Psyllid ID: psy2600

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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-------16
Protein Sequence
MLEVKMLNLHNDNYEIQLKVVLLGDPSCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAVKRLTTGPTVPRE
Secondary Structure (PSIPRED)
ccEEEEEEEEEccEEEEEEEEEccccccccEEEEEEEcccHHHHccHHHHHHHHHHHcccccccEEEEEEEcccccccccccHHHHHHHHHHccccEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccEEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEccccccEEEEEEEEccccccEEEEEEEEEcccHHHHHHHHHHHHHHHHccccccccEEEEEEEccccHHHccccHHHHHHHHHHHccEEEEcEccccEcEEEEEcHHHHHHHHHHHHcHHHHHHHHHccccccHHHHEEEcccccccccc
Coil and Loop (DISEMBL)
mlevkmlnlhndnyEIQLKVVLlgdpscgkIVIFMYditsgqsfhsiptwvdlfhlnrksstpTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFavsartgdncwvntrtpeinplkylqsnneynFLSMVGFEAGTFYMAVKRlttgptvpre
Flexible Loop (DISEMBL)
MLEVKMLNLHNDNYEIQLKVVLLGDPSCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAVKRLTTGPTVPRE
Low Complexity Region (SEG)
MLEVKMLNLHNDNYEIQLKVVLLGDPSCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAVKRLTTGPTVPRE
Disordered region (IsUnstruct)
*****MLNLHNDNYEIQLKVVLLGDPSCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAVKRLT********
Disordered Region (DISOPRED)
MLEVKMLNLHNDNYEIQLKVVLLGDPSCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEI*****************************************
Disordered Region (DISEMBL)
MLEVKMLNLHNDNYEIQLKVVLLGDPSCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAVKRLT********
Disordered Region (DISPRO)
*LEVKMLNLHNDNYEIQLKVVLLGDPSCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAVKRLTTGPT****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLEVKMLNLHNDNYEIQLKVVLLGDPSCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAVKRLTTGPTVPRE
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	158	2.2.26 [Sep-21-2011]
Q3SWY9	221	Ras-related protein Rab-2	yes	N/A	0.5	0.357	0.387	3e-09
P51157	221	Ras-related protein Rab-2	yes	N/A	0.5	0.357	0.387	3e-09
Q99KL7	221	Ras-related protein Rab-2	yes	N/A	0.5	0.357	0.375	4e-09
Q5RFI2	221	Ras-related protein Rab-2	yes	N/A	0.5	0.357	0.387	4e-09
P51158	221	Ras-related protein Rab-2	yes	N/A	0.5	0.357	0.375	7e-09
P25228	220	Ras-related protein Rab-3	yes	N/A	0.436	0.313	0.422	4e-08
Q94986	219	Ras-related protein Rab-3	no	N/A	0.436	0.315	0.408	1e-07
Q4R4R9	220	Ras-related protein Rab-3	N/A	N/A	0.436	0.313	0.408	2e-06
P20336	220	Ras-related protein Rab-3	no	N/A	0.436	0.313	0.408	2e-06
P11023	220	Ras-related protein Rab-3	no	N/A	0.436	0.313	0.408	2e-06

>sp|Q3SWY9|RAB28_BOVIN Ras-related protein Rab-28 OS=Bos taurus GN=RAB28 PE=2 SV=1

 Score = 60.8 bits (146), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 31/80 (38%), Positives = 48/80 (60%), Gaps = 1/80 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           V+ +YD+T+ QSF ++  W  +   ++ +S T   VALV NK D+EH R V  E+H +  
Sbjct: 89  VLLVYDVTNYQSFENLEDWYSVVKKVSEESETQPLVALVGNKIDLEHMRTVKPEKHLRFC 148

Query: 91  QSLHLHSFAVSARTGDNCWV 110
           Q     S  VSA+TGD+ ++
Sbjct: 149 QENGFSSHFVSAKTGDSVFL 168

Bos taurus (taxid: 9913)

>sp|P51157|RAB28_HUMAN Ras-related protein Rab-28 OS=Homo sapiens GN=RAB28 PE=1 SV=2

 Score = 60.8 bits (146), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 31/80 (38%), Positives = 48/80 (60%), Gaps = 1/80 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           V+ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R +  E+H +  
Sbjct: 89  VLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFC 148

Query: 91  QSLHLHSFAVSARTGDNCWV 110
           Q     S  VSA+TGD+ ++
Sbjct: 149 QENGFSSHFVSAKTGDSVFL 168

Homo sapiens (taxid: 9606)

>sp|Q99KL7|RAB28_MOUSE Ras-related protein Rab-28 OS=Mus musculus GN=Rab28 PE=2 SV=1

 Score = 60.5 bits (145), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 30/80 (37%), Positives = 48/80 (60%), Gaps = 1/80 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           ++ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R V  ++H +  
Sbjct: 89  ILLVYDITNYQSFENLEDWYSVVKTVSEESETQPLVALVGNKIDLEHMRTVKADKHLRFC 148

Query: 91  QSLHLHSFAVSARTGDNCWV 110
           Q     S  VSA+TGD+ ++
Sbjct: 149 QENGFSSHFVSAKTGDSVFL 168

Mus musculus (taxid: 10090)

>sp|Q5RFI2|RAB28_PONAB Ras-related protein Rab-28 OS=Pongo abelii GN=RAB28 PE=2 SV=1

 Score = 60.5 bits (145), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/80 (38%), Positives = 48/80 (60%), Gaps = 1/80 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           V+ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R +  E+H +  
Sbjct: 89  VLLVYDITNYQSFENLEDWYTVVKKVSEESETRPLVALVGNKIDLEHMRTIKPEKHLRFC 148

Query: 91  QSLHLHSFAVSARTGDNCWV 110
           Q     S  VSA+TGD+ ++
Sbjct: 149 QENGFSSHFVSAKTGDSVFL 168

Pongo abelii (taxid: 9601)

>sp|P51158|RAB28_RAT Ras-related protein Rab-28 OS=Rattus norvegicus GN=Rab28 PE=2 SV=1

 Score = 59.7 bits (143), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 30/80 (37%), Positives = 48/80 (60%), Gaps = 1/80 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           ++ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R V  ++H +  
Sbjct: 89  ILLVYDITNYQSFENLEDWYSVVKTVSEESETQPLVALVGNKIDLEHMRTVKPDKHLRFC 148

Query: 91  QSLHLHSFAVSARTGDNCWV 110
           Q     S  VSA+TGD+ ++
Sbjct: 149 QENGFSSHFVSAKTGDSVFL 168

Rattus norvegicus (taxid: 10116)

>sp|P25228|RAB3_DROME Ras-related protein Rab-3 OS=Drosophila melanogaster GN=Rab3 PE=1 SV=1

 Score = 57.4 bits (137), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 30/71 (42%), Positives = 40/71 (56%), Gaps = 2/71 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I MYD+T+  SF+S+  WV    +   S     V LV NK DME QRV++ ER  +LA  
Sbjct: 98  ILMYDVTNEDSFNSVQDWVT--QIKTYSWDNAQVILVGNKCDMEDQRVISFERGRQLADQ 155

Query: 93  LHLHSFAVSAR 103
           L +  F  SA+
Sbjct: 156 LGVEFFETSAK 166

Involved in exocytosis by regulating a late step in synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal.

Drosophila melanogaster (taxid: 7227)

>sp|Q94986|RAB3_CAEEL Ras-related protein Rab-3 OS=Caenorhabditis elegans GN=rab-3 PE=2 SV=1

 Score = 55.8 bits (133), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 29/71 (40%), Positives = 41/71 (57%), Gaps = 2/71 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I MYDIT+ +SF+S+  W     +   S     V LV NK DM+ +RVV+++R  +LA  
Sbjct: 99  ILMYDITNEESFNSVQDWCT--QIKTYSWENAQVVLVGNKCDMDSERVVSMDRGRQLADQ 156

Query: 93  LHLHSFAVSAR 103
           L L  F  SA+
Sbjct: 157 LGLEFFETSAK 167

Involved in exocytosis by regulating a late step in synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal.

Caenorhabditis elegans (taxid: 6239)

>sp|Q4R4R9|RAB3A_MACFA Ras-related protein Rab-3A OS=Macaca fascicularis GN=RAB3A PE=2 SV=1

 Score = 51.6 bits (122), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/71 (40%), Positives = 39/71 (54%), Gaps = 2/71 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I MYDIT+ +SF+++  W     +   S     V LV NK DME +RVV+ ER  +LA  
Sbjct: 99  ILMYDITNEESFNAVQDWST--QIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADH 156

Query: 93  LHLHSFAVSAR 103
           L    F  SA+
Sbjct: 157 LGFEFFEASAK 167

Involved in exocytosis by regulating a late step in synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal.

Macaca fascicularis (taxid: 9541)

>sp|P20336|RAB3A_HUMAN Ras-related protein Rab-3A OS=Homo sapiens GN=RAB3A PE=1 SV=1

 Score = 51.6 bits (122), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/71 (40%), Positives = 39/71 (54%), Gaps = 2/71 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I MYDIT+ +SF+++  W     +   S     V LV NK DME +RVV+ ER  +LA  
Sbjct: 99  ILMYDITNEESFNAVQDWST--QIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADH 156

Query: 93  LHLHSFAVSAR 103
           L    F  SA+
Sbjct: 157 LGFEFFEASAK 167

Involved in exocytosis by regulating a late step in synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal.

Homo sapiens (taxid: 9606)

>sp|P11023|RAB3A_BOVIN Ras-related protein Rab-3A OS=Bos taurus GN=RAB3A PE=1 SV=3

 Score = 51.6 bits (122), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/71 (40%), Positives = 39/71 (54%), Gaps = 2/71 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I MYDIT+ +SF+++  W     +   S     V LV NK DME +RVV+ ER  +LA  
Sbjct: 99  ILMYDITNEESFNAVQDWST--QIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADH 156

Query: 93  LHLHSFAVSAR 103
           L    F  SA+
Sbjct: 157 LGFEFFEASAK 167

Involved in exocytosis by regulating a late step in synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal.

Bos taurus (taxid: 9913)

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	158
444728525	133	Ras-related protein Rab-28 [Tupaia chine	0.569	0.676	0.428	2e-12
449273525	222	Ras-related protein Rab-28 [Columba livi	0.5	0.355	0.412	2e-10
71896105	221	RAB28, member RAS oncogene family [Xenop	0.5	0.357	0.412	3e-10
312080726	226	small GTP binding protein RAB28 [Loa loa	0.632	0.442	0.330	6e-10
242013615	224	RAB-28, putative [Pediculus humanus corp	0.487	0.343	0.410	9e-10
402585718	221	member Ras oncogene family RAB28 [Wucher	0.632	0.452	0.330	9e-10
170589217	221	small GTP binding protein RAB28 [Brugia	0.632	0.452	0.330	9e-10
73951461	221	PREDICTED: ras-related protein Rab-28 is	0.5	0.357	0.412	6e-09
73951459	220	PREDICTED: ras-related protein Rab-28 is	0.5	0.359	0.412	7e-09
387017960	233	ras-related protein Rab-28-like isoform	0.518	0.351	0.373	9e-09

>gi|444728525|gb|ELW68981.1| Ras-related protein Rab-28 [Tupaia chinensis]

 Score = 77.0 bits (188), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 39/91 (42%), Positives = 57/91 (62%), Gaps = 1/91 (1%)

Query: 18  LKVVLLGDPSCGKIVIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDME 76
           LK+V+LGD + GK V+ +YD+T+ QSF ++  W  +   ++ +S T   VALV NK D+E
Sbjct: 13  LKIVVLGDGTSGKGVLLVYDVTNHQSFENLEDWYTMVKKVSEESETQPLVALVGNKIDLE 72

Query: 77  HQRVVTLERHAKLAQSLHLHSFAVSARTGDN 107
           H R V  E+H +  Q     S  VSA+TGD+
Sbjct: 73  HMRTVKTEKHLRFCQENGFSSHFVSAKTGDS 103

Source: Tupaia chinensis

Species: Tupaia chinensis

Genus: Tupaia

Family: Tupaiidae

Order: Scandentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|449273525|gb|EMC83019.1| Ras-related protein Rab-28 [Columba livia]

 Score = 70.5 bits (171), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/80 (41%), Positives = 52/80 (65%), Gaps = 1/80 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           ++ +YDIT+GQSF ++  W ++   +N  S T   VALV NK D+EH R V +++H +L 
Sbjct: 90  ILLVYDITNGQSFENLEDWYNVVKKVNEDSETQPLVALVGNKVDLEHMRTVKVDKHQRLC 149

Query: 91  QSLHLHSFAVSARTGDNCWV 110
           Q  +  S  VSA+TGD+ ++
Sbjct: 150 QENNFSSHFVSAKTGDSVFL 169

Source: Columba livia

Species: Columba livia

Genus: Columba

Family: Columbidae

Order: Columbiformes

Class: Aves

Phylum: Chordata

Superkingdom: Eukaryota

>gi|71896105|ref|NP_001025601.1| RAB28, member RAS oncogene family [Xenopus (Silurana) tropicalis] gi|60688519|gb|AAH91050.1| RAB28, member RAS oncogene family [Xenopus (Silurana) tropicalis]

 Score = 69.7 bits (169), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/80 (41%), Positives = 52/80 (65%), Gaps = 1/80 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           V+ +YDIT+ QSF ++  W  +   +N +S T  +VALV NK D+EH R V  ++H +  
Sbjct: 89  VLLVYDITNYQSFENLEDWFSMVKKVNDESETQPFVALVGNKIDLEHMRTVKADKHQRFC 148

Query: 91  QSLHLHSFAVSARTGDNCWV 110
           Q  +L S+ VSA+TGD+ ++
Sbjct: 149 QENNLGSYFVSAKTGDSVFL 168

Source: Xenopus (Silurana) tropicalis

Species: Xenopus (Silurana) tropicalis

Genus: Xenopus

Family: Pipidae

Order: Anura

Class: Amphibia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|312080726|ref|XP_003142724.1| small GTP binding protein RAB28 [Loa loa] gi|307762116|gb|EFO21350.1| small GTP binding protein RAB28 [Loa loa]

 Score = 68.9 bits (167), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 34/103 (33%), Positives = 59/103 (57%), Gaps = 3/103 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLF-HLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           + +YD+T+  SF ++  W+++   + +    P  + LV NK D+EH+RV+ +ERH K A 
Sbjct: 89  VVVYDVTNSSSFENLEDWINIIKQVTKAQEKPAVLMLVGNKTDLEHRRVIRIERHTKFAL 148

Query: 92  SLHLHSFAVSARTGDNCWVNTR--TPEINPLKYLQSNNEYNFL 132
              + S+ VSA+TGD+  +  R    EI  +   QS+ E + +
Sbjct: 149 QYGMSSYYVSAKTGDSVTLMFRKTAAEILGIPLEQSDTEGDII 191

Source: Loa loa

Species: Loa loa

Genus: Loa

Family: Onchocercidae

Order: Spirurida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|242013615|ref|XP_002427498.1| RAB-28, putative [Pediculus humanus corporis] gi|212511893|gb|EEB14760.1| RAB-28, putative [Pediculus humanus corporis]

 Score = 68.6 bits (166), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 50/78 (64%), Gaps = 1/78 (1%)

Query: 31  IVIFMYDITSGQSFHSIPTWVDLF-HLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKL 89
           I+I +YDIT+  SF +I  W++L  + N++    + +A+  NK D+EHQR++  E+H + 
Sbjct: 88  IIILVYDITNHSSFCNIELWLELIKNTNKQYHRKSMIAIFGNKCDLEHQRMIRFEKHQRY 147

Query: 90  AQSLHLHSFAVSARTGDN 107
           A   HL S  VS RTG+N
Sbjct: 148 ASENHLFSQIVSGRTGEN 165

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|402585718|gb|EJW79657.1| member Ras oncogene family RAB28 [Wuchereria bancrofti]

 Score = 68.6 bits (166), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 34/103 (33%), Positives = 59/103 (57%), Gaps = 3/103 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLF-HLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           + +YD+T+  SF ++  W+++   + +    P  + LV NK D+EH+RV+ +ERH K A 
Sbjct: 84  VVVYDVTNSSSFENLEDWINIIKQVTKTQERPVVLMLVGNKTDLEHRRVIRIERHTKFAL 143

Query: 92  SLHLHSFAVSARTGDNCWVNTR--TPEINPLKYLQSNNEYNFL 132
              + S+ VSA+TGD+  +  R    EI  +   QS+ E + +
Sbjct: 144 QYGMSSYYVSAKTGDSVTLMFRKTAAEILGIPLEQSDTEGDII 186

Source: Wuchereria bancrofti

Species: Wuchereria bancrofti

Genus: Wuchereria

Family: Onchocercidae

Order: Spirurida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|170589217|ref|XP_001899370.1| small GTP binding protein RAB28 [Brugia malayi] gi|158593583|gb|EDP32178.1| small GTP binding protein RAB28, putative [Brugia malayi]

 Score = 68.6 bits (166), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 34/103 (33%), Positives = 59/103 (57%), Gaps = 3/103 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLF-HLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           + +YD+T+  SF ++  W+++   + +    P  + LV NK D+EH+RV+ +ERH K A 
Sbjct: 84  VVVYDVTNSSSFENLEDWINIIKQVTKTQERPVVLMLVGNKTDLEHRRVIRIERHTKFAL 143

Query: 92  SLHLHSFAVSARTGDNCWVNTR--TPEINPLKYLQSNNEYNFL 132
              + S+ VSA+TGD+  +  R    EI  +   QS+ E + +
Sbjct: 144 QYGMSSYYVSAKTGDSVTLMFRKTAAEILGIPLEQSDTEGDII 186

Source: Brugia malayi

Species: Brugia malayi

Genus: Brugia

Family: Onchocercidae

Order: Spirurida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|73951461|ref|XP_535076.2| PREDICTED: ras-related protein Rab-28 isoform 2 [Canis lupus familiaris]

 Score = 65.9 bits (159), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/80 (41%), Positives = 50/80 (62%), Gaps = 1/80 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           ++ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R V LE+H +L 
Sbjct: 89  ILLVYDITNYQSFENLEDWYSVVKKVSEESETQPLVALVGNKIDLEHMRTVKLEKHLRLC 148

Query: 91  QSLHLHSFAVSARTGDNCWV 110
           Q     S  VSA+TGD+ ++
Sbjct: 149 QENGFSSHFVSAKTGDSVFL 168

Source: Canis lupus familiaris

Species: Canis lupus

Genus: Canis

Family: Canidae

Order: Carnivora

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|73951459|ref|XP_862740.1| PREDICTED: ras-related protein Rab-28 isoform 3 [Canis lupus familiaris]

 Score = 65.5 bits (158), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 33/80 (41%), Positives = 50/80 (62%), Gaps = 1/80 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           ++ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R V LE+H +L 
Sbjct: 89  ILLVYDITNYQSFENLEDWYSVVKKVSEESETQPLVALVGNKIDLEHMRTVKLEKHLRLC 148

Query: 91  QSLHLHSFAVSARTGDNCWV 110
           Q     S  VSA+TGD+ ++
Sbjct: 149 QENGFSSHFVSAKTGDSVFL 168

Source: Canis lupus familiaris

Species: Canis lupus

Genus: Canis

Family: Canidae

Order: Carnivora

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|387017960|gb|AFJ51098.1| ras-related protein Rab-28-like isoform 2 [Crotalus adamanteus]

 Score = 65.1 bits (157), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 31/83 (37%), Positives = 52/83 (62%), Gaps = 1/83 (1%)

Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHA 87
            + V+ +YD+T+ QSF ++  W  +   +N +S T  +VALV NK D+EH R V +++H 
Sbjct: 88  AQAVLLVYDVTNQQSFENLENWYSVVKKVNEESETQLHVALVGNKIDLEHLRTVKIDKHL 147

Query: 88  KLAQSLHLHSFAVSARTGDNCWV 110
           +  Q  H  +  VSA+TGD+ ++
Sbjct: 148 QFCQESHSSNHFVSAKTGDSVFL 170

Source: Crotalus adamanteus

Species: Crotalus adamanteus

Genus: Crotalus

Family: Viperidae

Order: Squamata

Phylum: Chordata

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	158
ZFIN|ZDB-GENE-030131-5122	221	rab28 "RAB28, member RAS oncog	0.5	0.357	0.375	2.8e-15
UNIPROTKB|J9NZZ0	221	RAB28 "Uncharacterized protein	0.5	0.357	0.4	5.7e-15
UNIPROTKB|Q3SWY9	221	RAB28 "Ras-related protein Rab	0.5	0.357	0.387	1.5e-14
UNIPROTKB|P51157	221	RAB28 "Ras-related protein Rab	0.5	0.357	0.387	1.9e-14
MGI|MGI:1917285	221	Rab28 "RAB28, member RAS oncog	0.5	0.357	0.375	1.9e-14
UNIPROTKB|Q5RFI2	221	RAB28 "Ras-related protein Rab	0.5	0.357	0.387	2.4e-14
RGD|620891	221	Rab28 "RAB28, member RAS oncog	0.5	0.357	0.375	3e-14
UNIPROTKB|Q6IN03	220	Rab28 "Rab28 protein" [Rattus	0.5	0.359	0.375	3e-14
FB|FBgn0005586	220	Rab3 "Rab3" [Drosophila melano	0.462	0.331	0.413	7.5e-12
UNIPROTKB|Q94986	219	rab-3 "Ras-related protein Rab	0.462	0.333	0.4	2.4e-11

ZFIN|ZDB-GENE-030131-5122 rab28 "RAB28, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 154 (59.3 bits), Expect = 2.8e-15, Sum P(2) = 2.8e-15
 Identities = 30/80 (37%), Positives = 49/80 (61%)

Query:    32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
             V+ +YDIT+ QSF ++  W+ +    N +S     ++L+ NK D+EH R V +E+H +  
Sbjct:    89 VLLVYDITNSQSFENLEDWLSMVRKANEESDVQPAISLIGNKIDLEHMRTVKMEKHQRFC 148

Query:    91 QSLHLHSFAVSARTGDNCWV 110
             Q   L S  VSA+TGD+ ++
Sbjct:   149 QENGLVSQFVSAKTGDSVFL 168

GO:0005525 "GTP binding" evidence=IEA

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

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|J9NZZ0 RAB28 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 153 (58.9 bits), Expect = 5.7e-15, Sum P(2) = 5.7e-15
 Identities = 32/80 (40%), Positives = 50/80 (62%)

Query:    32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
             ++ + DIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R+V LE+H +L 
Sbjct:    89 ILLVCDITNYQSFENLEDWYSVMKKVSEESETQPLVALVGNKIDLEHMRMVKLEKHLRLC 148

Query:    91 QSLHLHSFAVSARTGDNCWV 110
             Q     S  VSA+TGD+ ++
Sbjct:   149 QENGFSSHFVSAKTGDSVFL 168

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|Q3SWY9 RAB28 "Ras-related protein Rab-28" [Bos taurus (taxid:9913)]

 Score = 149 (57.5 bits), Expect = 1.5e-14, Sum P(2) = 1.5e-14
 Identities = 31/80 (38%), Positives = 48/80 (60%)

Query:    32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
             V+ +YD+T+ QSF ++  W  +   ++ +S T   VALV NK D+EH R V  E+H +  
Sbjct:    89 VLLVYDVTNYQSFENLEDWYSVVKKVSEESETQPLVALVGNKIDLEHMRTVKPEKHLRFC 148

Query:    91 QSLHLHSFAVSARTGDNCWV 110
             Q     S  VSA+TGD+ ++
Sbjct:   149 QENGFSSHFVSAKTGDSVFL 168

GO:0019003 "GDP binding" evidence=ISS

GO:0005525 "GTP binding" evidence=ISS

GO:0005886 "plasma membrane" evidence=IEA

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

UNIPROTKB|P51157 RAB28 "Ras-related protein Rab-28" [Homo sapiens (taxid:9606)]

 Score = 148 (57.2 bits), Expect = 1.9e-14, Sum P(2) = 1.9e-14
 Identities = 31/80 (38%), Positives = 48/80 (60%)

Query:    32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
             V+ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R +  E+H +  
Sbjct:    89 VLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFC 148

Query:    91 QSLHLHSFAVSARTGDNCWV 110
             Q     S  VSA+TGD+ ++
Sbjct:   149 QENGFSSHFVSAKTGDSVFL 168

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

GO:0005886 "plasma membrane" evidence=IEA

GO:0005525 "GTP binding" evidence=IDA

GO:0019003 "GDP binding" evidence=IDA

GO:0003924 "GTPase activity" evidence=TAS

GO:0006184 "GTP catabolic process" evidence=TAS

MGI|MGI:1917285 Rab28 "RAB28, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 148 (57.2 bits), Expect = 1.9e-14, Sum P(2) = 1.9e-14
 Identities = 30/80 (37%), Positives = 48/80 (60%)

Query:    32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
             ++ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R V  ++H +  
Sbjct:    89 ILLVYDITNYQSFENLEDWYSVVKTVSEESETQPLVALVGNKIDLEHMRTVKADKHLRFC 148

Query:    91 QSLHLHSFAVSARTGDNCWV 110
             Q     S  VSA+TGD+ ++
Sbjct:   149 QENGFSSHFVSAKTGDSVFL 168

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=ISO

GO:0005575 "cellular_component" evidence=ND

GO:0005886 "plasma membrane" evidence=IEA

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

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IEA

GO:0019003 "GDP binding" evidence=ISO

UNIPROTKB|Q5RFI2 RAB28 "Ras-related protein Rab-28" [Pongo abelii (taxid:9601)]

 Score = 147 (56.8 bits), Expect = 2.4e-14, Sum P(2) = 2.4e-14
 Identities = 31/80 (38%), Positives = 48/80 (60%)

Query:    32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
             V+ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R +  E+H +  
Sbjct:    89 VLLVYDITNYQSFENLEDWYTVVKKVSEESETRPLVALVGNKIDLEHMRTIKPEKHLRFC 148

Query:    91 QSLHLHSFAVSARTGDNCWV 110
             Q     S  VSA+TGD+ ++
Sbjct:   149 QENGFSSHFVSAKTGDSVFL 168

GO:0005525 "GTP binding" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

RGD|620891 Rab28 "RAB28, member RAS oncogene family" [Rattus norvegicus (taxid:10116)]

 Score = 146 (56.5 bits), Expect = 3.0e-14, Sum P(2) = 3.0e-14
 Identities = 30/80 (37%), Positives = 48/80 (60%)

Query:    32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
             ++ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R V  ++H +  
Sbjct:    89 ILLVYDITNYQSFENLEDWYSVVKTVSEESETQPLVALVGNKIDLEHMRTVKPDKHLRFC 148

Query:    91 QSLHLHSFAVSARTGDNCWV 110
             Q     S  VSA+TGD+ ++
Sbjct:   149 QENGFSSHFVSAKTGDSVFL 168

GO:0003924 "GTPase activity" evidence=TAS

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

GO:0005886 "plasma membrane" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=TAS

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

GO:0019003 "GDP binding" evidence=IEA;ISO;ISS

UNIPROTKB|Q6IN03 Rab28 "Rab28 protein" [Rattus norvegicus (taxid:10116)]

 Score = 146 (56.5 bits), Expect = 3.0e-14, Sum P(2) = 3.0e-14
 Identities = 30/80 (37%), Positives = 48/80 (60%)

Query:    32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
             ++ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R V  ++H +  
Sbjct:    89 ILLVYDITNYQSFENLEDWYSVVKTVSEESETQPLVALVGNKIDLEHMRTVKPDKHLRFC 148

Query:    91 QSLHLHSFAVSARTGDNCWV 110
             Q     S  VSA+TGD+ ++
Sbjct:   149 QENGFSSHFVSAKTGDSVFL 168

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

FB|FBgn0005586 Rab3 "Rab3" [Drosophila melanogaster (taxid:7227)]

 Score = 130 (50.8 bits), Expect = 7.5e-12, Sum P(2) = 7.5e-12
 Identities = 31/75 (41%), Positives = 41/75 (54%)

Query:    33 IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
             I MYD+T+  SF+S+  WV    +   S     V LV NK DME QRV++ ER  +LA  
Sbjct:    98 ILMYDVTNEDSFNSVQDWVT--QIKTYSWDNAQVILVGNKCDMEDQRVISFERGRQLADQ 155

Query:    93 LHLHSFAVSARTGDN 107
             L +  F  SA+   N
Sbjct:   156 LGVEFFETSAKENVN 170

GO:0003924 "GTPase activity" evidence=ISS;NAS

GO:0015031 "protein transport" evidence=IEA;NAS

GO:0008021 "synaptic vesicle" evidence=IDA;NAS

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

GO:0007269 "neurotransmitter secretion" evidence=NAS

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

GO:0005525 "GTP binding" evidence=IEA

GO:0031982 "vesicle" evidence=ISS

GO:0048786 "presynaptic active zone" evidence=IDA

GO:0048790 "maintenance of presynaptic active zone structure" evidence=IMP

UNIPROTKB|Q94986 rab-3 "Ras-related protein Rab-3" [Caenorhabditis elegans (taxid:6239)]

 Score = 126 (49.4 bits), Expect = 2.4e-11, Sum P(2) = 2.4e-11
 Identities = 30/75 (40%), Positives = 42/75 (56%)

Query:    33 IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
             I MYDIT+ +SF+S+  W     +   S     V LV NK DM+ +RVV+++R  +LA  
Sbjct:    99 ILMYDITNEESFNSVQDWCT--QIKTYSWENAQVVLVGNKCDMDSERVVSMDRGRQLADQ 156

Query:    93 LHLHSFAVSARTGDN 107
             L L  F  SA+   N
Sbjct:   157 LGLEFFETSAKENIN 171

GO:0006184 "GTP catabolic process" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	158
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	2e-17
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	7e-17
pfam00071	162	pfam00071, Ras, Ras family	3e-16
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	5e-15
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	3e-14
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	3e-14
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	1e-11
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	7e-11
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	9e-11
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	1e-10
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	4e-10
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	3e-09
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	3e-09
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	6e-09
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	7e-09
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	2e-08
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	3e-08
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	4e-08
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	4e-08
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	4e-08
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	7e-08
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	1e-07
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	5e-07
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	7e-07
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	9e-07
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	1e-06
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	1e-06
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	2e-06
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	5e-06
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	6e-06
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	7e-06
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	9e-06
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	1e-05
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	1e-05
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	1e-05
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	2e-05
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	7e-05
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	7e-05
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	2e-04
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	3e-04
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	5e-04
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	0.002
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	0.002
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	0.003
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	0.004

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

 Score = 74.0 bits (183), Expect = 2e-17
 Identities = 25/77 (32%), Positives = 42/77 (54%), Gaps = 2/77 (2%)

Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
             I +YD+T+ +SF ++  W++   L   +     + LV NK D+E +R V+ E   + A
Sbjct: 75  GAILVYDVTNRESFENLDKWLNE--LKEYAPPNIPIILVGNKSDLEDERQVSTEEAQQFA 132

Query: 91  QSLHLHSFAVSARTGDN 107
           +   L  F  SA+TG+N
Sbjct: 133 KENGLLFFETSAKTGEN 149

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

 Score = 73.7 bits (181), Expect = 7e-17
 Identities = 34/77 (44%), Positives = 48/77 (62%), Gaps = 1/77 (1%)

Query: 31  IVIFMYDITSGQSFHSIPTWVD-LFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKL 89
            V  +YDIT+ QSF ++  W+  +  +N +S T   + LV NK D+EH R VT E+HA+ 
Sbjct: 76  AVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTDLEHNRQVTAEKHARF 135

Query: 90  AQSLHLHSFAVSARTGD 106
           AQ   + S  VSA+TGD
Sbjct: 136 AQENDMESIFVSAKTGD 152

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|215692 pfam00071, Ras, Ras family

 Score = 71.0 bits (175), Expect = 3e-16
 Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 2/75 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + +YDITS  SF ++  W++   + R +     + LV NK D+E QRVV+ E    LA+ 
Sbjct: 76  LLVYDITSRDSFENVKKWLE--EILRHADENVPIVLVGNKCDLEDQRVVSTEEGEALAKE 133

Query: 93  LHLHSFAVSARTGDN 107
           L L     SA+T +N
Sbjct: 134 LGLPFMETSAKTNEN 148

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 67.9 bits (167), Expect = 5e-15
 Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT+ +SF ++  W+         +    + LV NK D+E QR V+ E     A+
Sbjct: 76  ALLVYDITNRESFENLENWLKELREYASPNVV--IMLVGNKSDLEEQRQVSREEAEAFAE 133

Query: 92  SLHLHSFAVSARTGDN 107
              L  F  SA+T  N
Sbjct: 134 EHGLPFFETSAKTNTN 149

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 66.0 bits (162), Expect = 3e-14
 Identities = 28/81 (34%), Positives = 39/81 (48%), Gaps = 4/81 (4%)

Query: 27  SCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERH 86
           +   IV+  YDITS +SF    +WV    L         +AL  NK D+E +R V+ E  
Sbjct: 74  AAAAIVV--YDITSEESFEKAKSWVK--ELQEHGPPNIVIALAGNKADLESKRQVSTEEA 129

Query: 87  AKLAQSLHLHSFAVSARTGDN 107
            + A    L     SA+TG+N
Sbjct: 130 QEYADENGLLFMETSAKTGEN 150

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

 Score = 65.7 bits (161), Expect = 3e-14
 Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 2/77 (2%)

Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           + + +YDIT+ QSF +   W+D     R       + LV NK D+  +R V+ E   K A
Sbjct: 75  VAVVVYDITNRQSFDNTDKWIDDVRDER--GNDVIIVLVGNKTDLSDKRQVSTEEGEKKA 132

Query: 91  QSLHLHSFAVSARTGDN 107
           +  +      SA+ G N
Sbjct: 133 KENNAMFIETSAKAGHN 149

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

 Score = 58.8 bits (143), Expect = 1e-11
 Identities = 26/76 (34%), Positives = 40/76 (52%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YDIT  +SF +I  W+   +++  +S      LV NK DME +RVV+ E    LA+
Sbjct: 79  IILVYDITDEKSFENIKNWMR--NIDEHASEDVERMLVGNKCDMEEKRVVSKEEGEALAR 136

Query: 92  SLHLHSFAVSARTGDN 107
              +     SA+   N
Sbjct: 137 EYGIKFLETSAKANIN 152

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

 Score = 56.8 bits (137), Expect = 7e-11
 Identities = 30/75 (40%), Positives = 40/75 (53%), Gaps = 2/75 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I MYDIT+ +SF+++  W     +   S     V LV NK DME +RVV+ ER  +LA  
Sbjct: 78  ILMYDITNEESFNAVQDWST--QIKTYSWDNAQVILVGNKCDMEDERVVSAERGRQLADQ 135

Query: 93  LHLHSFAVSARTGDN 107
           L    F  SA+   N
Sbjct: 136 LGFEFFEASAKENIN 150

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

 Score = 56.5 bits (137), Expect = 9e-11
 Identities = 25/74 (33%), Positives = 32/74 (43%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +Y IT   SF  +   + L    +K      V LV NK D+ H R V+ E   KLA 
Sbjct: 76  FVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPVILVGNKADLLHSRQVSTEEGQKLAL 135

Query: 92  SLHLHSFAVSARTG 105
            L    F VSA   
Sbjct: 136 ELGCLFFEVSAAEN 149

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

 Score = 57.1 bits (138), Expect = 1e-10
 Identities = 29/76 (38%), Positives = 44/76 (57%), Gaps = 1/76 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           V+ ++DIT+ +SF  +  W++    + +   P +  LV +K D+E QR VT E   KLA+
Sbjct: 79  VLLVFDITNRESFEHVHDWLEEARSHIQPHRPVF-ILVGHKCDLESQRQVTREEAEKLAK 137

Query: 92  SLHLHSFAVSARTGDN 107
            L +     SARTGDN
Sbjct: 138 DLGMKYIETSARTGDN 153

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

 Score = 55.2 bits (133), Expect = 4e-10
 Identities = 25/75 (33%), Positives = 38/75 (50%), Gaps = 1/75 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + M+D+TS QSF ++  W+     +     P  V L+ NK D+  QR V+  +  +LA  
Sbjct: 91  LLMFDLTSEQSFLNVRNWMSQLQAHAYCENPDIV-LIGNKADLPDQREVSERQARELADK 149

Query: 93  LHLHSFAVSARTGDN 107
             +  F  SA TG N
Sbjct: 150 YGIPYFETSAATGQN 164

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

 Score = 52.6 bits (127), Expect = 3e-09
 Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 2/75 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I +YDIT   SF  +  W+    L +       + +V NK D+E QRVV+     + A+S
Sbjct: 77  ILVYDITDADSFQKVKKWIK--ELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKS 134

Query: 93  LHLHSFAVSARTGDN 107
           +    F  SA+TG  
Sbjct: 135 VGAKHFETSAKTGKG 149

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

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

 Score = 52.6 bits (127), Expect = 3e-09
 Identities = 22/72 (30%), Positives = 31/72 (43%), Gaps = 2/72 (2%)

Query: 36  YDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL 95
           YDIT   +F ++  W+     +  S+    + LV NK D+ H R V  E     A+   L
Sbjct: 83  YDITKKSTFENVERWLKELRDHADSNIV--IMLVGNKSDLRHLRAVPTEEAKAFAEKNGL 140

