Q ss_pred             HHHHHHHHHh
Q psy2646         127 TMATEIKKRV  136 (168)
Q Consensus       127 ~l~~~~~~~~  136 (168)
                      .+.+.+.++.
T Consensus       189 ~i~~~I~~~n  198 (200)
T d2bcjq2         189 AVKDTILQLN  198 (200)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9998887653

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.73  E-value=6.5e-18  Score=115.78  Aligned_cols=126  Identities=21%  Similarity=0.273  Sum_probs=93.4

Q ss_pred             ccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEEEE
Q psy2646           5 LPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLLVG   83 (168)
Q Consensus         5 ~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~   83 (168)
                      .++.+.....+....+.+.+||++|.+.+...+..++..++++++++|.++..++.....+........ ....|+++|+
T Consensus        44 ~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~  123 (177)
T d1zj6a1          44 SPTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFA  123 (177)
T ss_dssp             ECCSCSSCEEEEETTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEE
T ss_pred             ccccceeEEEEeecceEEEEeccccccccccchhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEE
Confidence            344555555555566889999999999999999999999999999999999999888776665553322 4579999999


Q ss_pred             ecCCCCCCcccCHHHHHHHH-----HhcCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          84 NKNDQTSKKAVDYQVAKEYA-----DHLKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ||+|+......  .+.....     ...+++++++||++|+|++++|++|.+++
T Consensus       124 nK~Dl~~~~~~--~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         124 NKQDVKECMTV--AEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL  175 (177)
T ss_dssp             ECTTSTTCCCH--HHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             EcccccccCcH--HHHHHHHHHHhhHhcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            99998754332  2222222     23356899999999999999999999875

>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=99.71  E-value=2.9e-17  Score=114.59  Aligned_cols=135  Identities=16%  Similarity=0.127  Sum_probs=95.4

Q ss_pred             cccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHHH
Q psy2646           2 RLLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ----------ETFNNLKQWLEEIDR   71 (168)
Q Consensus         2 ~~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i~~   71 (168)
                      +.+.||+|.....++.+.+.+++||++|++.+...|..+++++++++++||.++.          ..++....++..+..
T Consensus        26 ~~~~pTiG~~~~~~~~~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  105 (200)
T d1zcba2          26 HGQDPTKGIHEYDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVN  105 (200)
T ss_dssp             HSCCCCSSEEEEEEEETTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHT
T ss_pred             CCCCCeeeeEEEEEeeeeeeeeeecccceeeecccccccccccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhh
Confidence            4578999999999999999999999999999999999999999999999999875          234555556665533


Q ss_pred             h-cCCCCcEEEEEecCCCCCCc----------------ccCHHHHHHHHHh-----------cCCCEEEEeccCCCCHHH
Q psy2646          72 Y-ACDNVNKLLVGNKNDQTSKK----------------AVDYQVAKEYADH-----------LKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        72 ~-~~~~~piivv~nK~Dl~~~~----------------~v~~~~~~~~~~~-----------~~~~~~~vSa~~~~~i~~  123 (168)
                      . ...+.|+++++||+|+.+.+                .-..+.+.++...           ..+.++++||+++.||++
T Consensus       106 ~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~  185 (200)
T d1zcba2         106 NRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRL  185 (200)
T ss_dssp             CGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHH
T ss_pred             ChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHHHHHHHHhccCCCCCceEEEEeeeeCcHHHHH
Confidence            2 24589999999999973210                0112223332211           124567899999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2646         124 AFLTMATEIKKRV  136 (168)
Q Consensus       124 i~~~l~~~~~~~~  136 (168)
                      +|+.+.+.+.++.
T Consensus       186 vf~~v~d~i~~~~  198 (200)
T d1zcba2         186 VFRDVKDTILHDN  198 (200)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999998887653

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.70  E-value=4.1e-17  Score=110.38  Aligned_cols=132  Identities=18%  Similarity=0.250  Sum_probs=102.8

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHH-hcCCCCcEEEE
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLLV   82 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~piivv   82 (168)
                      +.||.+........+.+.+.+||.+|.+.+...+..++..++++++++|+.+..++.....+...... ......|++++
T Consensus        33 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv  112 (169)
T d1upta_          33 TIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVF  112 (169)
T ss_dssp             CCCCSSEEEEEEEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEE
T ss_pred             eecccceeeeeeccCceEEEEeeccccccccccchhhhhhhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEE
Confidence            56788877777777788999999999999999999999999999999999988777777665555432 33457899999


Q ss_pred             EecCCCCCCccc---CHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAV---DYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        83 ~nK~Dl~~~~~v---~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      +||.|+......   .......++...+++++++||++|.|++++|++|++.+.++
T Consensus       113 ~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~~~l~~~l~~k  168 (169)
T d1upta_         113 ANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR  168 (169)
T ss_dssp             EECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             EeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            999999764321   11111223344567999999999999999999999887543

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.69  E-value=3.1e-16  Score=105.37  Aligned_cols=126  Identities=18%  Similarity=0.241  Sum_probs=101.8

Q ss_pred             ccccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcEEE
Q psy2646           3 LLLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNKLL   81 (168)
Q Consensus         3 ~~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piiv   81 (168)
                      .+.||.+.....+......+.+||++|...+...+..++..++++++++|.++..++.....|........ ..+.|+++
T Consensus        27 ~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i  106 (166)
T d2qtvb1          27 TLQPTWHPTSEELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVI  106 (166)
T ss_dssp             CCCCCCSCEEEEECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEE
T ss_pred             eeeceeeEeEEEeccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccccchhhhhhhhHHHHhhhhhhccCCceEEE
Confidence            36789999999998888899999999999999999999999999999999999988888877777664433 45789999


Q ss_pred             EEecCCCCCCcccCHHHHHHHH------------HhcCCCEEEEeccCCCCHHHHHHHHHH
Q psy2646          82 VGNKNDQTSKKAVDYQVAKEYA------------DHLKIPFLETSAKNGANVEQAFLTMAT  130 (168)
Q Consensus        82 v~nK~Dl~~~~~v~~~~~~~~~------------~~~~~~~~~vSa~~~~~i~~i~~~l~~  130 (168)
                      ++||.|+...  ....+.....            ...++++++|||++|+|++++|+||.+
T Consensus       107 ~~~k~d~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gv~e~~~~l~~  165 (166)
T d2qtvb1         107 LGNKIDAPNA--VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ  165 (166)
T ss_dssp             EEECTTSSSC--CCHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTBSHHHHHHHHTT
T ss_pred             Eecccccccc--CCHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCCCHHHHHHHHhC
Confidence            9999998653  2323332221            122357999999999999999999864

>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=99.64  E-value=2.2e-16  Score=108.46  Aligned_cols=113  Identities=20%  Similarity=0.162  Sum_probs=78.2

Q ss_pred             eCCeEEEEEEEeCCCchhhccc--------chhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          15 EERTRTLIVIWDTAGQERFRTI--------TSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        15 ~~~~~~~l~l~Dt~G~~~~~~~--------~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      ....+..+.+|||||.......        ...+++++|++|+|+|++++....+ ..|...+... ..+.|+++|+||+
T Consensus        48 ~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~-~~i~~~l~~~-~~~~piilv~NK~  125 (178)
T d1wf3a1          48 LTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPED-ELVARALKPL-VGKVPILLVGNKL  125 (178)
T ss_dssp             EEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHH-HHHHHHHGGG-TTTSCEEEEEECG
T ss_pred             eeeeeeeeeecccccccccccccchhcccccccccccccceeeeechhhhhcccc-cchhhheecc-ccchhhhhhhccc
Confidence            3344468999999997543222        2345788999999999987644332 3344444333 4468999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      |+....   .+....+.+.++ ..++++||++|.|++++++++.+.+
T Consensus       126 Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~~~gi~~L~~~i~~~l  169 (178)
T d1wf3a1         126 DAAKYP---EEAMKAYHELLPEAEPRMLSALDERQVAELKADLLALM  169 (178)
T ss_dssp             GGCSSH---HHHHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHHTTC
T ss_pred             ccccCH---HHHHHHHHhhcccCceEEEecCCCCCHHHHHHHHHHhC
Confidence            986532   123334444444 5789999999999999999998654

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.63  E-value=2.2e-16  Score=112.29  Aligned_cols=134  Identities=16%  Similarity=0.109  Sum_probs=97.9

Q ss_pred             cccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHHHh-
Q psy2646           4 LLPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQ----------ETFNNLKQWLEEIDRY-   72 (168)
Q Consensus         4 ~~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i~~~-   72 (168)
                      +.||+|.....++.+.+.+++||++|++.++..|..++.+++++++++|.++.          ..+.+...++..+... 
T Consensus        31 ~~pTiG~~~~~~~~~~~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~  110 (221)
T d1azta2          31 VVLTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNR  110 (221)
T ss_dssp             CCCCCSCEEEEEEETTEEEEEEECCCSTTTTTGGGGGCTTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCG
T ss_pred             cCCCCCeEEEEEEECcEEEEEEecCccceeccchhhhcccccceEEEEEccccccccccccchHHHHHHHHHHHHHhcCh
Confidence            57999999888888889999999999999999999999999999999999864          2334444444444332 


Q ss_pred             cCCCCcEEEEEecCCCCCCcc----c--------------------------CHHHHHHH-----HHh--------cCCC
Q psy2646          73 ACDNVNKLLVGNKNDQTSKKA----V--------------------------DYQVAKEY-----ADH--------LKIP  109 (168)
Q Consensus        73 ~~~~~piivv~nK~Dl~~~~~----v--------------------------~~~~~~~~-----~~~--------~~~~  109 (168)
                      ...+.|++|++||+|+.+.+.    .                          ....+..+     ...        ..+.
T Consensus       111 ~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y  190 (221)
T d1azta2         111 WLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCY  190 (221)
T ss_dssp             GGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCCCTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEE
T ss_pred             hhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccccCCCchhHHHHHHHHHHHHHHHhccCCCCCCcee
Confidence            245799999999999843211    0                          01122222     111        1134


Q ss_pred             EEEEeccCCCCHHHHHHHHHHHHHHHhc
Q psy2646         110 FLETSAKNGANVEQAFLTMATEIKKRVT  137 (168)
Q Consensus       110 ~~~vSa~~~~~i~~i~~~l~~~~~~~~~  137 (168)
                      .+++||.++.+++.+|..+.+.+.++.-
T Consensus       191 ~h~T~A~Dt~ni~~vf~~v~d~I~~~~l  218 (221)
T d1azta2         191 PHFTCAVDTENIRRVFNDCRDIIQRMHL  218 (221)
T ss_dssp             EEECCTTCHHHHHHHHHTTHHHHHHHHH
T ss_pred             eeecceeccHHHHHHHHHHHHHHHHHHh
Confidence            5789999999999999999888886643

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.59  E-value=9.4e-15  Score=99.96  Aligned_cols=126  Identities=21%  Similarity=0.282  Sum_probs=90.9

Q ss_pred             ccccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHH-hcCCCCcEEEEE
Q psy2646           5 LPYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDR-YACDNVNKLLVG   83 (168)
Q Consensus         5 ~~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~piivv~   83 (168)
                      .||.+.....+......+.+||+.++..+...+..+++..+++++++|.++...+.....++..... ....+.|+++++
T Consensus        42 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~  121 (186)
T d1f6ba_          42 VPTLHPTSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILG  121 (186)
T ss_dssp             -CCCCCSCEEEEETTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEE
T ss_pred             ecccccceeEEEecccccccccccchhhhhhHHhhhhcccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEE
Confidence            4565555555554456788999999999999999999999999999999999888877665555433 225679999999


Q ss_pred             ecCCCCCCcccCHHHHHHHHHh-----------------cCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          84 NKNDQTSKKAVDYQVAKEYADH-----------------LKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~~~-----------------~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      ||.|+...  +...+.......                 .++++++|||++|+|++++|+||.+++
T Consensus       122 ~K~D~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         122 NKIDRPEA--ISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             ECTTSTTC--CCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             eccCcccc--CCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEEEEEeCCCCCCHHHHHHHHHHhh
Confidence            99998653  333443333321                 124689999999999999999998653

>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=99.56  E-value=2.2e-14  Score=98.39  Aligned_cols=115  Identities=17%  Similarity=0.148  Sum_probs=78.3

Q ss_pred             CeEEEEEEEeCCCchhh----cccc---hhhhcCCcEEEEEEeCCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEecCC
Q psy2646          17 RTRTLIVIWDTAGQERF----RTIT---SSYYRGAHGIIVVYDCTDQ--ETFNNLKQWLEEIDRYACDNVNKLLVGNKND   87 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~----~~~~---~~~~~~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~piivv~nK~D   87 (168)
                      .....+++|||||..+.    ..+.   ...+..++++++++|....  ..+.....|+...... ..+.|+++|+||+|
T Consensus        46 ~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~-~~~~p~iiv~NK~D  124 (180)
T d1udxa2          46 SEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPA-LLRRPSLVALNKVD  124 (180)
T ss_dssp             SSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHH-HHHSCEEEEEECCT
T ss_pred             cCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhhhcccccccccchhhhhhhhhccccc-cchhhhhhhhhhhh
Confidence            34457899999995431    1121   2346789999999998753  2344444444433111 12579999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                      +...+.+  ....+.....+.+++++||++|.|++++++.+...+..
T Consensus       125 ~~~~~~~--~~~~~~~~~~~~~~~~iSA~tg~gid~L~~~i~~~l~~  169 (180)
T d1udxa2         125 LLEEEAV--KALADALAREGLAVLPVSALTGAGLPALKEALHALVRS  169 (180)
T ss_dssp             TSCHHHH--HHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hhhHHHH--HHHHHHHHhcCCeEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            9764332  33444555668899999999999999999999877654

>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=99.55  E-value=7.9e-16  Score=103.75  Aligned_cols=112  Identities=19%  Similarity=0.177  Sum_probs=82.1

Q ss_pred             eeeeCCeEEEEEEEeCCCchhhcc--------cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEE
Q psy2646          12 NKKEERTRTLIVIWDTAGQERFRT--------ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVG   83 (168)
Q Consensus        12 ~~~~~~~~~~l~l~Dt~G~~~~~~--------~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~   83 (168)
                      ...+...+..+.+||++|..+...        ....++..+|++++++|..+..++.....|...+... ..+.|+++|+
T Consensus        41 ~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~-~~~~~iilv~  119 (161)
T d2gj8a1          41 REHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARL-PAKLPITVVR  119 (161)
T ss_dssp             EEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHS-CTTCCEEEEE
T ss_pred             eeeeeccCceeeeccccccccccccchhHHHHHHHHHHHhccccceeeccccccchhhhhhhhhhhhhc-ccccceeecc
Confidence            334444556788999999654322        1234578999999999999887777666666655444 4578999999


Q ss_pred             ecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          84 NKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        84 nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      ||+|+......       +.+..+.+++++||++|.|+++++++|.+.
T Consensus       120 NK~Dl~~~~~~-------~~~~~~~~~~~iSAk~~~gi~~L~~~l~~~  160 (161)
T d2gj8a1         120 NKADITGETLG-------MSEVNGHALIRLSARTGEGVDVLRNHLKQS  160 (161)
T ss_dssp             ECHHHHCCCCE-------EEEETTEEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             chhhhhhhHHH-------HHHhCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            99998653221       122335789999999999999999999875

>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=99.52  E-value=3.3e-14  Score=96.72  Aligned_cols=124  Identities=17%  Similarity=0.160  Sum_probs=82.3

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhh---------cccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERF---------RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNV   77 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~---------~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   77 (168)
                      |.......++.....+.+||++|....         ......++..+|++++++|.+....... ..++..+...   +.
T Consensus        35 t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i~~~~~~~~~~~~~~-~~~~~~l~~~---~~  110 (171)
T d1mkya1          35 TRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKED-ESLADFLRKS---TV  110 (171)
T ss_dssp             --CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHH-HHHHHHHHHH---TC
T ss_pred             eeccccccccccccccccccccceeeeeccccccccccccccccccCcEEEEeecccccccccc-cccccccccc---cc
Confidence            344445556666678999999995322         1223445678999999999886543332 3444445444   68


Q ss_pred             cEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHh
Q psy2646          78 NKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATEIKKRV  136 (168)
Q Consensus        78 piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~  136 (168)
                      |+++|+||+|+..+  ...+...++.+....+++++||++|.|+++++++|.+.+.++.
T Consensus       111 pviiv~NK~Dl~~~--~~~~~~~~~~~~~~~~~i~iSAk~g~gid~L~~~i~~~l~e~~  167 (171)
T d1mkya1         111 DTILVANKAENLRE--FEREVKPELYSLGFGEPIPVSAEHNINLDTMLETIIKKLEEKG  167 (171)
T ss_dssp             CEEEEEESCCSHHH--HHHHTHHHHGGGSSCSCEECBTTTTBSHHHHHHHHHHHHHHTT
T ss_pred             cccccchhhhhhhh--hhhHHHHHHHhcCCCCeEEEecCCCCCHHHHHHHHHHhCCCCC
Confidence            99999999998542  1112222333333357899999999999999999999876654

>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=99.51  E-value=3.7e-14  Score=97.39  Aligned_cols=114  Identities=16%  Similarity=0.195  Sum_probs=81.4

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCH
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDY   96 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~   96 (168)
                      ..+..+.++|++|+..|.......+..+|++++++|+++...... ...+..+...   +.|+++|+||+|+.+......
T Consensus        56 ~~~~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~~g~~~~~-~~~~~~~~~~---~~p~iiv~NKiD~~~~~~~~~  131 (179)
T d1wb1a4          56 LENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQT-GEHMLILDHF---NIPIIVVITKSDNAGTEEIKR  131 (179)
T ss_dssp             ETTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHH-HHHHHHHHHT---TCCBCEEEECTTSSCHHHHHH
T ss_pred             cCCccccccccccccccccchhhhhhhccccccccccccccchhh-hhhhhhhhhc---CCcceeccccccccCHHHHHH
Confidence            344678899999999888877888999999999999997543322 2222333333   689999999999876432211


Q ss_pred             --HHHHHHHHh----cCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q psy2646          97 --QVAKEYADH----LKIPFLETSAKNGANVEQAFLTMATEIKK  134 (168)
Q Consensus        97 --~~~~~~~~~----~~~~~~~vSa~~~~~i~~i~~~l~~~~~~  134 (168)
                        .....+.+.    .+.+++++||++|.|++++++.+...+..
T Consensus       132 ~~~~~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         132 TEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLNN  175 (179)
T ss_dssp             HHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCCCCeEEEEEccCCcCHHHHHHHHHhcCCc
Confidence              111222222    13689999999999999999999887654

>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=99.48  E-value=6e-14  Score=99.87  Aligned_cols=120  Identities=16%  Similarity=0.150  Sum_probs=81.7

Q ss_pred             eeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcc
Q psy2646          14 KEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKA   93 (168)
Q Consensus        14 ~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~   93 (168)
                      .++.+..++.|+||||++.|.......+..+|++|+|+|+.+.-.... ...+..+...   +.|+|+++||+|+.....
T Consensus        64 ~~~~~~~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~~---~~p~iivlNK~D~~~~~~  139 (227)
T d1g7sa4          64 SIRETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQT-QEALNILRMY---RTPFVVAANKIDRIHGWR  139 (227)
T ss_dssp             GGGGTCCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHH-HHHHHHHHHT---TCCEEEEEECGGGSTTCC
T ss_pred             eecccccccccccccceecccccchhcccccceEEEEEecccCcccch-hHHHHHhhcC---CCeEEEEEECccCCCchh
Confidence            344555678999999999988877788899999999999987533222 2333334333   689999999999864321


Q ss_pred             cCH--------------------HHHH----HHHHh--------------cCCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          94 VDY--------------------QVAK----EYADH--------------LKIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        94 v~~--------------------~~~~----~~~~~--------------~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      ...                    ....    .+...              ...+++++||.+|.|++++++.+...+.+.
T Consensus       140 ~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~  219 (227)
T d1g7sa4         140 VHEGRPFMETFSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQY  219 (227)
T ss_dssp             CCTTCCHHHHHTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence            110                    0000    11110              014689999999999999999988776554


Q ss_pred             hc
Q psy2646         136 VT  137 (168)
Q Consensus       136 ~~  137 (168)
                      ..
T Consensus       220 ~~  221 (227)
T d1g7sa4         220 LR  221 (227)
T ss_dssp             CS
T ss_pred             HH
Confidence            43

>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=99.45  E-value=1.9e-13  Score=95.01  Aligned_cols=113  Identities=19%  Similarity=0.220  Sum_probs=78.4

Q ss_pred             CeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC-
Q psy2646          17 RTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD-   95 (168)
Q Consensus        17 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~-   95 (168)
                      .....+.++||||+..|.......+..+|++++++|+.+.-....+.+.+..+....  ..+++++.||+|+.+..... 
T Consensus        75 ~~~~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~--~~~iiv~inK~D~~d~~~~~~  152 (195)
T d1kk1a3          75 EFVRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG--QKNIIIAQNKIELVDKEKALE  152 (195)
T ss_dssp             EEEEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHH
T ss_pred             cCceeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc--CccceeeeecccchhhHHHHH
Confidence            345678999999999998877777889999999999987532223333333333331  34688899999987542211 