Query: 96  HSFAVSARTGDN 107
                SA  G N
Sbjct: 141 SFIETSALDGTN 152

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

 Score = 51.6 bits (124), Expect = 6e-09
 Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+++  W+    ++R +S      LV NK D+  ++VV      + A 
Sbjct: 78  IIIVYDVTDQESFNNVKQWLQ--EIDRYASENVNKLLVGNKCDLTDKKVVDYTEAKEFAD 135

Query: 92  SLHLHSFAVSARTGDN 107
            L +     SA+   N
Sbjct: 136 ELGIPFLETSAKNATN 151

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

 Score = 51.4 bits (124), Expect = 7e-09
 Identities = 24/75 (32%), Positives = 34/75 (45%), Gaps = 1/75 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I +Y ITS +SF  I    +     +       V LV NK D+E++R V+ E    LA+ 
Sbjct: 75  ILVYSITSRESFEEIKNIREQILRVKDKEDVPIV-LVGNKCDLENERQVSTEEGEALAEE 133

Query: 93  LHLHSFAVSARTGDN 107
                   SA+T  N
Sbjct: 134 WGCPFLETSAKTNIN 148

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

 Score = 50.4 bits (121), Expect = 2e-08
 Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           VI +YD+T   +F ++ TW++       +     + LV NK D E  R VT E   K A+
Sbjct: 76  VILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKM-LVGNKIDKE-NREVTREEGQKFAR 133

Query: 92  SLHLHSFAVSARTGDN 107
             ++     SA+T   
Sbjct: 134 KHNMLFIETSAKTRIG 149

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

 Score = 49.7 bits (119), Expect = 3e-08
 Identities = 28/77 (36%), Positives = 41/77 (53%), Gaps = 4/77 (5%)

Query: 32  VIFMYDITSGQSFHSIPTWV-DLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
            + +YDITS +SF+++  W+ D   L   +S    + LV NK D+E  R VT    ++ A
Sbjct: 76  ALLVYDITSRESFNALTNWLTDARTL---ASPDIVIILVGNKKDLEDDREVTFLEASRFA 132

Query: 91  QSLHLHSFAVSARTGDN 107
           Q   L     SA TG+N
Sbjct: 133 QENGLLFLETSALTGEN 149

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

 Score = 49.7 bits (119), Expect = 4e-08
 Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 3/79 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLF--HLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAK 88
           V+ +YD+T  QSF ++ +W+           +     V + ANK D+   R V+ +    
Sbjct: 76  VLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRL 135

Query: 89  LAQSLHLHSFAVSARTGDN 107
            A+S     F  SA TG+ 
Sbjct: 136 WAESKGFKYFETSACTGEG 154

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|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score = 49.7 bits (119), Expect = 4e-08
 Identities = 24/89 (26%), Positives = 47/89 (52%), Gaps = 7/89 (7%)

Query: 27  SCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERH 86
           + G +++  YDIT  ++F+ + +W++     + S++   + L+ NK D+E +R V+ E  
Sbjct: 77  AAGALLV--YDITRRETFNHLTSWLE--DARQHSNSNMTIMLIGNKCDLESRREVSYEEG 132

Query: 87  AKLAQSLHLHSFAVSARTGDN---CWVNT 112
              A+   L     SA+T  N    ++NT
Sbjct: 133 EAFAREHGLIFMETSAKTASNVEEAFINT 161

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

 Score = 49.5 bits (119), Expect = 4e-08
 Identities = 23/72 (31%), Positives = 35/72 (48%), Gaps = 1/72 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + +Y IT  QSF  I  + +   L  K      + LV NK D+E++RVV+ E   +LA+ 
Sbjct: 78  LLVYSITDRQSFEEIAKFREQI-LRVKDRDDVPIVLVGNKCDLENERVVSTEEGKELARQ 136

Query: 93  LHLHSFAVSART 104
                   SA+ 
Sbjct: 137 WGCPFLETSAKE 148

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

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

 Score = 48.7 bits (117), Expect = 7e-08
 Identities = 23/72 (31%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + +Y IT  QSF  I  + +   L  K      + LV NK D+E +RVV+ E   +LA+ 
Sbjct: 76  LLVYSITDRQSFEEIKKFREQI-LRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQ 134

Query: 93  LHLHSFAVSART 104
                   SA+ 
Sbjct: 135 WGCPFLETSAKE 146

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

 Score = 48.3 bits (115), Expect = 1e-07
 Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT   +++ + +W  L      ++  T + L+ NK D+E QR VT E   + A 
Sbjct: 78  ALMVYDITRRSTYNHLSSW--LTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFAD 135

Query: 92  SLHLHSFAVSARTGDN 107
              L     SA+TG+N
Sbjct: 136 ENGLLFLECSAKTGEN 151

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

 Score = 46.8 bits (111), Expect = 5e-07
 Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           ++ +YD+T+  SF +I  W  L  +   + +   + L+ NK DM  +RVV  E   +LA+
Sbjct: 77  LLLLYDVTNKSSFDNIRAW--LTEILEYAQSDVVIMLLGNKADMSGERVVKREDGERLAK 134

Query: 92  SLHLHSFAVSARTGDN 107
              +     SA+TG N
Sbjct: 135 EYGVPFMETSAKTGLN 150

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

 Score = 46.3 bits (110), Expect = 7e-07
 Identities = 25/74 (33%), Positives = 40/74 (54%), Gaps = 5/74 (6%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVA--LVANKGDMEHQRVVTLERHAKL 89
           V+F+YD+T+  SFHS+P+W++      + S P  V   LV NK D+  Q  V  +   + 
Sbjct: 79  VVFVYDVTNMASFHSLPSWIEEC---EQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRF 135

Query: 90  AQSLHLHSFAVSAR 103
           A +  +  F  SA+
Sbjct: 136 ADAHSMPLFETSAK 149

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|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 = 46.0 bits (109), Expect = 9e-07
 Identities = 25/76 (32%), Positives = 34/76 (44%), Gaps = 3/76 (3%)

Query: 28  CGKIVIFMYDITSGQSFHSIPTWVDL-FHLNRKSSTPTYVALVANKGDMEHQRVVTLERH 86
           CG+  I  Y +T   SF     + +L   +      P  + LV NK D+E QR VT E  
Sbjct: 73  CGEGFIICYSVTDRHSFQEASEFKELITRVRLTEDIP--LVLVGNKVDLEQQRQVTTEEG 130

Query: 87  AKLAQSLHLHSFAVSA 102
             LA+  +   F  SA
Sbjct: 131 RNLAREFNCPFFETSA 146

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

 Score = 45.5 bits (108), Expect = 1e-06
 Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 2/61 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I  YDIT   SF S+P W++   + +  ++   + L+ NK D+E QR V  E    LA+
Sbjct: 79  AIIAYDITRRSSFESVPHWIE--EVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAE 136

Query: 92  S 92
            
Sbjct: 137 H 137

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

 Score = 46.0 bits (109), Expect = 1e-06
 Identities = 23/80 (28%), Positives = 40/80 (50%), Gaps = 1/80 (1%)

Query: 29  GKIVIFMYDITSGQSFHSIPTWVD-LFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA 87
           G+  I +Y ITS  +F  +  + + +  +  +S+    + +V NK D  ++R V+ E  A
Sbjct: 71  GEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGA 130

Query: 88  KLAQSLHLHSFAVSARTGDN 107
            LA+ L       SA+T  N
Sbjct: 131 ALARRLGCEFIEASAKTNVN 150

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

 Score = 44.7 bits (106), Expect = 2e-06
 Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 7/74 (9%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFH---LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKL 89
           + ++ +T   SF  +      FH   L  K      + LV NK D+EHQR V+ E   +L
Sbjct: 78  LLVFSVTDRGSFEEVDK----FHTQILRVKDRDEFPMILVGNKADLEHQRQVSREEGQEL 133

Query: 90  AQSLHLHSFAVSAR 103
           A+ L +     SA+
Sbjct: 134 ARQLKIPYIETSAK 147

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|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score = 43.8 bits (104), Expect = 5e-06
 Identities = 22/79 (27%), Positives = 42/79 (53%), Gaps = 5/79 (6%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPT---YVALVANKGDMEHQRVVTLERHAKL 89
           + +YD+T+ +SF S+ +W D F +      P    +V ++ NK D+E +R V+ ++  + 
Sbjct: 77  VLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFV-VLGNKIDLEEKRQVSTKKAQQW 135

Query: 90  AQSLH-LHSFAVSARTGDN 107
            +S   +  F  SA+   N
Sbjct: 136 CKSKGNIPYFETSAKEAIN 154

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

 Score = 43.7 bits (103), Expect = 6e-06
 Identities = 24/89 (26%), Positives = 36/89 (40%), Gaps = 3/89 (3%)

Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
           G+  I +Y + + Q+F  I    D   +  K      + LV NK D+E +R V+      
Sbjct: 73  GQGFIVVYSLVNQQTFQDIKPMRDQI-VRVKGYEKVPIILVGNKVDLESEREVSSAEGRA 131

Query: 89  LAQSLHLHSFAVSARTGDNCWVNTRTPEI 117
           LA+         SA+      VN    EI
Sbjct: 132 LAEEWGCPFMETSAK--SKTMVNELFAEI 158

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

 Score = 43.7 bits (103), Expect = 7e-06
 Identities = 24/76 (31%), Positives = 36/76 (47%), Gaps = 3/76 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           VI +YD+T+G+SF ++  W+     N          LV NK D   ++VV  E   K A 
Sbjct: 82  VIVVYDVTNGESFVNVKRWLQEIEQNCDDVCKV---LVGNKNDDPERKVVETEDAYKFAG 138

Query: 92  SLHLHSFAVSARTGDN 107
            + +  F  SA+   N
Sbjct: 139 QMGISLFETSAKENIN 154

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

 Score = 42.8 bits (101), Expect = 9e-06
 Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 5/78 (6%)

Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDM-EHQRVVTLERHAKL 89
           +++ + D T  +S         L  L R       + LV NK D+ E + V  L R  +L
Sbjct: 78  LILLVVDSTDRESEEDA----KLLILRRLRKEGIPIILVGNKIDLLEEREVEELLRLEEL 133

Query: 90  AQSLHLHSFAVSARTGDN 107
           A+ L +  F VSA+TG+ 
Sbjct: 134 AKILGVPVFEVSAKTGEG 151

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

 Score = 42.9 bits (101), Expect = 1e-05
 Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 3/78 (3%)

Query: 31  IVIFMYDITSGQSFHSIPTWVD-LFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKL 89
           +V  +YD+T+  SF++   W++ +   +    TP    LV NK D+  +R V   +   L
Sbjct: 79  VVCVVYDVTNEVSFNNCSRWINRVRTHSHGLHTPGV--LVGNKCDLTDRREVDAAQAQAL 136

Query: 90  AQSLHLHSFAVSARTGDN 107
           AQ+  L  +  SA+ G  
Sbjct: 137 AQANTLKFYETSAKEGVG 154

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

 Score = 42.6 bits (101), Expect = 1e-05
 Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 5/77 (6%)

Query: 33  IFMYDITSGQSFHSIPTWVD--LFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           I +Y +TS +SF  +    D  L  L  K S P  + LV NK D+  +R V+ E   KLA
Sbjct: 77  ILVYSVTSRKSFEVVKVIYDKILDMLG-KESVP--IVLVGNKSDLHMERQVSAEEGKKLA 133

Query: 91  QSLHLHSFAVSARTGDN 107
           +S        SA+  +N
Sbjct: 134 ESWGAAFLESSAKENEN 150

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

 Score = 43.1 bits (101), Expect = 1e-05
 Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 3/78 (3%)

Query: 30  KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKL 89
           K +I +YDIT  ++F  +P W+ +  +++ +S    + LV NK D E  R +T ++  K 
Sbjct: 74  KGIILVYDITKKETFDDLPKWMKM--IDKYASEDAELLLVGNKLDCETDREITRQQGEKF 131

Query: 90  AQSLHLHSFAVSARTGDN 107
           AQ +    F   A   DN
Sbjct: 132 AQQITGMRFC-EASAKDN 148

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 42.2 bits (99), Expect = 2e-05
 Identities = 21/76 (27%), Positives = 40/76 (52%), Gaps = 4/76 (5%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVTLERHAKLAQ 91
           + +YDIT  ++F+ + +W++     R+ +     + L+ NK D+ H+R V+ E   + A+
Sbjct: 83  LLVYDITRRETFNHLASWLED---ARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAK 139

Query: 92  SLHLHSFAVSARTGDN 107
              L     SA+T  N
Sbjct: 140 EHGLIFMEASAKTAQN 155

Length = 210

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

 Score = 40.9 bits (95), Expect = 7e-05
 Identities = 27/75 (36%), Positives = 37/75 (49%), Gaps = 2/75 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I +YDIT+ QSF +   W+    LN +      +ALV NK D+   R VT E   + AQ 
Sbjct: 57  IVVYDITNRQSFENTTKWIQDI-LNERGKD-VIIALVGNKTDLGDLRKVTYEEGMQKAQE 114

Query: 93  LHLHSFAVSARTGDN 107
            +      SA+ G N
Sbjct: 115 YNTMFHETSAKAGHN 129

Length = 176

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

 Score = 40.5 bits (95), Expect = 7e-05
 Identities = 22/75 (29%), Positives = 32/75 (42%), Gaps = 3/75 (4%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I ++  T  +SF +I +W +          P    LV  K D+  Q V+T E    LA+ 
Sbjct: 79  ILVFSTTDRESFEAIESWKEKVE-AECGDIPM--VLVQTKIDLLDQAVITNEEAEALAKR 135

Query: 93  LHLHSFAVSARTGDN 107
           L L  F  S +   N
Sbjct: 136 LQLPLFRTSVKDDFN 150

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

 Score = 39.1 bits (91), Expect = 2e-04
 Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I  YDIT  +SF  +P W  L  + + ++      LV NK D+  +R V+ +R  + + 
Sbjct: 83  LILTYDITCEESFRCLPEW--LREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSD 140

Query: 92  SLHLHSFAVSARTGDN 107
           +  ++    SA+  DN
Sbjct: 141 AQDMYYLETSAKESDN 156

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 39.3 bits (91), Expect = 3e-04
 Identities = 24/80 (30%), Positives = 39/80 (48%), Gaps = 8/80 (10%)

Query: 32  VIFMYDITSGQSFHSIP-TW---VDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA 87
           +I +YD+T  ++F ++   W   V+L+  N+         LV NK D E +R V+ E   
Sbjct: 89  IILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVK----MLVGNKVDRESERDVSREEGM 144

Query: 88  KLAQSLHLHSFAVSARTGDN 107
            LA+         SA+T +N
Sbjct: 145 ALAKEHGCLFLECSAKTREN 164

Length = 211

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

 Score = 38.3 bits (89), Expect = 5e-04
 Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 5/81 (6%)

Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFH--LNRKSSTPTYVALVANKGDMEHQRVVTLERH 86
           G+  + +Y IT+  +F+ +    DL    L  K +    + LV NK D+E +RVV  E+ 
Sbjct: 73  GQGFVLVYSITAQSTFNDLQ---DLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQG 129

Query: 87  AKLAQSLHLHSFAVSARTGDN 107
             LA+         SA+   N
Sbjct: 130 QNLARQWGCAFLETSAKAKIN 150

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|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score = 36.8 bits (85), Expect = 0.002
 Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 3/76 (3%)

Query: 29  GKIVIFMYDITSGQSFHSIPTWVD-LFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA 87
           G+  + +Y ITS  SF  I ++ + +  +  K   P  + LV NK D++ +R V+     
Sbjct: 77  GQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVP--MILVGNKCDLDSERQVSTGEGQ 134

Query: 88  KLAQSLHLHSFAVSAR 103
           +LA+S  +     SA+
Sbjct: 135 ELAKSFGIPFLETSAK 150

Length = 189

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

 Score = 36.2 bits (84), Expect = 0.002
 Identities = 21/77 (27%), Positives = 41/77 (53%), Gaps = 3/77 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVD-LFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
            + ++ IT  +SF ++  + + +  +    + P  + LV NK D+E +R V++E  A LA
Sbjct: 75  FLLVFSITDMESFTALAEFREQILRVKEDDNVP--LLLVGNKCDLEDKRQVSVEEAANLA 132

Query: 91  QSLHLHSFAVSARTGDN 107
           +   ++    SA+T  N
Sbjct: 133 EQWGVNYVETSAKTRAN 149

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 36.4 bits (84), Expect = 0.003
 Identities = 22/75 (29%), Positives = 33/75 (44%), Gaps = 2/75 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + +YDIT  Q+F ++  W  L  L   + +   + +  NK D+ H R V  E    LA+ 
Sbjct: 89  LLVYDITKRQTFDNVQRW--LRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEK 146

Query: 93  LHLHSFAVSARTGDN 107
             L     SA    N
Sbjct: 147 EGLSFLETSALEATN 161

Length = 216

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

 Score = 35.7 bits (82), Expect = 0.004
 Identities = 26/76 (34%), Positives = 38/76 (50%), Gaps = 3/76 (3%)

Query: 33  IFM-YDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           IF+ YDI+S +S+  I  WV    ++  +       L+ NK D E +R V  E+  KLA+
Sbjct: 76  IFLVYDISSERSYQHIMKWVS--DVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAK 133

Query: 92  SLHLHSFAVSARTGDN 107
              +  F  SA T  N
Sbjct: 134 EYGMDFFETSACTNKN 149

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	158
KOG0078|consensus	207		99.94
KOG0084|consensus	205		99.94
KOG0093|consensus	193		99.93
KOG0098|consensus	216		99.93
KOG0087|consensus	222		99.92
KOG0088|consensus	218		99.92
KOG0092|consensus	200		99.92
KOG0091|consensus	213		99.92
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.91
KOG0086|consensus	214		99.91
KOG0081|consensus	219		99.9
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.89
KOG0094|consensus	221		99.88
KOG0097|consensus	215		99.88
KOG0079|consensus	198		99.88
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.87
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.87
KOG0394|consensus	210		99.87
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.87
KOG0080|consensus	209		99.87
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.87
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.87
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.86
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.86
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.86
PLN03110	216	Rab GTPase; Provisional	99.86
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.85
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.85
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.85
PLN03108	210	Rab family protein; Provisional	99.85
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.85
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.85
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.84
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.84
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.84
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.84
KOG0395|consensus	196		99.84
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.84
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.84
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.83
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.83
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.83
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.83
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.82
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.82
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.82
KOG0095|consensus	213		99.82
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.82
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.82
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.82
PTZ00369	189	Ras-like protein; Provisional	99.82
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.82
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.82
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.82
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.81
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.81
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.81
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.81
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.81
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.81
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.8
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.8
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.8
KOG0083|consensus	192		99.8
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.8
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.79
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.79
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.79
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.79
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.79
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.78
PTZ00099	176	rab6; Provisional	99.78
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.78
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.78
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.78
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.78
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.78
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.77
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.77
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.77
PLN03118	211	Rab family protein; Provisional	99.77
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.77
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.76
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.76
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.76
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.76
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.75
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.75
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.75
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.75
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.74
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.74
KOG4252|consensus	246		99.73
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.73
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.72
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.71
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.71
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.7
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.7
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.68
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.68
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.68
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.68
KOG0393|consensus	198		99.67
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.66
PLN00223	181	ADP-ribosylation factor; Provisional	99.66
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.66
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.65
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.65
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.64
PTZ00133	182	ADP-ribosylation factor; Provisional	99.64
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.63
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.61
PRK12299	335	obgE GTPase CgtA; Reviewed	99.61
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.6
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.58
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.57
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.57
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.57
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.56
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.55
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.55
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.54
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.53
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.52
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.51
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.48
KOG3883|consensus	198		99.48
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.47
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.47
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.44
KOG1673|consensus	205		99.44
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.44
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.43
PRK12297	424	obgE GTPase CgtA; Reviewed	99.42
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.38
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.38
PLN00023	334	GTP-binding protein; Provisional	99.37
PRK03003	472	GTP-binding protein Der; Reviewed	99.35
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.32
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.32
KOG4423|consensus	229		99.32
PRK04213	201	GTP-binding protein; Provisional	99.31
KOG1707|consensus	625		99.3
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.3
PRK12296	500	obgE GTPase CgtA; Reviewed	99.29
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.29
COG1100	219	GTPase SAR1 and related small G proteins [General	99.28
PRK12298	390	obgE GTPase CgtA; Reviewed	99.26
PRK15494	339	era GTPase Era; Provisional	99.26
KOG0073|consensus	185		99.24
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.24
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.24
PRK11058	426	GTPase HflX; Provisional	99.24
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.24
KOG0096|consensus	216		99.22
PRK03003	472	GTP-binding protein Der; Reviewed	99.21
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.2
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.19
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.19
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.19
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.16
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.13
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.13
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.1
PRK00089	292	era GTPase Era; Reviewed	99.09
KOG0070|consensus	181		99.09
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.08
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.06
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.06
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.04
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.04
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.03
cd00881	189	GTP_translation_factor GTP translation factor fami	99.03
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.03
PRK00093	435	GTP-binding protein Der; Reviewed	99.03
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.02
COG1160	444	Predicted GTPases [General function prediction onl	99.01
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.0
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	98.99
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.99
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.98
KOG0075|consensus	186		98.97
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.96
PRK12288	347	GTPase RsgA; Reviewed	98.95
PRK00093	435	GTP-binding protein Der; Reviewed	98.94
KOG1489|consensus	366		98.91
COG0536	369	Obg Predicted GTPase [General function prediction	98.91
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.89
PRK00098	298	GTPase RsgA; Reviewed	98.89
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.87
PRK12289	352	GTPase RsgA; Reviewed	98.87
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	98.86
KOG0076|consensus	197		98.85
COG0486	454	ThdF Predicted GTPase [General function prediction	98.84
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.83
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.83
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	98.82
COG1160	444	Predicted GTPases [General function prediction onl	98.82
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.81
COG1159	298	Era GTPase [General function prediction only]	98.81
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	98.8
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.78
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	98.78
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.78
KOG1423|consensus	379		98.78
KOG0071|consensus	180		98.75
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.75
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	98.74
PRK05433	600	GTP-binding protein LepA; Provisional	98.71
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.67
COG2262	411	HflX GTPases [General function prediction only]	98.66
CHL00189	742	infB translation initiation factor 2; Provisional	98.65
PRK05306	787	infB translation initiation factor IF-2; Validated	98.63
COG0218	200	Predicted GTPase [General function prediction only	98.61
COG2229	187	Predicted GTPase [General function prediction only	98.59
KOG0072|consensus	182		98.58
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	98.55
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.54
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	98.53
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	98.49
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.46
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	98.46
PRK12317	425	elongation factor 1-alpha; Reviewed	98.45
PRK04000	411	translation initiation factor IF-2 subunit gamma;	98.44
KOG3905|consensus	473		98.4
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.4
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.4
KOG0074|consensus	185		98.33
COG1084	346	Predicted GTPase [General function prediction only	98.31
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.3
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.29
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.29
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.29
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.27
PRK13796	365	GTPase YqeH; Provisional	98.26
KOG0462|consensus	650		98.23
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	98.21
PRK10218	607	GTP-binding protein; Provisional	98.2
KOG1490|consensus	620		98.19
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	98.18
KOG0077|consensus	193		98.17
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.16
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.15
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.15
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	98.13
PRK01889	356	GTPase RsgA; Reviewed	98.11
cd04105	203	SR_beta Signal recognition particle receptor, beta	98.1
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	98.1
PRK09866	741	hypothetical protein; Provisional	98.08
KOG1191|consensus	531		98.06
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	98.04
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	98.02
KOG1707|consensus	625		98.02
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	98.01
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	98.0
COG1163	365	DRG Predicted GTPase [General function prediction	97.98
PRK14845	1049	translation initiation factor IF-2; Provisional	97.95
PRK12735	396	elongation factor Tu; Reviewed	97.94
TIGR00485	394	EF-Tu translation elongation factor TU. This align	97.94
KOG0705|consensus	749		97.94
PRK13351	687	elongation factor G; Reviewed	97.92
PRK12736	394	elongation factor Tu; Reviewed	97.91
PRK13768	253	GTPase; Provisional	97.91
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	97.9
PRK04004	586	translation initiation factor IF-2; Validated	97.86
COG1162	301	Predicted GTPases [General function prediction onl	97.86
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	97.84
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	97.78
KOG1532|consensus	366		97.77
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	97.75
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	97.71
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	97.7
PRK00741	526	prfC peptide chain release factor 3; Provisional	97.69
PLN00043	447	elongation factor 1-alpha; Provisional	97.66
CHL00071	409	tufA elongation factor Tu	97.65
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.56
KOG1145|consensus	683		97.55
PF09439	181	SRPRB: Signal recognition particle receptor beta s	97.54
PRK00049	396	elongation factor Tu; Reviewed	97.46
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	97.45
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	97.44
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	97.4
PRK09435	332	membrane ATPase/protein kinase; Provisional	97.35
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	97.32
PLN03127	447	Elongation factor Tu; Provisional	97.32
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	97.29
PLN03126	478	Elongation factor Tu; Provisional	97.26
TIGR00503	527	prfC peptide chain release factor 3. This translat	97.25
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	97.19
PRK12739	691	elongation factor G; Reviewed	97.18
KOG0090|consensus	238		97.16
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	97.15
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.13
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	97.08
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.01
PRK00007	693	elongation factor G; Reviewed	97.0
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	96.96
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	96.95
PRK12740	668	elongation factor G; Reviewed	96.95
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	96.86
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	96.85
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	96.83
PTZ00141	446	elongation factor 1- alpha; Provisional	96.76
KOG3886|consensus	295		96.68
COG3596	296	Predicted GTPase [General function prediction only	96.66
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.56
KOG1486|consensus	364		96.52
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	96.5
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	96.49
KOG0461|consensus	522		96.41
KOG1144|consensus	1064		96.12
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	95.96
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	95.94
KOG1143|consensus	591		95.92
COG1161	322	Predicted GTPases [General function prediction onl	95.86
KOG2486|consensus	320		95.81
PTZ00258	390	GTP-binding protein; Provisional	95.76
COG3276	447	SelB Selenocysteine-specific translation elongatio	95.59
COG1217	603	TypA Predicted membrane GTPase involved in stress	95.51
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	95.48
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	95.31
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.27
KOG0410|consensus	410		95.11
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	95.02
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	94.86
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	94.77
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	94.53
KOG2423|consensus	572		94.23
PRK09602	396	translation-associated GTPase; Reviewed	94.16
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	93.88
KOG1424|consensus	562		93.38
KOG0466|consensus	466		93.27
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	92.84
KOG0780|consensus	483		92.72
KOG0458|consensus	603		92.53
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	92.43
cd03110	179	Fer4_NifH_child This protein family's function is	92.1
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	92.04
PRK14974	336	cell division protein FtsY; Provisional	92.03
PRK10416	318	signal recognition particle-docking protein FtsY;	91.9
PRK07560	731	elongation factor EF-2; Reviewed	91.75
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	91.36
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	91.19
KOG0463|consensus	641		91.07
PF09419	168	PGP_phosphatase: Mitochondrial PGP phosphatase; In	90.9
COG5258	527	GTPBP1 GTPase [General function prediction only]	90.71
KOG4273|consensus	418		90.66
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	90.28
KOG1547|consensus	336		89.57
KOG0082|consensus	354		89.43
PLN00116	843	translation elongation factor EF-2 subunit; Provis	89.42
KOG0468|consensus	971		89.29
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	89.25
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	89.19
KOG0447|consensus	980		89.18
COG1149	284	MinD superfamily P-loop ATPase containing an inser	89.07
KOG2484|consensus	435		88.75
PTZ00416	836	elongation factor 2; Provisional	88.27
KOG3887|consensus	347		87.92
KOG1954|consensus	532		87.87
KOG1970|consensus	634		86.96
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	86.85
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	85.83
KOG0448|consensus	749		84.62
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	84.45
COG0050	394	TufB GTPases - translation elongation factors [Tra	83.77
PF00004	132	AAA: ATPase family associated with various cellula	83.54
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	82.73
COG5019	373	CDC3 Septin family protein [Cell division and chro	82.47
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	82.27

>KOG0078|consensus

Probab=99.94  E-value=2.1e-26  Score=164.52  Aligned_cols=113  Identities=30%  Similarity=0.480  Sum_probs=106.4

Q ss_pred             cCCCCcceEEEEEEECCCCCCeE---------------------------------------------------------
Q psy2600           9 LHNDNYEIQLKVVLLGDPSCGKI---------------------------------------------------------   31 (158)
Q Consensus         9 ~~~~~~~~~~ki~~~G~~~vgk~---------------------------------------------------------   31 (158)
                      +..+.+++++|++++|+++|||+                                                         
T Consensus         4 ~~~~~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyr   83 (207)
T KOG0078|consen    4 MAKEDYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYR   83 (207)
T ss_pred             cccCCcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHh
Confidence            34458999999999999999999                                                         


Q ss_pred             ----EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          32 ----VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        32 ----~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                          +++|||+++..||+.+..|+..+.++.++.  +|++|||||+|+...++++.+.++++|..+|+.|+||||++|.|
T Consensus        84 gA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~--v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~N  161 (207)
T KOG0078|consen   84 GAMGILLVYDITNEKSFENIRNWIKNIDEHASDD--VVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFN  161 (207)
T ss_pred             hcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCC--CcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCC
Confidence                999999999999999999999999888765  99999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhH
Q psy2600         108 CWVNTRTPEINPLKYL  123 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~  123 (158)
                      |.+.|..|++.+..+.
T Consensus       162 I~eaF~~La~~i~~k~  177 (207)
T KOG0078|consen  162 IEEAFLSLARDILQKL  177 (207)
T ss_pred             HHHHHHHHHHHHHhhc
Confidence            9999999999998754

>KOG0084|consensus

Probab=99.94  E-value=2.9e-26  Score=162.02  Aligned_cols=113  Identities=28%  Similarity=0.427  Sum_probs=106.6

Q ss_pred             CCCcceEEEEEEECCCCCCeE-----------------------------------------------------------
Q psy2600          11 NDNYEIQLKVVLLGDPSCGKI-----------------------------------------------------------   31 (158)
Q Consensus        11 ~~~~~~~~ki~~~G~~~vgk~-----------------------------------------------------------   31 (158)
                      .++++|++|++++|+.+|||+                                                           
T Consensus         3 ~~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~a   82 (205)
T KOG0084|consen    3 NPEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGA   82 (205)
T ss_pred             CcccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCC
Confidence            468999999999999999999                                                           


Q ss_pred             --EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCe-EEEEeCCCCCCH
Q psy2600          32 --VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLH-SFAVSARTGDNC  108 (158)
Q Consensus        32 --~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~i  108 (158)
                        +|+|||+|+..||+.+..|+.++..+..++  +|.++||||||+...+.++.++++.++..++++ |+||||+++.||
T Consensus        83 hGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~--v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NV  160 (205)
T KOG0084|consen   83 HGIIFVYDITKQESFNNVKRWIQEIDRYASEN--VPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNV  160 (205)
T ss_pred             CeEEEEEEcccHHHhhhHHHHHHHhhhhccCC--CCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCH
Confidence              999999999999999999999999888776  999999999999999999999999999999999 999999999999


Q ss_pred             HHHHHHHHHHHHHhHhh
Q psy2600         109 WVNTRTPEINPLKYLQS  125 (158)
Q Consensus       109 ~~lf~~l~~~~~~~~~~  125 (158)
                      ++.|..+...+.++...
T Consensus       161 e~~F~~la~~lk~~~~~  177 (205)
T KOG0084|consen  161 EDAFLTLAKELKQRKGL  177 (205)
T ss_pred             HHHHHHHHHHHHHhccc
Confidence            99999999999887543

>KOG0093|consensus

Probab=99.93  E-value=1.1e-25  Score=152.43  Aligned_cols=117  Identities=29%  Similarity=0.424  Sum_probs=108.6

Q ss_pred             cCCCCcceEEEEEEECCCCCCeE---------------------------------------------------------
Q psy2600           9 LHNDNYEIQLKVVLLGDPSCGKI---------------------------------------------------------   31 (158)
Q Consensus         9 ~~~~~~~~~~ki~~~G~~~vgk~---------------------------------------------------------   31 (158)
                      ..+.+++|.+|+.++|+..+||+                                                         
T Consensus        13 s~dqnFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyR   92 (193)
T KOG0093|consen   13 SIDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYR   92 (193)
T ss_pred             cccccccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhh
Confidence            34569999999999999999998                                                         


Q ss_pred             ----EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          32 ----VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        32 ----~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                          +|++||+++.+||..+..|.-.++.+.-.+  .|+|+|+||||+..++.++.+.++.+++++|.+|||+||+.|.|
T Consensus        93 gamgfiLmyDitNeeSf~svqdw~tqIktysw~n--aqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~Nin  170 (193)
T KOG0093|consen   93 GAMGFILMYDITNEESFNSVQDWITQIKTYSWDN--AQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENIN  170 (193)
T ss_pred             ccceEEEEEecCCHHHHHHHHHHHHHheeeeccC--ceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhccccccc
Confidence                999999999999999999999999777666  99999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhHhhcc
Q psy2600         108 CWVNTRTPEINPLKYLQSNN  127 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~~~~~  127 (158)
                      |+++|..++..+.+.+.++.
T Consensus       171 Vk~~Fe~lv~~Ic~kmsesl  190 (193)
T KOG0093|consen  171 VKQVFERLVDIICDKMSESL  190 (193)
T ss_pred             HHHHHHHHHHHHHHHhhhhh
Confidence            99999999999988765543

>KOG0098|consensus

Probab=99.93  E-value=2.2e-25  Score=156.23  Aligned_cols=114  Identities=25%  Similarity=0.399  Sum_probs=106.2

Q ss_pred             CcceEEEEEEECCCCCCeE-------------------------------------------------------------
Q psy2600          13 NYEIQLKVVLLGDPSCGKI-------------------------------------------------------------   31 (158)
Q Consensus        13 ~~~~~~ki~~~G~~~vgk~-------------------------------------------------------------   31 (158)
                      .+++.+|++++|+.+|||+                                                             
T Consensus         2 ~~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~G   81 (216)
T KOG0098|consen    2 SYAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAG   81 (216)
T ss_pred             CccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcc
Confidence            4789999999999999998                                                             


Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++.++||..+..|+.+++++..++  +.++|+||||||...++++.++++.||+++|+.|+++||+++.||+|+
T Consensus        82 alLVydit~r~sF~hL~~wL~D~rq~~~~N--mvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEa  159 (216)
T KOG0098|consen   82 ALLVYDITRRESFNHLTSWLEDARQHSNEN--MVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEA  159 (216)
T ss_pred             eEEEEEccchhhHHHHHHHHHHHHHhcCCC--cEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHH
Confidence            999999999999999999999999887666  999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhHhhccc
Q psy2600         112 TRTPEINPLKYLQSNNE  128 (158)
Q Consensus       112 f~~l~~~~~~~~~~~~~  128 (158)
                      |......+....+....
T Consensus       160 F~nta~~Iy~~~q~g~~  176 (216)
T KOG0098|consen  160 FINTAKEIYRKIQDGVF  176 (216)
T ss_pred             HHHHHHHHHHHHHhccc
Confidence            99999999887655444

>KOG0087|consensus

Probab=99.92  E-value=1.2e-24  Score=155.21  Aligned_cols=112  Identities=28%  Similarity=0.435  Sum_probs=105.0

Q ss_pred             CCCcceEEEEEEECCCCCCeE-----------------------------------------------------------
Q psy2600          11 NDNYEIQLKVVLLGDPSCGKI-----------------------------------------------------------   31 (158)
Q Consensus        11 ~~~~~~~~ki~~~G~~~vgk~-----------------------------------------------------------   31 (158)
                      +.+++|.+|++++|+++|||+                                                           
T Consensus         8 ~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgA   87 (222)
T KOG0087|consen    8 SEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGA   87 (222)
T ss_pred             ccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhccc
Confidence            368999999999999999998                                                           


Q ss_pred             --EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          32 --VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 --~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                        +++|||+|...+|+.+..|+.+++.+...+  +++++||||+||.+.+.+..+++..+++..++.|+|+||.++.||+
T Consensus        88 vGAllVYDITr~~Tfenv~rWL~ELRdhad~n--ivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe  165 (222)
T KOG0087|consen   88 VGALLVYDITRRQTFENVERWLKELRDHADSN--IVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVE  165 (222)
T ss_pred             ceeEEEEechhHHHHHHHHHHHHHHHhcCCCC--eEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHH
Confidence              999999999999999999999999777666  9999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhHh
Q psy2600         110 VNTRTPEINPLKYLQ  124 (158)
Q Consensus       110 ~lf~~l~~~~~~~~~  124 (158)
                      ++|..++..+.....
T Consensus       166 ~aF~~~l~~I~~~vs  180 (222)
T KOG0087|consen  166 KAFERVLTEIYKIVS  180 (222)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999998877643

>KOG0088|consensus

Probab=99.92  E-value=2.1e-24  Score=147.95  Aligned_cols=115  Identities=25%  Similarity=0.330  Sum_probs=105.1