Q ss_pred             -HHHHHHHHHhc---CCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          96 -YQVAKEYADHL---KIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        96 -~~~~~~~~~~~---~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                       ......+....   +++++++||++|.|++++++.+.+.
T Consensus       153 ~~~~~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~  192 (195)
T d1kk1a3         153 NYRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDF  192 (195)
T ss_dssp             HHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence             12223333333   3689999999999999998887664

>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=99.44  E-value=5.7e-13  Score=89.25  Aligned_cols=111  Identities=23%  Similarity=0.142  Sum_probs=73.6

Q ss_pred             eeeeCCeEEEEEEEeCCCchhhcc------c---chhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEE
Q psy2646          12 NKKEERTRTLIVIWDTAGQERFRT------I---TSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLV   82 (168)
Q Consensus        12 ~~~~~~~~~~l~l~Dt~G~~~~~~------~---~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv   82 (168)
                      ...++..+..+.+|||||......      .   ....+..+|++++|+|++++........+ ..+     ...+++++
T Consensus        40 ~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~ii~v~d~~~~~~~~~~~~~-~~~-----~~~~~i~~  113 (160)
T d1xzpa2          40 SEEIVIRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKIL-ERI-----KNKRYLVV  113 (160)
T ss_dssp             CEEEEETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHHHH-HHH-----TTSSEEEE
T ss_pred             eEEEEeCCeeEEeccccccccCCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCcchhhhhhh-hhc-----ccccceee
Confidence            333444557889999999532110      1   12236789999999999987654433221 111     35789999


Q ss_pred             EecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          83 GNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        83 ~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      +||.|+.+..  ..++..... ..+.+++++||++|.|++++++++.++
T Consensus       114 ~~k~d~~~~~--~~~~~~~~~-~~~~~~~~vSA~~g~gi~~L~~~I~ke  159 (160)
T d1xzpa2         114 INKVDVVEKI--NEEEIKNKL-GTDRHMVKISALKGEGLEKLEESIYRE  159 (160)
T ss_dssp             EEECSSCCCC--CHHHHHHHH-TCSTTEEEEEGGGTCCHHHHHHHHHHH
T ss_pred             eeeccccchh--hhHHHHHHh-CCCCcEEEEECCCCCCHHHHHHHHHhc
Confidence            9999987643  223322221 235789999999999999999998753

>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=9.7e-13  Score=90.02  Aligned_cols=108  Identities=18%  Similarity=0.171  Sum_probs=69.0

Q ss_pred             EEEEeCCCchh---------------hcccchhhhcCCcEEEEEEeCCChhhHHHH----------HHHHHHHHHhcCCC
Q psy2646          22 IVIWDTAGQER---------------FRTITSSYYRGAHGIIVVYDCTDQETFNNL----------KQWLEEIDRYACDN   76 (168)
Q Consensus        22 l~l~Dt~G~~~---------------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~----------~~~~~~i~~~~~~~   76 (168)
                      +++|||||...               +.......++.+|++++|+|..........          ..++..+..   .+
T Consensus        45 ~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~---~~  121 (184)
T d2cxxa1          45 HKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE---LD  121 (184)
T ss_dssp             EEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH---TT
T ss_pred             ceecccCCceeccccccccccccchhhhhhhhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH---cC
Confidence            67899999521               111223456789999999999764322211          112222322   36


Q ss_pred             CcEEEEEecCCCCCCcccCHHHHHHHHHhc-------CCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          77 VNKLLVGNKNDQTSKKAVDYQVAKEYADHL-------KIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        77 ~piivv~nK~Dl~~~~~v~~~~~~~~~~~~-------~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      .|+++|+||+|+.+....   ....+....       ...++++||++|.|++++++++.+.+.++
T Consensus       122 ~p~iiv~NK~D~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e~  184 (184)
T d2cxxa1         122 IPTIVAVNKLDKIKNVQE---VINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRER  184 (184)
T ss_dssp             CCEEEEEECGGGCSCHHH---HHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             CCEEEEEeeeehhhhHHH---HHHHHHHHhcccccccCCeEEEEECCCCCCHHHHHHHHHHHccCC
Confidence            899999999997653221   111122221       13588999999999999999999887653

>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=99.39  E-value=9.9e-13  Score=92.02  Aligned_cols=111  Identities=18%  Similarity=0.176  Sum_probs=75.6

Q ss_pred             EEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCH--
Q psy2646          19 RTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDY--   96 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~--   96 (168)
                      ...+.+.|+||+..|....-..+..+|++|+|+|+.+.-.-......+..+...  .-.|+||+.||+|+........  
T Consensus        85 ~r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~--~i~~iIV~vNK~Dl~~~~~~~~~~  162 (205)
T d2qn6a3          85 LRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII--GVKNLIIVQNKVDVVSKEEALSQY  162 (205)
T ss_dssp             EEEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT--TCCCEEEEEECGGGSCHHHHHHHH
T ss_pred             eEEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc--CCceeeeccccCCCccchHHHHHH
Confidence            347899999999998776677788999999999998752112223233333332  1358899999999976432211  


Q ss_pred             HHHHHHHHhc---CCCEEEEeccCCCCHHHHHHHHHHH
Q psy2646          97 QVAKEYADHL---KIPFLETSAKNGANVEQAFLTMATE  131 (168)
Q Consensus        97 ~~~~~~~~~~---~~~~~~vSa~~~~~i~~i~~~l~~~  131 (168)
                      .....+....   +++++++||++|.|++++++.+...
T Consensus       163 ~~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~  200 (205)
T d2qn6a3         163 RQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEY  200 (205)
T ss_dssp             HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             HHHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhh
Confidence            1122222222   3789999999999999998887654

>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=99.36  E-value=6.3e-13  Score=92.48  Aligned_cols=121  Identities=13%  Similarity=0.076  Sum_probs=82.7

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......++.....+.+.||||+..|.......+..+|++|+|+|+.+... ....+.+..+...  ...|+||+.||+
T Consensus        53 Ti~~~~~~~~~~~~~~~~iDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~-~QT~~~~~~a~~~--~~~~iIv~iNK~  129 (196)
T d1d2ea3          53 TINAAHVEYSTAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPM-PQTREHLLLARQI--GVEHVVVYVNKA  129 (196)
T ss_dssp             EEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSC-HHHHHHHHHHHHT--TCCCEEEEEECG
T ss_pred             cCCcceEEEEeceeeEEeecCcchHHHHHHHHHHHhhcCeEEEEEEcCCCCc-hhHHHHHHHHHHh--cCCcEEEEEecc
Confidence            4555667777777889999999999988777777899999999999997532 2233333333333  236789999999


Q ss_pred             CCCCCcccC---HHHHHHHHHhcC-----CCEEEEeccCC----------CCHHHHHHHHHH
Q psy2646          87 DQTSKKAVD---YQVAKEYADHLK-----IPFLETSAKNG----------ANVEQAFLTMAT  130 (168)
Q Consensus        87 Dl~~~~~v~---~~~~~~~~~~~~-----~~~~~vSa~~~----------~~i~~i~~~l~~  130 (168)
                      |+.......   ..+...+....+     ++++++||++|          .++.++++++..
T Consensus       130 D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~  191 (196)
T d1d2ea3         130 DAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDT  191 (196)
T ss_dssp             GGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHHHHHHhCCCcccCEEEEEEccccccccCcccccCCHHHHHHHHHh
Confidence            986532211   112333443333     67999999988          477777766644

>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=99.36  E-value=5.3e-12  Score=88.06  Aligned_cols=88  Identities=16%  Similarity=0.217  Sum_probs=63.1

Q ss_pred             ccccceeeeee---CCeEEEEEEEeCCCchhhc-ccchhhhcCCcEEEEEEeCCChhh-HHHHHHHHHHHH-H--hcCCC
Q psy2646           5 LPYQTLQNKKE---ERTRTLIVIWDTAGQERFR-TITSSYYRGAHGIIVVYDCTDQET-FNNLKQWLEEID-R--YACDN   76 (168)
Q Consensus         5 ~~t~~~~~~~~---~~~~~~l~l~Dt~G~~~~~-~~~~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~i~-~--~~~~~   76 (168)
                      .||++.....+   ++..+.+.+||++|++.+. ..+..++..++++++|||+++..+ +.+...++..+. .  .....
T Consensus        29 ~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~  108 (207)
T d2fh5b1          29 QTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNS  108 (207)
T ss_dssp             CCCCSCEEEEEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTC
T ss_pred             cCCeeEEEEEEEEeeeeeeeeeeeeccccccccchhhhhhhhhccccceEEEcccccccHHHHHHHHHHHHHhHHHhhcC
Confidence            45555444333   3566789999999999875 577888999999999999998765 344444544442 2  12346


Q ss_pred             CcEEEEEecCCCCCCc
Q psy2646          77 VNKLLVGNKNDQTSKK   92 (168)
Q Consensus        77 ~piivv~nK~Dl~~~~   92 (168)
                      .|++|++||+|++..+
T Consensus       109 ~pilvv~NK~Dl~~a~  124 (207)
T d2fh5b1         109 PSLLIACNKQDIAMAK  124 (207)
T ss_dssp             CEEEEEEECTTSTTCC
T ss_pred             CcEEEEEECcccCCCC
Confidence            8999999999997643

>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=99.35  E-value=4.9e-12  Score=86.68  Aligned_cols=113  Identities=21%  Similarity=0.198  Sum_probs=74.0

Q ss_pred             EEEEEEEeCCCchhhcc------------cchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          19 RTLIVIWDTAGQERFRT------------ITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~------------~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      +..+.++|+||......            ....+++.+|++++|+|++.... .....++..+...   +.|+++++||+
T Consensus        55 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvii~v~d~~~~~~-~~~~~~~~~~~~~---~~~~i~v~nK~  130 (186)
T d1mkya2          55 GRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGIT-RQDQRMAGLMERR---GRASVVVFNKW  130 (186)
T ss_dssp             TEEEEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTCCC-HHHHHHHHHHHHT---TCEEEEEEECG
T ss_pred             CceeeeeccCCccccccccccccccchhHHHHHHHhcCCEEEEeecccccch-hhHHHHHHHHHHc---CCceeeeccch
Confidence            34678999999754322            22334678999999999986532 2223344444333   68999999999


Q ss_pred             CCCCCcccCHHHHHHHHHh----c-CCCEEEEeccCCCCHHHHHHHHHHHHHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADH----L-KIPFLETSAKNGANVEQAFLTMATEIKKR  135 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~----~-~~~~~~vSa~~~~~i~~i~~~l~~~~~~~  135 (168)
                      |+.........+..+....    . ..+++++||++|.|+++++++|.+.+...
T Consensus       131 D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~gv~~L~~~i~~~~~~~  184 (186)
T d1mkya2         131 DLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYASY  184 (186)
T ss_dssp             GGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             hhhcchhhhhhhHHHHHHHHhcccCCCeEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            9875444333333332221    2 25899999999999999999997766543