Q ss_pred             cccCCCCcceEEEEEEECCCCCCeE-------------------------------------------------------
Q psy2600           7 LNLHNDNYEIQLKVVLLGDPSCGKI-------------------------------------------------------   31 (158)
Q Consensus         7 ~~~~~~~~~~~~ki~~~G~~~vgk~-------------------------------------------------------   31 (158)
                      ...+.....+.||++++|..+|||+                                                       
T Consensus         3 ~~~~~~g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIY   82 (218)
T KOG0088|consen    3 LETNVDGKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIY   82 (218)
T ss_pred             ccccccCCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceE
Confidence            3455667889999999999999998                                                       


Q ss_pred             ------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCC
Q psy2600          32 ------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  105 (158)
                            +++|||+||++||+...+|+.+++......  +-+++||||+||..++.++.++++.+++.-|..|+++||+.+
T Consensus        83 YRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGne--i~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N  160 (218)
T KOG0088|consen   83 YRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNE--IELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDN  160 (218)
T ss_pred             EeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCe--eEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccc
Confidence                  999999999999999999999999655554  899999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHhH
Q psy2600         106 DNCWVNTRTPEINPLKYL  123 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~~  123 (158)
                      .||.++|..+.....+..
T Consensus       161 ~Gi~elFe~Lt~~MiE~~  178 (218)
T KOG0088|consen  161 VGISELFESLTAKMIEHS  178 (218)
T ss_pred             cCHHHHHHHHHHHHHHHh
Confidence            999999999998777654

>KOG0092|consensus

Probab=99.92  E-value=2.3e-24  Score=151.83  Aligned_cols=92  Identities=29%  Similarity=0.348  Sum_probs=85.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||+|+.+||..+..|+.++.+..+.+  +-+.|||||+||...+.+..+++..+++..|+.|||+||+++.||+++
T Consensus        81 AivvYDit~~~SF~~aK~WvkeL~~~~~~~--~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~i  158 (200)
T KOG0092|consen   81 AIVVYDITDEESFEKAKNWVKELQRQASPN--IVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEI  158 (200)
T ss_pred             EEEEEecccHHHHHHHHHHHHHHHhhCCCC--eEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHH
Confidence            999999999999999999999999777655  889999999999988999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhHhh
Q psy2600         112 TRTPEINPLKYLQS  125 (158)
Q Consensus       112 f~~l~~~~~~~~~~  125 (158)
                      |..|.+.++.....
T Consensus       159 f~~Ia~~lp~~~~~  172 (200)
T KOG0092|consen  159 FQAIAEKLPCSDPQ  172 (200)
T ss_pred             HHHHHHhccCcccc
Confidence            99999999876433

>KOG0091|consensus

Probab=99.92  E-value=1.6e-23  Score=144.19  Aligned_cols=114  Identities=28%  Similarity=0.428  Sum_probs=103.3

Q ss_pred             CCcceEEEEEEECCCCCCeE------------------------------------------------------------
Q psy2600          12 DNYEIQLKVVLLGDPSCGKI------------------------------------------------------------   31 (158)
Q Consensus        12 ~~~~~~~ki~~~G~~~vgk~------------------------------------------------------------   31 (158)
                      +-+.|+++++++|+..|||+                                                            
T Consensus         3 pif~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrns   82 (213)
T KOG0091|consen    3 PIFHYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNS   82 (213)
T ss_pred             cceEEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcc
Confidence            46789999999999999998                                                            


Q ss_pred             --EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          32 --VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 --~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                        +++|||+++++||+.+.+|+.+...+...-..+-+.+||.|+||...++++.++++.+++++|..|+||||++|.||+
T Consensus        83 vgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVe  162 (213)
T KOG0091|consen   83 VGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVE  162 (213)
T ss_pred             cceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHH
Confidence              999999999999999999999998555411126789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhHhh
Q psy2600         110 VNTRTPEINPLKYLQS  125 (158)
Q Consensus       110 ~lf~~l~~~~~~~~~~  125 (158)
                      +.|+.+.+.+......
T Consensus       163 EAF~mlaqeIf~~i~q  178 (213)
T KOG0091|consen  163 EAFDMLAQEIFQAIQQ  178 (213)
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            9999999999887654

>cd04121 Rab40 Rab40 subfamily

Probab=99.91  E-value=1.1e-23  Score=152.14  Aligned_cols=90  Identities=23%  Similarity=0.232  Sum_probs=81.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.||+.+..|+.++....+ .  +|++|||||+|+...+.+..++++.+++.+++.|++|||++|.||+++
T Consensus        82 illVfD~t~~~Sf~~~~~w~~~i~~~~~-~--~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~  158 (189)
T cd04121          82 IILVYDITNRWSFDGIDRWIKEIDEHAP-G--VPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITES  158 (189)
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhCC-C--CCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHH
Confidence            9999999999999999999999986543 3  999999999999877778888999999999999999999999999999


Q ss_pred             HHHHHHHHHHhHh
Q psy2600         112 TRTPEINPLKYLQ  124 (158)
Q Consensus       112 f~~l~~~~~~~~~  124 (158)
                      |+++++.+..+..
T Consensus       159 F~~l~~~i~~~~~  171 (189)
T cd04121         159 FTELARIVLMRHG  171 (189)
T ss_pred             HHHHHHHHHHhcC
Confidence            9999998876544

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

>KOG0086|consensus

Probab=99.91  E-value=1.7e-23  Score=142.79  Aligned_cols=130  Identities=25%  Similarity=0.339  Sum_probs=115.5

Q ss_pred             CCCcceEEEEEEECCCCCCeE-----------------------------------------------------------
Q psy2600          11 NDNYEIQLKVVLLGDPSCGKI-----------------------------------------------------------   31 (158)
Q Consensus        11 ~~~~~~~~ki~~~G~~~vgk~-----------------------------------------------------------   31 (158)
                      .+.|||++|++++|.++.||+                                                           
T Consensus         3 sEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGA   82 (214)
T KOG0086|consen    3 SETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGA   82 (214)
T ss_pred             chhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccc
Confidence            458999999999999999998                                                           


Q ss_pred             --EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          32 --VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 --~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                        +++|||+++++||+.+.+|+..++...+.+  +-++++|||.||...++++..++..+++...+.+.|+||++|.||+
T Consensus        83 AGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~n--IvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVE  160 (214)
T KOG0086|consen   83 AGALLVYDITSRDSFNALTNWLTDARTLASPN--IVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVE  160 (214)
T ss_pred             cceEEEEeccchhhHHHHHHHHHHHHhhCCCc--EEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHH
Confidence              999999999999999999999999777766  9999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhHhhccccccccccccccccc
Q psy2600         110 VNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTF  142 (158)
Q Consensus       110 ~lf~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  142 (158)
                      |.|-..++.+..+.+...-.+-...+|.+.|+.
T Consensus       161 EaFl~c~~tIl~kIE~GElDPer~gsGIQYGda  193 (214)
T KOG0086|consen  161 EAFLKCARTILNKIESGELDPERMGSGIQYGDA  193 (214)
T ss_pred             HHHHHHHHHHHHHHhhcCCCHHHcccccccchh
Confidence            999999999988766544444446667666643

>KOG0081|consensus

Probab=99.90  E-value=5.2e-24  Score=146.13  Aligned_cols=94  Identities=30%  Similarity=0.399  Sum_probs=85.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHh--hhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFH--LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~--~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      ++++||+|+++||-++++|+..++  .+.. +  +.++++|||+||+..++++..++.+++.++|++|||+||.+|.||+
T Consensus        94 FlLiFDlT~eqSFLnvrnWlSQL~~hAYcE-~--PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETSA~tg~Nv~  170 (219)
T KOG0081|consen   94 FLLIFDLTSEQSFLNVRNWLSQLQTHAYCE-N--PDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETSACTGTNVE  170 (219)
T ss_pred             ceEEEeccchHHHHHHHHHHHHHHHhhccC-C--CCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeeccccCcCHH
Confidence            999999999999999999999998  3433 3  7899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhHhhccc
Q psy2600         110 VNTRTPEINPLKYLQSNNE  128 (158)
Q Consensus       110 ~lf~~l~~~~~~~~~~~~~  128 (158)
                      +..+.++..+.++.+.-.+
T Consensus       171 kave~LldlvM~Rie~~v~  189 (219)
T KOG0081|consen  171 KAVELLLDLVMKRIEQCVE  189 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHh
Confidence            9999999999988765443

>cd04120 Rab12 Rab12 subfamily

Probab=99.89  E-value=5.3e-22  Score=144.67  Aligned_cols=92  Identities=26%  Similarity=0.335  Sum_probs=81.0

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh-CCeEEEEeCCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL-HLHSFAVSARTGDN  107 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~  107 (158)
                      ++++|+|||+++++||+.+..|+..+.+.....  +|+++||||+|+...+.+...+++++++.+ ++.|++|||++|.|
T Consensus        73 ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~--~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~g  150 (202)
T cd04120          73 AKGIILVYDITKKETFDDLPKWMKMIDKYASED--AELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFN  150 (202)
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCC
Confidence            456999999999999999999999888665444  999999999999877788888888998875 78899999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy2600         108 CWVNTRTPEINPLKY  122 (158)
Q Consensus       108 i~~lf~~l~~~~~~~  122 (158)
                      |+++|.++++.+...
T Consensus       151 V~e~F~~l~~~~~~~  165 (202)
T cd04120         151 VDEIFLKLVDDILKK  165 (202)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999988654

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

>KOG0094|consensus

Probab=99.88  E-value=3e-22  Score=141.56  Aligned_cols=90  Identities=26%  Similarity=0.386  Sum_probs=82.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|||++|.+||++..+|++.+...+ .++  +-++|||||.||..++++..++++..|+.++..|+++||+.|.||.+
T Consensus        98 aviVyDit~~~Sfe~t~kWi~dv~~e~gs~~--viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~  175 (221)
T KOG0094|consen   98 AVIVYDITDRNSFENTSKWIEDVRRERGSDD--VIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQ  175 (221)
T ss_pred             EEEEEeccccchHHHHHHHHHHHHhccCCCc--eEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHH
Confidence            999999999999999999999999544 334  88999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      +|..+...+....
T Consensus       176 lFrrIaa~l~~~~  188 (221)
T KOG0094|consen  176 LFRRIAAALPGME  188 (221)
T ss_pred             HHHHHHHhccCcc
Confidence            9999999887753

>KOG0097|consensus

Probab=99.88  E-value=1.1e-21  Score=132.45  Aligned_cols=147  Identities=23%  Similarity=0.292  Sum_probs=121.0

Q ss_pred             cCCCCcceEEEEEEECCCCCCeE---------------------------------------------------------
Q psy2600           9 LHNDNYEIQLKVVLLGDPSCGKI---------------------------------------------------------   31 (158)
Q Consensus         9 ~~~~~~~~~~ki~~~G~~~vgk~---------------------------------------------------------   31 (158)
                      ....+|+|.+|.+++|+.+|||+                                                         
T Consensus         3 ~~pynysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyr   82 (215)
T KOG0097|consen    3 AAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYR   82 (215)
T ss_pred             CCccchhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhc
Confidence            34568999999999999999998                                                         


Q ss_pred             ----EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          32 ----VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        32 ----~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                          +++|||++.+..+..+..|+...+....++  .-+++++||.||..++.++.+++..+++..|+.|+++||++|.|
T Consensus        83 gaagalmvyditrrstynhlsswl~dar~ltnpn--t~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~n  160 (215)
T KOG0097|consen   83 GAAGALMVYDITRRSTYNHLSSWLTDARNLTNPN--TVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQN  160 (215)
T ss_pred             cccceeEEEEehhhhhhhhHHHHHhhhhccCCCc--eEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCc
Confidence                999999999999999999999999776665  88999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhHhhccccccccccccccccccccccccCCCCCCCC
Q psy2600         108 CWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAVKRLTTGPTVPR  157 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~  157 (158)
                      |++.|-...+.+.+..+..+-......+|.+.........++...|+..|
T Consensus       161 vedafle~akkiyqniqdgsldlnaaesgvq~k~~~p~~~~l~se~~~~k  210 (215)
T KOG0097|consen  161 VEDAFLETAKKIYQNIQDGSLDLNAAESGVQHKPSQPSRTSLSSEATGAK  210 (215)
T ss_pred             HHHHHHHHHHHHHHhhhcCcccccchhccCcCCCCCCCccccccCCCCcc
Confidence            99999999999988776655544445555544333333334444444433

>KOG0079|consensus

Probab=99.88  E-value=9.6e-23  Score=138.33  Aligned_cols=89  Identities=29%  Similarity=0.404  Sum_probs=84.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||+|+.+||.....|+++++++.++   +|-++||||+|++..+.+..++++.|+...|+++||+||+++.|++.+
T Consensus        84 v~vVYDVTn~ESF~Nv~rWLeei~~ncds---v~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~m  160 (198)
T KOG0079|consen   84 VIVVYDVTNGESFNNVKRWLEEIRNNCDS---VPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAM  160 (198)
T ss_pred             EEEEEECcchhhhHhHHHHHHHHHhcCcc---ccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHH
Confidence            99999999999999999999999988875   899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhH
Q psy2600         112 TRTPEINPLKYL  123 (158)
Q Consensus       112 f~~l~~~~~~~~  123 (158)
                      |..|.+.+....
T Consensus       161 F~cit~qvl~~k  172 (198)
T KOG0079|consen  161 FHCITKQVLQAK  172 (198)
T ss_pred             HHHHHHHHHHHH
Confidence            999999887765

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.87  E-value=1.3e-21  Score=140.51  Aligned_cols=85  Identities=20%  Similarity=0.276  Sum_probs=75.4

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCC------------CccccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEH------------QRVVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~   97 (158)
                      +|+|||++++.||+.+ ..|+.++++..+.   .|++|||||+||..            .+.++.++++++++.+++ .|
T Consensus        80 ~ilvyDit~~~Sf~~~~~~w~~~i~~~~~~---~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~  156 (182)
T cd04172          80 VLICFDISRPETLDSVLKKWKGEIQEFCPN---TKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATY  156 (182)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHHCCC---CCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEE
Confidence            8999999999999997 7999999876543   89999999999853            345888999999999995 89


Q ss_pred             EEEeCCCCCC-HHHHHHHHHHHH
Q psy2600          98 FAVSARTGDN-CWVNTRTPEINP  119 (158)
Q Consensus        98 ~~~Sa~~~~~-i~~lf~~l~~~~  119 (158)
                      +||||++|.| |.++|..+++.+
T Consensus       157 ~E~SAk~~~n~v~~~F~~~~~~~  179 (182)
T cd04172         157 IECSALQSENSVRDIFHVATLAC  179 (182)
T ss_pred             EECCcCCCCCCHHHHHHHHHHHH
Confidence            9999999998 999999999854

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=99.87  E-value=1.2e-21  Score=139.95  Aligned_cols=86  Identities=16%  Similarity=0.251  Sum_probs=75.6

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc----------cccHHHHHHHHHHhCC-eEEE
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQR----------VVTLERHAKLAQSLHL-HSFA   99 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~   99 (158)
                      +|+|||++++.||+.+ ..|+.+++.... +  +|+++||||+|+...+          .++.+++..+++.++. .|+|
T Consensus        76 ~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~-~--~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E  152 (176)
T cd04133          76 FVLAFSLISRASYENVLKKWVPELRHYAP-N--VPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIE  152 (176)
T ss_pred             EEEEEEcCCHHHHHHHHHHHHHHHHHhCC-C--CCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEE
Confidence            9999999999999998 689999986543 3  9999999999996432          4778899999999997 5999


Q ss_pred             EeCCCCCCHHHHHHHHHHHHH
Q psy2600         100 VSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus       100 ~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      |||++|.||+++|+.+++.+.
T Consensus       153 ~SAk~~~nV~~~F~~~~~~~~  173 (176)
T cd04133         153 CSSKTQQNVKAVFDAAIKVVL  173 (176)
T ss_pred             CCCCcccCHHHHHHHHHHHHh
Confidence            999999999999999998763

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,

>KOG0394|consensus

Probab=99.87  E-value=2.1e-21  Score=136.06  Aligned_cols=112  Identities=22%  Similarity=0.336  Sum_probs=98.3

Q ss_pred             CCcceEEEEEEECCCCCCeE------------------------------------------------------------
Q psy2600          12 DNYEIQLKVVLLGDPSCGKI------------------------------------------------------------   31 (158)
Q Consensus        12 ~~~~~~~ki~~~G~~~vgk~------------------------------------------------------------   31 (158)
                      ..+.-.+||+++|++||||+                                                            
T Consensus         4 ~~K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaD   83 (210)
T KOG0394|consen    4 LRKRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGAD   83 (210)
T ss_pred             cCcccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCc
Confidence            35677899999999999998                                                            


Q ss_pred             -EEEEEECCChhHHhhHHHHHHHHhhhcC-CC-CCcEEEEEEeCCCCCC--CccccHHHHHHHHHHhC-CeEEEEeCCCC
Q psy2600          32 -VIFMYDITSGQSFHSIPTWVDLFHLNRK-SS-TPTYVALVANKGDMEH--QRVVTLERHAKLAQSLH-LHSFAVSARTG  105 (158)
Q Consensus        32 -~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~-~~~piilv~nK~Dl~~--~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~  105 (158)
                       +++|||++++.||+.+.+|.+++..+.. .. ...|+||+|||+|+..  .++++...++.|++..| ++|||+||+..
T Consensus        84 cCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~  163 (210)
T KOG0394|consen   84 CCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEA  163 (210)
T ss_pred             eEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEeccccc
Confidence             9999999999999999999999984333 21 1289999999999974  47899999999999876 89999999999


Q ss_pred             CCHHHHHHHHHHHHHHhH
Q psy2600         106 DNCWVNTRTPEINPLKYL  123 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~~  123 (158)
                      .||.+.|..+++......
T Consensus       164 ~NV~~AFe~ia~~aL~~E  181 (210)
T KOG0394|consen  164 TNVDEAFEEIARRALANE  181 (210)
T ss_pred             ccHHHHHHHHHHHHHhcc
Confidence            999999999999888754

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.87  E-value=4.2e-21  Score=142.49  Aligned_cols=88  Identities=23%  Similarity=0.263  Sum_probs=77.7

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCC------------CccccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEH------------QRVVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~   97 (158)
                      +|+|||++++.||+.+ ..|+.++....+.   .|+++||||+|+..            .+.+..++++.+++.+++ .|
T Consensus        88 vIlVyDit~~~Sf~~~~~~w~~~i~~~~~~---~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~  164 (232)
T cd04174          88 VLLCFDISRPETVDSALKKWKAEIMDYCPS---TRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVY  164 (232)
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhCCC---CCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEE
Confidence            9999999999999985 7999999866543   89999999999863            256888899999999998 69


Q ss_pred             EEEeCCCCC-CHHHHHHHHHHHHHHh
Q psy2600          98 FAVSARTGD-NCWVNTRTPEINPLKY  122 (158)
Q Consensus        98 ~~~Sa~~~~-~i~~lf~~l~~~~~~~  122 (158)
                      +||||++|. ||+++|..+++.+.+.
T Consensus       165 ~EtSAktg~~~V~e~F~~~~~~~~~~  190 (232)
T cd04174         165 LECSAFTSEKSIHSIFRSASLLCLNK  190 (232)
T ss_pred             EEccCCcCCcCHHHHHHHHHHHHHHh
Confidence            999999997 8999999999988764

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

>KOG0080|consensus

Probab=99.87  E-value=7.4e-22  Score=135.68  Aligned_cols=111  Identities=27%  Similarity=0.408  Sum_probs=102.1

Q ss_pred             CCCcceEEEEEEECCCCCCeE-----------------------------------------------------------
Q psy2600          11 NDNYEIQLKVVLLGDPSCGKI-----------------------------------------------------------   31 (158)
Q Consensus        11 ~~~~~~~~ki~~~G~~~vgk~-----------------------------------------------------------   31 (158)
                      ...+++++|++++|+.||||+                                                           
T Consensus         5 ss~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRga   84 (209)
T KOG0080|consen    5 SSGYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGA   84 (209)
T ss_pred             ccCcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccC
Confidence            467899999999999999998                                                           


Q ss_pred             --EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          32 --VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 --~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                        +|+|||+|.+++|..+..|+.++..|... .++-.++||||+|..+.+.++.+++..+|+++++-|+|+||++.+||.
T Consensus        85 qGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn-~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~  163 (209)
T KOG0080|consen   85 QGIILVYDVTSRDTFVKLDIWLKELDLYSTN-PDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQ  163 (209)
T ss_pred             ceeEEEEEccchhhHHhHHHHHHHHHhhcCC-ccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHH
Confidence              99999999999999999999999976643 237889999999998889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2600         110 VNTRTPEINPLKY  122 (158)
Q Consensus       110 ~lf~~l~~~~~~~  122 (158)
                      .+|+.++..+.+.
T Consensus       164 ~~FeelveKIi~t  176 (209)
T KOG0080|consen  164 CCFEELVEKIIET  176 (209)
T ss_pred             HHHHHHHHHHhcC
Confidence            9999999988764

>cd04111 Rab39 Rab39 subfamily

Probab=99.87  E-value=1.2e-20  Score=138.40  Aligned_cols=117  Identities=26%  Similarity=0.357  Sum_probs=91.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|||++++.||+.+..|+.++.+... ..  +|+++|+||+|+...+.+..++...+++.+++.|+++||++|.||.+
T Consensus        79 iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~--~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e  156 (211)
T cd04111          79 VLLVFDITNRESFEHVHDWLEEARSHIQPHR--PVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEE  156 (211)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHH
Confidence            8999999999999999999999985432 23  88999999999987667778888999999999999999999999999


Q ss_pred             HHHHHHHHHHHhHhhcccccccccccccc----ccccccccccC
Q psy2600         111 NTRTPEINPLKYLQSNNEYNFLSMVGFEA----GTFYMAVKRLT  150 (158)
Q Consensus       111 lf~~l~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~  150 (158)
                      +|+.|++.+.+............+.+.+.    +...+...|.+
T Consensus       157 ~f~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  200 (211)
T cd04111         157 AFELLTQEIYERIKRGELCALDGWDGVKSGFPAGRAFSLEERSP  200 (211)
T ss_pred             HHHHHHHHHHHHhhcCCCCccccccccccCCCcccccccCcccc
Confidence            99999998887755444334444444333    44444444443

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.

>cd04122 Rab14 Rab14 subfamily

Probab=99.87  E-value=5.7e-21  Score=134.58  Aligned_cols=88  Identities=26%  Similarity=0.365  Sum_probs=78.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.||+.+..|+..+.......  .|+++|+||+|+...+.+..+++..+++..++.++++||++|.||.++
T Consensus        78 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~  155 (166)
T cd04122          78 ALMVYDITRRSTYNHLSSWLTDARNLTNPN--TVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDA  155 (166)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHH
Confidence            999999999999999999999987654444  899999999999877777788899999998999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |..+++.+.+
T Consensus       156 f~~l~~~~~~  165 (166)
T cd04122         156 FLETAKKIYQ  165 (166)
T ss_pred             HHHHHHHHhh
Confidence            9999987753

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.86  E-value=5.2e-21  Score=136.04  Aligned_cols=89  Identities=26%  Similarity=0.236  Sum_probs=78.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.||+.+..|...+.+.. ...  +|+++|+||+|+...+.++.+++..+++.+++.|++|||++|.||++
T Consensus        77 ~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~--~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~  154 (172)
T cd04141          77 FIICYSVTDRHSFQEASEFKKLITRVRLTED--IPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDD  154 (172)
T ss_pred             EEEEEECCchhHHHHHHHHHHHHHHhcCCCC--CCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHH
Confidence            999999999999999999988887542 223  99999999999987777888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|+++++.+...
T Consensus       155 ~f~~l~~~~~~~  166 (172)
T cd04141         155 AFHGLVREIRRK  166 (172)
T ss_pred             HHHHHHHHHHHh
Confidence            999999887753

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.86  E-value=9.3e-21  Score=133.72  Aligned_cols=88  Identities=31%  Similarity=0.367  Sum_probs=78.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++++|+.+..|+..+......+  .|+++|+||+|+...+.+..+++..+++.++.+++++||++|.|+.++
T Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  156 (167)
T cd01867          79 IILVYDITDEKSFENIRNWMRNIEEHASED--VERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEA  156 (167)
T ss_pred             EEEEEECcCHHHHHhHHHHHHHHHHhCCCC--CcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            999999999999999999999998654444  899999999999876667777888899999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |+.+++.+..
T Consensus       157 ~~~i~~~~~~  166 (167)
T cd01867         157 FFTLAKDIKK  166 (167)
T ss_pred             HHHHHHHHHh
Confidence            9999988754

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

>cd04131 Rnd Rnd subfamily

Probab=99.86  E-value=4.4e-21  Score=137.28  Aligned_cols=86  Identities=23%  Similarity=0.273  Sum_probs=75.2

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCC------------CccccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEH------------QRVVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~   97 (158)
                      +|+|||+++++||+++ ..|+..+.+..+.   .|+++||||+||..            .+.++.+++.++++.+++ .|
T Consensus        76 ~ilvfdit~~~Sf~~~~~~w~~~i~~~~~~---~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~  152 (178)
T cd04131          76 VLICFDISRPETLDSVLKKWRGEIQEFCPN---TKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIY  152 (178)
T ss_pred             EEEEEECCChhhHHHHHHHHHHHHHHHCCC---CCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEE
Confidence            9999999999999996 7999999876543   89999999999853            235788899999999996 79


Q ss_pred             EEEeCCCCCC-HHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDN-CWVNTRTPEINPL  120 (158)
Q Consensus        98 ~~~Sa~~~~~-i~~lf~~l~~~~~  120 (158)
                      +||||++|.| |+++|..+++...
T Consensus       153 ~E~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         153 LECSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             EECccCcCCcCHHHHHHHHHHHHh
Confidence            9999999995 9999999998543

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.86  E-value=2.2e-20  Score=137.42  Aligned_cols=113  Identities=27%  Similarity=0.413  Sum_probs=100.1

Q ss_pred             cCCCCcceEEEEEEECCCCCCeE---------------------------------------------------------
Q psy2600           9 LHNDNYEIQLKVVLLGDPSCGKI---------------------------------------------------------   31 (158)
Q Consensus         9 ~~~~~~~~~~ki~~~G~~~vgk~---------------------------------------------------------   31 (158)
                      +.....++.+|++++|+.++||+                                                         
T Consensus         4 ~~~~~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~   83 (216)
T PLN03110          4 RVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYR   83 (216)
T ss_pred             CcccccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhC
Confidence            33445678899999999999998                                                         


Q ss_pred             ----EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          32 ----VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        32 ----~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                          +|+|||++++.+|+.+..|+..+......+  +|+++|+||+|+...+.+..+.+..++..+++.++++||++|.|
T Consensus        84 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~  161 (216)
T PLN03110         84 GAVGALLVYDITKRQTFDNVQRWLRELRDHADSN--IVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATN  161 (216)
T ss_pred             CCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCC--CeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCC
Confidence                899999999999999999999998765444  99999999999987777778888899988899999999999999


Q ss_pred             HHHHHHHHHHHHHHhH
Q psy2600         108 CWVNTRTPEINPLKYL  123 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~  123 (158)
                      ++++|+.+++.+.+..
T Consensus       162 v~~lf~~l~~~i~~~~  177 (216)
T PLN03110        162 VEKAFQTILLEIYHII  177 (216)
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            9999999999987753

>cd04117 Rab15 Rab15 subfamily

Probab=99.85  E-value=1.7e-20  Score=131.87  Aligned_cols=87  Identities=28%  Similarity=0.311  Sum_probs=78.0

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +++++|||+++++||+.+..|+.++.......  +|+++|+||+|+...+.+..+++..+++.++.+|+++||++|.||+
T Consensus        74 ~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~--~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~  151 (161)
T cd04117          74 QGIFLVYDISSERSYQHIMKWVSDVDEYAPEG--VQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIK  151 (161)
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            44999999999999999999999988655433  9999999999998777777889999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         110 VNTRTPEIN  118 (158)
Q Consensus       110 ~lf~~l~~~  118 (158)
                      ++|.+|++.
T Consensus       152 ~~f~~l~~~  160 (161)
T cd04117         152 ESFTRLTEL  160 (161)
T ss_pred             HHHHHHHhh
Confidence            999999865

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

>cd04126 Rab20 Rab20 subfamily

Probab=99.85  E-value=2.7e-20  Score=137.26  Aligned_cols=91  Identities=26%  Similarity=0.226  Sum_probs=78.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC-------------------CccccHHHHHHHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH-------------------QRVVTLERHAKLAQS   92 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-------------------~~~~~~~~~~~~~~~   92 (158)
                      +|+|||+++++||+.+..|+..+.+.....  +|+++||||+|+..                   .+.+..+++..+++.
T Consensus        71 ~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~--~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~  148 (220)
T cd04126          71 VILTYDVSNVQSLEELEDRFLGLTDTANED--CLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKR  148 (220)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHH
Confidence            999999999999999998888877543333  89999999999965                   567888999999998


Q ss_pred             hC--------------CeEEEEeCCCCCCHHHHHHHHHHHHHHhHh
Q psy2600          93 LH--------------LHSFAVSARTGDNCWVNTRTPEINPLKYLQ  124 (158)
Q Consensus        93 ~~--------------~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~~  124 (158)
                      .+              +.|+||||++|.||+++|..+++.+.....
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~  194 (220)
T cd04126         149 INKYKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLIL  194 (220)
T ss_pred             hCccccccccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            76              679999999999999999999998876543

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.85  E-value=3.4e-20  Score=132.08  Aligned_cols=88  Identities=27%  Similarity=0.394  Sum_probs=77.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||+++++||.++..|+..+..... .+  +|+++|+||+|+...+.+..+++..+++.++++++++||++|.|+++
T Consensus        90 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~  167 (180)
T cd04127          90 FLLIFDLTNEQSFLNVRNWMSQLQTHAYCEN--PDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATGTNVEK  167 (180)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHH
Confidence            8999999999999999999999985432 23  89999999999977667777888999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +|+.+++.+.+
T Consensus       168 l~~~l~~~~~~  178 (180)
T cd04127         168 AVERLLDLVMK  178 (180)
T ss_pred             HHHHHHHHHHh
Confidence            99999987764

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

>PLN03108 Rab family protein; Provisional

Probab=99.85  E-value=6.2e-20  Score=134.47  Aligned_cols=91  Identities=24%  Similarity=0.391  Sum_probs=80.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..++++.+++.+++.++++||+++.||.++
T Consensus        82 ~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~--~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~  159 (210)
T PLN03108         82 ALLVYDITRRETFNHLASWLEDARQHANAN--MTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEA  159 (210)
T ss_pred             EEEEEECCcHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            899999999999999999999887554433  999999999999877777888899999999999999999999999999


Q ss_pred             HHHHHHHHHHhHh
Q psy2600         112 TRTPEINPLKYLQ  124 (158)
Q Consensus       112 f~~l~~~~~~~~~  124 (158)
                      |.++++.+.+...
T Consensus       160 f~~l~~~~~~~~~  172 (210)
T PLN03108        160 FIKTAAKIYKKIQ  172 (210)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999998876544

>cd01866 Rab2 Rab2 subfamily

Probab=99.85  E-value=4.6e-20  Score=130.33  Aligned_cols=88  Identities=24%  Similarity=0.365  Sum_probs=78.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.||+.+..|+..++......  +|+++|+||+|+.....+..++...++...+..++++||+++.||+++
T Consensus        80 il~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~  157 (168)
T cd01866          80 ALLVYDITRRETFNHLTSWLEDARQHSNSN--MTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEA  157 (168)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            999999999999999999999998654333  999999999999766667778888888888999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |..+++.+.+
T Consensus       158 ~~~~~~~~~~  167 (168)
T cd01866         158 FINTAKEIYE  167 (168)
T ss_pred             HHHHHHHHHh
Confidence            9999988753

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

>cd01875 RhoG RhoG subfamily

Probab=99.85  E-value=2.5e-20  Score=134.67  Aligned_cols=88  Identities=19%  Similarity=0.246  Sum_probs=75.1

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhC-CeE
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLH-LHS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~   97 (158)
                      +|+|||++++.||+.+. .|...+..... .  +|+++||||+||...            +.+..+++..+++.++ ..|
T Consensus        78 ~ilvydit~~~Sf~~~~~~w~~~i~~~~~-~--~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~  154 (191)
T cd01875          78 FIICFSIASPSSYENVRHKWHPEVCHHCP-N--VPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKY  154 (191)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhCC-C--CCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEE
Confidence            99999999999999996 69888875443 2  999999999999643            2356778899999988 589


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      ++|||++|.||+++|..+++.+...
T Consensus       155 ~e~SAk~g~~v~e~f~~l~~~~~~~  179 (191)
T cd01875         155 LECSALNQDGVKEVFAEAVRAVLNP  179 (191)
T ss_pred             EEeCCCCCCCHHHHHHHHHHHHhcc
Confidence            9999999999999999999988653

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.84  E-value=4.5e-20  Score=129.86  Aligned_cols=88  Identities=25%  Similarity=0.356  Sum_probs=78.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||+++++||+.+..|+..+.......  .|+++|+||+|+.....+..+++..+++.++++++++||++|.|+.++
T Consensus        78 ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~--~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  155 (166)
T cd01869          78 IIIVYDVTDQESFNNVKQWLQEIDRYASEN--VNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQA  155 (166)
T ss_pred             EEEEEECcCHHHHHhHHHHHHHHHHhCCCC--CcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHH
Confidence            999999999999999999999998665333  899999999999766667778888999989999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |..+++.+.+
T Consensus       156 ~~~i~~~~~~  165 (166)
T cd01869         156 FMTMAREIKK  165 (166)
T ss_pred             HHHHHHHHHh
Confidence            9999987753

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

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.84  E-value=4.8e-20  Score=129.01  Aligned_cols=87  Identities=25%  Similarity=0.447  Sum_probs=80.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||+++++||+.+..|+..+.......  +|+++||||+|+...+.++.++++.+++.++..|+++||+++.||.++
T Consensus        75 ~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~--~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~  152 (162)
T PF00071_consen   75 IIIVFDVTDEESFENLKKWLEEIQKYKPED--IPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEI  152 (162)
T ss_dssp             EEEEEETTBHHHHHTHHHHHHHHHHHSTTT--SEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHH
T ss_pred             cccccccccccccccccccccccccccccc--ccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHH
Confidence            999999999999999999999999777633  999999999999877788889999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |..+++.+.
T Consensus       153 f~~~i~~i~  161 (162)
T PF00071_consen  153 FQELIRKIL  161 (162)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999998864

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 ....