>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=99.21  E-value=4.7e-11  Score=84.36  Aligned_cols=112  Identities=15%  Similarity=0.148  Sum_probs=75.2

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCC-cEEEEEec
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNV-NKLLVGNK   85 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-piivv~nK   85 (168)
                      |+......+......+.|.|+||+..|.......+..+|++|+|+|+.....-+. .+.+..+...   ++ .+|++.||
T Consensus        76 ti~~~~~~~~~~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt-~e~~~~~~~~---gv~~iiv~vNK  151 (222)
T d1zunb3          76 TIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQT-RRHSYIASLL---GIKHIVVAINK  151 (222)
T ss_dssp             CCCCEEEEEECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHH-HHHHHHHHHT---TCCEEEEEEEC
T ss_pred             CceeeEEEEeccceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccch-HHHHHHHHHc---CCCEEEEEEEc
Confidence            4444555555566789999999999998777777899999999999987532222 2222222222   44 48999999


Q ss_pred             CCCCCCcccCH----HHHHHHHHhcC-----CCEEEEeccCCCCHH
Q psy2646          86 NDQTSKKAVDY----QVAKEYADHLK-----IPFLETSAKNGANVE  122 (168)
Q Consensus        86 ~Dl~~~~~v~~----~~~~~~~~~~~-----~~~~~vSa~~~~~i~  122 (168)
                      +|+.+......    .+...+.+..+     ++++++||.+|.|+.
T Consensus       152 ~D~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         152 MDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             TTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             cccccccceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCC
Confidence            99976332111    22334454443     478999999999983

>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=99.21  E-value=4.9e-12  Score=86.68  Aligned_cols=110  Identities=15%  Similarity=0.213  Sum_probs=70.1

Q ss_pred             EEEEEEeCCCchhhcc----cchh---hhcCCcEEEEEEeCCChhhHHHHHH---HHHHHHH--hcCCCCcEEEEEecCC
Q psy2646          20 TLIVIWDTAGQERFRT----ITSS---YYRGAHGIIVVYDCTDQETFNNLKQ---WLEEIDR--YACDNVNKLLVGNKND   87 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~----~~~~---~~~~~d~~i~v~d~~~~~s~~~~~~---~~~~i~~--~~~~~~piivv~nK~D   87 (168)
                      ..+++|||||..+...    ++..   .+..++.++++++............   +......  ....+.|+++|+||+|
T Consensus        49 ~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~D  128 (185)
T d1lnza2          49 RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMD  128 (185)
T ss_dssp             CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTT
T ss_pred             cEEEEecCCCcccCchHHHHHHHHHHHHHHHhhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccc
Confidence            3688999999643222    2222   3456899988887765432222111   1111111  1134689999999999


Q ss_pred             CCCCcccCHHHHHHHHHhc--CCCEEEEeccCCCCHHHHHHHHHHHHH
Q psy2646          88 QTSKKAVDYQVAKEYADHL--KIPFLETSAKNGANVEQAFLTMATEIK  133 (168)
Q Consensus        88 l~~~~~v~~~~~~~~~~~~--~~~~~~vSa~~~~~i~~i~~~l~~~~~  133 (168)
                      +....    .....+.+.+  +.+++.+||++|.|++++++++.+.+.
T Consensus       129 l~~~~----~~~~~~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~L~  172 (185)
T d1lnza2         129 MPEAA----ENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLE  172 (185)
T ss_dssp             STTHH----HHHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHT
T ss_pred             hHhHH----HHHHHHHHHhccCCcEEEEECCCCCCHHHHHHHHHHhhh
Confidence            97532    2223344333  578999999999999999999988764

>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=99.19  E-value=1.1e-11  Score=86.59  Aligned_cols=108  Identities=13%  Similarity=0.090  Sum_probs=72.4

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEec
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNK   85 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK   85 (168)
                      |+......+..++..+.|+||||+..|.......+..+|++|+|+|+++....+... .+..+...   +.| ++|++||
T Consensus        54 Ti~~~~~~~~~~~~~i~iiDtPGh~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~-~~~~~~~~---gi~~iiv~iNK  129 (204)
T d2c78a3          54 TINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTRE-HILLARQV---GVPYIVVFMNK  129 (204)
T ss_dssp             CCSCEEEEEECSSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHH-HHHHHHHT---TCCCEEEEEEC
T ss_pred             EEEeeEEEEEeCCeEEEEEeCCCchhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHH-HHHHHHHc---CCCeEEEEEEe
Confidence            555666677777788999999999998887777889999999999998764444333 33333333   555 7788999


Q ss_pred             CCCCCCcccC---HHHHHHHHHhcC-----CCEEEEeccCC
Q psy2646          86 NDQTSKKAVD---YQVAKEYADHLK-----IPFLETSAKNG  118 (168)
Q Consensus        86 ~Dl~~~~~v~---~~~~~~~~~~~~-----~~~~~vSa~~~  118 (168)
                      +|+......-   ..+...+...++     ++++..|+..+
T Consensus       130 ~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~i~~i~~sa~~~  170 (204)
T d2c78a3         130 VDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLA  170 (204)
T ss_dssp             GGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHH
T ss_pred             cccCCCHHHHHHHHHHHHHHHHhcCCCcccceeeeeechhh
Confidence            9986532211   122333333332     57888887643

>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=99.11  E-value=1.1e-10  Score=83.19  Aligned_cols=114  Identities=17%  Similarity=0.177  Sum_probs=77.4

Q ss_pred             cccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHH-------HHHHHHHHHHHhcCCCCc
Q psy2646           6 PYQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFN-------NLKQWLEEIDRYACDNVN   78 (168)
Q Consensus         6 ~t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~-------~~~~~~~~i~~~~~~~~p   78 (168)
                      -|+......+...+.++.|.||||+..|......-+..+|++|+|+|+.... |+       .+...+......   ++|
T Consensus        70 iTi~~~~~~~~~~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~-~e~g~~~~~QT~eh~~~~~~~---gv~  145 (239)
T d1f60a3          70 ITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGE-FEAGISKDGQTREHALLAFTL---GVR  145 (239)
T ss_dssp             CCCSCSCEEEECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHH-HHHHTCTTSHHHHHHHHHHHT---TCC
T ss_pred             eccccceeEeccCCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCc-cccccCchHhHHHHHHHHHHc---CCC
Confidence            3556666777777789999999999999887777889999999999998641 11       122222222222   454


Q ss_pred             -EEEEEecCCCCCCcccCH----HHHHHHHHhcC-----CCEEEEeccCCCCHHH
Q psy2646          79 -KLLVGNKNDQTSKKAVDY----QVAKEYADHLK-----IPFLETSAKNGANVEQ  123 (168)
Q Consensus        79 -iivv~nK~Dl~~~~~v~~----~~~~~~~~~~~-----~~~~~vSa~~~~~i~~  123 (168)
                       +|+++||+|+.+......    .+...+....+     ++++++|+..|.|+.+
T Consensus       146 ~iiv~iNKmD~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         146 QLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             EEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             eEEEEEECCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence             888999999875332211    22333444333     6789999999988644

>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=99.10  E-value=3.3e-10  Score=78.00  Aligned_cols=88  Identities=15%  Similarity=0.163  Sum_probs=60.3

Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHh----cCCCEEEEec
Q psy2646          40 YYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADH----LKIPFLETSA  115 (168)
Q Consensus        40 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~----~~~~~~~vSa  115 (168)
                      .+..+|++++++|++.+..- ....++..+...   +.|+++|+||+|+.+..... +....+.+.    .+.+++++||
T Consensus       102 ~~~~~~~vi~viD~~~~~~~-~~~~~~~~l~~~---~~piivv~NK~D~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~SA  176 (195)
T d1svia_         102 TREELKAVVQIVDLRHAPSN-DDVQMYEFLKYY---GIPVIVIATKADKIPKGKWD-KHAKVVRQTLNIDPEDELILFSS  176 (195)
T ss_dssp             HCTTEEEEEEEEETTSCCCH-HHHHHHHHHHHT---TCCEEEEEECGGGSCGGGHH-HHHHHHHHHHTCCTTSEEEECCT
T ss_pred             cccchhhhhhhhhccccccc-cccccccccccc---cCcceechhhccccCHHHHH-HHHHHHHHHhcccCCCCEEEEeC
Confidence            34567999999999865322 223344444443   68999999999986544332 222222222    3468999999


Q ss_pred             cCCCCHHHHHHHHHHHH
Q psy2646         116 KNGANVEQAFLTMATEI  132 (168)
Q Consensus       116 ~~~~~i~~i~~~l~~~~  132 (168)
                      .+|.|++++++++.+.+
T Consensus       177 ~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         177 ETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TTCTTHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999998775

>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=99.00  E-value=5.4e-10  Score=78.85  Aligned_cols=114  Identities=17%  Similarity=0.192  Sum_probs=71.4

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhh---H---HHHHHHHHHHHHhcCCCCcEE
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQET---F---NNLKQWLEEIDRYACDNVNKL   80 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~i~~~~~~~~pii   80 (168)
                      |+......++.+...+.|.||||+..|.......+.-+|++|+|+|+.+...   +   ..+.+.+......  .-.++|
T Consensus        68 ti~~~~~~~~~~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~--~~~~iI  145 (224)
T d1jnya3          68 TINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM--GLDQLI  145 (224)
T ss_dssp             ------CEEECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT--TCTTCE
T ss_pred             cccceEEEEecCCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHh--CCCceE
Confidence            4444555566667889999999999998888888899999999999997521   1   1122212222222  235689


Q ss_pred             EEEecCCCCCCcccC--HH----HHHHHHHhcC-----CCEEEEeccCCCCHH
Q psy2646          81 LVGNKNDQTSKKAVD--YQ----VAKEYADHLK-----IPFLETSAKNGANVE  122 (168)
Q Consensus        81 vv~nK~Dl~~~~~v~--~~----~~~~~~~~~~-----~~~~~vSa~~~~~i~  122 (168)
                      ++.||+|+.....-.  .+    ....+...++     ++++++||..|.|+.
T Consensus       146 v~iNK~D~~~~~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~  198 (224)
T d1jnya3         146 VAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNIT  198 (224)
T ss_dssp             EEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTT
T ss_pred             EEEEcccCCCccccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCcc
Confidence            999999986432111  11    2223333332     578999999999874

>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=98.98  E-value=1.6e-09  Score=78.26  Aligned_cols=79  Identities=13%  Similarity=0.137  Sum_probs=60.2