>cd04110 Rab35 Rab35 subfamily

Probab=99.84  E-value=7.3e-20  Score=132.96  Aligned_cols=89  Identities=28%  Similarity=0.349  Sum_probs=79.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.||+.+..|+..+......   .|+++|+||+|+.....+..+++..+++.++..|+++||++|.||+++
T Consensus        82 iilv~D~~~~~s~~~~~~~~~~i~~~~~~---~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~l  158 (199)
T cd04110          82 VIVVYDVTNGESFVNVKRWLQEIEQNCDD---VCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEM  158 (199)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCCC---CCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHH
Confidence            89999999999999999999998865433   899999999999866666777888888888999999999999999999


Q ss_pred             HHHHHHHHHHhH
Q psy2600         112 TRTPEINPLKYL  123 (158)
Q Consensus       112 f~~l~~~~~~~~  123 (158)
                      |+++++.+....
T Consensus       159 f~~l~~~~~~~~  170 (199)
T cd04110         159 FNCITELVLRAK  170 (199)
T ss_pred             HHHHHHHHHHhh
Confidence            999999887654

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.84  E-value=6.2e-20  Score=129.24  Aligned_cols=87  Identities=33%  Similarity=0.392  Sum_probs=77.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++++|+.+..|+..+.......  +|+++|+||+|+...+.+..++...+++.++++++++||+++.|+.++
T Consensus        77 ~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l  154 (165)
T cd01865          77 FILMYDITNEESFNAVQDWSTQIKTYSWDN--AQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQV  154 (165)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHH
Confidence            899999999999999999999998665444  899999999999776666777888888888999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |+.+++.+.
T Consensus       155 ~~~l~~~~~  163 (165)
T cd01865         155 FERLVDIIC  163 (165)
T ss_pred             HHHHHHHHH
Confidence            999998764

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot

>KOG0395|consensus

Probab=99.84  E-value=9.4e-20  Score=132.11  Aligned_cols=90  Identities=22%  Similarity=0.153  Sum_probs=81.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++||+++++.||+.+..++..+.+ .....  +|+++||||+|+...+.+..+++..++..+++.|+|+||+.+.||++
T Consensus        78 F~lVysitd~~SF~~~~~l~~~I~r~~~~~~--~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~  155 (196)
T KOG0395|consen   78 FLLVYSITDRSSFEEAKQLREQILRVKGRDD--VPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDE  155 (196)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhCcCC--CCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHH
Confidence            9999999999999999999999953 23333  89999999999998899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      +|..+++.+....
T Consensus       156 ~F~~L~r~~~~~~  168 (196)
T KOG0395|consen  156 VFYELVREIRLPR  168 (196)
T ss_pred             HHHHHHHHHHhhh
Confidence            9999999988743

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.84  E-value=4.6e-20  Score=131.56  Aligned_cols=86  Identities=21%  Similarity=0.266  Sum_probs=73.4

Q ss_pred             EEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhC-Ce
Q psy2600          31 IVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLH-LH   96 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~   96 (158)
                      ++|+|||+++++||+.+. .|+.++....+.   +|+++|+||+|+...            +.++.+++..+++..+ ..
T Consensus        75 ~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~~---~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~  151 (175)
T cd01874          75 VFLVCFSVVSPSSFENVKEKWVPEITHHCPK---TPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVK  151 (175)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcE
Confidence            399999999999999996 599888765432   999999999998543            4567788888998887 68


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHH
Q psy2600          97 SFAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        97 ~~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      |+++||++|.||+++|+.++++.
T Consensus       152 ~~e~SA~tg~~v~~~f~~~~~~~  174 (175)
T cd01874         152 YVECSALTQKGLKNVFDEAILAA  174 (175)
T ss_pred             EEEecCCCCCCHHHHHHHHHHHh
Confidence            99999999999999999998854

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

>cd01868 Rab11_like Rab11-like

Probab=99.84  E-value=1e-19  Score=127.78  Aligned_cols=86  Identities=27%  Similarity=0.376  Sum_probs=76.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.+|+++..|+..+.+.....  +|+++|+||+|+...+.+..++...+++..++.++++||++|.|++++
T Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l  156 (165)
T cd01868          79 ALLVYDITKKQTFENVERWLKELRDHADSN--IVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEA  156 (165)
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHH
Confidence            899999999999999999999998665444  899999999999876667777888888888899999999999999999


Q ss_pred             HHHHHHHH
Q psy2600         112 TRTPEINP  119 (158)
Q Consensus       112 f~~l~~~~  119 (158)
                      |+.+++.+
T Consensus       157 ~~~l~~~i  164 (165)
T cd01868         157 FKQLLTEI  164 (165)
T ss_pred             HHHHHHHh
Confidence            99998765

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.83  E-value=5.1e-20  Score=129.36  Aligned_cols=88  Identities=18%  Similarity=0.249  Sum_probs=75.8

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCC--CCccccHHHHHHHHHHh-CCeEEEEeCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDME--HQRVVTLERHAKLAQSL-HLHSFAVSART  104 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~  104 (158)
                      .+++++|||++++.||+.+..|+.++..... .+  +|+++||||+|+.  ..+.+..++++.+++.. ++.|++|||++
T Consensus        66 ~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~--~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~  143 (158)
T cd04103          66 VDAVIFVFSLENEASFQTVYNLYHQLSSYRNISE--IPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATY  143 (158)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCC
Confidence            4679999999999999999999999986542 33  8999999999985  35677888888898876 48999999999


Q ss_pred             CCCHHHHHHHHHHH
Q psy2600         105 GDNCWVNTRTPEIN  118 (158)
Q Consensus       105 ~~~i~~lf~~l~~~  118 (158)
                      |.||+++|..+++.
T Consensus       144 ~~~i~~~f~~~~~~  157 (158)
T cd04103         144 GLNVERVFQEAAQK  157 (158)
T ss_pred             CCCHHHHHHHHHhh
Confidence            99999999999864

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.

>cd04144 Ras2 Ras2 subfamily

Probab=99.83  E-value=1.9e-19  Score=129.81  Aligned_cols=97  Identities=25%  Similarity=0.228  Sum_probs=81.2

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCC-CCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKS-STPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      ++++|+|||+++..||+.+..|+..+...... ...+|+++|+||+|+...+.+...++..+++.+++.|+++||++|.|
T Consensus        71 ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~  150 (190)
T cd04144          71 GEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVN  150 (190)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCC
Confidence            35699999999999999999999988754321 11289999999999976667777778888888899999999999999


Q ss_pred             HHHHHHHHHHHHHHhHhh
Q psy2600         108 CWVNTRTPEINPLKYLQS  125 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~~~  125 (158)
                      |+++|.++++.+.+....
T Consensus       151 v~~l~~~l~~~l~~~~~~  168 (190)
T cd04144         151 VERAFYTLVRALRQQRQG  168 (190)
T ss_pred             HHHHHHHHHHHHHHhhcc
Confidence            999999999988765443

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.

>cd04125 RabA_like RabA-like subfamily

Probab=99.83  E-value=2.9e-19  Score=128.44  Aligned_cols=92  Identities=23%  Similarity=0.306  Sum_probs=81.8

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +++++|||++++.+|+.+..|+.++.......  +|+++|+||+|+.+.+.+..+.+..+++..++.++++||++|.|+.
T Consensus        74 d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~--~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~  151 (188)
T cd04125          74 HGYLLVYDVTDQESFENLKFWINEINRYAREN--VIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVE  151 (188)
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHH
Confidence            45999999999999999999999998765444  8999999999998777777788888888889999999999999999


Q ss_pred             HHHHHHHHHHHHhH
Q psy2600         110 VNTRTPEINPLKYL  123 (158)
Q Consensus       110 ~lf~~l~~~~~~~~  123 (158)
                      ++|..+++.+....
T Consensus       152 ~~f~~l~~~~~~~~  165 (188)
T cd04125         152 EAFILLVKLIIKRL  165 (188)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999987754

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=99.83  E-value=2.2e-19  Score=131.95  Aligned_cols=94  Identities=35%  Similarity=0.502  Sum_probs=80.8

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCC-CCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKS-STPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      ++++|+|||+++++||+.+..|+..+.+.... ...+|+++|+||+|+...+.+..++...+++.+++.++++||++|.|
T Consensus        74 ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~g  153 (215)
T cd04109          74 AHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDR  153 (215)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCC
Confidence            35599999999999999999999999865421 11278999999999986677788889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy2600         108 CWVNTRTPEINPLKY  122 (158)
Q Consensus       108 i~~lf~~l~~~~~~~  122 (158)
                      |+++|+.+++.+...
T Consensus       154 v~~lf~~l~~~l~~~  168 (215)
T cd04109         154 VNLLFQQLAAELLGV  168 (215)
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999988753

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.82  E-value=2.4e-19  Score=129.34  Aligned_cols=92  Identities=26%  Similarity=0.363  Sum_probs=81.4

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +++|+|||++++.+|+++..|+..+.......  +|+++|+||+|+...+.+..++...+++.++.+|+++||++|.|++
T Consensus        75 d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~--~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~  152 (191)
T cd04112          75 HALLLLYDITNKASFDNIRAWLTEIKEYAQED--VVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVE  152 (191)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHH
Confidence            45999999999999999999999998765544  8999999999997666667778888998899999999999999999


Q ss_pred             HHHHHHHHHHHHhH
Q psy2600         110 VNTRTPEINPLKYL  123 (158)
Q Consensus       110 ~lf~~l~~~~~~~~  123 (158)
                      ++|..+++.+.+..
T Consensus       153 ~l~~~l~~~~~~~~  166 (191)
T cd04112         153 LAFTAVAKELKHRK  166 (191)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999987763

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.

>cd04140 ARHI_like ARHI subfamily

Probab=99.82  E-value=2.4e-19  Score=126.22  Aligned_cols=87  Identities=24%  Similarity=0.205  Sum_probs=73.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCC-CCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKS-STPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||+++..+|+.+..|+..+.+.... ...+|+++|+||+|+...+.+...++..++..+++.|+++||++|.||.+
T Consensus        76 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~  155 (165)
T cd04140          76 FILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQE  155 (165)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHH
Confidence            89999999999999999999888754321 11289999999999976666777778888888888999999999999999


Q ss_pred             HHHHHHHH
Q psy2600         111 NTRTPEIN  118 (158)
Q Consensus       111 lf~~l~~~  118 (158)
                      +|++|++.
T Consensus       156 ~f~~l~~~  163 (165)
T cd04140         156 LFQELLNL  163 (165)
T ss_pred             HHHHHHhc
Confidence            99999864

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.82  E-value=2.8e-19  Score=125.30  Aligned_cols=91  Identities=25%  Similarity=0.319  Sum_probs=77.6

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCC---CCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKS---STPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  106 (158)
                      +++|+|||++++.+|+.+..|+.++......   ....|+++|+||+|+...+.+..++...+++..++.++++||++|.
T Consensus        74 d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  153 (168)
T cd04119          74 QGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGE  153 (168)
T ss_pred             CEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCC
Confidence            3499999999999999999999999865431   1128999999999997555667778888888888999999999999


Q ss_pred             CHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPL  120 (158)
Q Consensus       107 ~i~~lf~~l~~~~~  120 (158)
                      |++++|+.|++.+.
T Consensus       154 gi~~l~~~l~~~l~  167 (168)
T cd04119         154 GVNEMFQTLFSSIV  167 (168)
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999998764

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.

>KOG0095|consensus

Probab=99.82  E-value=1.2e-19  Score=123.57  Aligned_cols=110  Identities=24%  Similarity=0.396  Sum_probs=99.1

Q ss_pred             CCcceEEEEEEECCCCCCeE------------------------------------------------------------
Q psy2600          12 DNYEIQLKVVLLGDPSCGKI------------------------------------------------------------   31 (158)
Q Consensus        12 ~~~~~~~ki~~~G~~~vgk~------------------------------------------------------------   31 (158)
                      +.|+|++|++++|+++|||+                                                            
T Consensus         2 edykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsah   81 (213)
T KOG0095|consen    2 EDYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAH   81 (213)
T ss_pred             cccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcc
Confidence            46899999999999999998                                                            


Q ss_pred             -EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 -VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 -~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                       +|+|||++-..||+-++.|+.++.++....  +--|+||||+|+...+++....++.+++....-|+|+||++..||+.
T Consensus        82 alilvydiscqpsfdclpewlreie~yan~k--vlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~  159 (213)
T KOG0095|consen   82 ALILVYDISCQPSFDCLPEWLREIEQYANNK--VLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEK  159 (213)
T ss_pred             eEEEEEecccCcchhhhHHHHHHHHHHhhcc--eEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHH
Confidence             899999999999999999999999877665  78899999999988888998899999998777789999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      ||..++-.+....
T Consensus       160 lf~~~a~rli~~a  172 (213)
T KOG0095|consen  160 LFLDLACRLISEA  172 (213)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999887665543

>cd01864 Rab19 Rab19 subfamily

Probab=99.82  E-value=3.3e-19  Score=125.38  Aligned_cols=85  Identities=29%  Similarity=0.402  Sum_probs=74.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+...++..+++.++. .++++||++|.|+++
T Consensus        79 ~llv~d~~~~~s~~~~~~~~~~i~~~~~~~--~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~  156 (165)
T cd01864          79 AIIAYDITRRSSFESVPHWIEEVEKYGASN--VVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEE  156 (165)
T ss_pred             EEEEEECcCHHHHHhHHHHHHHHHHhCCCC--CcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHH
Confidence            999999999999999999999998654444  89999999999976666677788888888875 689999999999999


Q ss_pred             HHHHHHHH
Q psy2600         111 NTRTPEIN  118 (158)
Q Consensus       111 lf~~l~~~  118 (158)
                      +|+.+++.
T Consensus       157 ~~~~l~~~  164 (165)
T cd01864         157 AFLLMATE  164 (165)
T ss_pred             HHHHHHHh
Confidence            99999875

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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.82  E-value=2.2e-19  Score=132.44  Aligned_cols=86  Identities=20%  Similarity=0.272  Sum_probs=72.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.||+.+..|+.++......   +|+++||||+|+.. +.+..++. .+++..++.||+|||++|.||.++
T Consensus        89 ~ilvfD~~~~~s~~~i~~w~~~i~~~~~~---~piilvgNK~Dl~~-~~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~  163 (219)
T PLN03071         89 AIIMFDVTARLTYKNVPTWHRDLCRVCEN---IPIVLCGNKVDVKN-RQVKAKQV-TFHRKKNLQYYEISAKSNYNFEKP  163 (219)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhCCC---CcEEEEEEchhhhh-ccCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHH
Confidence            89999999999999999999999865533   99999999999864 23334444 677778899999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |.+|++.+.+.
T Consensus       164 f~~l~~~~~~~  174 (219)
T PLN03071        164 FLYLARKLAGD  174 (219)
T ss_pred             HHHHHHHHHcC
Confidence            99999988654

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.82  E-value=2.9e-19  Score=129.88  Aligned_cols=95  Identities=21%  Similarity=0.224  Sum_probs=79.9

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhc--CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC-CeEEEEeCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNR--KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH-LHSFAVSARTG  105 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~  105 (158)
                      ++++|+|||++++.||+.+..|+..+....  .....+|+++|+||+|+...+.+..+++..+++.++ ..|+++||++|
T Consensus        74 a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~  153 (201)
T cd04107          74 AVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEG  153 (201)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCC
Confidence            355999999999999999999999887431  111238999999999997556677888999999988 68999999999


Q ss_pred             CCHHHHHHHHHHHHHHhH
Q psy2600         106 DNCWVNTRTPEINPLKYL  123 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~~  123 (158)
                      .||+++|+++++.+....
T Consensus       154 ~~v~e~f~~l~~~l~~~~  171 (201)
T cd04107         154 INIEEAMRFLVKNILAND  171 (201)
T ss_pred             CCHHHHHHHHHHHHHHhc
Confidence            999999999999887653

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.

>PTZ00369 Ras-like protein; Provisional

Probab=99.82  E-value=4.3e-19  Score=127.84  Aligned_cols=90  Identities=26%  Similarity=0.285  Sum_probs=78.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++++|+.+..|+..+.+... .+  +|+++|+||+|+...+.+...++..+++.++.+++++||++|.||++
T Consensus        80 iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~--~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~  157 (189)
T PTZ00369         80 FLCVYSITSRSSFEEIASFREQILRVKDKDR--VPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDE  157 (189)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHH
Confidence            8999999999999999999999875432 23  89999999999976666777778888888889999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      +|.++++.+....
T Consensus       158 ~~~~l~~~l~~~~  170 (189)
T PTZ00369        158 AFYELVREIRKYL  170 (189)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999887654

>cd04136 Rap_like Rap-like subfamily

Probab=99.82  E-value=3.5e-19  Score=124.56  Aligned_cols=86  Identities=24%  Similarity=0.251  Sum_probs=74.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+..... ..  +|+++|+||+|+...+.+..++...+++.++.+++++||++|.|+.+
T Consensus        76 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  153 (163)
T cd04136          76 FVLVYSITSQSSFNDLQDLREQILRVKDTEN--VPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDE  153 (163)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHH
Confidence            8999999999999999999999885432 23  89999999999976666677777888888888999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         111 NTRTPEINP  119 (158)
Q Consensus       111 lf~~l~~~~  119 (158)
                      +|+++++.+
T Consensus       154 l~~~l~~~~  162 (163)
T cd04136         154 VFADLVRQI  162 (163)
T ss_pred             HHHHHHHhc
Confidence            999998754

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.

>cd04175 Rap1 Rap1 subgroup

Probab=99.82  E-value=3.8e-19  Score=124.87  Aligned_cols=86  Identities=22%  Similarity=0.221  Sum_probs=75.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||+++..+|+.+..|+..+.... ..+  .|+++|+||+|+...+.+...+...+++.++++|+++||++|.|+.+
T Consensus        76 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  153 (164)
T cd04175          76 FVLVYSITAQSTFNDLQDLREQILRVKDTED--VPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNE  153 (164)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHH
Confidence            899999999999999999999987543 233  89999999999987666677777888888899999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         111 NTRTPEINP  119 (158)
Q Consensus       111 lf~~l~~~~  119 (158)
                      +|.++++.+
T Consensus       154 ~~~~l~~~l  162 (164)
T cd04175         154 IFYDLVRQI  162 (164)
T ss_pred             HHHHHHHHh
Confidence            999998765

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

>cd04128 Spg1 Spg1p

Probab=99.82  E-value=3e-19  Score=128.15  Aligned_cols=88  Identities=18%  Similarity=0.202  Sum_probs=72.4

Q ss_pred             EEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC-----CccccHHHHHHHHHHhCCeEEEEeCCCC
Q psy2600          31 IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH-----QRVVTLERHAKLAQSLHLHSFAVSARTG  105 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  105 (158)
                      ++++|||++++.||+++..|+..+.+.....  +| ++|+||+|+..     .+....++++.+++.++..++++||++|
T Consensus        75 ~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~--~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g  151 (182)
T cd04128          75 AILFMFDLTRKSTLNSIKEWYRQARGFNKTA--IP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHS  151 (182)
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCC
Confidence            3899999999999999999999998655443  67 68899999842     1112235677788888999999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~  121 (158)
                      .||+++|..+++.+.+
T Consensus       152 ~~v~~lf~~l~~~l~~  167 (182)
T cd04128         152 INVQKIFKIVLAKAFD  167 (182)
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999988865

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.81  E-value=3.2e-19  Score=127.08  Aligned_cols=86  Identities=16%  Similarity=0.220  Sum_probs=72.8

Q ss_pred             eEEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhC-C
Q psy2600          30 KIVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLH-L   95 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~   95 (158)
                      +++|+|||+++++||+.+. .|+..+..... +  +|+++|+||+|+...            +.++.+++..+++.++ +
T Consensus        74 d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~-~--~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  150 (174)
T cd01871          74 DVFLICFSLVSPASFENVRAKWYPEVRHHCP-N--TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAV  150 (174)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-C--CCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCc
Confidence            3399999999999999996 69888875543 3  999999999999542            2467888899999988 4


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHH
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      .|++|||++|.||+++|+.+++.
T Consensus       151 ~~~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         151 KYLECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             EEEEecccccCCHHHHHHHHHHh
Confidence            89999999999999999999864

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.81  E-value=5.3e-19  Score=127.43  Aligned_cols=90  Identities=17%  Similarity=0.290  Sum_probs=74.4

Q ss_pred             eEEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc------------cccHHHHHHHHHHhC-C
Q psy2600          30 KIVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQR------------VVTLERHAKLAQSLH-L   95 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~-~   95 (158)
                      +.+++|||+++++||+.+. .|+..+......   .|+++|+||+|+....            .+..+++..+++..+ +
T Consensus        73 ~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~~---~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  149 (189)
T cd04134          73 DVIMLCFSVDSPDSLENVESKWLGEIREHCPG---VKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINAL  149 (189)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCC
Confidence            4599999999999999986 699998865432   8999999999996433            244566777887776 6


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      .|++|||++|.||+++|.++++.+...
T Consensus       150 ~~~e~SAk~~~~v~e~f~~l~~~~~~~  176 (189)
T cd04134         150 RYLECSAKLNRGVNEAFTEAARVALNV  176 (189)
T ss_pred             EEEEccCCcCCCHHHHHHHHHHHHhcc
Confidence            899999999999999999999988643

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.

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

Probab=99.81  E-value=8.9e-19  Score=122.60  Aligned_cols=86  Identities=23%  Similarity=0.268  Sum_probs=74.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||+++..+|+.+..|+..+.... ..+  +|+++|+||+|+...+.+..++...+++.++..++++||++|.||.+
T Consensus        77 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  154 (164)
T cd04145          77 FLLVFSVTDRGSFEEVDKFHTQILRVKDRDE--FPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDK  154 (164)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCCC--CCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHH
Confidence            999999999999999999999887542 223  89999999999976666666778888888889999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         111 NTRTPEINP  119 (158)
Q Consensus       111 lf~~l~~~~  119 (158)
                      +|+.+++.+
T Consensus       155 l~~~l~~~~  163 (164)
T cd04145         155 AFHDLVRVI  163 (164)
T ss_pred             HHHHHHHhh
Confidence            999998764

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>cd04142 RRP22 RRP22 subfamily

Probab=99.81  E-value=5.9e-19  Score=128.28  Aligned_cols=95  Identities=20%  Similarity=0.197  Sum_probs=79.0

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhc---CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-HhCCeEEEEeCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNR---KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-SLHLHSFAVSAR  103 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~---~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~  103 (158)
                      ..+++|+|||++++.||+.+..|+..+.+..   ...  +|+++|+||+|+...+.+..++...++. .++++|++|||+
T Consensus        80 ~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~--~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak  157 (198)
T cd04142          80 NSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKE--PPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAK  157 (198)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCC--CCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCC
Confidence            4677999999999999999999999887653   233  9999999999997666666666666654 568899999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhHh
Q psy2600         104 TGDNCWVNTRTPEINPLKYLQ  124 (158)
Q Consensus       104 ~~~~i~~lf~~l~~~~~~~~~  124 (158)
                      +|.||.++|+.+++.+..+..
T Consensus       158 ~g~~v~~lf~~i~~~~~~~~~  178 (198)
T cd04142         158 YNWHILLLFKELLISATTRGR  178 (198)
T ss_pred             CCCCHHHHHHHHHHHhhccCC
Confidence            999999999999998876543

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.81  E-value=6.5e-19  Score=130.10  Aligned_cols=88  Identities=22%  Similarity=0.248  Sum_probs=73.8

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~   97 (158)
                      +|+|||+++++||+.+ ..|..++....+.   .|++|||||+|+...            ..+..+++..+++..|. .|
T Consensus        76 illvfdis~~~Sf~~i~~~w~~~~~~~~~~---~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y  152 (222)
T cd04173          76 VLICFDISRPETLDSVLKKWQGETQEFCPN---AKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSY  152 (222)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhCCC---CCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEE
Confidence            9999999999999999 4688777655433   999999999998532            13677889999999995 89


Q ss_pred             EEEeCCCCCC-HHHHHHHHHHHHHHh
Q psy2600          98 FAVSARTGDN-CWVNTRTPEINPLKY  122 (158)
Q Consensus        98 ~~~Sa~~~~~-i~~lf~~l~~~~~~~  122 (158)
                      +||||+++.+ |.++|+.++.....+
T Consensus       153 ~E~SAk~~~~~V~~~F~~~~~~~~~~  178 (222)
T cd04173         153 VECSSRSSERSVRDVFHVATVASLGR  178 (222)
T ss_pred             EEcCCCcCCcCHHHHHHHHHHHHHhc
Confidence            9999999885 999999999987654

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.81  E-value=9.4e-19  Score=122.69  Aligned_cols=88  Identities=25%  Similarity=0.248  Sum_probs=75.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++++|+.+..|...+...... .+.|+++|+||+|+...+.+..+....+++.++.+|+++||++|.|++++
T Consensus        75 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  153 (164)
T smart00173       75 FLLVYSITDRQSFEEIKKFREQILRVKDR-DDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEA  153 (164)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHH
Confidence            99999999999999999998888744321 12899999999999766666777888888888999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |+.+++.+.
T Consensus       154 ~~~l~~~~~  162 (164)
T smart00173      154 FYDLVREIR  162 (164)
T ss_pred             HHHHHHHHh
Confidence            999998764

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.80  E-value=1.1e-18  Score=122.16  Aligned_cols=86  Identities=31%  Similarity=0.376  Sum_probs=76.5

Q ss_pred             EEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          31 IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      ++++|||++++.+|..+..|+..+.......  +|+++|+||+|+.....+..+++..+++..+..++++||+++.|+.+
T Consensus        75 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  152 (161)
T cd04113          75 GALLVYDITNRTSFEALPTWLSDARALASPN--IVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEE  152 (161)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHH
Confidence            3999999999999999999999987655443  99999999999976666777888889999999999999999999999


Q ss_pred             HHHHHHHH
Q psy2600         111 NTRTPEIN  118 (158)
Q Consensus       111 lf~~l~~~  118 (158)
                      +|+.+++.
T Consensus       153 ~~~~~~~~  160 (161)
T cd04113         153 AFLKCARS  160 (161)
T ss_pred             HHHHHHHh
Confidence            99999875

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

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.80  E-value=9.9e-19  Score=123.54  Aligned_cols=87  Identities=21%  Similarity=0.294  Sum_probs=72.9

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +++|+|||++++.||+.+..|+..+..... +  +|+++|+||+|+.. +.+. .+...+++..++.++++||++|.||+
T Consensus        74 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~--~piiiv~nK~Dl~~-~~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~  148 (166)
T cd00877          74 QCAIIMFDVTSRVTYKNVPNWHRDLVRVCG-N--IPIVLCGNKVDIKD-RKVK-AKQITFHRKKNLQYYEISAKSNYNFE  148 (166)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCC-C--CcEEEEEEchhccc-ccCC-HHHHHHHHHcCCEEEEEeCCCCCChH
Confidence            339999999999999999999999986654 2  99999999999973 3333 34456667777899999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      ++|++|++.+.+
T Consensus       149 ~~f~~l~~~~~~  160 (166)
T cd00877         149 KPFLWLARKLLG  160 (166)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988865

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.80  E-value=1.1e-18  Score=122.41  Aligned_cols=87  Identities=21%  Similarity=0.156  Sum_probs=74.3

Q ss_pred             EEEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          31 IVIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      ++++|||++++.||+++..|+..+.+... .+  +|+++|+||+|+.....+...+...+++.++.+++++||+++.|+.
T Consensus        75 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  152 (163)
T cd04176          75 GFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEK--VPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVN  152 (163)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHH
Confidence            39999999999999999999999885432 23  9999999999997655666667788888888899999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         110 VNTRTPEINP  119 (158)
Q Consensus       110 ~lf~~l~~~~  119 (158)
                      ++|.++++.+
T Consensus       153 ~l~~~l~~~l  162 (163)
T cd04176         153 ELFAEIVRQM  162 (163)
T ss_pred             HHHHHHHHhc
Confidence            9999998754

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

>KOG0083|consensus

Probab=99.80  E-value=1.1e-19  Score=121.61  Aligned_cols=91  Identities=26%  Similarity=0.368  Sum_probs=84.8

Q ss_pred             EEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          31 IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++++||+++..||++++.|+.+++++....  +-++++|||||+..++.+..++++.+++.++++|.|+||++|.||+.
T Consensus        73 allllydiankasfdn~~~wlsei~ey~k~~--v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~  150 (192)
T KOG0083|consen   73 ALLLLYDIANKASFDNCQAWLSEIHEYAKEA--VALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDL  150 (192)
T ss_pred             eeeeeeecccchhHHHHHHHHHHHHHHHHhh--HhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhH
Confidence            3999999999999999999999999887665  88999999999988888999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      .|-.|.+.+.+..
T Consensus       151 af~~ia~~l~k~~  163 (192)
T KOG0083|consen  151 AFLAIAEELKKLK  163 (192)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988764

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.80  E-value=1.9e-18  Score=120.78  Aligned_cols=90  Identities=29%  Similarity=0.384  Sum_probs=78.6

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +.+++|||++++.+|+.+..|+..+..+....  +|+++|+||+|+.....+..+.+..+++.++++++++||+++.|++
T Consensus        74 d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~--~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  151 (164)
T smart00175       74 VGALLVYDITNRESFENLKNWLKELREYADPN--VVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVE  151 (164)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHH
Confidence            34999999999999999999999998665433  9999999999997656667778888888889999999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      ++|+.+.+.+.+
T Consensus       152 ~l~~~i~~~~~~  163 (164)
T smart00175      152 EAFEELAREILK  163 (164)
T ss_pred             HHHHHHHHHHhh
Confidence            999999988754

Rab GTPases are implicated in vesicle trafficking.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.79  E-value=1.4e-18  Score=122.25  Aligned_cols=107  Identities=26%  Similarity=0.266  Sum_probs=85.2

Q ss_pred             cceEEEEEEECCCC------------CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc
Q psy2600          14 YEIQLKVVLLGDPS------------CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV   81 (158)
Q Consensus        14 ~~~~~ki~~~G~~~------------vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~   81 (158)
                      ..+.++++..+...            ..+++|+|||++++.||+.+..|+..+........++|+++|+||+|+...+.+
T Consensus        45 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v  124 (165)
T cd04146          45 EQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQV  124 (165)
T ss_pred             EEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCcc
Confidence            34556666655433            136699999999999999999999988865420112999999999999766667


Q ss_pred             cHHHHHHHHHHhCCeEEEEeCCCC-CCHHHHHHHHHHHHH
Q psy2600          82 TLERHAKLAQSLHLHSFAVSARTG-DNCWVNTRTPEINPL  120 (158)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~Sa~~~-~~i~~lf~~l~~~~~  120 (158)
                      ..+++..+++..+..|+++||+++ .||+++|+.+++.+.
T Consensus       125 ~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l~~~~~  164 (165)
T cd04146         125 STEEGEKLASELGCLFFEVSAAEDYDGVHSVFHELCREVR  164 (165)
T ss_pred             CHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHHHHHHh
Confidence            778888999998999999999999 499999999998764

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.79  E-value=1.7e-18  Score=121.05  Aligned_cols=86  Identities=24%  Similarity=0.280  Sum_probs=75.6

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +++++|||++++++|+.+..|+..+......   +|+++|+||+|+.....+..+++..+++.++++++++||++|.|++
T Consensus        76 ~~~v~v~d~~~~~s~~~l~~~~~~~~~~~~~---~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  152 (162)
T cd04106          76 QACILVFSTTDRESFEAIESWKEKVEAECGD---IPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVT  152 (162)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCCC---CCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHH
Confidence            4499999999999999999999998754433   9999999999997666677778888999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         110 VNTRTPEIN  118 (158)
Q Consensus       110 ~lf~~l~~~  118 (158)
                      ++|+.|...
T Consensus       153 ~l~~~l~~~  161 (162)
T cd04106         153 ELFEYLAEK  161 (162)
T ss_pred             HHHHHHHHh
Confidence            999998754

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.79  E-value=3.1e-18  Score=124.23  Aligned_cols=103  Identities=17%  Similarity=0.177  Sum_probs=86.3

Q ss_pred             CcceEEEEEEE-CCC--------CCCeEEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCC-----
Q psy2600          13 NYEIQLKVVLL-GDP--------SCGKIVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEH-----   77 (158)
Q Consensus        13 ~~~~~~ki~~~-G~~--------~vgk~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~-----   77 (158)
                      +..+.+.+|.. |..        .-++++|+|||++++.||+.+. .|+..++.....   +|+++||||+||..     
T Consensus        63 ~~~v~l~iwDTaG~~~~~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~---~piilvgNK~DL~~~~~~~  139 (195)
T cd01873          63 GVSVSLRLWDTFGDHDKDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPR---VPVILVGCKLDLRYADLDE  139 (195)
T ss_pred             CEEEEEEEEeCCCChhhhhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCC---CCEEEEEEchhccccccch
Confidence            44566777775 542        3568899999999999999997 699998865432   89999999999863     


Q ss_pred             --------------CccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHH
Q psy2600          78 --------------QRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        78 --------------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                                    .+.++.++++.+++.+++.|+||||++|.||+++|+.+++.
T Consensus       140 ~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         140 VNRARRPLARPIKNADILPPETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             hhhcccccccccccCCccCHHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
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.

>cd04116 Rab9 Rab9 subfamily

Probab=99.79  E-value=4.6e-18  Score=120.01  Aligned_cols=86  Identities=17%  Similarity=0.278  Sum_probs=72.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCC--CCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC-CeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKS--STPTYVALVANKGDMEHQRVVTLERHAKLAQSLH-LHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i  108 (158)
                      +++|||+++++||+.+..|+..+......  ...+|+++|+||+|+. .+.+..+++.++++.++ ..++++||++|.|+
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v  159 (170)
T cd04116          81 CLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNV  159 (170)
T ss_pred             EEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCH
Confidence            88999999999999999999988753321  1128999999999986 44566778888988887 47999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         109 WVNTRTPEIN  118 (158)
Q Consensus       109 ~~lf~~l~~~  118 (158)
                      .++|+.+++.
T Consensus       160 ~~~~~~~~~~  169 (170)
T cd04116         160 AAAFEEAVRR  169 (170)
T ss_pred             HHHHHHHHhh
Confidence            9999999875

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

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=99.79  E-value=3.7e-18  Score=118.93  Aligned_cols=85  Identities=24%  Similarity=0.259  Sum_probs=72.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||+++..+|+.+..|+..+.+... ..  +|+++|+||+|+.. +.....+...+++.++..++++||++|.|+++
T Consensus        76 ~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~--~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  152 (162)
T cd04138          76 FLCVFAINSRKSFEDIHTYREQIKRVKDSDD--VPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEE  152 (162)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHH
Confidence            8999999999999999999998885532 23  89999999999865 34556677788888899999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         111 NTRTPEINP  119 (158)
Q Consensus       111 lf~~l~~~~  119 (158)
                      +|+++++.+
T Consensus       153 l~~~l~~~~  161 (162)
T cd04138         153 AFYTLVREI  161 (162)
T ss_pred             HHHHHHHHh
Confidence            999998754

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.78  E-value=3.2e-18  Score=121.13  Aligned_cols=86  Identities=28%  Similarity=0.402  Sum_probs=76.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCC---CCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSART---GDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~~  107 (158)
                      +++|||++++.+|+.+..|+..+..... ..  +|+++|+||+|+...+.+...++..+++.+++.|+++||++   +.|
T Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~  156 (170)
T cd04115          79 VVFVYDVTNMASFHSLPSWIEECEQHSLPNE--VPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDH  156 (170)
T ss_pred             EEEEEECCCHHHHHhHHHHHHHHHHhcCCCC--CCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCC
Confidence            9999999999999999999999885532 23  99999999999987777777888889998889999999999   889


Q ss_pred             HHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINP  119 (158)
Q Consensus       108 i~~lf~~l~~~~  119 (158)
                      |+++|..+++.+
T Consensus       157 i~~~f~~l~~~~  168 (170)
T cd04115         157 VEAIFMTLAHKL  168 (170)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998765

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

>PTZ00099 rab6; Provisional

Probab=99.78  E-value=1.2e-17  Score=119.30  Aligned_cols=108  Identities=26%  Similarity=0.291  Sum_probs=88.8

Q ss_pred             CcceEEEEEEECCCC-----------CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc
Q psy2600          13 NYEIQLKVVLLGDPS-----------CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV   81 (158)
Q Consensus        13 ~~~~~~ki~~~G~~~-----------vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~   81 (158)
                      +..+++.+|..+...           -++++|+|||++++.||+.+..|+..+.......  +|+++|+||+|+...+.+
T Consensus        26 ~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~--~piilVgNK~DL~~~~~v  103 (176)
T PTZ00099         26 EGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKD--VIIALVGNKTDLGDLRKV  103 (176)
T ss_pred             CEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CeEEEEEECcccccccCC
Confidence            344566666655322           4567999999999999999999999987544333  899999999999766667


Q ss_pred             cHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          82 TLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      ..+++..+++.++..|+++||++|.||+++|++|++.+.+.
T Consensus       104 ~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~  144 (176)
T PTZ00099        104 TYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNL  144 (176)
T ss_pred             CHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            78888888888888999999999999999999999998764

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=99.78  E-value=1.7e-18  Score=122.52  Aligned_cols=90  Identities=20%  Similarity=0.236  Sum_probs=76.4

Q ss_pred             CCeEEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc------------cccHHHHHHHHHHhC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQR------------VVTLERHAKLAQSLH   94 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~   94 (158)
                      ..+++|+|||+++++||+.+. .|+..+..+.+.   +|+++|+||+|+....            .++.+++..+++.++
T Consensus        69 ~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~  145 (174)
T smart00174       69 DTDVFLICFSVDSPASFENVKEKWYPEVKHFCPN---TPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIG  145 (174)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCC---CCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcC
Confidence            347799999999999999986 699998865443   9999999999986422            266778888999988


Q ss_pred             C-eEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          95 L-HSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        95 ~-~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      . .|+++||+++.||+++|+.+++.+.
T Consensus       146 ~~~~~e~Sa~~~~~v~~lf~~l~~~~~  172 (174)
T smart00174      146 AVKYLECSALTQEGVREVFEEAIRAAL  172 (174)
T ss_pred             CcEEEEecCCCCCCHHHHHHHHHHHhc
Confidence            5 8999999999999999999998764

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.78  E-value=4.4e-18  Score=119.28  Aligned_cols=88  Identities=25%  Similarity=0.278  Sum_probs=75.6

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      ++++++|||++++.+|+.+..|+..+......   +|+++|+||+|+.....+....+..++..++..++++||+++.|+
T Consensus        76 ~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~---~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  152 (164)
T cd04101          76 PSVFILVYDVSNKASFENCSRWVNKVRTASKH---MPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGY  152 (164)
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC---CCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCh
Confidence            34599999999999999999999998865422   899999999999766666666777777778889999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         109 WVNTRTPEINP  119 (158)
Q Consensus       109 ~~lf~~l~~~~  119 (158)
                      +++|+.+++.+
T Consensus       153 ~~l~~~l~~~~  163 (164)
T cd04101         153 EEPFESLARAF  163 (164)
T ss_pred             HHHHHHHHHHh
Confidence            99999998864

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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.78  E-value=6.8e-18  Score=119.77  Aligned_cols=90  Identities=21%  Similarity=0.275  Sum_probs=74.2

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCcc--ccHHHHHHHHHHhCCeEEEEeCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRV--VTLERHAKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~Sa~~~~  106 (158)
                      +.+++|||++++.+|+.+..|+..+.+.. +..  +|+++|+||+|+.....  ...+++..+++.++..|+++||++|.
T Consensus        74 d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~--~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~  151 (170)
T cd04108          74 QAIIIVFDLTDVASLEHTRQWLEDALKENDPSS--VLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGE  151 (170)
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCC--CeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCC
Confidence            34999999999999999999999986443 333  78999999999854332  34556777888888899999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      |++++|+.+++.+.+
T Consensus       152 ~v~~lf~~l~~~~~~  166 (170)
T cd04108         152 NVREFFFRVAALTFE  166 (170)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999988754

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

>cd04148 RGK RGK subfamily

Probab=99.78  E-value=5.7e-18  Score=125.06  Aligned_cols=108  Identities=19%  Similarity=0.129  Sum_probs=88.9

Q ss_pred             cceEEEEEEECCCC----------CCeEEEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCcccc
Q psy2600          14 YEIQLKVVLLGDPS----------CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVT   82 (158)
Q Consensus        14 ~~~~~ki~~~G~~~----------vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~   82 (158)
                      .++.+.++..+...          -++++++|||++++.||+.+..|+..+..... ..  +|+++|+||+|+...+.+.
T Consensus        48 ~~~~l~i~Dt~G~~~~~~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~--~piilV~NK~Dl~~~~~v~  125 (221)
T cd04148          48 EESTLVVIDHWEQEMWTEDSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLED--RPIILVGNKSDLARSREVS  125 (221)
T ss_pred             EEEEEEEEeCCCcchHHHhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEEChhccccceec
Confidence            34555666655432          46889999999999999999999999886432 22  9999999999997767777


Q ss_pred             HHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          83 LERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      .+++..++..+++.|+++||+++.||+++|+.+++.+....
T Consensus       126 ~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l~~~~~~~~  166 (221)
T cd04148         126 VQEGRACAVVFDCKFIETSAGLQHNVDELLEGIVRQIRLRR  166 (221)
T ss_pred             HHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHhhh
Confidence            77788888888999999999999999999999999887543

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.78  E-value=5.1e-18  Score=121.67  Aligned_cols=93  Identities=20%  Similarity=0.195  Sum_probs=78.0

Q ss_pred             CCeEEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCC----ccccHHHHHHHHHHhCC-eEEEEe
Q psy2600          28 CGKIVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQ----RVVTLERHAKLAQSLHL-HSFAVS  101 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~----~~~~~~~~~~~~~~~~~-~~~~~S  101 (158)
                      .++++++|||++++.||+.+. .|+..+......   +|+++|+||+|+...    +.+...++..++..++. .++++|
T Consensus        72 ~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  148 (187)
T cd04132          72 DVDVLLICYAVDNPTSLDNVEDKWFPEVNHFCPG---TPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECS  148 (187)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEcc
Confidence            346699999999999999986 698888754432   899999999998642    24567788889999887 899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHhH
Q psy2600         102 ARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus       102 a~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      |++|.||.++|..+++.+....
T Consensus       149 a~~~~~v~~~f~~l~~~~~~~~  170 (187)
T cd04132         149 AKTMENVEEVFDTAIEEALKKE  170 (187)
T ss_pred             CCCCCCHHHHHHHHHHHHHhhh
Confidence            9999999999999999887754

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.

>cd04123 Rab21 Rab21 subfamily

Probab=99.77  E-value=9.1e-18  Score=116.92  Aligned_cols=88  Identities=28%  Similarity=0.388  Sum_probs=76.6

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +++++|||+++.++++.+..|+.++.......  +|+++|+||+|+.....+...+...+++.++..++++||+++.|++
T Consensus        74 ~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~  151 (162)
T cd04123          74 DGAILVYDITDADSFQKVKKWIKELKQMRGNN--ISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIE  151 (162)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            34999999999999999999999998665544  9999999999998666666777788888889999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         110 VNTRTPEINP  119 (158)
Q Consensus       110 ~lf~~l~~~~  119 (158)
                      ++|+++.+.+
T Consensus       152 ~~~~~l~~~~  161 (162)
T cd04123         152 ELFLSLAKRM  161 (162)
T ss_pred             HHHHHHHHHh
Confidence            9999998764

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.77  E-value=9.2e-18  Score=117.84  Aligned_cols=85  Identities=22%  Similarity=0.350  Sum_probs=71.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.+|+++..|+..+++....   +|+++|+||+|+...  . ..+...+++..+++++++||++|.|++++
T Consensus        76 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~---~p~ivv~nK~Dl~~~--~-~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l  149 (161)
T cd04124          76 CILVFDVTRKITYKNLSKWYEELREYRPE---IPCIVVANKIDLDPS--V-TQKKFNFAEKHNLPLYYVSAADGTNVVKL  149 (161)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCCC---CcEEEEEECccCchh--H-HHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            99999999999999999999999865433   899999999998532  1 23455677777889999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+.+++.+.++
T Consensus       150 ~~~l~~~~~~~  160 (161)
T cd04124         150 FQDAIKLAVSY  160 (161)
T ss_pred             HHHHHHHHHhc
Confidence            99999887653

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.77  E-value=1.6e-17  Score=116.27  Aligned_cols=88  Identities=33%  Similarity=0.423  Sum_probs=76.9

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +++++|||++++++|+....|+..+.......  +|+++++||+|+........++...+.+.++..++++||++|.|+.
T Consensus        75 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  152 (163)
T cd01860          75 AAAIVVYDITSEESFEKAKSWVKELQRNASPN--IIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVN  152 (163)
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence            44999999999999999999999998655333  9999999999987655666778888888888999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         110 VNTRTPEINP  119 (158)
Q Consensus       110 ~lf~~l~~~~  119 (158)
                      ++|+.+++.+
T Consensus       153 ~l~~~l~~~l  162 (163)
T cd01860         153 ELFTEIAKKL  162 (163)
T ss_pred             HHHHHHHHHh
Confidence            9999999875

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

>PLN03118 Rab family protein; Provisional

Probab=99.77  E-value=1.8e-17  Score=121.38  Aligned_cols=90  Identities=24%  Similarity=0.309  Sum_probs=75.0

Q ss_pred             EEEEEECCChhHHhhHHH-HHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPT-WVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|||++++++|+.+.. |...+...... ...|+++|+||+|+...+.+..++...++..+++.|+++||+++.|+++
T Consensus        89 ~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~-~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~~  167 (211)
T PLN03118         89 IILVYDVTRRETFTNLSDVWGKEVELYSTN-QDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQ  167 (211)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            899999999999999975 66666543321 1279999999999976666777788888888899999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|+.|.+.+.+.
T Consensus       168 l~~~l~~~~~~~  179 (211)
T PLN03118        168 CFEELALKIMEV  179 (211)
T ss_pred             HHHHHHHHHHhh
Confidence            999999998664

>cd04118 Rab24 Rab24 subfamily

Probab=99.77  E-value=2.1e-17  Score=119.07  Aligned_cols=90  Identities=23%  Similarity=0.316  Sum_probs=75.9

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC----ccccHHHHHHHHHHhCCeEEEEeCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQ----RVVTLERHAKLAQSLHLHSFAVSARTG  105 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~  105 (158)
                      +.+++|||++++.+|+.+..|+..+......   .|+++|+||+|+...    +.+...++..+++.++..++++||+++
T Consensus        75 d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~---~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~  151 (193)
T cd04118          75 KAAIVCYDLTDSSSFERAKFWVKELQNLEEH---CKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTG  151 (193)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHhcCCC---CCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCC
Confidence            4499999999999999999999998865432   899999999998532    344556677788888899999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy2600         106 DNCWVNTRTPEINPLKY  122 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~  122 (158)
                      .|++++|+.+++.+.+.
T Consensus       152 ~gv~~l~~~i~~~~~~~  168 (193)
T cd04118         152 QNVDELFQKVAEDFVSR  168 (193)
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999999988764

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.76  E-value=9.1e-18  Score=119.10  Aligned_cols=85  Identities=19%  Similarity=0.316  Sum_probs=71.7

Q ss_pred             eEEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCC------------CccccHHHHHHHHHHhCC-
Q psy2600          30 KIVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEH------------QRVVTLERHAKLAQSLHL-   95 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-   95 (158)
                      +++|+|||++++.+|+.+. .|+..+......   +|+++|+||+|+..            .+.+..+++..+++..+. 
T Consensus        73 ~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~  149 (173)
T cd04130          73 DVFLLCFSVVNPSSFQNISEKWIPEIRKHNPK---APIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGAC  149 (173)
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHhhCCC---CCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCC
Confidence            4499999999999999985 799888754332   89999999999853            345677888999998887 


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHH
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEI  117 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~  117 (158)
                      .|+++||++|.||+++|+.++-
T Consensus       150 ~~~e~Sa~~~~~v~~lf~~~~~  171 (173)
T cd04130         150 EYIECSALTQKNLKEVFDTAIL  171 (173)
T ss_pred             eEEEEeCCCCCCHHHHHHHHHh
Confidence            8999999999999999998763

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,

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.76  E-value=1e-17  Score=125.67  Aligned_cols=94  Identities=17%  Similarity=0.184  Sum_probs=75.2

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcC-------CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH-hCCeEEEE
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRK-------SSTPTYVALVANKGDMEHQRVVTLERHAKLAQS-LHLHSFAV  100 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-------~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~  100 (158)
                      ++++|+|||+++++||+.+..|++++.....       ...++|+++|+||+|+...+.+..+++..++.. .++.++++
T Consensus        72 ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~ev  151 (247)
T cd04143          72 GDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEV  151 (247)
T ss_pred             CCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEE
Confidence            4559999999999999999999999874311       111289999999999976556667777776654 46789999


Q ss_pred             eCCCCCCHHHHHHHHHHHHHHh
Q psy2600         101 SARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       101 Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      ||++|.||+++|+.|++.....
T Consensus       152 SAktg~gI~elf~~L~~~~~~p  173 (247)
T cd04143         152 SAKKNSNLDEMFRALFSLAKLP  173 (247)
T ss_pred             eCCCCCCHHHHHHHHHHHhccc
Confidence            9999999999999999876443

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.76  E-value=2.8e-17  Score=115.70  Aligned_cols=86  Identities=24%  Similarity=0.362  Sum_probs=73.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||+++..+|+.+..|+..++......  +|+++|+||+|+...+.+.......+.+.....++++||++|.|+.++
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~--~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l  160 (169)
T cd04114          83 LILTYDITCEESFRCLPEWLREIEQYANNK--VITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKL  160 (169)
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHH
Confidence            999999999999999999999888655443  899999999999766666666677777777788999999999999999


Q ss_pred             HHHHHHHH
Q psy2600         112 TRTPEINP  119 (158)
Q Consensus       112 f~~l~~~~  119 (158)
                      |+.+.+.+
T Consensus       161 ~~~i~~~~  168 (169)
T cd04114         161 FLDLACRL  168 (169)
T ss_pred             HHHHHHHh
Confidence            99998764

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.

>cd01861 Rab6 Rab6 subfamily

Probab=99.76  E-value=1.9e-17  Score=115.61  Aligned_cols=87  Identities=30%  Similarity=0.420  Sum_probs=75.4

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +.+++|||++++.+|+.+..|+..+......+  .|+++|+||+|+...+....++...+++..++.++++||+++.|++
T Consensus        74 ~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  151 (161)
T cd01861          74 SVAVVVYDITNRQSFDNTDKWIDDVRDERGND--VIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVK  151 (161)
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHH
Confidence            44999999999999999999999987544433  9999999999996555666777888888888999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         110 VNTRTPEIN  118 (158)
Q Consensus       110 ~lf~~l~~~  118 (158)
                      ++|+.+.+.
T Consensus       152 ~l~~~i~~~  160 (161)
T cd01861         152 ELFRKIASA  160 (161)
T ss_pred             HHHHHHHHh
Confidence            999999864

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.75  E-value=2.9e-17  Score=115.93  Aligned_cols=87  Identities=22%  Similarity=0.232  Sum_probs=74.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC-CeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH-LHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~  109 (158)
                      +++|||++++++|+.+..|...+.+.. ..+  .|+++++||+|+...+.+..++...+++.++ .+++++||+++.||.
T Consensus        76 ~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~--~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~  153 (168)
T cd04177          76 FLLVYSVTSEASLNELGELREQVLRIKDSDN--VPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVD  153 (168)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhCCCC--CCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHH
Confidence            899999999999999999999887532 223  9999999999997666666777778888887 789999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         110 VNTRTPEINPL  120 (158)
Q Consensus       110 ~lf~~l~~~~~  120 (158)
                      ++|+++++.+.
T Consensus       154 ~~f~~i~~~~~  164 (168)
T cd04177         154 EVFIDLVRQII  164 (168)
T ss_pred             HHHHHHHHHHh
Confidence            99999998664

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.75  E-value=2.1e-17  Score=118.81  Aligned_cols=92  Identities=17%  Similarity=0.277  Sum_probs=76.3

Q ss_pred             CeEEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCC----------CccccHHHHHHHHHHhCC-e
Q psy2600          29 GKIVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEH----------QRVVTLERHAKLAQSLHL-H   96 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~----------~~~~~~~~~~~~~~~~~~-~   96 (158)
                      ++.++++||+++.++|+.+. .|+..+......   +|+++|+||+|+..          .+.+..+++..+++.++. .
T Consensus        73 a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~~---~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (187)
T cd04129          73 AHVILIGFAVDTPDSLENVRTKWIEEVRRYCPN---VPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKK  149 (187)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcE
Confidence            35599999999999999996 699998865443   99999999999843          234556778888888884 7


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          97 SFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        97 ~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      ||+|||++|.||+++|+.+++.+....
T Consensus       150 ~~e~Sa~~~~~v~~~f~~l~~~~~~~~  176 (187)
T cd04129         150 YMECSALTGEGVDDVFEAATRAALLVR  176 (187)
T ss_pred             EEEccCCCCCCHHHHHHHHHHHHhccc
Confidence            999999999999999999998876543

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).

>cd04135 Tc10 TC10 subfamily

Probab=99.75  E-value=2.3e-17  Score=116.79  Aligned_cols=87  Identities=18%  Similarity=0.245  Sum_probs=72.3

Q ss_pred             eEEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhCC-
Q psy2600          30 KIVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLHL-   95 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-   95 (158)
                      +.+++|||++++.+|+.+. .|+..+.... .+  .|+++|+||+|+...            ..++.+++..+++..+. 
T Consensus        73 ~~~ilv~~~~~~~s~~~~~~~~~~~l~~~~-~~--~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  149 (174)
T cd04135          73 DVFLICFSVVNPASFQNVKEEWVPELKEYA-PN--VPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAH  149 (174)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CC--CCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCC
Confidence            4499999999999999985 7888887553 33  999999999998532            24566778888888885 


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHH
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      .|++|||++|.||+++|+.+++.+
T Consensus       150 ~~~e~Sa~~~~gi~~~f~~~~~~~  173 (174)
T cd04135         150 CYVECSALTQKGLKTVFDEAILAI  173 (174)
T ss_pred             EEEEecCCcCCCHHHHHHHHHHHh
Confidence            699999999999999999998765

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

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

Probab=99.75  E-value=2e-17  Score=120.47  Aligned_cols=104  Identities=18%  Similarity=0.227  Sum_probs=83.7

Q ss_pred             cceEEEEEEECCC-----------CCCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc
Q psy2600          14 YEIQLKVVLLGDP-----------SCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT   82 (158)
Q Consensus        14 ~~~~~ki~~~G~~-----------~vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~   82 (158)
                      ..+.+.+|..+..           ..++++|+|||++++.||+.+..|+.++.+....   +|+++||||+|+.. +.+.
T Consensus        42 ~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~~~---~piilvgNK~Dl~~-~~v~  117 (200)
T smart00176       42 GPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCEN---IPIVLCGNKVDVKD-RKVK  117 (200)
T ss_pred             EEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCC---CCEEEEEECccccc-ccCC
Confidence            4566667766543           2457899999999999999999999999875432   99999999999854 3344


Q ss_pred             HHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          83 LERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      .+ ...+++..++.|++|||++|.||.++|.++++.+.+.
T Consensus       118 ~~-~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176      118 AK-SITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             HH-HHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            33 3467778889999999999999999999999988664

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.74  E-value=5.2e-17  Score=113.42  Aligned_cols=87  Identities=23%  Similarity=0.240  Sum_probs=73.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|.....|+..+..... .+  +|+++|+||+|+.............+++.++.+++++||++|.|+++
T Consensus        75 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  152 (164)
T cd04139          75 FLLVFSITDMESFTATAEFREQILRVKDDDN--VPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEK  152 (164)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHH
Confidence            8999999999999999999988885422 23  99999999999975444556677778888889999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         111 NTRTPEINPL  120 (158)
Q Consensus       111 lf~~l~~~~~  120 (158)
                      +|+.+.+.+.
T Consensus       153 l~~~l~~~~~  162 (164)
T cd04139         153 AFYDLVREIR  162 (164)
T ss_pred             HHHHHHHHHH
Confidence            9999988764

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.74  E-value=2.4e-17  Score=116.80  Aligned_cols=87  Identities=16%  Similarity=0.190  Sum_probs=70.2

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCCH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDNC  108 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i  108 (158)
                      +.+++|||.+++.+|+.+..|+..+....  +  +|+++|+||+|+...+.....+...+++.++. .++++||+++.|+
T Consensus        79 d~~llv~d~~~~~s~~~~~~~~~~~~~~~--~--~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  154 (169)
T cd01892          79 DVACLVYDSSDPKSFSYCAEVYKKYFMLG--E--IPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSS  154 (169)
T ss_pred             CEEEEEEeCCCHHHHHHHHHHHHHhccCC--C--CeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccH
Confidence            34999999999999999999998764321  2  99999999999965444333456677787876 4799999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         109 WVNTRTPEINPL  120 (158)
Q Consensus       109 ~~lf~~l~~~~~  120 (158)
                      .++|+.+++.+.
T Consensus       155 ~~lf~~l~~~~~  166 (169)
T cd01892         155 NELFTKLATAAQ  166 (169)
T ss_pred             HHHHHHHHHHhh
Confidence            999999998764

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.

>KOG4252|consensus

Probab=99.73  E-value=1.6e-17  Score=116.30  Aligned_cols=115  Identities=19%  Similarity=0.254  Sum_probs=104.4

Q ss_pred             ccccCCCCcceEEEEEEECCCCCCeE------------------------------------------------------
Q psy2600           6 MLNLHNDNYEIQLKVVLLGDPSCGKI------------------------------------------------------   31 (158)
Q Consensus         6 ~~~~~~~~~~~~~ki~~~G~~~vgk~------------------------------------------------------   31 (158)
                      .+.+..+.++..+|++++|+.+|||+                                                      
T Consensus         9 ~~am~e~d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkA   88 (246)
T KOG4252|consen    9 GMAMDETDYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKA   88 (246)
T ss_pred             cCCCCchhhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHH
Confidence            35667778889999999999999998                                                      


Q ss_pred             -------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCC
Q psy2600          32 -------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSART  104 (158)
Q Consensus        32 -------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  104 (158)
                             .++||+.+|..||+.+..|++++.....+   +|.++|-||+|+..+.+++..+.+.+++.++..++.+|++.
T Consensus        89 yyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~~---IPtV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvke  165 (246)
T KOG4252|consen   89 YYRGAQASVLVFSTTDRYSFEATLEWYNKVQKETER---IPTVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKE  165 (246)
T ss_pred             HhccccceEEEEecccHHHHHHHHHHHHHHHHHhcc---CCeEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhh
Confidence                   88999999999999999999999865554   99999999999998888999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhH
Q psy2600         105 GDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~~~~  123 (158)
                      ..||..+|..|+..+.+..
T Consensus       166 d~NV~~vF~YLaeK~~q~~  184 (246)
T KOG4252|consen  166 DFNVMHVFAYLAEKLTQQK  184 (246)
T ss_pred             hhhhHHHHHHHHHHHHHHH
Confidence            9999999999998776654

>cd01862 Rab7 Rab7 subfamily

Probab=99.73  E-value=1.3e-16  Score=112.50  Aligned_cols=93  Identities=26%  Similarity=0.356  Sum_probs=75.9

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcC-C-CCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC-CeEEEEeCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRK-S-STPTYVALVANKGDMEHQRVVTLERHAKLAQSLH-LHSFAVSARTGD  106 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~  106 (158)
                      +++|+|||++++.+|+....|...+..... . ...+|+++|+||+|+........++...+.+..+ ..++++||++|.
T Consensus        74 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  153 (172)
T cd01862          74 DCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAI  153 (172)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCC
Confidence            459999999999999999899888764322 1 1128999999999997544555677778888887 789999999999


Q ss_pred             CHHHHHHHHHHHHHHh
Q psy2600         107 NCWVNTRTPEINPLKY  122 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~~  122 (158)
                      |++++|+.+.+.+.+.
T Consensus       154 gv~~l~~~i~~~~~~~  169 (172)
T cd01862         154 NVEQAFETIARKALEQ  169 (172)
T ss_pred             CHHHHHHHHHHHHHhc
Confidence            9999999999988764

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-

>cd01863 Rab18 Rab18 subfamily

Probab=99.72  E-value=1.4e-16  Score=111.29  Aligned_cols=87  Identities=28%  Similarity=0.338  Sum_probs=73.9

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      .+++++|||++++.+|+.+..|+..+..+.. .+  +|+++|+||+|+.. .....++...+++..++.++++||++|.|
T Consensus        73 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~~~~iv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  149 (161)
T cd01863          73 AQGVILVYDVTRRDTFTNLETWLNELETYSTNND--IVKMLVGNKIDKEN-REVTREEGLKFARKHNMLFIETSAKTRDG  149 (161)
T ss_pred             CCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCC--CcEEEEEECCcccc-cccCHHHHHHHHHHcCCEEEEEecCCCCC
Confidence            4569999999999999999999999886542 33  89999999999973 34456678888888899999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         108 CWVNTRTPEIN  118 (158)
Q Consensus       108 i~~lf~~l~~~  118 (158)
                      ++++|+.+.+.
T Consensus       150 i~~~~~~~~~~  160 (161)
T cd01863         150 VQQAFEELVEK  160 (161)
T ss_pred             HHHHHHHHHHh
Confidence            99999998865

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

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.71  E-value=2.9e-16  Score=111.79  Aligned_cols=89  Identities=29%  Similarity=0.252  Sum_probs=75.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||+++..+|+.+..|+..+.+.. ..+  .|+++|+||+|+...+.+...+...+++.++..++++||+++.|+.+
T Consensus        76 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~--~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~  153 (180)
T cd04137          76 YILVYSVTSRKSFEVVKVIYDKILDMLGKES--VPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEE  153 (180)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHH
Confidence            899999999999999999988887543 222  89999999999976555666667778888888999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|.++.+.+...
T Consensus       154 l~~~l~~~~~~~  165 (180)
T cd04137         154 AFELLIEEIEKV  165 (180)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988654

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.71  E-value=2.5e-16  Score=111.55  Aligned_cols=87  Identities=20%  Similarity=0.298  Sum_probs=70.2

Q ss_pred             eEEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhC-C
Q psy2600          30 KIVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLH-L   95 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~   95 (158)
                      +++++|||++++++|+.+. .|...+++....   .|+++|+||+|+...            ..+...++..+++..+ .
T Consensus        74 d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~  150 (175)
T cd01870          74 DVILMCFSIDSPDSLENIPEKWTPEVKHFCPN---VPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAF  150 (175)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhhCCC---CCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCc
Confidence            4588999999999999985 688888764332   899999999998532            2344566777888777 4


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHH
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      .+++|||++|.|++++|+++++.+
T Consensus       151 ~~~~~Sa~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         151 GYMECSAKTKEGVREVFEMATRAA  174 (175)
T ss_pred             EEEEeccccCcCHHHHHHHHHHHh
Confidence            799999999999999999998764

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

>cd00876 Ras Ras family

Probab=99.70  E-value=2.6e-16  Score=109.32  Aligned_cols=87  Identities=24%  Similarity=0.232  Sum_probs=75.6

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      +.+++|||++++++++++..|+..+..... ..  +|+++|+||+|+.....+..+.+..+++.++.+++++||+++.|+
T Consensus        72 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  149 (160)
T cd00876          72 DGFILVYSITDRESFEEIKGYREQILRVKDDED--IPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINI  149 (160)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCH
Confidence            349999999999999999999988885543 23  999999999999875666777888888888889999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         109 WVNTRTPEIN  118 (158)
Q Consensus       109 ~~lf~~l~~~  118 (158)
                      .++|+.|++.
T Consensus       150 ~~l~~~l~~~  159 (160)
T cd00876         150 DEVFKLLVRE  159 (160)
T ss_pred             HHHHHHHHhh
Confidence            9999999875

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

>cd00154 Rab Rab family

Probab=99.70  E-value=3.2e-16  Score=108.20  Aligned_cols=85  Identities=31%  Similarity=0.395  Sum_probs=73.6

Q ss_pred             EEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          31 IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      ++++|+|++++++++.+..|+..+.......  .|+++++||+|+........++...+.+.++.+++++||+++.|+++
T Consensus        75 ~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~--~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  152 (159)
T cd00154          75 GAILVYDITNRESFENLDKWLKELKEYAPEN--IPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEE  152 (159)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHH
Confidence            3999999999999999999999998765333  89999999999964455567788888888889999999999999999


Q ss_pred             HHHHHHH
Q psy2600         111 NTRTPEI  117 (158)
Q Consensus       111 lf~~l~~  117 (158)
                      +|++|.+
T Consensus       153 ~~~~i~~  159 (159)
T cd00154         153 LFQSLAE  159 (159)
T ss_pred             HHHHHhC
Confidence            9998863

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

>cd04149 Arf6 Arf6 subfamily

Probab=99.68  E-value=3.1e-16  Score=111.04  Aligned_cols=82  Identities=12%  Similarity=0.079  Sum_probs=62.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH-----hCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS-----LHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~  105 (158)
                      +|+|||++++.+|+....|+.++.. .....  +|+++|+||+|+...  +..++...+...     .+..++++||++|
T Consensus        80 ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~--~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g  155 (168)
T cd04149          80 LIFVVDSADRDRIDEARQELHRIINDREMRD--ALLLVFANKQDLPDA--MKPHEIQEKLGLTRIRDRNWYVQPSCATSG  155 (168)
T ss_pred             EEEEEeCCchhhHHHHHHHHHHHhcCHhhcC--CcEEEEEECcCCccC--CCHHHHHHHcCCCccCCCcEEEEEeeCCCC
Confidence            9999999999999999888877753 22222  899999999998642  344455554321     2346899999999


Q ss_pred             CCHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEI  117 (158)
Q Consensus       106 ~~i~~lf~~l~~  117 (158)
                      .||.++|++|.+
T Consensus       156 ~gv~~~~~~l~~  167 (168)
T cd04149         156 DGLYEGLTWLSS  167 (168)
T ss_pred             CChHHHHHHHhc
Confidence            999999999865

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>cd01893 Miro1 Miro1 subfamily

Probab=99.68  E-value=5.3e-16  Score=109.33  Aligned_cols=89  Identities=17%  Similarity=0.198  Sum_probs=67.4

Q ss_pred             eEEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc--cHHHHHHHHHHhC--CeEEEEeCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV--TLERHAKLAQSLH--LHSFAVSART  104 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~--~~~~~~Sa~~  104 (158)
                      +.+++|||++++.+|+.+. .|+..++.... .  +|+++|+||+|+.+....  ..+....+++.++  ..++++||++
T Consensus        72 d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~-~--~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~  148 (166)
T cd01893          72 NVICLVYSVDRPSTLERIRTKWLPLIRRLGV-K--VPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKT  148 (166)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-C--CCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEecccc
Confidence            3499999999999999985 68888876543 2  999999999999654432  1223333444443  3799999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q psy2600         105 GDNCWVNTRTPEINPLK  121 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~~  121 (158)
                      |.|++++|+.+.+.+.+
T Consensus       149 ~~~v~~lf~~~~~~~~~  165 (166)
T cd01893         149 LINVSEVFYYAQKAVLH  165 (166)
T ss_pred             ccCHHHHHHHHHHHhcC
Confidence            99999999999887653

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

>cd04158 ARD1 ARD1 subfamily

Probab=99.68  E-value=4.1e-16  Score=110.33  Aligned_cols=90  Identities=13%  Similarity=0.132  Sum_probs=69.9

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC------CeEEEEe
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH------LHSFAVS  101 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~------~~~~~~S  101 (158)
                      .+++++|||.+++.+|+.+..|+..+.... ...  .|+++|+||+|+..  .++.++...+++..+      +.++++|
T Consensus        67 ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~--~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~S  142 (169)
T cd04158          67 TQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRD--ALLLIFANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYIQGCD  142 (169)
T ss_pred             CCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCC--CCEEEEEeCcCccc--CCCHHHHHHHhCCccccCCCcEEEEeCc
Confidence            356999999999999999999999887432 222  89999999999964  244556666554322      2578999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHh
Q psy2600         102 ARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       102 a~~~~~i~~lf~~l~~~~~~~  122 (158)
                      |++|.||.++|++|++.+...
T Consensus       143 a~~g~gv~~~f~~l~~~~~~~  163 (169)
T cd04158         143 ARSGMGLYEGLDWLSRQLVAA  163 (169)
T ss_pred             CCCCCCHHHHHHHHHHHHhhc
Confidence            999999999999999876653

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

>cd00157 Rho Rho (Ras homology) family

Probab=99.68  E-value=5.6e-16  Score=109.05  Aligned_cols=86  Identities=19%  Similarity=0.237  Sum_probs=70.3

Q ss_pred             CeEEEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc-----------cccHHHHHHHHHHhCC-
Q psy2600          29 GKIVIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQR-----------VVTLERHAKLAQSLHL-   95 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~~-   95 (158)
                      .+++++|||++++.+|.... .|+..+......   .|+++|+||+|+....           .+..+++..+...++. 
T Consensus        72 ~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  148 (171)
T cd00157          72 TDVFLICFSVDSPSSFENVKTKWIPEIRHYCPN---VPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAI  148 (171)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCC---CCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCe
Confidence            34599999999999998875 688887765543   9999999999986433           2345677778888886 


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHH
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEI  117 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~  117 (158)
                      .|+++||++|.|++++|+.+++
T Consensus       149 ~~~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         149 GYMECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             EEEEeecCCCCCHHHHHHHHhh
Confidence            8999999999999999999875

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

>KOG0393|consensus

Probab=99.67  E-value=9e-16  Score=110.19  Aligned_cols=89  Identities=19%  Similarity=0.278  Sum_probs=78.8

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhC-CeE
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLH-LHS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~   97 (158)
                      +++||++++++||+++ .+|+.+++.+.+.   +|+||||+|.||..+            ..++.+++..+++..| ..|
T Consensus        80 fl~cfsv~~p~S~~nv~~kW~pEi~~~cp~---vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y  156 (198)
T KOG0393|consen   80 FLLCFSVVSPESFENVKSKWIPEIKHHCPN---VPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKY  156 (198)
T ss_pred             EEEEEEcCChhhHHHHHhhhhHHHHhhCCC---CCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCccee
Confidence            8889999999999998 5899999988866   999999999999632            2467888999999999 679


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      +||||++..|+.++|+.+++......
T Consensus       157 ~EcSa~tq~~v~~vF~~a~~~~l~~~  182 (198)
T KOG0393|consen  157 LECSALTQKGVKEVFDEAIRAALRPP  182 (198)
T ss_pred             eeehhhhhCCcHHHHHHHHHHHhccc
Confidence            99999999999999999999887653

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.66  E-value=1.6e-15  Score=110.06  Aligned_cols=90  Identities=13%  Similarity=0.134  Sum_probs=71.6

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCC-CccccHHHHHHHHH-HhCCeEEEEeCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEH-QRVVTLERHAKLAQ-SLHLHSFAVSARTG  105 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~  105 (158)
                      .+++++|||++++.+|+.+..|+..+..... .+  +|+++|+||+|+.. .+.+.......... .++..++++||++|
T Consensus        71 ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g  148 (198)
T cd04147          71 SDAFALVYAVDDPESFEEVERLREEILEVKEDKF--VPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDN  148 (198)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCC
Confidence            4569999999999999999999998886543 23  99999999999864 34444444444333 44678999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPL  120 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~  120 (158)
                      .||.++|+++++.+.
T Consensus       149 ~gv~~l~~~l~~~~~  163 (198)
T cd04147         149 ENVLEVFKELLRQAN  163 (198)
T ss_pred             CCHHHHHHHHHHHhh
Confidence            999999999998775

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.