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......+..++.++.|+||||+..|..-....++-+|++|+|+|+.+.-.......| ....+.   ++|.++++||+
T Consensus        54 ti~~~~~~~~~~~~~~n~iDtPGh~dF~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~-~~~~~~---~~p~~i~iNk~  129 (267)
T d2dy1a2          54 TVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAW-TVAERL---GLPRMVVVTKL  129 (267)
T ss_dssp             CCSCEEEEEEETTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHH-HHHHHT---TCCEEEEEECG
T ss_pred             eEEeecccccccccceeEEccCchhhhhhhhhhhhcccCceEEEeeccCCccchhHHHH-Hhhhhc---ccccccccccc
Confidence            55555566666667899999999999988778889999999999999976444443333 333333   68999999999


Q ss_pred             CCC
Q psy2646          87 DQT   89 (168)
Q Consensus        87 Dl~   89 (168)
                      |..
T Consensus       130 D~~  132 (267)
T d2dy1a2         130 DKG  132 (267)
T ss_dssp             GGC
T ss_pred             ccc
Confidence            963

>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=98.93  E-value=1.7e-09  Score=77.24  Aligned_cols=114  Identities=17%  Similarity=0.174  Sum_probs=62.9

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChh---hHH---HHHHHHHHHHHhcCCCC-cEEEE
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQE---TFN---NLKQWLEEIDRYACDNV-NKLLV   82 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~---~~~~~~~~i~~~~~~~~-piivv   82 (168)
                      .....+......+.+.||||+..|..........+|++++|+|+....   ++.   .+...+..+...   ++ +++++
T Consensus        92 ~~~~~~~~~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~---~i~~iiv~  168 (245)
T d1r5ba3          92 VGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ---GINHLVVV  168 (245)
T ss_dssp             --CCEEECSSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT---TCSSEEEE
T ss_pred             ccccccccccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHc---CCCeEEEE
Confidence            334444555678999999999999887777888999999999998641   110   222222223222   34 47899


Q ss_pred             EecCCCCCCcc--cCHH----HHHHHHHhc-------CCCEEEEeccCCCCHHHHHH
Q psy2646          83 GNKNDQTSKKA--VDYQ----VAKEYADHL-------KIPFLETSAKNGANVEQAFL  126 (168)
Q Consensus        83 ~nK~Dl~~~~~--v~~~----~~~~~~~~~-------~~~~~~vSa~~~~~i~~i~~  126 (168)
                      .||+|+.....  -...    +...+....       .++++++||++|.|+.++++
T Consensus       169 iNKmD~~~~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         169 INKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             EECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             EEcCCCCccchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            99999864321  1111    122222221       25799999999999976543

>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=98.88  E-value=6e-09  Score=75.44  Aligned_cols=98  Identities=20%  Similarity=0.233  Sum_probs=69.8

Q ss_pred             ccceeeeeeCCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646           7 YQTLQNKKEERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus         7 t~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      |+......+..++.++.|+||||+..|..-....++-+|++|+|+|+.+.-.-....-| ....+   .++|.++++||+
T Consensus        58 si~~~~~~~~~~~~~~n~iDtPG~~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w-~~a~~---~~lP~i~fINKm  133 (276)
T d2bv3a2          58 TITAAVTTCFWKDHRINIIDAPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVW-RQAEK---YKVPRIAFANKM  133 (276)
T ss_dssp             CCCCSEEEEEETTEEEEEECCCSSSSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHH-HHHHT---TTCCEEEEEECT
T ss_pred             ccccceeeeccCCeEEEEecCCchhhhHHHHHHHHHhhhheEEeccccCCcchhHHHHH-HHHHH---cCCCEEEEEecc
Confidence            45556666777778999999999999988888889999999999999986544443433 33333   379999999999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCE
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPF  110 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~  110 (168)
                      |.....-  .....++.+.++...
T Consensus       134 Dr~~ad~--~~~l~ei~~~l~~~~  155 (276)
T d2bv3a2         134 DKTGADL--WLVIRTMQERLGARP  155 (276)
T ss_dssp             TSTTCCH--HHHHHHHHHTTCCCE
T ss_pred             ccccccc--chhHHHHHHHhCCCe
Confidence            9865321  233334555555433

>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=98.87  E-value=5.8e-09  Score=70.34  Aligned_cols=108  Identities=19%  Similarity=0.157  Sum_probs=69.9

Q ss_pred             EEEEEEeCCCchhh---------cccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          20 TLIVIWDTAGQERF---------RTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~---------~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      ..+.+||++|....         ......+...+++++++.|..+...  ....+...+.   ....|.++++||.|+..
T Consensus        53 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~--~~~~~~~~l~---~~~~~~i~v~~k~d~~~  127 (179)
T d1egaa1          53 YQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTP--DDEMVLNKLR---EGKAPVILAVNKVDNVQ  127 (179)
T ss_dssp             EEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTCCCH--HHHHHHHHHH---SSSSCEEEEEESTTTCC
T ss_pred             ceeEeecCCCceecchhhhhhhhhhccccchhhcceeEEEEecCccch--hHHHHHHHhh---hccCceeeeeeeeeccc
Confidence            45677898875321         1122333456788888888776422  2222222232   23578999999999876


Q ss_pred             CcccCHHHHHHHHHhcC-CCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          91 KKAVDYQVAKEYADHLK-IPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~-~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      .+.........+...++ .+++++||++|.|++++++++...+
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l  170 (179)
T d1egaa1         128 EKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHL  170 (179)
T ss_dssp             CHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTC
T ss_pred             hhhhhhhHhhhhhhhcCCCCEEEEeCcCCCCHHHHHHHHHHhC
Confidence            54333344445556565 6899999999999999999987654

>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=98.80  E-value=4.1e-09  Score=72.83  Aligned_cols=83  Identities=17%  Similarity=0.273  Sum_probs=58.8

Q ss_pred             eeeeeeCCeEEEEEEEeCCCchhhcccchhh----hcCCcEEEEEEeCCC-hhhHHHHHHHHHHH----HHhcCCCCcEE
Q psy2646          10 LQNKKEERTRTLIVIWDTAGQERFRTITSSY----YRGAHGIIVVYDCTD-QETFNNLKQWLEEI----DRYACDNVNKL   80 (168)
Q Consensus        10 ~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~----~~~~d~~i~v~d~~~-~~s~~~~~~~~~~i----~~~~~~~~pii   80 (168)
                      .....++.++..+.+||+||++.+...+..+    ...++.+++++|+.+ ..++..+..|+..+    ......+.|++
T Consensus        36 ~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~pii  115 (209)
T d1nrjb_          36 EPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDIL  115 (209)
T ss_dssp             SCEEETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEE
T ss_pred             ceEEEEEeCCeEEEEEecccccchhhHHHHHHHHHhhhccccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeE
Confidence            3445556666788999999998876655444    445689999999774 55666666665443    33335689999


Q ss_pred             EEEecCCCCCCc
Q psy2646          81 LVGNKNDQTSKK   92 (168)
Q Consensus        81 vv~nK~Dl~~~~   92 (168)
                      +++||+|+.+..
T Consensus       116 iv~NK~D~~~~~  127 (209)
T d1nrjb_         116 IACNKSELFTAR  127 (209)
T ss_dssp             EEEECTTSTTCC
T ss_pred             EEEEeecccccC
Confidence            999999997643

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.63  E-value=7.6e-08  Score=67.38  Aligned_cols=86  Identities=19%  Similarity=0.247  Sum_probs=62.0

Q ss_pred             hhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHH--hcCCCEEEEe
Q psy2646          38 SSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYAD--HLKIPFLETS  114 (168)
Q Consensus        38 ~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~--~~~~~~~~vS  114 (168)
                      +..+.+.|.+++|+++.+|+ +...++.|+-.....   ++|.+||.||+||.+....  +....+..  ..+++++.+|
T Consensus         5 RP~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~---~i~pvIvlnK~DL~~~~~~--~~~~~~~~~~~~~~~v~~vS   79 (225)
T d1u0la2           5 KPHVANVDQVILVVTVKMPETSTYIIDKFLVLAEKN---ELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTS   79 (225)
T ss_dssp             TTTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHT---TCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECC
T ss_pred             CCCcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHc---CCCEEEEEeCcccCCHHHH--HHHHHhhcccccceeEEEec
Confidence            34578999999999988764 455666666665444   7899999999999653321  22223333  2347899999


Q ss_pred             ccCCCCHHHHHHHH
Q psy2646         115 AKNGANVEQAFLTM  128 (168)
Q Consensus       115 a~~~~~i~~i~~~l  128 (168)
                      ++++.|++++...+
T Consensus        80 a~~~~g~~~L~~~l   93 (225)
T d1u0la2          80 AKTGMGIEELKEYL   93 (225)
T ss_dssp             TTTCTTHHHHHHHH
T ss_pred             cccchhHhhHHHHh
Confidence            99999998887766

>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=98.62  E-value=3.5e-08  Score=73.40  Aligned_cols=70  Identities=20%  Similarity=0.299  Sum_probs=55.8

Q ss_pred             CCeEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC
Q psy2646          16 ERTRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT   89 (168)
Q Consensus        16 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~   89 (168)
                      +++.+.+.|+||||+..|.......++-+|++|+|+|+.+.-.......|.... .   .+.|+++++||+|..
T Consensus        92 ~~~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~-~---~~~p~i~viNKiDr~  161 (341)
T d1n0ua2          92 DGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL-G---ERIKPVVVINKVDRA  161 (341)
T ss_dssp             CSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH-H---TTCEEEEEEECHHHH
T ss_pred             cccceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHH-H---cCCCeEEEEECcccc
Confidence            456788999999999999888788889999999999999875555444444433 3   368999999999953

>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=98.36  E-value=7.4e-07  Score=62.38  Aligned_cols=111  Identities=15%  Similarity=0.009  Sum_probs=66.3

Q ss_pred             EEEEEEeCCCchhhcccchh---h--hcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCC
Q psy2646          20 TLIVIWDTAGQERFRTITSS---Y--YRGAHGIIVVYDCTD---QETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSK   91 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~---~--~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~   91 (168)
                      ..+.+.|+||+..+......   .  ....+.+++++|+..   +..+.........+...  -..|.++++||+|+...
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~--~~~~~ivvinK~D~~~~  172 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLR--LGATTIPALNKVDLLSE  172 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHH--HTSCEEEEECCGGGCCH
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHH--hCCCceeeeeccccccH
Confidence            35889999999765332211   1  224668899998763   33332222222222111  16899999999998753


Q ss_pred             cccCHHH--------------------------HHHHHHh--cCCCEEEEeccCCCCHHHHHHHHHHHH
Q psy2646          92 KAVDYQV--------------------------AKEYADH--LKIPFLETSAKNGANVEQAFLTMATEI  132 (168)
Q Consensus        92 ~~v~~~~--------------------------~~~~~~~--~~~~~~~vSa~~~~~i~~i~~~l~~~~  132 (168)
                      .......                          ......+  ..++++++||.+|+|+++++..+.++.
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~~  241 (244)
T d1yrba1         173 EEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHY  241 (244)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            2211000                          0000111  247899999999999999999987753

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.33  E-value=1.4e-07  Score=66.20  Aligned_cols=87  Identities=10%  Similarity=0.149  Sum_probs=62.2

Q ss_pred             hhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHH---HHHHhcCCCEEEE
Q psy2646          38 SSYYRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAK---EYADHLKIPFLET  113 (168)
Q Consensus        38 ~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~---~~~~~~~~~~~~v  113 (168)
                      +..+.+.|.+++|+++.+|+ +...++.++-.....   +++.+||.||+||...... .....   ......+++++.+
T Consensus         5 RP~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~~---~i~pvIvlnK~DL~~~~~~-~~~~~~~~~~y~~~g~~v~~~   80 (231)
T d1t9ha2           5 RPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEAN---DIQPIICITKMDLIEDQDT-EDTIQAYAEDYRNIGYDVYLT   80 (231)
T ss_dssp             TTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHTT---TCEEEEEEECGGGCCCHHH-HHHHHHHHHHHHHHTCCEEEC
T ss_pred             CCCccccCEEEEEEECCCCCCCHHHHHHHHHHHHHc---CCCEEEEEecccccccHHH-HHHHHHHHHHHhhccccceee
Confidence            34578999999999998763 566667666665433   7899999999999764321 12222   2334568999999


Q ss_pred             eccCCCCHHHHHHHH
Q psy2646         114 SAKNGANVEQAFLTM  128 (168)
Q Consensus       114 Sa~~~~~i~~i~~~l  128 (168)
                      |+.++.|++++...+
T Consensus        81 Sa~~~~gl~~L~~~l   95 (231)
T d1t9ha2          81 SSKDQDSLADIIPHF   95 (231)
T ss_dssp             CHHHHTTCTTTGGGG
T ss_pred             ecCChhHHHHHHHhh
Confidence            999999988776654

>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=98.28  E-value=1e-06  Score=63.40  Aligned_cols=90  Identities=18%  Similarity=0.186  Sum_probs=62.7

Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEeccC
Q psy2646          38 SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAKN  117 (168)
Q Consensus        38 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~  117 (168)
                      ...++.+|.+|+|+|+.+|.+..+  ..+..+    ..+.|+++|+||+|+.+....  +...++.+..+...+.+|+.+
T Consensus        10 ~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~----~~~Kp~IlVlNK~DLv~~~~~--~~w~~~f~~~~~~~i~isa~~   81 (273)
T d1puja_          10 TEKLKLIDIVYELVDARIPMSSRN--PMIEDI----LKNKPRIMLLNKADKADAAVT--QQWKEHFENQGIRSLSINSVN   81 (273)
T ss_dssp             HHHGGGCSEEEEEEETTSTTTTSC--HHHHHH----CSSSCEEEEEECGGGSCHHHH--HHHHHHHHTTTCCEEECCTTT
T ss_pred             HHHHHhCCEEEEEEECCCCCCCCC--HHHHHH----HcCCCeEEEEECccCCchHHH--HHHHHHHHhcCCccceeeccc
Confidence            446899999999999998755332  122222    136799999999999764322  222233344567899999999


Q ss_pred             CCCHHHHHHHHHHHHHHH
Q psy2646         118 GANVEQAFLTMATEIKKR  135 (168)
Q Consensus       118 ~~~i~~i~~~l~~~~~~~  135 (168)
                      +.+..++...+...+...
T Consensus        82 ~~~~~~~~~~~~~~l~~~   99 (273)
T d1puja_          82 GQGLNQIVPASKEILQEK   99 (273)
T ss_dssp             CTTGGGHHHHHHHHHHHH
T ss_pred             CCCccccchhhhhhhhhh
Confidence            999888887776665543

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=98.01  E-value=3.4e-06  Score=62.08  Aligned_cols=110  Identities=14%  Similarity=0.167  Sum_probs=67.5

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVA   99 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~   99 (168)
                      +.+.|.+|.|.--   .-......+|..++|..+...+..+..   ...+.+     .+=++|+||+|+.+.........
T Consensus       144 ~d~iiiETVG~gq---~e~~~~~~~D~~v~v~~p~~GD~iQ~~---k~gilE-----~aDi~vvNKaD~~~~~~~~~~~~  212 (323)
T d2qm8a1         144 FDVILVETVGVGQ---SETAVADLTDFFLVLMLPGAGDELQGI---KKGIFE-----LADMIAVNKADDGDGERRASAAA  212 (323)
T ss_dssp             CCEEEEEECSSSS---CHHHHHTTSSEEEEEECSCC------C---CTTHHH-----HCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEeehhhhh---hhhhhhcccceEEEEeeccchhhhhhh---hhhHhh-----hhheeeEeccccccchHHHHHHH
Confidence            4677888887421   112345669999999998876543322   111222     34499999999876433322221


Q ss_pred             HHHHH----------hcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccCC
Q psy2646         100 KEYAD----------HLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKDE  140 (168)
Q Consensus       100 ~~~~~----------~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~~  140 (168)
                      ..+..          .+..+++.+||.++.|++++++++.++.........
T Consensus       213 ~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~~~~~G~  263 (323)
T d2qm8a1         213 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSKLTATGE  263 (323)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHHHHHTTH
T ss_pred             HHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHHHHHCCh
Confidence            12211          134689999999999999999999888766554443

>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=97.96  E-value=9.9e-06  Score=53.96  Aligned_cols=85  Identities=16%  Similarity=0.110  Sum_probs=51.1

Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccCH--HHHHHHHHhc--CCCEEEEeccCC
Q psy2646          43 GAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVDY--QVAKEYADHL--KIPFLETSAKNG  118 (168)
Q Consensus        43 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~--~~~~~~~~~~--~~~~~~vSa~~~  118 (168)
                      ..+.++.+.+........ ...++..+...   ..++++++||+|+........  +...+....+  ..+++++||++|
T Consensus        98 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~---~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~~~~i~vSA~~g  173 (188)
T d1puia_          98 SLQGLVVLMDIRHPLKDL-DQQMIEWAVDS---NIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKK  173 (188)
T ss_dssp             TEEEEEEEEETTSCCCHH-HHHHHHHHHHT---TCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEEECBTTTT
T ss_pred             heeEEEEeecccccchhH-HHHHHHHhhhc---cccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCCCcEEEEeCCCC
Confidence            344555555665443222 23344444333   678999999999865322211  1112222222  257899999999


Q ss_pred             CCHHHHHHHHHHH
Q psy2646         119 ANVEQAFLTMATE  131 (168)
Q Consensus       119 ~~i~~i~~~l~~~  131 (168)
                      .|++++++.|.+.
T Consensus       174 ~Gid~L~~~i~~~  186 (188)
T d1puia_         174 QGVDKLRQKLDTW  186 (188)
T ss_dssp             BSHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999988654

>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=97.89  E-value=4.5e-05  Score=57.53  Aligned_cols=107  Identities=13%  Similarity=0.095  Sum_probs=61.2

Q ss_pred             EEEEEeCCCchhhcccc-----hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCC------
Q psy2646          21 LIVIWDTAGQERFRTIT-----SSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQT------   89 (168)
Q Consensus        21 ~l~l~Dt~G~~~~~~~~-----~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~------   89 (168)
                      .+.||||||......-.     ...+..+|.++++.|..-.+..   ..++..+...   +.|+++|.||+|..      
T Consensus       108 ~~~l~DtPG~~~~~~~~~~~~~~~~~~~~d~~l~~~~~~~~~~d---~~l~~~l~~~---~k~~~~V~nK~D~~~~~~~~  181 (400)
T d1tq4a_         108 NVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKND---IDIAKAISMM---KKEFYFVRTKVDSDITNEAD  181 (400)
T ss_dssp             TEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEEEESSCCCHHH---HHHHHHHHHT---TCEEEEEECCHHHHHHHHHT
T ss_pred             eEEEEeCCCcccccccHHHHHHHhhhhcceEEEEecCCCCCHHH---HHHHHHHHHc---CCCEEEEEeCcccccchhhh
Confidence            47799999976433222     2235568888888775432222   2233444433   68999999999952      


Q ss_pred             -CCcccCHHHH----HH----HHHhcC---CCEEEEeccCC--CCHHHHHHHHHHHHH
Q psy2646          90 -SKKAVDYQVA----KE----YADHLK---IPFLETSAKNG--ANVEQAFLTMATEIK  133 (168)
Q Consensus        90 -~~~~v~~~~~----~~----~~~~~~---~~~~~vSa~~~--~~i~~i~~~l~~~~~  133 (168)
                       .......+..    +.    .....+   -++|.+|....  .++.++.+.+.+.+.
T Consensus       182 ~~~~~~~~e~~l~~ir~~~~~~l~~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~  239 (400)
T d1tq4a_         182 GEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLP  239 (400)
T ss_dssp             TCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSC
T ss_pred             cccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEecCCcccccCHHHHHHHHHHHhH
Confidence             1111222211    11    112223   36788887654  478888888776653

>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=97.80  E-value=7e-06  Score=60.45  Aligned_cols=106  Identities=15%  Similarity=0.156  Sum_probs=62.6

Q ss_pred             EEEEEeCCCc--hhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCcccC--H
Q psy2646          21 LIVIWDTAGQ--ERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKKAVD--Y   96 (168)
Q Consensus        21 ~l~l~Dt~G~--~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~--~   96 (168)
                      .+.|.+|.|.  .+     ..+...+|.+++|.++...+.....   ...+.+.     +-++|+||.|+.......  .
T Consensus       148 d~iliEtvG~gq~e-----~~i~~~aD~~l~v~~P~~Gd~iq~~---k~gi~e~-----aDi~VvNKaD~~~~~~~~~~~  214 (327)
T d2p67a1         148 DVVIVETVGVGQSE-----TEVARMVDCFISLQIAGGGDDLQGI---KKGLMEV-----ADLIVINKDDGDNHTNVAIAR  214 (327)
T ss_dssp             SEEEEEEECCTTHH-----HHHHTTCSEEEEEECC------CCC---CHHHHHH-----CSEEEECCCCTTCHHHHHHHH
T ss_pred             CeEEEeeccccccc-----hhhhhccceEEEEecCCCchhhhhh---chhhhcc-----ccEEEEEeecccchHHHHHHH
Confidence            4566666653  22     2366789999999877654433322   2223222     348889999987532221  1


Q ss_pred             HHHHHHH-------HhcCCCEEEEeccCCCCHHHHHHHHHHHHHHHhccC
Q psy2646          97 QVAKEYA-------DHLKIPFLETSAKNGANVEQAFLTMATEIKKRVTKD  139 (168)
Q Consensus        97 ~~~~~~~-------~~~~~~~~~vSa~~~~~i~~i~~~l~~~~~~~~~~~  139 (168)
                      .+.....       ..+..+++.+||.+|.|++++++.+.++........
T Consensus       215 ~~~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~~l~~sG  264 (327)
T d2p67a1         215 HMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKTALTASG  264 (327)
T ss_dssp             HHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHHHHHhCC
Confidence            1111111       123457999999999999999999988776544443