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.66  E-value=1.3e-15  Score=109.22  Aligned_cols=83  Identities=16%  Similarity=0.151  Sum_probs=62.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC--------eEEEEeC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL--------HSFAVSA  102 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--------~~~~~Sa  102 (158)
                      +|+|||++++++|+....|+..+.. .....  +|+++|+||+|+....  ..   ..+.+.+++        .++++||
T Consensus        88 iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~--~piilv~NK~Dl~~~~--~~---~~~~~~l~l~~~~~~~~~~~~~Sa  160 (181)
T PLN00223         88 LIFVVDSNDRDRVVEARDELHRMLNEDELRD--AVLLVFANKQDLPNAM--NA---AEITDKLGLHSLRQRHWYIQSTCA  160 (181)
T ss_pred             EEEEEeCCcHHHHHHHHHHHHHHhcCHhhCC--CCEEEEEECCCCCCCC--CH---HHHHHHhCccccCCCceEEEeccC
Confidence            9999999999999998887777652 21122  8999999999986532  22   233333332        3568999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q psy2600         103 RTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~~~  121 (158)
                      ++|+||.++|++|.+.+..
T Consensus       161 ~~g~gv~e~~~~l~~~~~~  179 (181)
T PLN00223        161 TSGEGLYEGLDWLSNNIAN  179 (181)
T ss_pred             CCCCCHHHHHHHHHHHHhh
Confidence            9999999999999987754

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.66  E-value=3.8e-16  Score=111.22  Aligned_cols=84  Identities=13%  Similarity=0.096  Sum_probs=61.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHH-----HHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLA-----QSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~  105 (158)
                      +|+|||++++.+|+....|+..+... ....  +|+++|+||+|+....  ..++.....     ....+.++++||++|
T Consensus        84 ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~--~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g  159 (175)
T smart00177       84 LIFVVDSNDRDRIDEAREELHRMLNEDELRD--AVILVFANKQDLPDAM--KAAEITEKLGLHSIRDRNWYIQPTCATSG  159 (175)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHhhCHhhcC--CcEEEEEeCcCcccCC--CHHHHHHHhCccccCCCcEEEEEeeCCCC
Confidence            99999999999999998888877532 2222  8999999999996432  222222211     112234678999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINP  119 (158)
Q Consensus       106 ~~i~~lf~~l~~~~  119 (158)
                      .||.++|++|.+.+
T Consensus       160 ~gv~e~~~~l~~~~  173 (175)
T smart00177      160 DGLYEGLTWLSNNL  173 (175)
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999998764

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.65  E-value=3.1e-16  Score=110.61  Aligned_cols=87  Identities=13%  Similarity=0.006  Sum_probs=67.7

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccH----HHHHHHHHHhCCeEEEEeCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTL----ERHAKLAQSLHLHSFAVSAR  103 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~----~~~~~~~~~~~~~~~~~Sa~  103 (158)
                      .++++++|||.+++.+|.....|+.++..... +  +|+++|+||+|+...+.+..    ..+..+++..++.++++||+
T Consensus        67 ~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~~-~--~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~  143 (164)
T cd04162          67 GSQGLIFVVDSADSERLPLARQELHQLLQHPP-D--LPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLD  143 (164)
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHHHhCCC-C--CcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeec
Confidence            34569999999999999999999888864332 2  99999999999976544321    12345556667889999999


Q ss_pred             C------CCCHHHHHHHHHH
Q psy2600         104 T------GDNCWVNTRTPEI  117 (158)
Q Consensus       104 ~------~~~i~~lf~~l~~  117 (158)
                      +      ++||.++|+.++.
T Consensus       144 ~~~s~~~~~~v~~~~~~~~~  163 (164)
T cd04162         144 DDGSPSRMEAVKDLLSQLIN  163 (164)
T ss_pred             CCCChhHHHHHHHHHHHHhc
Confidence            8      8999999998864

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.65  E-value=4e-15  Score=109.20  Aligned_cols=86  Identities=21%  Similarity=0.273  Sum_probs=70.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||+++..+|..+..|+..+......   +|+++++||+|+... .+.. ....+++..++.++++||++|.|++++
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~---~~i~lv~nK~Dl~~~-~~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~~~  159 (215)
T PTZ00132         85 AIIMFDVTSRITYKNVPNWHRDIVRVCEN---IPIVLVGNKVDVKDR-QVKA-RQITFHRKKNLQYYDISAKSNYNFEKP  159 (215)
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhCCC---CCEEEEEECccCccc-cCCH-HHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            89999999999999999999998855432   899999999998642 2332 334566777889999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |.++++.+...
T Consensus       160 f~~ia~~l~~~  170 (215)
T PTZ00132        160 FLWLARRLTND  170 (215)
T ss_pred             HHHHHHHHhhc
Confidence            99999988653

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.64  E-value=5.4e-16  Score=108.78  Aligned_cols=85  Identities=16%  Similarity=0.116  Sum_probs=60.7

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH----HhCCeEEEEeCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ----SLHLHSFAVSART  104 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~  104 (158)
                      +++|||||++++.+|+.+..|+..+... ....  +|+++++||+|+..... ..+....+..    ..++.++++||++
T Consensus        69 d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~NK~Dl~~~~~-~~~i~~~~~~~~~~~~~~~~~~~Sak~  145 (159)
T cd04150          69 QGLIFVVDSNDRERIGEAREELQRMLNEDELRD--AVLLVFANKQDLPNAMS-AAEVTDKLGLHSLRNRNWYIQATCATS  145 (159)
T ss_pred             CEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcC--CCEEEEEECCCCCCCCC-HHHHHHHhCccccCCCCEEEEEeeCCC
Confidence            5599999999999999998888777532 2222  89999999999964321 1122222211    1234578999999


Q ss_pred             CCCHHHHHHHHHH
Q psy2600         105 GDNCWVNTRTPEI  117 (158)
Q Consensus       105 ~~~i~~lf~~l~~  117 (158)
                      |.||.++|++|.+
T Consensus       146 g~gv~~~~~~l~~  158 (159)
T cd04150         146 GDGLYEGLDWLSN  158 (159)
T ss_pred             CCCHHHHHHHHhc
Confidence            9999999999864

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=99.64  E-value=8e-16  Score=110.34  Aligned_cols=87  Identities=14%  Similarity=0.104  Sum_probs=62.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHH-HH----HHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAK-LA----QSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-~~----~~~~~~~~~~Sa~~~  105 (158)
                      +|+|||++++.+|++...|+.++... ....  +|+++|+||+|+....  ...+... +.    +...+.++++||++|
T Consensus        88 iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~--~piilv~NK~Dl~~~~--~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg  163 (182)
T PTZ00133         88 LIFVVDSNDRERIGDAREELERMLSEDELRD--AVLLVFANKQDLPNAM--STTEVTEKLGLHSVRQRNWYIQGCCATTA  163 (182)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHhCHhhcC--CCEEEEEeCCCCCCCC--CHHHHHHHhCCCcccCCcEEEEeeeCCCC
Confidence            99999999999999988777776522 1122  8999999999986422  2222211 11    111234679999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy2600         106 DNCWVNTRTPEINPLKY  122 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~  122 (158)
                      .|+.++|++|.+.+.+.
T Consensus       164 ~gv~e~~~~l~~~i~~~  180 (182)
T PTZ00133        164 QGLYEGLDWLSANIKKS  180 (182)
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999999887654

>cd04154 Arl2 Arl2 subfamily

Probab=99.63  E-value=3.1e-15  Score=106.08  Aligned_cols=82  Identities=17%  Similarity=0.119  Sum_probs=63.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-----HhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-----SLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+....|+..+... ....  +|+++|+||+|+.+..  ..++...+.+     ..+++++++||++|
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g  160 (173)
T cd04154          85 LIWVVDSSDRLRLDDCKRELKELLQEERLAG--ATLLILANKQDLPGAL--SEEEIREALELDKISSHHWRIQPCSAVTG  160 (173)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChhhcC--CCEEEEEECcccccCC--CHHHHHHHhCccccCCCceEEEeccCCCC
Confidence            89999999999999988888877532 2122  8999999999986532  3344444432     23567999999999


Q ss_pred             CCHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEI  117 (158)
Q Consensus       106 ~~i~~lf~~l~~  117 (158)
                      .|++++|++++.
T Consensus       161 ~gi~~l~~~l~~  172 (173)
T cd04154         161 EGLLQGIDWLVD  172 (173)
T ss_pred             cCHHHHHHHHhc
Confidence            999999999864

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.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.61  E-value=1.1e-14  Score=104.46  Aligned_cols=90  Identities=18%  Similarity=0.133  Sum_probs=67.9

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH--Hh----CCeEEEEe
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ--SL----HLHSFAVS  101 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~--~~----~~~~~~~S  101 (158)
                      .+++++|+|++++.+++.+..|+.++.... ..+  .|+++|+||+|+...  ....+...+..  ..    +..++++|
T Consensus        76 ~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~--~p~iiv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~S  151 (183)
T cd04152          76 TDGIVFVVDSVDVERMEEAKTELHKITRFSENQG--VPVLVLANKQDLPNA--LSVSEVEKLLALHELSASTPWHVQPAC  151 (183)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCC--CcEEEEEECcCcccc--CCHHHHHHHhCccccCCCCceEEEEee
Confidence            466999999999999999988988877432 223  899999999998642  22333444332  11    24578999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHh
Q psy2600         102 ARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       102 a~~~~~i~~lf~~l~~~~~~~  122 (158)
                      |++|.||+++|++|++.+.+.
T Consensus       152 A~~~~gi~~l~~~l~~~l~~~  172 (183)
T cd04152         152 AIIGEGLQEGLEKLYEMILKR  172 (183)
T ss_pred             cccCCCHHHHHHHHHHHHHHH
Confidence            999999999999999888654

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.61  E-value=9.3e-15  Score=113.89  Aligned_cols=90  Identities=19%  Similarity=0.037  Sum_probs=72.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|+++.++++++..|.+++..+......+|+++|+||+|+.....+.......+.+..+..++++||+++.||+++
T Consensus       240 lI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~eL  319 (335)
T PRK12299        240 LLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGLDEL  319 (335)
T ss_pred             EEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHH
Confidence            89999999888899999999999876543223899999999998754433333444455556788999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |+++.+.+.+
T Consensus       320 ~~~L~~~l~~  329 (335)
T PRK12299        320 LRALWELLEE  329 (335)
T ss_pred             HHHHHHHHHh
Confidence            9999988765

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.60  E-value=5.7e-15  Score=101.31  Aligned_cols=75  Identities=17%  Similarity=0.177  Sum_probs=58.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.++.. ..|...+   .     .|+++|+||+|+... ....++...+++..+. +++++||++|.|+++
T Consensus        66 vilv~d~~~~~s~~~-~~~~~~~---~-----~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  135 (142)
T TIGR02528        66 IALVQSATDPESRFP-PGFASIF---V-----KPVIGLVTKIDLAEA-DVDIERAKELLETAGAEPIFEISSVDEQGLEA  135 (142)
T ss_pred             EEEEecCCCCCcCCC-hhHHHhc---c-----CCeEEEEEeeccCCc-ccCHHHHHHHHHHcCCCcEEEEecCCCCCHHH
Confidence            899999999998866 3454332   1     688999999998642 3345566777777775 799999999999999


Q ss_pred             HHHHHH
Q psy2600         111 NTRTPE  116 (158)
Q Consensus       111 lf~~l~  116 (158)
                      +|+.+.
T Consensus       136 l~~~l~  141 (142)
T TIGR02528       136 LVDYLN  141 (142)
T ss_pred             HHHHHh
Confidence            999874

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.58  E-value=6.2e-15  Score=104.79  Aligned_cols=82  Identities=17%  Similarity=0.103  Sum_probs=60.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHH-HHHH----HHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERH-AKLA----QSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~-~~~~----~~~~~~~~~~Sa~~~  105 (158)
                      +++|+|++++++|.....|+..+.+.. ...  +|+++++||+|+...  ...++. ..+.    +..++.++++||++|
T Consensus        86 vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~--~p~viv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g  161 (174)
T cd04153          86 VILVIDSTDRERLPLTKEELYKMLAHEDLRK--AVLLVLANKQDLKGA--MTPAEISESLGLTSIRDHTWHIQGCCALTG  161 (174)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhchhhcC--CCEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEecccCCC
Confidence            999999999999998888777775322 122  899999999998642  122222 2222    223457899999999


Q ss_pred             CCHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEI  117 (158)
Q Consensus       106 ~~i~~lf~~l~~  117 (158)
                      .||+++|++|++
T Consensus       162 ~gi~e~~~~l~~  173 (174)
T cd04153         162 EGLPEGLDWIAS  173 (174)
T ss_pred             CCHHHHHHHHhc
Confidence            999999999875

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.57  E-value=2.2e-14  Score=103.02  Aligned_cols=83  Identities=14%  Similarity=0.114  Sum_probs=64.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH----------------hC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS----------------LH   94 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~----------------~~   94 (158)
                      +++|+|.++..+|.....|+..+.... ...  .|+++++||+|+..  .+..++.+.+...                ..
T Consensus        90 iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~--~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (190)
T cd00879          90 IVFLVDAADPERFQESKEELDSLLSDEELAN--VPFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRP  165 (190)
T ss_pred             EEEEEECCcHHHHHHHHHHHHHHHcCccccC--CCEEEEEeCCCCCC--CcCHHHHHHHhCcccccccccccccccCcee
Confidence            889999999999998888888876422 222  89999999999863  3445555555432                12


Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHH
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      ..+++|||+++.|+.++|++|.+.
T Consensus       166 ~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         166 IEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             EEEEEeEecCCCChHHHHHHHHhh
Confidence            458999999999999999999864

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.57  E-value=1.1e-14  Score=101.64  Aligned_cols=85  Identities=18%  Similarity=0.107  Sum_probs=61.8

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHH------HHHhCCeEEEEe
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKL------AQSLHLHSFAVS  101 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~------~~~~~~~~~~~S  101 (158)
                      .+.+++|+|.+++.+|.....|+.++.+.. ..+  .|+++|+||+|+....  ...+....      ....++++++||
T Consensus        68 ~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~S  143 (160)
T cd04156          68 TDGLVYVVDSSDEARLDESQKELKHILKNEHIKG--VPVVLLANKQDLPGAL--TAEEITRRFKLKKYCSDRDWYVQPCS  143 (160)
T ss_pred             CCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcC--CCEEEEEECcccccCc--CHHHHHHHcCCcccCCCCcEEEEecc
Confidence            456999999999999999988888876321 122  9999999999986421  12222211      112235689999


Q ss_pred             CCCCCCHHHHHHHHHH
Q psy2600         102 ARTGDNCWVNTRTPEI  117 (158)
Q Consensus       102 a~~~~~i~~lf~~l~~  117 (158)
                      |++|.||+++|+.|.+
T Consensus       144 a~~~~gv~~~~~~i~~  159 (160)
T cd04156         144 AVTGEGLAEAFRKLAS  159 (160)
T ss_pred             cccCCChHHHHHHHhc
Confidence            9999999999999865

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

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.57  E-value=2.6e-14  Score=100.42  Aligned_cols=85  Identities=13%  Similarity=0.034  Sum_probs=64.8

Q ss_pred             eEEEEEEECCChhHH--hhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          30 KIVIFMYDITSGQSF--HSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        30 k~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      +++++|+|+++..++  +....|+..++.... +  .|+++|+||+|+.....+.  ....+.+..+..++++||++|.|
T Consensus        81 d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~-~--~pvilv~NK~Dl~~~~~~~--~~~~~~~~~~~~~~~~Sa~~~~g  155 (168)
T cd01897          81 AAVLFLFDPSETCGYSLEEQLSLFEEIKPLFK-N--KPVIVVLNKIDLLTFEDLS--EIEEEEELEGEEVLKISTLTEEG  155 (168)
T ss_pred             CcEEEEEeCCcccccchHHHHHHHHHHHhhcC-c--CCeEEEEEccccCchhhHH--HHHHhhhhccCceEEEEecccCC
Confidence            678999999987654  555678888875432 2  8999999999996544332  24445555567899999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINP  119 (158)
Q Consensus       108 i~~lf~~l~~~~  119 (158)
                      ++++|+++.+.+
T Consensus       156 i~~l~~~l~~~~  167 (168)
T cd01897         156 VDEVKNKACELL  167 (168)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998865

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.56  E-value=1.4e-14  Score=101.04  Aligned_cols=88  Identities=17%  Similarity=0.143  Sum_probs=62.1

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHH---HH--HhCCeEEEEe
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKL---AQ--SLHLHSFAVS  101 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~---~~--~~~~~~~~~S  101 (158)
                      -.+++|+|+|++++.+|.....|+..+.+... ....+|+++|+||+|+.....  ..+....   ..  .....++++|
T Consensus        68 ~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~--~~~~~~~l~~~~~~~~~~~~~~~S  145 (162)
T cd04157          68 NIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDALT--AVKITQLLGLENIKDKPWHIFASN  145 (162)
T ss_pred             cCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCCC--HHHHHHHhCCccccCceEEEEEee
Confidence            34569999999999999988888887764211 111299999999999864321  2222221   11  1124589999


Q ss_pred             CCCCCCHHHHHHHHHH
Q psy2600         102 ARTGDNCWVNTRTPEI  117 (158)
Q Consensus       102 a~~~~~i~~lf~~l~~  117 (158)
                      |++|.|++++|++|.+
T Consensus       146 a~~g~gv~~~~~~l~~  161 (162)
T cd04157         146 ALTGEGLDEGVQWLQA  161 (162)
T ss_pred             CCCCCchHHHHHHHhc
Confidence            9999999999999865

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.55  E-value=9.7e-14  Score=101.20  Aligned_cols=93  Identities=11%  Similarity=0.103  Sum_probs=67.0

Q ss_pred             cceEEEEEEECCCC-----------CCeEEEEEEECCChhHHhhHHHHHHHHhhhcC-----------------CCCCcE
Q psy2600          14 YEIQLKVVLLGDPS-----------CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRK-----------------SSTPTY   65 (158)
Q Consensus        14 ~~~~~ki~~~G~~~-----------vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-----------------~~~~~p   65 (158)
                      ..+.+.+|..+...           -++++|+|||++++.||+++..|+.++.....                 ...++|
T Consensus        52 ~~~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~P  131 (202)
T cd04102          52 KTFFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIP  131 (202)
T ss_pred             cEEEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCce
Confidence            34555666554431           34669999999999999999999999975321                 111389


Q ss_pred             EEEEEeCCCCCCCccccHHH----HHHHHHHhCCeEEEEeCCCCC
Q psy2600          66 VALVANKGDMEHQRVVTLER----HAKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        66 iilv~nK~Dl~~~~~~~~~~----~~~~~~~~~~~~~~~Sa~~~~  106 (158)
                      +++||||+|+...+.+....    ...++++.+++.++.+|.+..
T Consensus       132 iilVGnK~Dl~~~r~~~~~~~~~~~~~ia~~~~~~~i~~~c~~~~  176 (202)
T cd04102         132 LLVIGTKLDQIPEKESSGNLVLTARGFVAEQGNAEEINLNCTNGR  176 (202)
T ss_pred             EEEEEECccchhhcccchHHHhhHhhhHHHhcCCceEEEecCCcc
Confidence            99999999997655444432    334677889999999998653

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.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.55  E-value=2.4e-14  Score=99.72  Aligned_cols=84  Identities=15%  Similarity=0.064  Sum_probs=62.8

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-----HhCCeEEEEeCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-----SLHLHSFAVSAR  103 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~  103 (158)
                      +.+++|||++++.+|.....|+..+.... ...  .|+++|+||+|+....  ..++......     ....+++++||+
T Consensus        68 ~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~--~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~  143 (158)
T cd00878          68 NGIIFVVDSSDRERIEEAKEELHKLLNEEELKG--VPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAV  143 (158)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHhCcccCC--CcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCC
Confidence            44999999999999999988888876432 222  8999999999986533  1222222222     234579999999


Q ss_pred             CCCCHHHHHHHHHH
Q psy2600         104 TGDNCWVNTRTPEI  117 (158)
Q Consensus       104 ~~~~i~~lf~~l~~  117 (158)
                      +|.|++++|+.|..
T Consensus       144 ~~~gv~~~~~~l~~  157 (158)
T cd00878         144 TGDGLDEGLDWLLQ  157 (158)
T ss_pred             CCCCHHHHHHHHhh
Confidence            99999999999875

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

>cd01898 Obg Obg subfamily

Probab=99.54  E-value=7.1e-14  Score=98.28  Aligned_cols=89  Identities=17%  Similarity=0.139  Sum_probs=68.9

Q ss_pred             CeEEEEEEECCCh-hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH-hCCeEEEEeCCCCC
Q psy2600          29 GKIVIFMYDITSG-QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS-LHLHSFAVSARTGD  106 (158)
Q Consensus        29 gk~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~  106 (158)
                      .+.+++|+|+++. ++++++..|.+.+.........+|+++|+||+|+...... ......+... .+.+++++||+++.
T Consensus        79 ~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~  157 (170)
T cd01898          79 TRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGE  157 (170)
T ss_pred             CCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCC
Confidence            4679999999998 7999999999998865432112899999999998654333 2334445555 36789999999999


Q ss_pred             CHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEIN  118 (158)
Q Consensus       107 ~i~~lf~~l~~~  118 (158)
                      |+.++|+++.+.
T Consensus       158 gi~~l~~~i~~~  169 (170)
T cd01898         158 GLDELLRKLAEL  169 (170)
T ss_pred             CHHHHHHHHHhh
Confidence            999999998865

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.53  E-value=3.2e-14  Score=99.28  Aligned_cols=85  Identities=16%  Similarity=0.084  Sum_probs=59.0

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCCccccHHHH-HHHHH----HhCCeEEEEeC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERH-AKLAQ----SLHLHSFAVSA  102 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~-~~~~~----~~~~~~~~~Sa  102 (158)
                      .+.+++|+|.+++.++.....|+..+. ......  +|+++|+||+|+.+...  ..+. ..+..    ..+..++++||
T Consensus        67 ~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~--~piiiv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~Sa  142 (158)
T cd04151          67 TDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKG--AVLLVFANKQDMPGALS--EAEISEKLGLSELKDRTWSIFKTSA  142 (158)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcC--CcEEEEEeCCCCCCCCC--HHHHHHHhCccccCCCcEEEEEeec
Confidence            455999999999988887766665543 222122  89999999999864321  1222 11211    11246999999


Q ss_pred             CCCCCHHHHHHHHHH
Q psy2600         103 RTGDNCWVNTRTPEI  117 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~  117 (158)
                      +++.|+.++|++|++
T Consensus       143 ~~~~gi~~l~~~l~~  157 (158)
T cd04151         143 IKGEGLDEGMDWLVN  157 (158)
T ss_pred             cCCCCHHHHHHHHhc
Confidence            999999999999875

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.52  E-value=3.5e-14  Score=100.32  Aligned_cols=88  Identities=16%  Similarity=0.094  Sum_probs=63.8

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccH-HH---HHHHHHHhC--CeEEEE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTL-ER---HAKLAQSLH--LHSFAV  100 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~-~~---~~~~~~~~~--~~~~~~  100 (158)
                      ..+++++|||++++.+|+.+..|+..+..... .+  +|+++|+||+|+........ ..   ...+++..+  +.+++|
T Consensus        66 ~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~--~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~  143 (167)
T cd04161          66 EAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSG--KPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPC  143 (167)
T ss_pred             CCCEEEEEEECCchhHHHHHHHHHHHHHcCccccC--CcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEe
Confidence            44569999999999999999999998874321 23  89999999999975442111 11   122332223  457789


Q ss_pred             eCCCC------CCHHHHHHHHHH
Q psy2600         101 SARTG------DNCWVNTRTPEI  117 (158)
Q Consensus       101 Sa~~~------~~i~~lf~~l~~  117 (158)
                      ||++|      .|+.+.|+||..
T Consensus       144 Sa~~g~~~~~~~g~~~~~~wl~~  166 (167)
T cd04161         144 SAIEGLGKKIDPSIVEGLRWLLA  166 (167)
T ss_pred             EceeCCCCccccCHHHHHHHHhc
Confidence            99998      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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.51  E-value=1.2e-13  Score=97.01  Aligned_cols=85  Identities=18%  Similarity=0.177  Sum_probs=64.5

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH-------hCCeEEEE
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS-------LHLHSFAV  100 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-------~~~~~~~~  100 (158)
                      .+++++|+|+++.+++.....|+..+.+.. ..+  +|+++|+||+|+...  ....+...+.+.       .+.+++++
T Consensus        74 ~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~--~p~ilv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (167)
T cd04160          74 CHAIIYVIDSTDRERFEESKSALEKVLRNEALEG--VPLLILANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLVLPV  149 (167)
T ss_pred             CCEEEEEEECchHHHHHHHHHHHHHHHhChhhcC--CCEEEEEEccccccC--CCHHHHHHHhccccccccCCceEEEEe
Confidence            467999999999999999888888876422 222  899999999998653  233344444332       23579999


Q ss_pred             eCCCCCCHHHHHHHHHH
Q psy2600         101 SARTGDNCWVNTRTPEI  117 (158)
Q Consensus       101 Sa~~~~~i~~lf~~l~~  117 (158)
                      ||++|.|++++|++|.+
T Consensus       150 Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         150 SALEGTGVREGIEWLVE  166 (167)
T ss_pred             eCCCCcCHHHHHHHHhc
Confidence            99999999999999875

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.48  E-value=4e-13  Score=104.59  Aligned_cols=88  Identities=16%  Similarity=0.072  Sum_probs=68.8

Q ss_pred             EEEEEEECCCh---hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          31 IVIFMYDITSG---QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        31 ~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      .+++|+|+++.   ++++++..|.+++..+.......|+++|+||+|+..... ..+..+.+++.++..++++||+++.|
T Consensus       238 ~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAktg~G  316 (329)
T TIGR02729       238 VLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALTGEG  316 (329)
T ss_pred             EEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccCCcC
Confidence            39999999986   688888899998886654222389999999999965432 23344556666678899999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINP  119 (158)
Q Consensus       108 i~~lf~~l~~~~  119 (158)
                      |+++++.+.+.+
T Consensus       317 I~eL~~~I~~~l  328 (329)
T TIGR02729       317 LDELLYALAELL  328 (329)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998764

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.

>KOG3883|consensus

Probab=99.48  E-value=6.3e-13  Score=91.16  Aligned_cols=90  Identities=13%  Similarity=0.150  Sum_probs=75.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++||++.|++||+.+.....++..... ...+||++.+||+|+.+.+.+....+..|++.-.+..++++|.+...+-+-
T Consensus        88 fVLVYs~~d~eSf~rv~llKk~Idk~Kd-KKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~ep  166 (198)
T KOG3883|consen   88 FVLVYSPMDPESFQRVELLKKEIDKHKD-KKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEP  166 (198)
T ss_pred             EEEEecCCCHHHHHHHHHHHHHHhhccc-cccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhH
Confidence            9999999999999987654444442221 112999999999999888889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |..+...+.+.
T Consensus       167 f~~l~~rl~~p  177 (198)
T KOG3883|consen  167 FTYLASRLHQP  177 (198)
T ss_pred             HHHHHHhccCC
Confidence            99999887654

>cd01878 HflX HflX subfamily

Probab=99.47  E-value=3.1e-13  Score=98.23  Aligned_cols=81  Identities=16%  Similarity=0.062  Sum_probs=62.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|.+++.++.....|...+......+  +|+++|+||+|+......     .......+.+++++||+++.|+.++
T Consensus       124 ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~--~~viiV~NK~Dl~~~~~~-----~~~~~~~~~~~~~~Sa~~~~gi~~l  196 (204)
T cd01878         124 LLHVVDASDPDYEEQIETVEKVLKELGAED--IPMILVLNKIDLLDDEEL-----EERLEAGRPDAVFISAKTGEGLDEL  196 (204)
T ss_pred             EEEEEECCCCChhhHHHHHHHHHHHcCcCC--CCEEEEEEccccCChHHH-----HHHhhcCCCceEEEEcCCCCCHHHH
Confidence            899999999888888877877776544333  899999999998643221     1334445677999999999999999


Q ss_pred             HHHHHHHH
Q psy2600         112 TRTPEINP  119 (158)
Q Consensus       112 f~~l~~~~  119 (158)
                      |++|.+.+
T Consensus       197 ~~~L~~~~  204 (204)
T cd01878         197 LEAIEELL  204 (204)
T ss_pred             HHHHHhhC
Confidence            99998653

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.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.47  E-value=5.1e-13  Score=95.84  Aligned_cols=83  Identities=11%  Similarity=0.030  Sum_probs=61.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH------------hCCeEE
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS------------LHLHSF   98 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~   98 (158)
                      +++|+|++++.+|.....|+.++.+.. ..+  +|+++|+||+|+..  .++.++......-            ....++
T Consensus        88 ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~--~piliv~NK~Dl~~--~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~  163 (184)
T smart00178       88 IVYLVDAYDKERFAESKRELDALLSDEELAT--VPFLILGNKIDAPY--AASEDELRYALGLTNTTGSKGKVGVRPLEVF  163 (184)
T ss_pred             EEEEEECCcHHHHHHHHHHHHHHHcChhhcC--CCEEEEEeCccccC--CCCHHHHHHHcCCCcccccccccCCceeEEE
Confidence            999999999999999888888776321 122  89999999999864  2334444432210            123589


Q ss_pred             EEeCCCCCCHHHHHHHHHHH
Q psy2600          99 AVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      +|||+++.|+.+++++|.+.
T Consensus       164 ~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      164 MCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             EeecccCCChHHHHHHHHhh
Confidence            99999999999999999764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd04155 Arl3 Arl3 subfamily

Probab=99.44  E-value=1.3e-12  Score=92.25  Aligned_cols=79  Identities=20%  Similarity=0.203  Sum_probs=58.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC--------eEEEEeC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL--------HSFAVSA  102 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--------~~~~~Sa  102 (158)
                      +++|+|.++..++.....|+..+... ....  +|+++++||+|+.....     ...+.+..++        .++++||
T Consensus        85 ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~--~p~ivv~nK~D~~~~~~-----~~~i~~~l~~~~~~~~~~~~~~~Sa  157 (173)
T cd04155          85 LIYVIDSADKKRLEEAGAELVELLEEEKLAG--VPVLVFANKQDLATAAP-----AEEIAEALNLHDLRDRTWHIQACSA  157 (173)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHhChhhcC--CCEEEEEECCCCccCCC-----HHHHHHHcCCcccCCCeEEEEEeEC
Confidence            89999999999998887777666532 2222  89999999999854221     2223333332        4689999


Q ss_pred             CCCCCHHHHHHHHHH
Q psy2600         103 RTGDNCWVNTRTPEI  117 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~  117 (158)
                      ++|.|++++|++|++
T Consensus       158 ~~~~gi~~~~~~l~~  172 (173)
T cd04155         158 KTGEGLQEGMNWVCK  172 (173)
T ss_pred             CCCCCHHHHHHHHhc
Confidence            999999999999975

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

>KOG1673|consensus

Probab=99.44  E-value=1.8e-12  Score=89.20  Aligned_cols=87  Identities=20%  Similarity=0.213  Sum_probs=71.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC-----CCccccHHHHHHHHHHhCCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME-----HQRVVTLERHAKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  106 (158)
                      ++|+||++.+..+.++..|+...+..+...  +| |+||+|.|+.     +.++.-..+++.+++..+.+.|++|+..+.
T Consensus        96 IlFmFDLt~r~TLnSi~~WY~QAr~~NktA--iP-ilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~Sts~sI  172 (205)
T KOG1673|consen   96 ILFMFDLTRRSTLNSIKEWYRQARGLNKTA--IP-ILVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCSTSHSI  172 (205)
T ss_pred             EEEEEecCchHHHHHHHHHHHHHhccCCcc--ce-EEeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeeccccc
Confidence            889999999999999999999999666554  77 7789999963     222223345777888889999999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      ||..+|..++..+..
T Consensus       173 Nv~KIFK~vlAklFn  187 (205)
T KOG1673|consen  173 NVQKIFKIVLAKLFN  187 (205)
T ss_pred             cHHHHHHHHHHHHhC
Confidence            999999998887765

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.44  E-value=1e-12  Score=92.20  Aligned_cols=83  Identities=12%  Similarity=0.007  Sum_probs=63.0

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC--eEEEEeCCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL--HSFAVSARTGDN  107 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~Sa~~~~~  107 (158)
                      +.+++|+|+++..++..  .|+..+.   . .  +|+++++||+|+...   ..+....+++..+.  +++++||+++.|
T Consensus        66 d~il~v~d~~~~~s~~~--~~~~~~~---~-~--~~ii~v~nK~Dl~~~---~~~~~~~~~~~~~~~~p~~~~Sa~~g~g  134 (158)
T PRK15467         66 DMLIYVHGANDPESRLP--AGLLDIG---V-S--KRQIAVISKTDMPDA---DVAATRKLLLETGFEEPIFELNSHDPQS  134 (158)
T ss_pred             CEEEEEEeCCCcccccC--HHHHhcc---C-C--CCeEEEEEccccCcc---cHHHHHHHHHHcCCCCCEEEEECCCccC
Confidence            34999999998877633  4555432   1 1  789999999998642   34556677777774  799999999999


Q ss_pred             HHHHHHHHHHHHHHhH
Q psy2600         108 CWVNTRTPEINPLKYL  123 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~  123 (158)
                      |+++|+.+.+.+....
T Consensus       135 i~~l~~~l~~~~~~~~  150 (158)
T PRK15467        135 VQQLVDYLASLTKQEE  150 (158)
T ss_pred             HHHHHHHHHHhchhhh
Confidence            9999999998876543

>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=99.43  E-value=2.9e-12  Score=91.35  Aligned_cols=84  Identities=15%  Similarity=0.143  Sum_probs=63.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH------HhCCeEEEEeCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ------SLHLHSFAVSART  104 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~------~~~~~~~~~Sa~~  104 (158)
                      +|||+|.++.+.+......+.++... ....  +|+++++||+|++..  ...++......      ...+.++.|||.+
T Consensus        85 iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~--~piLIl~NK~D~~~~--~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~  160 (175)
T PF00025_consen   85 IIFVVDSSDPERLQEAKEELKELLNDPELKD--IPILILANKQDLPDA--MSEEEIKEYLGLEKLKNKRPWSVFSCSAKT  160 (175)
T ss_dssp             EEEEEETTGGGGHHHHHHHHHHHHTSGGGTT--SEEEEEEESTTSTTS--STHHHHHHHTTGGGTTSSSCEEEEEEBTTT
T ss_pred             eEEEEecccceeecccccchhhhcchhhccc--ceEEEEeccccccCc--chhhHHHhhhhhhhcccCCceEEEeeeccC
Confidence            99999999999998888777777632 2223  999999999998652  33444443322      2235589999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy2600         105 GDNCWVNTRTPEINP  119 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~  119 (158)
                      |.|+.+.|++|.+.+
T Consensus       161 g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  161 GEGVDEGLEWLIEQI  175 (175)
T ss_dssp             TBTHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHhcC
Confidence            999999999998764

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 ....

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.42  E-value=2.9e-12  Score=102.61  Aligned_cols=87  Identities=16%  Similarity=0.099  Sum_probs=69.7

Q ss_pred             EEEEEECCCh---hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSG---QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      +|+|+|+++.   ++++++..|.+++..+......+|+++|+||+|+...    .+..+.+.+.++..++.+||+++.|+
T Consensus       240 lI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~----~e~l~~l~~~l~~~i~~iSA~tgeGI  315 (424)
T PRK12297        240 IVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA----EENLEEFKEKLGPKVFPISALTGQGL  315 (424)
T ss_pred             EEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC----HHHHHHHHHHhCCcEEEEeCCCCCCH
Confidence            8999999864   6788888899999876543233899999999998432    23456666777778999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy2600         109 WVNTRTPEINPLKY  122 (158)
Q Consensus       109 ~~lf~~l~~~~~~~  122 (158)
                      +++++.+.+.+.+.
T Consensus       316 ~eL~~~L~~~l~~~  329 (424)
T PRK12297        316 DELLYAVAELLEET  329 (424)
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999887653

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.38  E-value=2.3e-12  Score=96.55  Aligned_cols=83  Identities=10%  Similarity=0.069  Sum_probs=66.3

Q ss_pred             CeEEEEEEECCChh-HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          29 GKIVIFMYDITSGQ-SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        29 gk~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      .|.+++|||++++. ||..+..|+..+....     +|+++|+||+||...+.+..+....+ +.++..++++||+++.|
T Consensus        37 ~D~viiV~d~~~p~~s~~~l~r~l~~~~~~~-----i~~vIV~NK~DL~~~~~~~~~~~~~~-~~~g~~v~~~SAktg~g  110 (245)
T TIGR00157        37 IDQIVIVSSAVLPELSLNQLDRFLVVAEAQN-----IEPIIVLNKIDLLDDEDMEKEQLDIY-RNIGYQVLMTSSKNQDG  110 (245)
T ss_pred             CCEEEEEEECCCCCCCHHHHHHHHHHHHHCC-----CCEEEEEECcccCCCHHHHHHHHHHH-HHCCCeEEEEecCCchh
Confidence            37799999999887 8999999998776433     89999999999965444433344444 35788999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         108 CWVNTRTPEI  117 (158)
Q Consensus       108 i~~lf~~l~~  117 (158)
                      ++++|+.+.+
T Consensus       111 i~eLf~~l~~  120 (245)
T TIGR00157       111 LKELIEALQN  120 (245)
T ss_pred             HHHHHhhhcC
Confidence            9999998764

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.38  E-value=4.8e-12  Score=87.24  Aligned_cols=84  Identities=8%  Similarity=0.094  Sum_probs=60.4

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHH-----HHhCCeEEEEeCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLA-----QSLHLHSFAVSAR  103 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~  103 (158)
                      +.+++|+|+++..++.....|+..+... ....  +|+++|+||+|+.+....  .+.....     ...+..++++|++
T Consensus        69 d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~--~p~iiv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~  144 (159)
T cd04159          69 NAIVYVVDAADRTALEAAKNELHDLLEKPSLEG--IPLLVLGNKNDLPGALSV--DELIEQMNLKSITDREVSCYSISCK  144 (159)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHcChhhcC--CCEEEEEeCccccCCcCH--HHHHHHhCcccccCCceEEEEEEec
Confidence            4589999999999998888777776532 1122  899999999998653321  1111111     1123578999999


Q ss_pred             CCCCHHHHHHHHHH
Q psy2600         104 TGDNCWVNTRTPEI  117 (158)
Q Consensus       104 ~~~~i~~lf~~l~~  117 (158)
                      ++.|+.++|+++.+
T Consensus       145 ~~~gi~~l~~~l~~  158 (159)
T cd04159         145 EKTNIDIVLDWLIK  158 (159)
T ss_pred             cCCChHHHHHHHhh
Confidence            99999999999875

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.

>PLN00023 GTP-binding protein; Provisional

Probab=99.37  E-value=1.7e-11  Score=94.59  Aligned_cols=67  Identities=16%  Similarity=0.251  Sum_probs=52.4

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcC----------CCCCcEEEEEEeCCCCCCCc---c---ccHHHHHHHHHH
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRK----------SSTPTYVALVANKGDMEHQR---V---VTLERHAKLAQS   92 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~----------~~~~~piilv~nK~Dl~~~~---~---~~~~~~~~~~~~   92 (158)
                      ++++|+|||++++.+|+++..|++++.....          ...++|++|||||+||...+   .   +..+++++++++
T Consensus       107 AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~~e~a~~~A~~  186 (334)
T PLN00023        107 INGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNLVDAARQWVEK  186 (334)
T ss_pred             CCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccccccccccHHHHHHHHHH
Confidence            3449999999999999999999999986531          01138999999999996432   2   357889999998


Q ss_pred             hCC
Q psy2600          93 LHL   95 (158)
Q Consensus        93 ~~~   95 (158)
                      +|+
T Consensus       187 ~g~  189 (334)
T PLN00023        187 QGL  189 (334)
T ss_pred             cCC
Confidence            873

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.35  E-value=7.6e-12  Score=101.86  Aligned_cols=85  Identities=16%  Similarity=0.060  Sum_probs=57.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc--cHHHHH-HHHHHhCCeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV--TLERHA-KLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~-~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      +++|+|+++..++.+.. ++..+....     +|+++|+||+|+......  ...+.. .+......+++++||++|.||
T Consensus       297 vilV~Da~~~~s~~~~~-~~~~~~~~~-----~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~SAk~g~gv  370 (472)
T PRK03003        297 AVVLIDASEPISEQDQR-VLSMVIEAG-----RALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNISAKTGRAV  370 (472)
T ss_pred             EEEEEeCCCCCCHHHHH-HHHHHHHcC-----CCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEECCCCCCH
Confidence            78999998887777653 444444322     899999999999642111  011111 111112367899999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy2600         109 WVNTRTPEINPLKY  122 (158)
Q Consensus       109 ~~lf~~l~~~~~~~  122 (158)
                      +++|+.+.+.+...
T Consensus       371 ~~lf~~i~~~~~~~  384 (472)
T PRK03003        371 DKLVPALETALESW  384 (472)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999876543

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.32  E-value=1.2e-11  Score=97.16  Aligned_cols=79  Identities=16%  Similarity=0.071  Sum_probs=58.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|.+++.+++++..|...+......+  +|+++|+||+|+.....     .... ......++++||++|.|++++
T Consensus       272 il~VvD~s~~~~~~~~~~~~~~L~~l~~~~--~piIlV~NK~Dl~~~~~-----v~~~-~~~~~~~i~iSAktg~GI~eL  343 (351)
T TIGR03156       272 LLHVVDASDPDREEQIEAVEKVLEELGAED--IPQLLVYNKIDLLDEPR-----IERL-EEGYPEAVFVSAKTGEGLDLL  343 (351)
T ss_pred             EEEEEECCCCchHHHHHHHHHHHHHhccCC--CCEEEEEEeecCCChHh-----HHHH-HhCCCCEEEEEccCCCCHHHH
Confidence            899999999988888777766666543323  89999999999864221     1111 112245899999999999999


Q ss_pred             HHHHHHH
Q psy2600         112 TRTPEIN  118 (158)
Q Consensus       112 f~~l~~~  118 (158)
                      ++.|.+.
T Consensus       344 ~~~I~~~  350 (351)
T TIGR03156       344 LEAIAER  350 (351)
T ss_pred             HHHHHhh
Confidence            9998764

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).