>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=97.53  E-value=0.00014  Score=51.35  Aligned_cols=78  Identities=13%  Similarity=-0.034  Sum_probs=42.9

Q ss_pred             eEEEEEEEeCCCchhhcccc-------hh--hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCC--CCcEEEEEecC
Q psy2646          18 TRTLIVIWDTAGQERFRTIT-------SS--YYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACD--NVNKLLVGNKN   86 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~-------~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piivv~nK~   86 (168)
                      .+..+.|+||||........       ..  .....|+++||++++...--......+..+....+.  -.++++|.||.
T Consensus        78 ~g~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~  157 (257)
T d1h65a_          78 AGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHA  157 (257)
T ss_dssp             TTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECC
T ss_pred             ccEEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECc
Confidence            34578999999964321111       11  123578899998887531111111222222221111  25789999999


Q ss_pred             CCCCCcccC
Q psy2646          87 DQTSKKAVD   95 (168)
Q Consensus        87 Dl~~~~~v~   95 (168)
                      |........
T Consensus       158 D~~~~~~~~  166 (257)
T d1h65a_         158 QFSPPDGLP  166 (257)
T ss_dssp             SCCCGGGCC
T ss_pred             ccCCcCCCc
Confidence            987654444

>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=96.45  E-value=0.0022  Score=45.69  Aligned_cols=68  Identities=13%  Similarity=0.172  Sum_probs=43.4

Q ss_pred             EEEEEeCCCchhh-------------cccchhhhcCCcEE-EEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          21 LIVIWDTAGQERF-------------RTITSSYYRGAHGI-IVVYDCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        21 ~l~l~Dt~G~~~~-------------~~~~~~~~~~~d~~-i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      .+.|+|+||....             ..+...|+...+.+ +++.++....+-.....+...+..   ...++++|.||+
T Consensus       126 ~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~---~~~r~i~Vltk~  202 (299)
T d2akab1         126 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP---QGQRTIGVITKL  202 (299)
T ss_dssp             SEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCT---TCSSEEEEEECG
T ss_pred             CeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCc---CCCceeeEEecc
Confidence            4789999996321             23345677777754 555566654444445555555532   257899999999


Q ss_pred             CCCCC
Q psy2646          87 DQTSK   91 (168)
Q Consensus        87 Dl~~~   91 (168)
                      |....
T Consensus       203 D~~~~  207 (299)
T d2akab1         203 DLMDE  207 (299)
T ss_dssp             GGSCT
T ss_pred             ccccc
Confidence            98654

>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=96.16  E-value=0.0031  Score=45.10  Aligned_cols=68  Identities=21%  Similarity=0.249  Sum_probs=42.6

Q ss_pred             EEEEEeCCCchhh-------------cccchhhhcCCcEEEEEE-eCCChhhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          21 LIVIWDTAGQERF-------------RTITSSYYRGAHGIIVVY-DCTDQETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        21 ~l~l~Dt~G~~~~-------------~~~~~~~~~~~d~~i~v~-d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      .+.|+||||....             ..++..|+.+++.+++++ +......-.....+...+.   ....++++|.||+
T Consensus       132 ~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~~---~~~~r~i~Vitk~  208 (306)
T d1jwyb_         132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVD---PEGKRTIGVITKL  208 (306)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHC---SSCSSEEEEEECT
T ss_pred             CceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHhC---cCCCeEEEEEecc
Confidence            5789999996321             235567889999877776 4433222223334444442   2356899999999


Q ss_pred             CCCCC
Q psy2646          87 DQTSK   91 (168)
Q Consensus        87 Dl~~~   91 (168)
                      |....
T Consensus       209 D~~~~  213 (306)
T d1jwyb_         209 DLMDK  213 (306)
T ss_dssp             TSSCS
T ss_pred             ccccc
Confidence            97543

>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=95.83  E-value=0.071  Score=37.32  Aligned_cols=42  Identities=12%  Similarity=0.065  Sum_probs=27.1

Q ss_pred             CCCcEEEEEecCCCCCCcccCHHHHHHHHHhcCCCEEEEecc
Q psy2646          75 DNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLKIPFLETSAK  116 (168)
Q Consensus        75 ~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~  116 (168)
                      ...|+++++|..+......-..+....++...+..++.+||+
T Consensus       198 t~KP~i~v~Nv~E~~~~~~~~~~~l~~~~~~~~~~vI~isa~  239 (278)
T d1jala1         198 TLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAA  239 (278)
T ss_dssp             TTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHH
T ss_pred             hcchhhhhhccccccccccHHHHHHHHHHHhcCCeEEEeEHH
Confidence            478999999965432211112345556677778889999984

>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=94.14  E-value=0.16  Score=34.15  Aligned_cols=91  Identities=22%  Similarity=0.283  Sum_probs=55.0

Q ss_pred             EEEEEEeCCCchhhcc-cc------hhhhc-----CCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          20 TLIVIWDTAGQERFRT-IT------SSYYR-----GAHGIIVVYDCTDQ-ETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~-~~------~~~~~-----~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      +.+.|.||+|...... +.      ....+     ..+-.++|+|+... +....+...+..+       -+--++.||.
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~-------~~~~lIlTKl  164 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAV-------GLTGITLTKL  164 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHS-------CCCEEEEECC
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhcc-------CCceEEEeec
Confidence            4689999999643221 10      11122     24678899998753 3444433333322       2347889999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~  123 (168)
                      |-...-.    .+.......++|+.+++  .|+++++
T Consensus       165 De~~~~G----~~l~~~~~~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         165 DGTAKGG----VIFSVADQFGIPIRYIG--VGERIED  195 (211)
T ss_dssp             TTCTTTT----HHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CCCCCcc----HHHHHHHHHCCCEEEEe--CCCCccc
Confidence            9644322    34456677789999988  7777755

>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=94.08  E-value=0.12  Score=34.62  Aligned_cols=92  Identities=18%  Similarity=0.202  Sum_probs=55.7

Q ss_pred             EEEEEEeCCCchhhcccc----hhh---h-----cCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          20 TLIVIWDTAGQERFRTIT----SSY---Y-----RGAHGIIVVYDCTDQ-ETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~----~~~---~-----~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      ..+.|.||+|...+....    ..+   .     ...+-++||+|++.. +....+...+..+      + +--++.||.
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~------~-~~~lI~TKl  161 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAV------G-LTGVIVTKL  161 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHH------C-CSEEEEECT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhcc------C-CceEEEecc
Confidence            468999999975433211    111   1     134678999999853 4455544444433      2 336789999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQA  124 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~i  124 (168)
                      |-...-.    .+..+....++|+.+++  +|++.+++
T Consensus       162 Det~~~G----~~l~~~~~~~~Pi~~i~--~Gq~p~Dl  193 (207)
T d1okkd2         162 DGTAKGG----VLIPIVRTLKVPIKFVG--VGEGPDDL  193 (207)
T ss_dssp             TSSCCCT----THHHHHHHHCCCEEEEE--CSSSTTCE
T ss_pred             CCCCCcc----HHHHHHHHHCCCEEEEe--CCCChHhC
Confidence            9654322    23456667789998888  46665543

>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=93.81  E-value=0.36  Score=33.81  Aligned_cols=36  Identities=19%  Similarity=0.291  Sum_probs=25.4

Q ss_pred             EEEEEEeCCCchhh----cccchh---hhcCCcEEEEEEeCCC
Q psy2646          20 TLIVIWDTAGQERF----RTITSS---YYRGAHGIIVVYDCTD   55 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~----~~~~~~---~~~~~d~~i~v~d~~~   55 (168)
                      ..+++.|+||.-.-    ..+...   .++.+|++++|+|+.+
T Consensus        75 ~~i~~~DvaGLv~gA~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          75 AFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             EEEEEECTGGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccceeeeccccccccccccccHHHHHHHhhccceeEEEEeccC
Confidence            47899999986432    222223   4678999999998854

>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=93.61  E-value=0.21  Score=33.28  Aligned_cols=75  Identities=9%  Similarity=0.063  Sum_probs=49.3

Q ss_pred             eEEEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEecCCCCCCcccCH
Q psy2646          18 TRTLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVNKL-LVGNKNDQTSKKAVDY   96 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pii-vv~nK~Dl~~~~~v~~   96 (168)
                      +.+.+.++|+++...  ......+..+|.++++...+ ..++..+..+...+.+.   +.|++ +|.|+.+..+. .+..
T Consensus       110 ~~~d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~~---~~~~~giv~N~~~~~~~-~~~~  182 (237)
T d1g3qa_         110 DKFDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKKA---GLAILGFVLNRYGRSDR-DIPP  182 (237)
T ss_dssp             GGCSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHHT---TCEEEEEEEEEETSCTT-CCCH
T ss_pred             hcCCEEEEccccccc--ccchhhhhhhhccccccccc-ceecchhhHHHHHHhhh---hhhhhhhhhcccccccc-hhhh
Confidence            346789999998643  22334566799999998765 45666666666655543   56765 88999986543 3443


Q ss_pred             HHH
Q psy2646          97 QVA   99 (168)
Q Consensus        97 ~~~   99 (168)
                      ...
T Consensus       183 ~~~  185 (237)
T d1g3qa_         183 EAA  185 (237)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>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=93.23  E-value=0.08  Score=35.75  Aligned_cols=91  Identities=23%  Similarity=0.214  Sum_probs=53.7

Q ss_pred             EEEEEEeCCCchhhccc-c---hhh---hc-----CCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEecC
Q psy2646          20 TLIVIWDTAGQERFRTI-T---SSY---YR-----GAHGIIVVYDCTDQ-ETFNNLKQWLEEIDRYACDNVNKLLVGNKN   86 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~-~---~~~---~~-----~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~nK~   86 (168)
                      +.+.|.||+|...+... .   ..+   ..     ..+-.++|+|++.. +.+..+.   ......    -+--++.||.
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~---~~~~~~----~~~~lI~TKl  166 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAK---IFKEAV----NVTGIILTKL  166 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHH---HHHHHS----CCCEEEEECG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcchhhhhh---hhcccc----CCceEEEecc
Confidence            46899999996433211 0   111   11     14678899998753 3333333   222222    2346889999


Q ss_pred             CCCCCcccCHHHHHHHHHhcCCCEEEEeccCCCCHHH
Q psy2646          87 DQTSKKAVDYQVAKEYADHLKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        87 Dl~~~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~  123 (168)
                      |-...-.    .+..+....++|+.+++  +|+++++
T Consensus       167 De~~~~G----~~l~~~~~~~~Pi~~i~--~Gq~v~D  197 (213)
T d1vmaa2         167 DGTAKGG----ITLAIARELGIPIKFIG--VGEKAED  197 (213)
T ss_dssp             GGCSCTT----HHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             cCCCccc----HHHHHHHHHCCCEEEEe--CCCCccc
Confidence            9643222    34456667789999988  6777755