>TIGR00436 era GTP-binding protein Era

Probab=99.32  E-value=1.3e-11  Score=93.81  Aligned_cols=83  Identities=20%  Similarity=0.127  Sum_probs=58.6

Q ss_pred             EEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCCHH
Q psy2600          31 IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDNCW  109 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~  109 (158)
                      .+++|+|+++..+++  ..++..+....     .|+++|+||+|+...... ......+....+. .++++||++|.|++
T Consensus        82 vvl~VvD~~~~~~~~--~~i~~~l~~~~-----~p~ilV~NK~Dl~~~~~~-~~~~~~~~~~~~~~~v~~iSA~~g~gi~  153 (270)
T TIGR00436        82 LILFVVDSDQWNGDG--EFVLTKLQNLK-----RPVVLTRNKLDNKFKDKL-LPLIDKYAILEDFKDIVPISALTGDNTS  153 (270)
T ss_pred             EEEEEEECCCCCchH--HHHHHHHHhcC-----CCEEEEEECeeCCCHHHH-HHHHHHHHhhcCCCceEEEecCCCCCHH
Confidence            499999998876654  34455554433     899999999998642221 2233344444443 68999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      ++++.+.+.+..
T Consensus       154 ~L~~~l~~~l~~  165 (270)
T TIGR00436       154 FLAAFIEVHLPE  165 (270)
T ss_pred             HHHHHHHHhCCC
Confidence            999999887643

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

>KOG4423|consensus

Probab=99.32  E-value=4.8e-12  Score=89.44  Aligned_cols=92  Identities=18%  Similarity=0.200  Sum_probs=73.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh--hcCCCCCcEEEEEEeCCCCCCCcccc-HHHHHHHHHHhCC-eEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL--NRKSSTPTYVALVANKGDMEHQRVVT-LERHAKLAQSLHL-HSFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~--~~~~~~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~-~~~~~Sa~~~~~  107 (158)
                      +++|||++....|+....|..++-.  .-+.++++|+++.+||||........ ......+.+.+|. ..+++|++.+.|
T Consensus       102 ~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkn  181 (229)
T KOG4423|consen  102 AFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKN  181 (229)
T ss_pred             eEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccC
Confidence            8999999999999999999999872  22345569999999999986533222 3456677777885 489999999999


Q ss_pred             HHHHHHHHHHHHHHhH
Q psy2600         108 CWVNTRTPEINPLKYL  123 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~  123 (158)
                      +.|+-..+++.+....
T Consensus       182 i~Ea~r~lVe~~lvnd  197 (229)
T KOG4423|consen  182 IPEAQRELVEKILVND  197 (229)
T ss_pred             hhHHHHHHHHHHHhhc
Confidence            9999999998876643

>PRK04213 GTP-binding protein; Provisional

Probab=99.31  E-value=7.9e-12  Score=90.58  Aligned_cols=54  Identities=20%  Similarity=0.070  Sum_probs=42.5

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHhCC---------eEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSLHL---------HSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~---------~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +|+++|+||+|+....   .+....+++.++.         .++++||++| ||+++|++|.+.+.+
T Consensus       131 ~p~iiv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~  193 (201)
T PRK04213        131 IPPIVAVNKMDKIKNR---DEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHE  193 (201)
T ss_pred             CCeEEEEECccccCcH---HHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcC
Confidence            8999999999986432   2345556666664         4799999999 999999999987654

>KOG1707|consensus

Probab=99.30  E-value=3.2e-12  Score=103.51  Aligned_cols=113  Identities=17%  Similarity=0.091  Sum_probs=78.4

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHH-HHHHHHHhC-Ce-EEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLER-HAKLAQSLH-LH-SFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~-~~~~~~~~~-~~-~~~~Sa~~~~~  107 (158)
                      +.++|+.+++.+++.+. .|+..+++...+...+|+|+||||+|.......+.+. ...+.+++. ++ -++|||++..+
T Consensus        83 i~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n  162 (625)
T KOG1707|consen   83 ICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLAN  162 (625)
T ss_pred             EEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhh
Confidence            88999999999999995 8999999766443449999999999986322222222 334444432 22 58999999999


Q ss_pred             HHHHHHHHHHHHHHhHhhccccccccccccccccccccccc
Q psy2600         108 CWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAVKR  148 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (158)
                      +.++|+...+.+.++.    .+-+....+..++...+++.|
T Consensus       163 ~~e~fYyaqKaVihPt----~PLyda~~qelkp~~v~al~R  199 (625)
T KOG1707|consen  163 VSELFYYAQKAVIHPT----SPLYDAEEQELKPRCVKALKR  199 (625)
T ss_pred             hHhhhhhhhheeeccC----ccccccccccccHHHHHHHHH
Confidence            9999999999887653    223334444444444554444

>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=99.30  E-value=3.5e-12  Score=89.16  Aligned_cols=75  Identities=23%  Similarity=0.124  Sum_probs=55.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|.|+++.+   .-.....++.+..     +|+++|.||+|+.....+. .+...+.+.+|++++.+||+++.|++++
T Consensus        82 ii~VvDa~~l~---r~l~l~~ql~e~g-----~P~vvvlN~~D~a~~~g~~-id~~~Ls~~Lg~pvi~~sa~~~~g~~~L  152 (156)
T PF02421_consen   82 IIVVVDATNLE---RNLYLTLQLLELG-----IPVVVVLNKMDEAERKGIE-IDAEKLSERLGVPVIPVSARTGEGIDEL  152 (156)
T ss_dssp             EEEEEEGGGHH---HHHHHHHHHHHTT-----SSEEEEEETHHHHHHTTEE-E-HHHHHHHHTS-EEEEBTTTTBTHHHH
T ss_pred             EEEECCCCCHH---HHHHHHHHHHHcC-----CCEEEEEeCHHHHHHcCCE-ECHHHHHHHhCCCEEEEEeCCCcCHHHH
Confidence            88999987643   3233444555544     9999999999985433332 2467788889999999999999999999


Q ss_pred             HHHH
Q psy2600         112 TRTP  115 (158)
Q Consensus       112 f~~l  115 (158)
                      ++.|
T Consensus       153 ~~~I  156 (156)
T PF02421_consen  153 KDAI  156 (156)
T ss_dssp             HHHH
T ss_pred             HhhC
Confidence            9875

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 ....

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.29  E-value=2.1e-11  Score=99.14  Aligned_cols=90  Identities=13%  Similarity=0.017  Sum_probs=64.8

Q ss_pred             EEEEEECCC----hhHHhhHHHHHHHHhhhcC---------CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEE
Q psy2600          32 VIFMYDITS----GQSFHSIPTWVDLFHLNRK---------SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSF   98 (158)
Q Consensus        32 ~i~v~d~~~----~~s~~~~~~~~~~~~~~~~---------~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   98 (158)
                      +|+|+|+++    ++.++++..|.+++..+..         .....|+++|+||+|+.....+. +......+..++.+|
T Consensus       240 Lv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~-e~l~~~l~~~g~~Vf  318 (500)
T PRK12296        240 LVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELA-EFVRPELEARGWPVF  318 (500)
T ss_pred             EEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHH-HHHHHHHHHcCCeEE
Confidence            889999985    3466677777777765542         11128999999999996433321 222223344578899


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          99 AVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      .+||+++.|+.+++.+|.+.+...
T Consensus       319 ~ISA~tgeGLdEL~~~L~ell~~~  342 (500)
T PRK12296        319 EVSAASREGLRELSFALAELVEEA  342 (500)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhh
Confidence            999999999999999999888664

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.29  E-value=1.8e-11  Score=98.73  Aligned_cols=78  Identities=17%  Similarity=0.087  Sum_probs=60.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||.+++.+++..  |+..+....     +|+++|+||+|+...      ....+++.++..++++||++ .||.++
T Consensus       286 il~V~D~s~~~s~~~~--~l~~~~~~~-----~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~-~gI~~~  351 (442)
T TIGR00450       286 VIYVLDASQPLTKDDF--LIIDLNKSK-----KPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ-LKIKAL  351 (442)
T ss_pred             EEEEEECCCCCChhHH--HHHHHhhCC-----CCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec-CCHHHH
Confidence            8899999988877765  777665332     899999999998542      12345566778899999998 699999


Q ss_pred             HHHHHHHHHHhH
Q psy2600         112 TRTPEINPLKYL  123 (158)
Q Consensus       112 f~~l~~~~~~~~  123 (158)
                      |+.+.+.+.+..
T Consensus       352 ~~~L~~~i~~~~  363 (442)
T TIGR00450       352 VDLLTQKINAFY  363 (442)
T ss_pred             HHHHHHHHHHHh
Confidence            999999887654

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.28  E-value=1.1e-10  Score=85.38  Aligned_cols=89  Identities=22%  Similarity=0.157  Sum_probs=64.8

Q ss_pred             EEEEEECCCh-hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc------------cccHHHHHHHHHH---hCC
Q psy2600          32 VIFMYDITSG-QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQR------------VVTLERHAKLAQS---LHL   95 (158)
Q Consensus        32 ~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~------------~~~~~~~~~~~~~---~~~   95 (158)
                      +++|||.++. .+++....|...+.......  .|+++|+||+|+...+            .............   ...
T Consensus        81 ~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~--~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (219)
T COG1100          81 ILIVYDSTLRESSDELTEEWLEELRELAPDD--VPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANP  158 (219)
T ss_pred             EEEEEecccchhhhHHHHHHHHHHHHhCCCC--ceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhccc
Confidence            9999999994 45555679999998766433  8999999999997543            2222222222222   233


Q ss_pred             eEEEEeCC--CCCCHHHHHHHHHHHHHHh
Q psy2600          96 HSFAVSAR--TGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        96 ~~~~~Sa~--~~~~i~~lf~~l~~~~~~~  122 (158)
                      .++++|++  ++.+|.++|..+.+.+.+.
T Consensus       159 ~~~~~s~~~~~~~~v~~~~~~~~~~~~~~  187 (219)
T COG1100         159 ALLETSAKSLTGPNVNELFKELLRKLLEE  187 (219)
T ss_pred             ceeEeecccCCCcCHHHHHHHHHHHHHHh
Confidence            48999999  9999999999999988654

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.26  E-value=6e-11  Score=94.35  Aligned_cols=89  Identities=15%  Similarity=0.066  Sum_probs=66.3

Q ss_pred             EEEEEECC---ChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC--CeEEEEeCCCCC
Q psy2600          32 VIFMYDIT---SGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH--LHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~---~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~  106 (158)
                      +++|+|++   +.++++++..|.+++..+.......|+++|+||+|+.....+ .+....+.+..+  ..++.+||+++.
T Consensus       241 lL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~tg~  319 (390)
T PRK12298        241 LLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAASGL  319 (390)
T ss_pred             EEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECCCCc
Confidence            88999988   456778888888888865432222899999999998643332 233444545544  368999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      ||+++++.+.+.+.+
T Consensus       320 GIdeLl~~I~~~L~~  334 (390)
T PRK12298        320 GVKELCWDLMTFIEE  334 (390)
T ss_pred             CHHHHHHHHHHHhhh
Confidence            999999999988865

>PRK15494 era GTPase Era; Provisional

Probab=99.26  E-value=5.4e-11  Score=93.13  Aligned_cols=80  Identities=21%  Similarity=0.170  Sum_probs=55.9

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC--CeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH--LHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i  108 (158)
                      +++|+|.++  +|.... .|+..+....     .|.++|+||+|+... .  ..+...+....+  ..+|++||++|.|+
T Consensus       135 il~VvD~~~--s~~~~~~~il~~l~~~~-----~p~IlViNKiDl~~~-~--~~~~~~~l~~~~~~~~i~~iSAktg~gv  204 (339)
T PRK15494        135 VLLIIDSLK--SFDDITHNILDKLRSLN-----IVPIFLLNKIDIESK-Y--LNDIKAFLTENHPDSLLFPISALSGKNI  204 (339)
T ss_pred             EEEEEECCC--CCCHHHHHHHHHHHhcC-----CCEEEEEEhhcCccc-c--HHHHHHHHHhcCCCcEEEEEeccCccCH
Confidence            677777544  566654 4555555433     566789999998643 1  334555555443  57999999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2600         109 WVNTRTPEINPLK  121 (158)
Q Consensus       109 ~~lf~~l~~~~~~  121 (158)
                      +++|+++.+.+.+
T Consensus       205 ~eL~~~L~~~l~~  217 (339)
T PRK15494        205 DGLLEYITSKAKI  217 (339)
T ss_pred             HHHHHHHHHhCCC
Confidence            9999999887654

>KOG0073|consensus

Probab=99.24  E-value=2.5e-10  Score=79.18  Aligned_cols=87  Identities=20%  Similarity=0.208  Sum_probs=67.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHH------HHHHHHHhCCeEEEEeCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLER------HAKLAQSLHLHSFAVSART  104 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~------~~~~~~~~~~~~~~~Sa~~  104 (158)
                      +|+|+|.+|+..|++....+..+.. .+-..  .|+++++||.|++..  ++.++      ...++++..+..+-||+.+
T Consensus        87 lIwvvDssD~~r~~e~~~~L~~lL~eerlaG--~~~Lvlank~dl~~~--l~~~~i~~~~~L~~l~ks~~~~l~~cs~~t  162 (185)
T KOG0073|consen   87 LIWVVDSSDRMRMQECKQELTELLVEERLAG--APLLVLANKQDLPGA--LSLEEISKALDLEELAKSHHWRLVKCSAVT  162 (185)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhhhhhcC--CceEEEEecCcCccc--cCHHHHHHhhCHHHhccccCceEEEEeccc
Confidence            9999999999999998776666662 22222  799999999999731  22222      3345566778899999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy2600         105 GDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~~~  122 (158)
                      |+++.+-|+++...+..+
T Consensus       163 ge~l~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  163 GEDLLEGIDWLCDDLMSR  180 (185)
T ss_pred             cccHHHHHHHHHHHHHHH
Confidence            999999999999988763

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.24  E-value=1.1e-10  Score=79.93  Aligned_cols=82  Identities=20%  Similarity=0.122  Sum_probs=57.0

Q ss_pred             EEEEEECCCh-hHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSG-QSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~-~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +++++|.+.. .++.... .|...+.......  .|+++++||+|+.... ........+.......++++||+++.|+.
T Consensus        77 ~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~~--~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~  153 (161)
T TIGR00231        77 SLRVFDIVILVLDVEEILEKQTKEIIHHAESN--VPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNID  153 (161)
T ss_pred             EEEEEEEeeeehhhhhHhHHHHHHHHHhcccC--CcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHH
Confidence            7788888776 6666654 6766666443323  8999999999986432 22223333333345679999999999999


Q ss_pred             HHHHHHH
Q psy2600         110 VNTRTPE  116 (158)
Q Consensus       110 ~lf~~l~  116 (158)
                      ++|+.|-
T Consensus       154 ~~~~~l~  160 (161)
T TIGR00231       154 SAFKIVE  160 (161)
T ss_pred             HHHHHhh
Confidence            9998863

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.

>cd01890 LepA LepA subfamily

Probab=99.24  E-value=6.9e-11  Score=83.82  Aligned_cols=84  Identities=18%  Similarity=0.122  Sum_probs=62.1

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC---eEEEEeCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL---HSFAVSART  104 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~~~Sa~~  104 (158)
                      .++++|+|||+++..++.....|.... ...     +|+++|+||+|+....  .......+++.+++   .++++||++
T Consensus        90 ~ad~~i~v~D~~~~~~~~~~~~~~~~~-~~~-----~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~  161 (179)
T cd01890          90 ACEGALLLVDATQGVEAQTLANFYLAL-ENN-----LEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAILVSAKT  161 (179)
T ss_pred             hcCeEEEEEECCCCccHhhHHHHHHHH-HcC-----CCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEEEeeccC
Confidence            346799999999877777766665433 222     8999999999986422  12234456666665   389999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy2600         105 GDNCWVNTRTPEINP  119 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~  119 (158)
                      |.|++++|+.+.+.+
T Consensus       162 g~gi~~l~~~l~~~~  176 (179)
T cd01890         162 GLGVEDLLEAIVERI  176 (179)
T ss_pred             CCCHHHHHHHHHhhC
Confidence            999999999998775

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.

>PRK11058 GTPase HflX; Provisional

Probab=99.24  E-value=1e-10  Score=94.06  Aligned_cols=83  Identities=16%  Similarity=0.011  Sum_probs=59.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCe-EEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLH-SFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~i~~  110 (158)
                      +|+|+|++++.+++++..|...+.......  +|+++|+||+|+.....   ... .. ...+.+ ++.+||++|.|+++
T Consensus       280 IL~VvDaS~~~~~e~l~~v~~iL~el~~~~--~pvIiV~NKiDL~~~~~---~~~-~~-~~~~~~~~v~ISAktG~GIde  352 (426)
T PRK11058        280 LLHVVDAADVRVQENIEAVNTVLEEIDAHE--IPTLLVMNKIDMLDDFE---PRI-DR-DEENKPIRVWLSAQTGAGIPL  352 (426)
T ss_pred             EEEEEeCCCccHHHHHHHHHHHHHHhccCC--CCEEEEEEcccCCCchh---HHH-HH-HhcCCCceEEEeCCCCCCHHH
Confidence            999999999988888765555444333222  89999999999853211   111 11 123444 58899999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +++.+.+.+..
T Consensus       353 L~e~I~~~l~~  363 (426)
T PRK11058        353 LFQALTERLSG  363 (426)
T ss_pred             HHHHHHHHhhh
Confidence            99999998754

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.24  E-value=1.6e-10  Score=92.87  Aligned_cols=83  Identities=22%  Similarity=0.163  Sum_probs=55.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH-HHHHh----CCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK-LAQSL----HLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-~~~~~----~~~~~~~Sa~~~~  106 (158)
                      +|+|+|+++..+..+. .++..+....     +|+++|+||+|+..... ..++... +...+    +.+++++||++|.
T Consensus       258 ~ilV~D~~~~~~~~~~-~~~~~~~~~~-----~~iiiv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~  330 (429)
T TIGR03594       258 VLLVLDATEGITEQDL-RIAGLILEAG-----KALVIVVNKWDLVKDEK-TREEFKKELRRKLPFLDFAPIVFISALTGQ  330 (429)
T ss_pred             EEEEEECCCCccHHHH-HHHHHHHHcC-----CcEEEEEECcccCCCHH-HHHHHHHHHHHhcccCCCCceEEEeCCCCC
Confidence            7888888876665544 3334433332     89999999999862111 1112222 22222    3679999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      |+.++|+.+.+.+..
T Consensus       331 ~v~~l~~~i~~~~~~  345 (429)
T TIGR03594       331 GVDKLLDAIDEVYEN  345 (429)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999887654

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.

>KOG0096|consensus

Probab=99.22  E-value=2.1e-11  Score=86.36  Aligned_cols=85  Identities=20%  Similarity=0.292  Sum_probs=70.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      ++++||++..-.+....+|...+...+.+   +||+++|||.|....+ + ......+-+..++.|+++||+.+.|.+.-
T Consensus        86 AiimFdVtsr~t~~n~~rwhrd~~rv~~N---iPiv~cGNKvDi~~r~-~-k~k~v~~~rkknl~y~~iSaksn~NfekP  160 (216)
T KOG0096|consen   86 AIIMFDVTSRFTYKNVPRWHRDLVRVREN---IPIVLCGNKVDIKARK-V-KAKPVSFHRKKNLQYYEISAKSNYNFERP  160 (216)
T ss_pred             eEEEeeeeehhhhhcchHHHHHHHHHhcC---CCeeeeccceeccccc-c-ccccceeeecccceeEEeecccccccccc
Confidence            99999999999999999999999866654   9999999999986533 1 22334455566789999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |.++++.+..
T Consensus       161 Fl~LarKl~G  170 (216)
T KOG0096|consen  161 FLWLARKLTG  170 (216)
T ss_pred             hHHHhhhhcC
Confidence            9999988754

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.21  E-value=7.2e-11  Score=96.20  Aligned_cols=79  Identities=25%  Similarity=0.175  Sum_probs=54.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~  110 (158)
                      +|+|+|+++..++.. ..|...++...     +|+++|+||+|+....   .+..+.+  ..++ .++++||++|.|+.+
T Consensus       121 il~VvD~~~~~s~~~-~~i~~~l~~~~-----~piilV~NK~Dl~~~~---~~~~~~~--~~g~~~~~~iSA~~g~gi~e  189 (472)
T PRK03003        121 VLFVVDATVGATATD-EAVARVLRRSG-----KPVILAANKVDDERGE---ADAAALW--SLGLGEPHPVSALHGRGVGD  189 (472)
T ss_pred             EEEEEECCCCCCHHH-HHHHHHHHHcC-----CCEEEEEECccCCccc---hhhHHHH--hcCCCCeEEEEcCCCCCcHH
Confidence            889999988655443 34444444332     8999999999986321   1122222  2343 357999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +|+.+++.+.+
T Consensus       190 L~~~i~~~l~~  200 (472)
T PRK03003        190 LLDAVLAALPE  200 (472)
T ss_pred             HHHHHHhhccc
Confidence            99999988865

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.20  E-value=1.2e-10  Score=80.29  Aligned_cols=75  Identities=19%  Similarity=0.149  Sum_probs=55.4

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +.+++|+|++++.+......|..     .. .  .|+++|+||+|+......       .....+..++++||.++.|++
T Consensus        82 ~~~v~v~d~~~~~~~~~~~~~~~-----~~-~--~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~  146 (157)
T cd04164          82 DLVLFVIDASRGLDEEDLEILEL-----PA-D--KPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLD  146 (157)
T ss_pred             CEEEEEEECCCCCCHHHHHHHHh-----hc-C--CCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHH
Confidence            44999999998777666544333     11 1  899999999998653322       233446789999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         110 VNTRTPEINP  119 (158)
Q Consensus       110 ~lf~~l~~~~  119 (158)
                      +++..|.+.+
T Consensus       147 ~l~~~l~~~~  156 (157)
T cd04164         147 ELKEALLELA  156 (157)
T ss_pred             HHHHHHHHhh
Confidence            9999988754

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>cd04171 SelB SelB subfamily

Probab=99.19  E-value=2e-10  Score=79.98  Aligned_cols=81  Identities=17%  Similarity=0.138  Sum_probs=52.6

Q ss_pred             CeEEEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc--ccHHHHHHHHHH---hCCeEEEE
Q psy2600          29 GKIVIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV--VTLERHAKLAQS---LHLHSFAV  100 (158)
Q Consensus        29 gk~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~---~~~~~~~~  100 (158)
                      .+.+++|+|+++   .++++.+    ..+....  .  .|+++|+||+|+.....  ....+.....+.   .+.+++++
T Consensus        75 ad~ii~V~d~~~~~~~~~~~~~----~~~~~~~--~--~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (164)
T cd04171          75 IDLVLLVVAADEGIMPQTREHL----EILELLG--I--KRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPV  146 (164)
T ss_pred             CCEEEEEEECCCCccHhHHHHH----HHHHHhC--C--CcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEE
Confidence            467999999986   3333322    2222222  1  48999999999864321  111233333333   35789999


Q ss_pred             eCCCCCCHHHHHHHHHH
Q psy2600         101 SARTGDNCWVNTRTPEI  117 (158)
Q Consensus       101 Sa~~~~~i~~lf~~l~~  117 (158)
                      ||+++.|++++|+.+.+
T Consensus       147 Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         147 SAVTGEGIEELKEYLDE  163 (164)
T ss_pred             eCCCCcCHHHHHHHHhh
Confidence            99999999999998864

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.19  E-value=6.6e-11  Score=95.81  Aligned_cols=74  Identities=15%  Similarity=0.090  Sum_probs=56.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|.+++.++++...|..     . ..  .|+++|+||+|+.......        ...+..++++||++|.|++++
T Consensus       298 il~VvD~s~~~s~~~~~~l~~-----~-~~--~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg~GI~~L  361 (449)
T PRK05291        298 VLLVLDASEPLTEEDDEILEE-----L-KD--KPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTGEGIDEL  361 (449)
T ss_pred             EEEEecCCCCCChhHHHHHHh-----c-CC--CCcEEEEEhhhccccchhh--------hccCCceEEEEeeCCCCHHHH
Confidence            899999998877776544443     1 12  8999999999986432211        334567899999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      ++.+.+.+..
T Consensus       362 ~~~L~~~l~~  371 (449)
T PRK05291        362 REAIKELAFG  371 (449)
T ss_pred             HHHHHHHHhh
Confidence            9999988754

>cd01895 EngA2 EngA2 subfamily

Probab=99.19  E-value=3.3e-10  Score=79.24  Aligned_cols=83  Identities=18%  Similarity=0.180  Sum_probs=56.2

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHH-HHHHHHh----CCeEEEEeCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERH-AKLAQSL----HLHSFAVSART  104 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~-~~~~~~~----~~~~~~~Sa~~  104 (158)
                      +.+++|+|.+++.+.... .++..+....     .|+++++||+|+........... ..+.+.+    ...++++||++
T Consensus        86 d~vi~v~d~~~~~~~~~~-~~~~~~~~~~-----~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  159 (174)
T cd01895          86 DVVLLVIDATEGITEQDL-RIAGLILEEG-----KALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFISALT  159 (174)
T ss_pred             CeEEEEEeCCCCcchhHH-HHHHHHHhcC-----CCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEEeccC
Confidence            569999999887665543 3333333332     89999999999865421222222 2233333    25799999999


Q ss_pred             CCCHHHHHHHHHHH
Q psy2600         105 GDNCWVNTRTPEIN  118 (158)
Q Consensus       105 ~~~i~~lf~~l~~~  118 (158)
                      +.|+.++++.+.+.
T Consensus       160 ~~~i~~~~~~l~~~  173 (174)
T cd01895         160 GQGVDKLFDAIDEV  173 (174)
T ss_pred             CCCHHHHHHHHHHh
Confidence            99999999998764

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.

>cd04163 Era Era subfamily

Probab=99.16  E-value=3.8e-10  Score=78.14  Aligned_cols=80  Identities=24%  Similarity=0.168  Sum_probs=53.2

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC-CeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH-LHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~  109 (158)
                      +++|+|++++  +.+.. .+...+....     .|+++|+||+|+.............+....+ .+++++|++++.+++
T Consensus        86 i~~v~d~~~~--~~~~~~~~~~~~~~~~-----~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~  158 (168)
T cd04163          86 VLFVVDASEP--IGEGDEFILELLKKSK-----TPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGENVD  158 (168)
T ss_pred             EEEEEECCCc--cCchHHHHHHHHHHhC-----CCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCChH
Confidence            7888888775  22322 2333343332     8999999999986322222233334444443 678999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         110 VNTRTPEIN  118 (158)
Q Consensus       110 ~lf~~l~~~  118 (158)
                      ++++.|.+.
T Consensus       159 ~l~~~l~~~  167 (168)
T cd04163         159 ELLEEIVKY  167 (168)
T ss_pred             HHHHHHHhh
Confidence            999998764

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.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.13  E-value=3e-10  Score=80.01  Aligned_cols=90  Identities=17%  Similarity=0.080  Sum_probs=65.0

Q ss_pred             CeEEEEEEECCCh------hHHhhHHHHHHHHhhhcCC-----CCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeE
Q psy2600          29 GKIVIFMYDITSG------QSFHSIPTWVDLFHLNRKS-----STPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHS   97 (158)
Q Consensus        29 gk~~i~v~d~~~~------~s~~~~~~~~~~~~~~~~~-----~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~   97 (158)
                      .+.+++|+|+++.      .++++...|...+......     ....|+++|+||+|+..................+..+
T Consensus        75 ~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~  154 (176)
T cd01881          75 ADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEV  154 (176)
T ss_pred             cCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCE
Confidence            5669999999987      5788888888888743321     0118999999999996543332222223333445779


Q ss_pred             EEEeCCCCCCHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      +++||+++.|++++++.+.+.
T Consensus       155 ~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         155 VPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             EEEehhhhcCHHHHHHHHHhh
Confidence            999999999999999998764

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

>cd01894 EngA1 EngA1 subfamily

Probab=99.13  E-value=2.7e-10  Score=78.62  Aligned_cols=79  Identities=19%  Similarity=0.114  Sum_probs=53.8

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDN  107 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~  107 (158)
                      .+.+++|+|..+..+.... .+...+....     .|+++|+||+|+.....    . .......+. .++++|++++.|
T Consensus        77 ~d~ii~v~d~~~~~~~~~~-~~~~~~~~~~-----~piiiv~nK~D~~~~~~----~-~~~~~~~~~~~~~~~Sa~~~~g  145 (157)
T cd01894          77 ADVILFVVDGREGLTPADE-EIAKYLRKSK-----KPVILVVNKVDNIKEED----E-AAEFYSLGFGEPIPISAEHGRG  145 (157)
T ss_pred             CCEEEEEEeccccCCccHH-HHHHHHHhcC-----CCEEEEEECcccCChHH----H-HHHHHhcCCCCeEEEecccCCC
Confidence            3469999998765443332 2222333332     89999999999865322    1 222334555 689999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         108 CWVNTRTPEIN  118 (158)
Q Consensus       108 i~~lf~~l~~~  118 (158)
                      ++++|+.+.+.
T Consensus       146 v~~l~~~l~~~  156 (157)
T cd01894         146 IGDLLDAILEL  156 (157)
T ss_pred             HHHHHHHHHhh
Confidence            99999999875

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.

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

Probab=99.10  E-value=1.2e-09  Score=76.41  Aligned_cols=87  Identities=15%  Similarity=0.071  Sum_probs=53.3

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc-HHHHHHHHH----Hh--CCeEEEE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT-LERHAKLAQ----SL--HLHSFAV  100 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~----~~--~~~~~~~  100 (158)
                      .++.+++|+|+++....+.. ..+..+....     +|+++|+||+|+....... ......+..    .+  +..++++
T Consensus        73 ~~d~il~v~d~~~~~~~~~~-~~~~~~~~~~-----~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (168)
T cd01887          73 LTDIAILVVAADDGVMPQTI-EAIKLAKAAN-----VPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPT  146 (168)
T ss_pred             hcCEEEEEEECCCCccHHHH-HHHHHHHHcC-----CCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEe
Confidence            45679999999874321111 1122233322     8999999999986322100 011111111    11  2579999


Q ss_pred             eCCCCCCHHHHHHHHHHHHH
Q psy2600         101 SARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus       101 Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      ||+++.|+.++|+++.+...
T Consensus       147 Sa~~~~gi~~l~~~l~~~~~  166 (168)
T cd01887         147 SAKTGEGIDDLLEAILLLAE  166 (168)
T ss_pred             ecccCCCHHHHHHHHHHhhh
Confidence            99999999999999987653

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.

>PRK00089 era GTPase Era; Reviewed

Probab=99.09  E-value=8.5e-10  Score=84.58  Aligned_cols=83  Identities=20%  Similarity=0.139  Sum_probs=56.2

Q ss_pred             EEEEEECCChhHHhhHHH-HHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC-CeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIPT-WVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH-LHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~  109 (158)
                      +++|+|+++.  +..... ++..+....     .|+++|+||+|+.............+.+..+ ..++.+||+++.|+.
T Consensus        88 il~vvd~~~~--~~~~~~~i~~~l~~~~-----~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~  160 (292)
T PRK00089         88 VLFVVDADEK--IGPGDEFILEKLKKVK-----TPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGDNVD  160 (292)
T ss_pred             EEEEEeCCCC--CChhHHHHHHHHhhcC-----CCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCHH
Confidence            8899998872  222222 333333222     8999999999997332222334445555444 568999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      ++++.+.+.+..
T Consensus       161 ~L~~~L~~~l~~  172 (292)
T PRK00089        161 ELLDVIAKYLPE  172 (292)
T ss_pred             HHHHHHHHhCCC
Confidence            999999987753

>KOG0070|consensus

Probab=99.09  E-value=1.2e-09  Score=77.19  Aligned_cols=87  Identities=15%  Similarity=0.113  Sum_probs=64.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHH-----HHhCCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA-----QSLHLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~  106 (158)
                      +|||.|.+|++.+.....-+..+..... ....|+++.+||.|++..-  +..+.....     ......+..|+|.+|.
T Consensus        88 lIfVvDS~Dr~Ri~eak~eL~~~l~~~~-l~~~~llv~aNKqD~~~al--s~~ei~~~L~l~~l~~~~w~iq~~~a~~G~  164 (181)
T KOG0070|consen   88 LIFVVDSSDRERIEEAKEELHRMLAEPE-LRNAPLLVFANKQDLPGAL--SAAEITNKLGLHSLRSRNWHIQSTCAISGE  164 (181)
T ss_pred             EEEEEeCCcHHHHHHHHHHHHHHHcCcc-cCCceEEEEechhhccccC--CHHHHHhHhhhhccCCCCcEEeeccccccc
Confidence            9999999999999998877776663332 1229999999999997533  222322221     2234567889999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      |+.+.++++.+.+..
T Consensus       165 GL~egl~wl~~~~~~  179 (181)
T KOG0070|consen  165 GLYEGLDWLSNNLKK  179 (181)
T ss_pred             cHHHHHHHHHHHHhc
Confidence            999999999988754

>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=99.08  E-value=5e-10  Score=74.34  Aligned_cols=40  Identities=30%  Similarity=0.584  Sum_probs=31.5

Q ss_pred             EEEEEECCChhHHhhHHH---HHHHHhhhcCCCCCcEEEEEEeCCC
Q psy2600          32 VIFMYDITSGQSFHSIPT---WVDLFHLNRKSSTPTYVALVANKGD   74 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~---~~~~~~~~~~~~~~~piilv~nK~D   74 (158)
                      +++|||++++.||+.+..   |+..+......   +|+++|+||.|
T Consensus        77 ~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~~~---~piilv~nK~D  119 (119)
T PF08477_consen   77 VILVYDLSDPESLEYLSQLLKWLKNIRKRDKN---IPIILVGNKSD  119 (119)
T ss_dssp             EEEEEECCGHHHHHHHHHHHHHHHHHHHHSSC---SEEEEEEE-TC
T ss_pred             EEEEEcCCChHHHHHHHHHHHHHHHHHccCCC---CCEEEEEeccC
Confidence            999999999999999754   56665544333   99999999998

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.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.06  E-value=1.3e-09  Score=74.89  Aligned_cols=75  Identities=25%  Similarity=0.267  Sum_probs=52.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCe-EEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLH-SFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~i~~  110 (158)
                      +++|.|.+++.+.-. ..+..-   ..     .|+|-|.||+|+.... ...+.++++.+..|+. +|++|+.+|+||++
T Consensus        67 V~ll~dat~~~~~~p-P~fa~~---f~-----~pvIGVITK~Dl~~~~-~~i~~a~~~L~~aG~~~if~vS~~~~eGi~e  136 (143)
T PF10662_consen   67 VLLLQDATEPRSVFP-PGFASM---FN-----KPVIGVITKIDLPSDD-ANIERAKKWLKNAGVKEIFEVSAVTGEGIEE  136 (143)
T ss_pred             EEEEecCCCCCccCC-chhhcc---cC-----CCEEEEEECccCccch-hhHHHHHHHHHHcCCCCeEEEECCCCcCHHH
Confidence            888888887543211 011111   12     8999999999997322 2345677777877854 89999999999999


Q ss_pred             HHHHHH
Q psy2600         111 NTRTPE  116 (158)
Q Consensus       111 lf~~l~  116 (158)
                      |.+.|-
T Consensus       137 L~~~L~  142 (143)
T PF10662_consen  137 LKDYLE  142 (143)
T ss_pred             HHHHHh
Confidence            998874

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

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

Probab=99.06  E-value=2.1e-09  Score=74.33  Aligned_cols=83  Identities=16%  Similarity=0.021  Sum_probs=62.0

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      ..+.+++|+|.++..+.   ..|...+....     +|+++|+||+|+.....+.. ....+++.++.+++++||.++.|
T Consensus        74 ~~d~vi~v~d~~~~~~~---~~~~~~~~~~~-----~~~iiv~NK~Dl~~~~~~~~-~~~~~~~~~~~~~~~iSa~~~~~  144 (158)
T cd01879          74 KPDLIVNVVDATNLERN---LYLTLQLLELG-----LPVVVALNMIDEAEKRGIKI-DLDKLSELLGVPVVPTSARKGEG  144 (158)
T ss_pred             CCcEEEEEeeCCcchhH---HHHHHHHHHcC-----CCEEEEEehhhhcccccchh-hHHHHHHhhCCCeEEEEccCCCC
Confidence            45679999999875442   34555554433     89999999999965443332 34567777788999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINP  119 (158)
Q Consensus       108 i~~lf~~l~~~~  119 (158)
                      +.++|+.+.+.+
T Consensus       145 ~~~l~~~l~~~~  156 (158)
T cd01879         145 IDELKDAIAELA  156 (158)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988763

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.