>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=90.48  E-value=0.64  Score=31.01  Aligned_cols=91  Identities=15%  Similarity=0.147  Sum_probs=54.5

Q ss_pred             EEEEEEeCCCchhhcc--c-c---hhh--hcCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCC
Q psy2646          20 TLIVIWDTAGQERFRT--I-T---SSY--YRGAHGIIVVYDCTDQ-ETFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTS   90 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~--~-~---~~~--~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~   90 (168)
                      ..+.|.||+|...+..  . .   ..+  .-..+-+++|+|++.. +..+.+...+..   .   + +--++.||.|-..
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~~---~---~-~~~lI~TKlDet~  167 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQA---S---K-IGTIIITKMDGTA  167 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHH---C---T-TEEEEEECTTSCS
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhcc---c---C-cceEEEecccCCC
Confidence            4689999999754432  1 1   111  2235678899988754 333333222221   1   2 2357799999643


Q ss_pred             CcccCHHHHHHHHHhcCCCEEEEeccCCCCHHH
Q psy2646          91 KKAVDYQVAKEYADHLKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        91 ~~~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~  123 (168)
                      .    .=.+..++...++|+.+++  .|+++++
T Consensus       168 ~----~G~~l~~~~~~~lPi~~it--~Gq~v~D  194 (211)
T d1j8yf2         168 K----GGGALSAVAATGATIKFIG--TGEKIDE  194 (211)
T ss_dssp             C----HHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             c----ccHHHHHHHHHCcCEEEEe--CCCCccc
Confidence            2    2344566777899999988  6777755

>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=90.06  E-value=0.55  Score=31.23  Aligned_cols=91  Identities=16%  Similarity=0.160  Sum_probs=49.8

Q ss_pred             EEEEEEeCCCchhhcccc----hh--hhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCCc
Q psy2646          20 TLIVIWDTAGQERFRTIT----SS--YYRGAHGIIVVYDCTDQE-TFNNLKQWLEEIDRYACDNVNKLLVGNKNDQTSKK   92 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~----~~--~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~   92 (168)
                      ..+.|+||+|...+....    ..  ...+.+-+++|.|+...+ ....+..++..+      + .-=++.||.|-...-
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~------~-~~~~I~TKlDe~~~~  165 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKV------G-VTGLVLTKLDGDARG  165 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHT------C-CCEEEEECGGGCSSC
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhC------C-CCeeEEeecCccccc
Confidence            468999999975433211    11  133568889999987553 232222222211      1 235789999954321


Q ss_pred             ccCHHHHHHHHHhcCCCEEEEeccCCCCHHH
Q psy2646          93 AVDYQVAKEYADHLKIPFLETSAKNGANVEQ  123 (168)
Q Consensus        93 ~v~~~~~~~~~~~~~~~~~~vSa~~~~~i~~  123 (168)
                          =.+..+....+.|+.+++  .|+..++
T Consensus       166 ----G~~l~~~~~~~~Pi~~i~--~Gq~ped  190 (207)
T d1ls1a2         166 ----GAALSARHVTGKPIYFAG--VSEKPEG  190 (207)
T ss_dssp             ----HHHHHHHHHHCCCEEEEC--------C
T ss_pred             ----hHHHHHHHHHCCCEEEEe--CCCChhh
Confidence                234456677889988876  3444443

>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=89.22  E-value=1.3  Score=28.97  Aligned_cols=83  Identities=12%  Similarity=0.037  Sum_probs=49.8

Q ss_pred             EEEEEEeCCCchhhcccchhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEecCCCCCCcccCHHH
Q psy2646          20 TLIVIWDTAGQERFRTITSSYYRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYACDNVN-KLLVGNKNDQTSKKAVDYQV   98 (168)
Q Consensus        20 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~Dl~~~~~v~~~~   98 (168)
                      +.+.|+|+|+...  ......+..+|.++++...+ ..++..+...+..+.+.   +.+ +-++.|+.+-...    ...
T Consensus       110 ~D~viiD~~~~~~--~~~~~~l~~ad~v~~v~~~~-~~~~~~~~~~~~~~~~~---~~~~~~iv~N~~~~~~~----~~~  179 (232)
T d1hyqa_         110 TDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPE-ISSITDGLKTKIVAERL---GTKVLGVVVNRITTLGI----EMA  179 (232)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSS-HHHHHHHHHHHHHHHHH---TCEEEEEEEEEECTTTH----HHH
T ss_pred             cceeeeccccccc--chhHHHhhhhheeeeecccc-ccchhhhhhhhhhhhhc---ccccccccccccccccc----cch
Confidence            4578999998643  23344566799999998765 44555555555555444   234 4578999864321    122


Q ss_pred             HHHHHHhcCCCEEE
Q psy2646          99 AKEYADHLKIPFLE  112 (168)
Q Consensus        99 ~~~~~~~~~~~~~~  112 (168)
                      ...+.+.++.+++.
T Consensus       180 ~~~i~~~~~~~~~~  193 (232)
T d1hyqa_         180 KNEIEAILEAKVIG  193 (232)
T ss_dssp             HHHHHHHTTSCEEE
T ss_pred             hhhHHhhcCCeEEE
Confidence            33455666766553

>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=87.42  E-value=0.36  Score=34.02  Aligned_cols=38  Identities=24%  Similarity=0.163  Sum_probs=22.7

Q ss_pred             eEEEEEEEeCCCchhhc----ccch---hhhcCCcEEEEEEeCCC
Q psy2646          18 TRTLIVIWDTAGQERFR----TITS---SYYRGAHGIIVVYDCTD   55 (168)
Q Consensus        18 ~~~~l~l~Dt~G~~~~~----~~~~---~~~~~~d~~i~v~d~~~   55 (168)
                      ...+++++|+||.-...    .+..   ..++.+|++++|+|+.+
T Consensus        69 ~~~~i~~~D~pGli~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          69 ALIPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             EEEEEEEEECC---------------CCCSSTTCSEEEEEEETTC
T ss_pred             ccccEEEEECCCcccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            44689999999964321    1222   24578999999999863

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=84.36  E-value=4.4  Score=27.55  Aligned_cols=114  Identities=13%  Similarity=0.152  Sum_probs=60.7

Q ss_pred             EEEEEEEeCCCchhhcccchhh-hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhc-CCCCcE-EEEEecCCCCCCcccC
Q psy2646          19 RTLIVIWDTAGQERFRTITSSY-YRGAHGIIVVYDCTDQETFNNLKQWLEEIDRYA-CDNVNK-LLVGNKNDQTSKKAVD   95 (168)
Q Consensus        19 ~~~l~l~Dt~G~~~~~~~~~~~-~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~pi-ivv~nK~Dl~~~~~v~   95 (168)
                      .+.+.++|+|+.-......... ...++.++++... +..++..+..++..+.... ..+.++ .++.|+.+....    
T Consensus       118 ~~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~-~~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~~----  192 (289)
T d2afhe1         118 DLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSG-EMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDRE----  192 (289)
T ss_dssp             TCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECS-SHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTTH----
T ss_pred             cCCeEeeccCCccCHHHHHHHHHhhccceeecccch-hHHHHHHHHHHHHHHHhhhhcccccccceeehhhcchhh----
Confidence            4678899998764322222222 2356666666544 4455666666555553322 334554 378898764322    


Q ss_pred             HHHHHHHHHhcCCCEEEE---------eccCCC---------CHHHHHHHHHHHHHHHhc
Q psy2646          96 YQVAKEYADHLKIPFLET---------SAKNGA---------NVEQAFLTMATEIKKRVT  137 (168)
Q Consensus        96 ~~~~~~~~~~~~~~~~~v---------Sa~~~~---------~i~~i~~~l~~~~~~~~~  137 (168)
                      .+....+.+.++.+++.+         +...|.         ..-+-|..|.+.+.++..
T Consensus       193 ~~~~~~~~~~~g~~vl~~IP~~~~v~eA~~~g~pv~~~~p~S~~a~~y~~LA~ei~e~~~  252 (289)
T d2afhe1         193 DELIIALANKLGTQMIHFVPRDNVVQRAEIRRMTVIEYDPKAKQADEYRALARKVVDNKL  252 (289)
T ss_dssp             HHHHHHHHHHHTSCEEEEECCCHHHHHHHHTTSCHHHHCTTSHHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHcCCeEEEEEeccHHHHHHHHcCCceEEECcCCHHHHHHHHHHHHHHcCCC
Confidence            233445666666655532         111222         233457777777776554

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=84.03  E-value=2.1  Score=28.33  Aligned_cols=72  Identities=13%  Similarity=0.171  Sum_probs=39.6

Q ss_pred             CCcEEEEEEeCCChhhHHHHHH-HHHHHHHhcCCCCcEEEEEecCCCCCCcccCHHHHHHHHHhcC--CCEEEEeccCCC
Q psy2646          43 GAHGIIVVYDCTDQETFNNLKQ-WLEEIDRYACDNVNKLLVGNKNDQTSKKAVDYQVAKEYADHLK--IPFLETSAKNGA  119 (168)
Q Consensus        43 ~~d~~i~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~piivv~nK~Dl~~~~~v~~~~~~~~~~~~~--~~~~~vSa~~~~  119 (168)
                      ..+++|.++|+...+....... +..++ +     ..=++++||+|+.+..    +...+..+.++  .++++++ .-..
T Consensus       121 ~l~~vi~vVDa~~~~~~~~~~~~~~~Qi-~-----~AD~ivlNK~Dl~~~~----~~~~~~l~~lNP~a~Ii~~~-~g~v  189 (222)
T d1nija1         121 LLDGVIALVDAVHADEQMNQFTIAQSQV-G-----YADRILLTKTDVAGEA----EKLHERLARINARAPVYTVT-HGDI  189 (222)
T ss_dssp             EEEEEEEEEETTTHHHHHHHCHHHHHHH-H-----TCSEEEEECTTTCSCT----HHHHHHHHHHCSSSCEEECC-SSCC
T ss_pred             cccchhhhhhhhhhhhhhhhhHHHHHHH-H-----hCCcccccccccccHH----HHHHHHHHHHhCCCeEEEee-CCcc
Confidence            3588999999987643222211 22223 1     2237889999986532    23444444443  5777654 2234


Q ss_pred             CHHHHH
Q psy2646         120 NVEQAF  125 (168)
Q Consensus       120 ~i~~i~  125 (168)
                      .+..+|
T Consensus       190 ~~~~ll  195 (222)
T d1nija1         190 DLGLLF  195 (222)
T ss_dssp             CGGGGS
T ss_pred             CHHHhh
Confidence            555554