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

Probab=99.04  E-value=1.6e-09  Score=78.19  Aligned_cols=77  Identities=17%  Similarity=0.053  Sum_probs=48.0

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc-ccHHHHHHHHH-------HhCCeEEEE
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV-VTLERHAKLAQ-------SLHLHSFAV  100 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-~~~~~~~~~~~-------~~~~~~~~~  100 (158)
                      .+++++|+|+++. .+.....|+..+....     +|+++|+||+|+..... ....+...+..       ..+++++++
T Consensus        89 ~d~~ilV~d~~~~-~~~~~~~~~~~~~~~~-----~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~  162 (194)
T cd01891          89 VDGVLLLVDASEG-PMPQTRFVLKKALELG-----LKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFPVLYA  162 (194)
T ss_pred             cCEEEEEEECCCC-ccHHHHHHHHHHHHcC-----CCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccCEEEe
Confidence            3569999999873 2333344444444332     89999999999864322 11223333332       235779999


Q ss_pred             eCCCCCCHHHH
Q psy2600         101 SARTGDNCWVN  111 (158)
Q Consensus       101 Sa~~~~~i~~l  111 (158)
                      ||++|.|+.++
T Consensus       163 Sa~~g~~~~~~  173 (194)
T cd01891         163 SAKNGWASLNL  173 (194)
T ss_pred             ehhcccccccc
Confidence            99999876433

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.04  E-value=2.3e-09  Score=91.31  Aligned_cols=82  Identities=16%  Similarity=0.107  Sum_probs=56.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH-HHHHh----CCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK-LAQSL----HLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-~~~~~----~~~~~~~Sa~~~~  106 (158)
                      +++|+|+++..++++.. ++..+....     +|+++|+||+|+.....  .+..+. +...+    ..+++.+||++|.
T Consensus       536 vilViDat~~~s~~~~~-i~~~~~~~~-----~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~iSAktg~  607 (712)
T PRK09518        536 ALFLFDASQPISEQDLK-VMSMAVDAG-----RALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVNLSAKTGW  607 (712)
T ss_pred             EEEEEECCCCCCHHHHH-HHHHHHHcC-----CCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEEEECCCCC
Confidence            88999998877776654 334443332     89999999999864211  112222 22221    2456899999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      |+.++|+.+.+.+..
T Consensus       608 gv~~L~~~i~~~~~~  622 (712)
T PRK09518        608 HTNRLAPAMQEALES  622 (712)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999887765

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.03  E-value=2.9e-09  Score=76.57  Aligned_cols=57  Identities=12%  Similarity=-0.116  Sum_probs=40.9

Q ss_pred             cEEEEEEeCCCCCCCccc--cHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVV--TLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      +|+++++||+|+.+....  ..+............++++||+++.|++++++.+.+.+.
T Consensus       136 ~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  194 (196)
T PRK00454        136 IPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEVILFSSLKKQGIDELRAAIAKWLA  194 (196)
T ss_pred             CcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCceEEEEcCCCCCHHHHHHHHHHHhc
Confidence            889999999998643221  111222333333578999999999999999999987764

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.03  E-value=1.5e-09  Score=77.12  Aligned_cols=86  Identities=15%  Similarity=0.005  Sum_probs=57.2

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc--HHHHHHHHHH--------------
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT--LERHAKLAQS--------------   92 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~--------------   92 (158)
                      .+++++|+|+++..+... ..++..+....     .|+++|+||+|+.......  ........+.              
T Consensus        86 ~d~~i~v~d~~~~~~~~~-~~~~~~~~~~~-----~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (189)
T cd00881          86 SDGAILVVDANEGVQPQT-REHLRIAREGG-----LPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGTRNG  159 (189)
T ss_pred             cCEEEEEEECCCCCcHHH-HHHHHHHHHCC-----CCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhcccC
Confidence            345999999987654432 23444444322     8999999999986422211  1222222222              


Q ss_pred             hCCeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          93 LHLHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        93 ~~~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      ...+++++||+.|.|+.++|..+.+.+.
T Consensus       160 ~~~~v~~~Sa~~g~gi~~l~~~l~~~l~  187 (189)
T cd00881         160 LLVPIVPGSALTGIGVEELLEAIVEHLP  187 (189)
T ss_pred             CcceEEEEecccCcCHHHHHHHHHhhCC
Confidence            2467899999999999999999998863

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.03  E-value=9.4e-10  Score=91.79  Aligned_cols=82  Identities=13%  Similarity=-0.010  Sum_probs=61.8

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      .|.+++|+|.++.+   ....+..++.+.+     +|+++|+||+|+.+.+.+. .+.+.+.+..+++++++||++|.|+
T Consensus        73 aDvvI~VvDat~le---r~l~l~~ql~~~~-----~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi  143 (591)
T TIGR00437        73 PDLVVNVVDASNLE---RNLYLTLQLLELG-----IPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGI  143 (591)
T ss_pred             CCEEEEEecCCcch---hhHHHHHHHHhcC-----CCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCH
Confidence            46799999987633   2233444444332     8999999999986544443 3567788888999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         109 WVNTRTPEINP  119 (158)
Q Consensus       109 ~~lf~~l~~~~  119 (158)
                      +++|+.+.+..
T Consensus       144 ~eL~~~i~~~~  154 (591)
T TIGR00437       144 ERLKDAIRKAI  154 (591)
T ss_pred             HHHHHHHHHHh
Confidence            99999998754

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.03  E-value=1.8e-09  Score=87.11  Aligned_cols=83  Identities=18%  Similarity=0.107  Sum_probs=54.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH----hCCeEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS----LHLHSFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~  107 (158)
                      +|+|+|+++..+..+. .+...+....     +|+++|+||+|+...... .+....+...    ...+++++||+++.|
T Consensus       259 ~ilViD~~~~~~~~~~-~i~~~~~~~~-----~~~ivv~NK~Dl~~~~~~-~~~~~~~~~~l~~~~~~~i~~~SA~~~~g  331 (435)
T PRK00093        259 VLLVIDATEGITEQDL-RIAGLALEAG-----RALVIVVNKWDLVDEKTM-EEFKKELRRRLPFLDYAPIVFISALTGQG  331 (435)
T ss_pred             EEEEEeCCCCCCHHHH-HHHHHHHHcC-----CcEEEEEECccCCCHHHH-HHHHHHHHHhcccccCCCEEEEeCCCCCC
Confidence            7888888876555443 2333333333     899999999998632211 1111222222    236799999999999


Q ss_pred             HHHHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINPLK  121 (158)
Q Consensus       108 i~~lf~~l~~~~~~  121 (158)
                      +.++|+.+.+....
T Consensus       332 v~~l~~~i~~~~~~  345 (435)
T PRK00093        332 VDKLLEAIDEAYEN  345 (435)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998876544

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.02  E-value=6.3e-09  Score=70.24  Aligned_cols=87  Identities=30%  Similarity=0.419  Sum_probs=62.4

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCCccccHHH-HHHHHHHhCCeEEEEeCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLER-HAKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~~~~~~~~-~~~~~~~~~~~~~~~Sa~~~~  106 (158)
                      .+++++|+|++++.++.....|..... ......  +|+++|+||+|+.......... ........+.+++++|+..+.
T Consensus        69 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  146 (157)
T cd00882          69 ADGIILVYDVTDRESFENVKEWLLLILINKEGEN--IPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGE  146 (157)
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCC--CcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCC
Confidence            467999999999999998887732222 222222  9999999999986433322221 233444456889999999999


Q ss_pred             CHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEI  117 (158)
Q Consensus       107 ~i~~lf~~l~~  117 (158)
                      |+.++++++.+
T Consensus       147 ~i~~~~~~l~~  157 (157)
T cd00882         147 NVEELFEELAE  157 (157)
T ss_pred             ChHHHHHHHhC
Confidence            99999998753

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.01  E-value=9e-09  Score=81.95  Aligned_cols=84  Identities=23%  Similarity=0.136  Sum_probs=56.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH-HHHHh----CCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK-LAQSL----HLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-~~~~~----~~~~~~~Sa~~~~  106 (158)
                      +++|.|.+.+-+-++ ......+.+..     .++++|.||+|+........++.+. +-+.+    ..+.+.+||.++.
T Consensus       264 vllviDa~~~~~~qD-~~ia~~i~~~g-----~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~  337 (444)
T COG1160         264 VLLVIDATEGISEQD-LRIAGLIEEAG-----RGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQ  337 (444)
T ss_pred             EEEEEECCCCchHHH-HHHHHHHHHcC-----CCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEEEecCCC
Confidence            999999987654333 23344444433     8899999999986543233333332 22222    2568999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      ++.++|+.+......
T Consensus       338 ~i~~l~~~i~~~~~~  352 (444)
T COG1160         338 GLDKLFEAIKEIYEC  352 (444)
T ss_pred             ChHHHHHHHHHHHHH
Confidence            999999988765543

>cd01889 SelB_euk SelB subfamily

Probab=99.00  E-value=3.3e-09  Score=76.46  Aligned_cols=101  Identities=17%  Similarity=0.105  Sum_probs=62.8

Q ss_pred             ceEEEEEEECCC-----------CCCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc--
Q psy2600          15 EIQLKVVLLGDP-----------SCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV--   81 (158)
Q Consensus        15 ~~~~ki~~~G~~-----------~vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--   81 (158)
                      .+.+.++..+..           ...+++++|+|+++.........|.. .....     +|+++|+||+|+......  
T Consensus        67 ~~~~~i~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~-~~~~~-----~~~iiv~NK~Dl~~~~~~~~  140 (192)
T cd01889          67 NLQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVI-GEILC-----KKLIVVLNKIDLIPEEERER  140 (192)
T ss_pred             CceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHH-HHHcC-----CCEEEEEECcccCCHHHHHH
Confidence            455566655532           23468999999987544333333321 11222     899999999998632211  


Q ss_pred             cHHHHHH-HHHH------hCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          82 TLERHAK-LAQS------LHLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        82 ~~~~~~~-~~~~------~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      ..++... +...      .+++++.+||+++.|++++++.+...+.-
T Consensus       141 ~~~~~~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~~  187 (192)
T cd01889         141 KIEKMKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLIVL  187 (192)
T ss_pred             HHHHHHHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHHhcccc
Confidence            1112222 1111      25689999999999999999999988753

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

>TIGR01393 lepA GTP-binding protein LepA

Probab=98.99  E-value=3.6e-09  Score=88.36  Aligned_cols=87  Identities=14%  Similarity=0.063  Sum_probs=64.6

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC---eEEEEeCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL---HSFAVSART  104 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~~~Sa~~  104 (158)
                      .++++|+|+|+++..+++....|...+. .+     +|+++|+||+|+....  .......+.+.++.   .++++||++
T Consensus        93 ~aD~aILVvDat~g~~~qt~~~~~~~~~-~~-----ipiIiViNKiDl~~~~--~~~~~~el~~~lg~~~~~vi~vSAkt  164 (595)
T TIGR01393        93 ACEGALLLVDAAQGIEAQTLANVYLALE-ND-----LEIIPVINKIDLPSAD--PERVKKEIEEVIGLDASEAILASAKT  164 (595)
T ss_pred             hCCEEEEEecCCCCCCHhHHHHHHHHHH-cC-----CCEEEEEECcCCCccC--HHHHHHHHHHHhCCCcceEEEeeccC
Confidence            4567999999998777777666665443 22     8999999999986422  12233455555665   489999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy2600         105 GDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~~~  122 (158)
                      |.||.++|+.+.+.+...
T Consensus       165 G~GI~~Lle~I~~~lp~p  182 (595)
T TIGR01393       165 GIGIEEILEAIVKRVPPP  182 (595)
T ss_pred             CCCHHHHHHHHHHhCCCC
Confidence            999999999999887654

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.99  E-value=3.8e-09  Score=90.42  Aligned_cols=79  Identities=9%  Similarity=-0.055  Sum_probs=60.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|.++.+.   ...|..++.+..     +|+++|.||+|+.+.+.+ ..+.+.+.+.+|++++.+||.++.|++++
T Consensus        89 vI~VvDat~ler---~l~l~~ql~e~g-----iPvIvVlNK~Dl~~~~~i-~id~~~L~~~LG~pVvpiSA~~g~GIdeL  159 (772)
T PRK09554         89 LINVVDASNLER---NLYLTLQLLELG-----IPCIVALNMLDIAEKQNI-RIDIDALSARLGCPVIPLVSTRGRGIEAL  159 (772)
T ss_pred             EEEEecCCcchh---hHHHHHHHHHcC-----CCEEEEEEchhhhhccCc-HHHHHHHHHHhCCCEEEEEeecCCCHHHH
Confidence            788888876433   233555555544     899999999998654444 34667788889999999999999999999


Q ss_pred             HHHHHHHH
Q psy2600         112 TRTPEINP  119 (158)
Q Consensus       112 f~~l~~~~  119 (158)
                      ++.+.+..
T Consensus       160 ~~~I~~~~  167 (772)
T PRK09554        160 KLAIDRHQ  167 (772)
T ss_pred             HHHHHHhh
Confidence            99988764

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.98  E-value=3.7e-09  Score=85.03  Aligned_cols=80  Identities=20%  Similarity=0.120  Sum_probs=54.3

Q ss_pred             EEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCCHH
Q psy2600          31 IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDNCW  109 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~  109 (158)
                      .+++|+|.++..+..+ ..+...+++..     +|+++|+||+|+.....    .... ...+|. +++++||..|.|+.
T Consensus        81 ~vl~vvD~~~~~~~~d-~~i~~~l~~~~-----~piilVvNK~D~~~~~~----~~~~-~~~lg~~~~~~vSa~~g~gv~  149 (429)
T TIGR03594        81 VILFVVDGREGLTPED-EEIAKWLRKSG-----KPVILVANKIDGKKEDA----VAAE-FYSLGFGEPIPISAEHGRGIG  149 (429)
T ss_pred             EEEEEEeCCCCCCHHH-HHHHHHHHHhC-----CCEEEEEECccCCcccc----cHHH-HHhcCCCCeEEEeCCcCCChH
Confidence            3899999876433222 12223333332     89999999999864322    1112 234565 68999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      ++++.+.+.+..
T Consensus       150 ~ll~~i~~~l~~  161 (429)
T TIGR03594       150 DLLDAILELLPE  161 (429)
T ss_pred             HHHHHHHHhcCc
Confidence            999999988754

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.

>KOG0075|consensus

Probab=98.97  E-value=2.5e-09  Score=73.12  Aligned_cols=102  Identities=11%  Similarity=0.098  Sum_probs=75.8

Q ss_pred             CcceEEEEEEECCCCCCe-----------EEEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCcc
Q psy2600          13 NYEIQLKVVLLGDPSCGK-----------IVIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRV   80 (158)
Q Consensus        13 ~~~~~~ki~~~G~~~vgk-----------~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~   80 (158)
                      ...+++|++.+|....-+           +++||.|++|++.++-.+.-+..+.... -..  +|+++.|||.|++..- 
T Consensus        62 kgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~g--ip~LVLGnK~d~~~AL-  138 (186)
T KOG0075|consen   62 KGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTG--IPLLVLGNKIDLPGAL-  138 (186)
T ss_pred             cCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcC--CcEEEecccccCcccc-
Confidence            456899999999987554           4999999999888877776666665222 223  9999999999987522 


Q ss_pred             ccHHHHHHHHHHh--------CCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          81 VTLERHAKLAQSL--------HLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        81 ~~~~~~~~~~~~~--------~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                       ..   +.+...+        .++.|.+||++..|++.+.+++++....
T Consensus       139 -~~---~~li~rmgL~sitdREvcC~siScke~~Nid~~~~Wli~hsk~  183 (186)
T KOG0075|consen  139 -SK---IALIERMGLSSITDREVCCFSISCKEKVNIDITLDWLIEHSKS  183 (186)
T ss_pred             -cH---HHHHHHhCccccccceEEEEEEEEcCCccHHHHHHHHHHHhhh
Confidence             22   2233333        3467999999999999999999987643

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.96  E-value=2.9e-09  Score=90.75  Aligned_cols=78  Identities=22%  Similarity=0.157  Sum_probs=52.7

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~  109 (158)
                      +|+|+|.++.  +.... .|...++...     +|+++|+||+|+....    .....+. .++. ..+++||++|.||.
T Consensus       358 iL~VvDa~~~--~~~~d~~i~~~Lr~~~-----~pvIlV~NK~D~~~~~----~~~~~~~-~lg~~~~~~iSA~~g~GI~  425 (712)
T PRK09518        358 VVFVVDGQVG--LTSTDERIVRMLRRAG-----KPVVLAVNKIDDQASE----YDAAEFW-KLGLGEPYPISAMHGRGVG  425 (712)
T ss_pred             EEEEEECCCC--CCHHHHHHHHHHHhcC-----CCEEEEEECcccccch----hhHHHHH-HcCCCCeEEEECCCCCCch
Confidence            7888888652  22222 4555555433     9999999999985421    1112221 2332 36799999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      ++|+.+++.+..
T Consensus       426 eLl~~i~~~l~~  437 (712)
T PRK09518        426 DLLDEALDSLKV  437 (712)
T ss_pred             HHHHHHHHhccc
Confidence            999999988755

>PRK12288 GTPase RsgA; Reviewed

Probab=98.95  E-value=5e-09  Score=82.23  Aligned_cols=103  Identities=13%  Similarity=0.098  Sum_probs=71.7

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc-cHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV-TLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      |.+++|++++...++..+..|+..+....     +|.++|+||+|+...... .........+..+..++++||+++.|+
T Consensus       122 D~vlIV~s~~p~~s~~~Ldr~L~~a~~~~-----i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~Gi  196 (347)
T PRK12288        122 DQIVIVSAVLPELSLNIIDRYLVACETLG-----IEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGEGL  196 (347)
T ss_pred             cEEEEEEeCCCCCCHHHHHHHHHHHHhcC-----CCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCcCH
Confidence            77999999988889999999988665433     888999999999643211 111222333456889999999999999


Q ss_pred             HHHHHHHHHHHHHhHhhccccccccccccccccccccc
Q psy2600         109 WVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAV  146 (158)
Q Consensus       109 ~~lf~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (158)
                      +++++.+...+         ..+...+|..+.++...+
T Consensus       197 deL~~~L~~ki---------~~~vG~sgVGKSTLiN~L  225 (347)
T PRK12288        197 EELEAALTGRI---------SIFVGQSGVGKSSLINAL  225 (347)
T ss_pred             HHHHHHHhhCC---------EEEECCCCCCHHHHHHHh
Confidence            99999886532         234445555554444443

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.94  E-value=6.8e-09  Score=83.73  Aligned_cols=76  Identities=21%  Similarity=0.169  Sum_probs=51.1

Q ss_pred             EEEEEEECCChhHHh--hHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCe-EEEEeCCCCCC
Q psy2600          31 IVIFMYDITSGQSFH--SIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLH-SFAVSARTGDN  107 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~  107 (158)
                      .+|+|+|.++..+..  .+..|+..   ..     .|+++|+||+|+...    ......+ ..+++. ++++||++|.|
T Consensus        83 ~il~vvd~~~~~~~~~~~~~~~l~~---~~-----~piilv~NK~D~~~~----~~~~~~~-~~lg~~~~~~iSa~~g~g  149 (435)
T PRK00093         83 VILFVVDGRAGLTPADEEIAKILRK---SN-----KPVILVVNKVDGPDE----EADAYEF-YSLGLGEPYPISAEHGRG  149 (435)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHH---cC-----CcEEEEEECccCccc----hhhHHHH-HhcCCCCCEEEEeeCCCC
Confidence            388999987743322  22344433   22     899999999997531    1122222 345653 89999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINP  119 (158)
Q Consensus       108 i~~lf~~l~~~~  119 (158)
                      +.++|+.++...
T Consensus       150 v~~l~~~I~~~~  161 (435)
T PRK00093        150 IGDLLDAILEEL  161 (435)
T ss_pred             HHHHHHHHHhhC
Confidence            999999998743

>KOG1489|consensus

Probab=98.91  E-value=1e-08  Score=78.31  Aligned_cols=83  Identities=20%  Similarity=0.270  Sum_probs=65.6

Q ss_pred             EEEEEECCCh---hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCC
Q psy2600          32 VIFMYDITSG---QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~  107 (158)
                      ++||.|++..   ..++++.....++..+.....+.|.++|+||+|+++.+   .....++++.+.- .++.+||+.+++
T Consensus       278 l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae---~~~l~~L~~~lq~~~V~pvsA~~~eg  354 (366)
T KOG1489|consen  278 LLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAE---KNLLSSLAKRLQNPHVVPVSAKSGEG  354 (366)
T ss_pred             EEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHH---HHHHHHHHHHcCCCcEEEeeeccccc
Confidence            8999999988   88888888888888777665569999999999986321   1223567777653 499999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         108 CWVNTRTPEI  117 (158)
Q Consensus       108 i~~lf~~l~~  117 (158)
                      ++++.+.+-.
T Consensus       355 l~~ll~~lr~  364 (366)
T KOG1489|consen  355 LEELLNGLRE  364 (366)
T ss_pred             hHHHHHHHhh
Confidence            9999887754

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=98.91  E-value=8.3e-09  Score=79.50  Aligned_cols=92  Identities=16%  Similarity=0.036  Sum_probs=66.7

Q ss_pred             EEEEEECCChh---HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEE-EeCCCCCC
Q psy2600          32 VIFMYDITSGQ---SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFA-VSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~---s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~Sa~~~~~  107 (158)
                      +++|.|++..+   ..+++.....++..|.....+.|.++|+||+|+....+........+.+..+...+. +||.++.|
T Consensus       241 L~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~~g  320 (369)
T COG0536         241 LLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALTREG  320 (369)
T ss_pred             eEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhcccC
Confidence            88999998644   477777888888877765555999999999996543332233334444444544222 99999999


Q ss_pred             HHHHHHHHHHHHHHhH
Q psy2600         108 CWVNTRTPEINPLKYL  123 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~  123 (158)
                      ++++...+.+.+.+..
T Consensus       321 ~~~L~~~~~~~l~~~~  336 (369)
T COG0536         321 LDELLRALAELLEETK  336 (369)
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999998887764

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.89  E-value=1e-08  Score=78.63  Aligned_cols=81  Identities=15%  Similarity=0.054  Sum_probs=62.6

Q ss_pred             eEEEEEEECCChh-HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          30 KIVIFMYDITSGQ-SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        30 k~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      |.+++|+|++++. ++..+..|+..+...+     +|+++|+||+||.....  ...........+.+++.+||+++.|+
T Consensus        80 D~vllV~d~~~p~~s~~~ldr~L~~~~~~~-----ip~iIVlNK~DL~~~~~--~~~~~~~~~~~g~~v~~vSA~~g~gi  152 (287)
T cd01854          80 DQLVIVVSLNEPFFNPRLLDRYLVAAEAAG-----IEPVIVLTKADLLDDEE--EELELVEALALGYPVLAVSAKTGEGL  152 (287)
T ss_pred             CEEEEEEEcCCCCCCHHHHHHHHHHHHHcC-----CCEEEEEEHHHCCChHH--HHHHHHHHHhCCCeEEEEECCCCccH
Confidence            6699999999887 8888888988777544     89999999999964311  11223334456888999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         109 WVNTRTPEI  117 (158)
Q Consensus       109 ~~lf~~l~~  117 (158)
                      ++++..+..
T Consensus       153 ~~L~~~L~~  161 (287)
T cd01854         153 DELREYLKG  161 (287)
T ss_pred             HHHHhhhcc
Confidence            999987764

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.89  E-value=8.3e-09  Score=79.51  Aligned_cols=82  Identities=12%  Similarity=0.077  Sum_probs=60.7

Q ss_pred             CeEEEEEEECCChhHHhh-HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHS-IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      .|.+++|+|++++.++.. +..|+..+....     +|+++|+||+|+..... .........+.++.+++.+||+++.|
T Consensus        81 iD~vllV~d~~~p~~~~~~idr~L~~~~~~~-----ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g~g  154 (298)
T PRK00098         81 VDQAVLVFAAKEPDFSTDLLDRFLVLAEANG-----IKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEGEG  154 (298)
T ss_pred             CCEEEEEEECCCCCCCHHHHHHHHHHHHHCC-----CCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCCcc
Confidence            367999999988876555 467877766433     89999999999953221 12233444556788899999999999


Q ss_pred             HHHHHHHHH
Q psy2600         108 CWVNTRTPE  116 (158)
Q Consensus       108 i~~lf~~l~  116 (158)
                      +++++..+.
T Consensus       155 i~~L~~~l~  163 (298)
T PRK00098        155 LDELKPLLA  163 (298)
T ss_pred             HHHHHhhcc
Confidence            999998764

>cd01859 MJ1464 MJ1464

Probab=98.87  E-value=1.1e-08  Score=71.39  Aligned_cols=85  Identities=18%  Similarity=0.101  Sum_probs=56.7

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      .|.+++|+|++++....+ ..+...+....     .|+++|+||+|+......  .....+.+..+.+++.+||+++.|+
T Consensus        13 aD~vl~V~D~~~~~~~~~-~~l~~~~~~~~-----~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~iSa~~~~gi   84 (156)
T cd01859          13 SDVVLEVLDARDPELTRS-RKLERYVLELG-----KKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVVYVSAKERLGT   84 (156)
T ss_pred             CCEEEEEeeCCCCcccCC-HHHHHHHHhCC-----CcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEEEEEccccccH
Confidence            477899999987543332 12222222222     899999999998532111  1111233445677899999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2600         109 WVNTRTPEINPLK  121 (158)
Q Consensus       109 ~~lf~~l~~~~~~  121 (158)
                      +++++.+.+.+..
T Consensus        85 ~~L~~~l~~~~~~   97 (156)
T cd01859          85 KILRRTIKELAKI   97 (156)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999887753

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.87  E-value=1.3e-08  Score=79.91  Aligned_cols=82  Identities=10%  Similarity=0.084  Sum_probs=59.2

Q ss_pred             eEEEEEEECCChh-HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          30 KIVIFMYDITSGQ-SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        30 k~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      |.+++|+|++++. ++..+..|+..+....     +|+++|+||+||......  .......+.+|+.++.+||.++.|+
T Consensus        91 D~vLlV~d~~~p~~~~~~LdR~L~~a~~~~-----ip~ILVlNK~DLv~~~~~--~~~~~~~~~~g~~v~~iSA~tg~GI  163 (352)
T PRK12289         91 DQILLVFALAEPPLDPWQLSRFLVKAESTG-----LEIVLCLNKADLVSPTEQ--QQWQDRLQQWGYQPLFISVETGIGL  163 (352)
T ss_pred             CEEEEEEECCCCCCCHHHHHHHHHHHHHCC-----CCEEEEEEchhcCChHHH--HHHHHHHHhcCCeEEEEEcCCCCCH
Confidence            4599999998765 4445677777664333     899999999998642211  1222233467888999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         109 WVNTRTPEIN  118 (158)
Q Consensus       109 ~~lf~~l~~~  118 (158)
                      +++++.+...
T Consensus       164 ~eL~~~L~~k  173 (352)
T PRK12289        164 EALLEQLRNK  173 (352)
T ss_pred             HHHhhhhccc
Confidence            9999988653

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

Probab=98.86  E-value=1.4e-08  Score=73.94  Aligned_cols=89  Identities=11%  Similarity=0.005  Sum_probs=54.5

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc--HHHHHHHHHHh---CCeEEEEeC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT--LERHAKLAQSL---HLHSFAVSA  102 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~---~~~~~~~Sa  102 (158)
                      ..|.+++|+|++++.........+..+.....    .|+++|+||+|+.......  .+....+.+.+   +.+++.+||
T Consensus       106 ~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~----~~iiivvNK~Dl~~~~~~~~~~~~i~~~~~~~~~~~~~i~~vSA  181 (203)
T cd01888         106 VMDGALLLIAANEPCPQPQTSEHLAALEIMGL----KHIIIVQNKIDLVKEEQALENYEQIKKFVKGTIAENAPIIPISA  181 (203)
T ss_pred             cCCEEEEEEECCCCCCCcchHHHHHHHHHcCC----CcEEEEEEchhccCHHHHHHHHHHHHHHHhccccCCCcEEEEeC
Confidence            34789999999873211111112222222221    5789999999986422111  12222333322   567999999


Q ss_pred             CCCCCHHHHHHHHHHHHH
Q psy2600         103 RTGDNCWVNTRTPEINPL  120 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~~  120 (158)
                      ++|.|++++|+.+.+.+.
T Consensus       182 ~~g~gi~~L~~~l~~~l~  199 (203)
T cd01888         182 QLKYNIDVLLEYIVKKIP  199 (203)
T ss_pred             CCCCCHHHHHHHHHHhCC
Confidence            999999999999987654

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

>KOG0076|consensus

Probab=98.85  E-value=6.6e-09  Score=72.87  Aligned_cols=87  Identities=21%  Similarity=0.153  Sum_probs=65.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHH---HHHh---CCeEEEEeCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKL---AQSL---HLHSFAVSART  104 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~---~~~~---~~~~~~~Sa~~  104 (158)
                      +++++|+++++.|+.....++.+..+ .-.+  .|+++.+||.|+.+....  .+....   ++..   ...+..+||.+
T Consensus        96 ii~viDa~~~eR~~~~~t~~~~v~~~E~leg--~p~L~lankqd~q~~~~~--~El~~~~~~~e~~~~rd~~~~pvSal~  171 (197)
T KOG0076|consen   96 IIYVIDATDRERFEESKTAFEKVVENEKLEG--APVLVLANKQDLQNAMEA--AELDGVFGLAELIPRRDNPFQPVSALT  171 (197)
T ss_pred             eEEeecCCCHHHHHHHHHHHHHHHHHHHhcC--CchhhhcchhhhhhhhhH--HHHHHHhhhhhhcCCccCccccchhhh
Confidence            99999999999999887666666532 2233  999999999999764332  233332   2322   35689999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy2600         105 GDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~~~  122 (158)
                      |.||++...++++.+...
T Consensus       172 gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  172 GEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             cccHHHHHHHHHHHHhhc
Confidence            999999999999988765

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.84  E-value=1.4e-08  Score=81.12  Aligned_cols=79  Identities=15%  Similarity=0.105  Sum_probs=52.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|.+.+.+-.+. ..+. .   ...+  .|+++|.||+||.......     ...-..+..++.+||+++.|+++|
T Consensus       300 vL~v~D~~~~~~~~d~-~~~~-~---~~~~--~~~i~v~NK~DL~~~~~~~-----~~~~~~~~~~i~iSa~t~~Gl~~L  367 (454)
T COG0486         300 VLFVLDASQPLDKEDL-ALIE-L---LPKK--KPIIVVLNKADLVSKIELE-----SEKLANGDAIISISAKTGEGLDAL  367 (454)
T ss_pred             EEEEEeCCCCCchhhH-HHHH-h---cccC--CCEEEEEechhcccccccc-----hhhccCCCceEEEEecCccCHHHH
Confidence            9999999885222211 1222 1   1222  8999999999997543211     111122456899999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      .+.|.+.+...
T Consensus       368 ~~~i~~~~~~~  378 (454)
T COG0486         368 REAIKQLFGKG  378 (454)
T ss_pred             HHHHHHHHhhc
Confidence            99998887654

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.83  E-value=2.3e-08  Score=69.39  Aligned_cols=80  Identities=15%  Similarity=0.099  Sum_probs=50.0

Q ss_pred             EEEEEEECCChh--HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc--cHHHHHHHHH--HhCCeEEEEeCCC
Q psy2600          31 IVIFMYDITSGQ--SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV--TLERHAKLAQ--SLHLHSFAVSART  104 (158)
Q Consensus        31 ~~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~--~~~~~~~~~Sa~~  104 (158)
                      .+++++|.+...  ....+..|+...   .     .|+++|+||+|+......  .........+  ....+++++||++
T Consensus        84 ~~~~v~d~~~~~~~~~~~~~~~l~~~---~-----~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~~  155 (170)
T cd01876          84 GVVLLIDSRHGPTEIDLEMLDWLEEL---G-----IPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILFSSLK  155 (170)
T ss_pred             EEEEEEEcCcCCCHhHHHHHHHHHHc---C-----CCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEEecCC
Confidence            367888876542  222233444432   2     799999999998532211  1111222222  2335789999999


Q ss_pred             CCCHHHHHHHHHHH
Q psy2600         105 GDNCWVNTRTPEIN  118 (158)
Q Consensus       105 ~~~i~~lf~~l~~~  118 (158)
                      +.++.++++.+.+.
T Consensus       156 ~~~~~~l~~~l~~~  169 (170)
T cd01876         156 GQGIDELRALIEKW  169 (170)
T ss_pred             CCCHHHHHHHHHHh
Confidence            99999999999875

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.

>cd01855 YqeH YqeH

Probab=98.83  E-value=2.2e-08  Score=72.09  Aligned_cols=107  Identities=19%  Similarity=0.133  Sum_probs=66.5

Q ss_pred             CCCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHH-----HHhCC---eEE
Q psy2600          27 SCGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA-----QSLHL---HSF   98 (158)
Q Consensus        27 ~vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~---~~~   98 (158)
                      .-.+.+++|+|+++...     .|...+.... .+  .|+++|+||+|+..... .......+.     +..+.   .++
T Consensus        33 ~~ad~il~VvD~~~~~~-----~~~~~l~~~~-~~--~~~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~  103 (190)
T cd01855          33 PKKALVVHVVDIFDFPG-----SLIPRLRLFG-GN--NPVILVGNKIDLLPKDK-NLVRIKNWLRAKAAAGLGLKPKDVI  103 (190)
T ss_pred             cCCcEEEEEEECccCCC-----ccchhHHHhc-CC--CcEEEEEEchhcCCCCC-CHHHHHHHHHHHHHhhcCCCcccEE
Confidence            34578999999987532     1223332111 12  89999999999864322 223333333     22332   589


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHHHhHhhccccccccccccccccccccc
Q psy2600          99 AVSARTGDNCWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAV  146 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (158)
                      .+||+++.|++++++.+.+.+..    .........++..+.++....
T Consensus       104 ~vSA~~~~gi~eL~~~l~~~l~~----~~~~~~~G~~nvGKStliN~l  147 (190)
T cd01855         104 LISAKKGWGVEELINAIKKLAKK----GGDVYVVGATNVGKSTLINAL  147 (190)
T ss_pred             EEECCCCCCHHHHHHHHHHHhhc----CCcEEEEcCCCCCHHHHHHHH
Confidence            99999999999999999887742    223344455565555544443

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=98.82  E-value=1.8e-08  Score=71.87  Aligned_cols=73  Identities=14%  Similarity=0.037  Sum_probs=43.6

Q ss_pred             EEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc--ccHHHHHHHHHHhC--CeEEEEeCCCCC
Q psy2600          31 IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV--VTLERHAKLAQSLH--LHSFAVSARTGD  106 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~--~~~~~~Sa~~~~  106 (158)
                      ++++|+|.+++-+.... .++..+....     +|+++|+||+|+.....  ...++.+......+  ..++++||++|.
T Consensus       103 ~ii~vvd~~~~~~~~~~-~~~~~~~~~~-----~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g~  176 (179)
T TIGR03598       103 GVVLLMDIRHPLKELDL-EMLEWLRERG-----IPVLIVLTKADKLKKSELNKQLKKIKKALKKDADDPSVQLFSSLKKT  176 (179)
T ss_pred             EEEEEecCCCCCCHHHH-HHHHHHHHcC-----CCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCCCceEEEECCCCC
Confidence            47777777664333332 2233333322     89999999999863221  11223333444433  479999999999


Q ss_pred             CHH
Q psy2600         107 NCW  109 (158)
Q Consensus       107 ~i~  109 (158)
                      |++
T Consensus       177 gi~  179 (179)
T TIGR03598       177 GID  179 (179)
T ss_pred             CCC
Confidence            973

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.82  E-value=3.1e-08  Score=78.90  Aligned_cols=78  Identities=21%  Similarity=0.090  Sum_probs=50.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~  110 (158)
                      +|||.|....-+-++ ....+.++...     +|+++|+||+|-..     .+....-.-.+|+ .++.+||..|.|+.+
T Consensus        87 ilfvVD~~~Git~~D-~~ia~~Lr~~~-----kpviLvvNK~D~~~-----~e~~~~efyslG~g~~~~ISA~Hg~Gi~d  155 (444)
T COG1160          87 ILFVVDGREGITPAD-EEIAKILRRSK-----KPVILVVNKIDNLK-----AEELAYEFYSLGFGEPVPISAEHGRGIGD  155 (444)
T ss_pred             EEEEEeCCCCCCHHH-HHHHHHHHhcC-----CCEEEEEEcccCch-----hhhhHHHHHhcCCCCceEeehhhccCHHH
Confidence            889998754211111 12223333222     89999999999542     1222222234564 489999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         111 NTRTPEINPL  120 (158)
Q Consensus       111 lf~~l~~~~~  120 (158)
                      |.+.+++.+.
T Consensus       156 Lld~v~~~l~  165 (444)
T COG1160         156 LLDAVLELLP  165 (444)
T ss_pred             HHHHHHhhcC
Confidence            9999999974

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=98.81  E-value=4.8e-08  Score=72.78  Aligned_cols=49  Identities=24%  Similarity=0.046  Sum_probs=39.0

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      +|+++|+||+|+..     .++...+++.  ..++++||+++.|++++|+.+.+.+
T Consensus       177 ~p~iiV~NK~Dl~~-----~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         177 IPCLYVYNKIDLIS-----IEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             eeEEEEEECccCCC-----HHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence            79999999999853     3344445443  4589999999999999999998865

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.

>COG1159 Era GTPase [General function prediction only]

Probab=98.81  E-value=3.4e-08  Score=74.92  Aligned_cols=83  Identities=24%  Similarity=0.193  Sum_probs=53.9

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC-CeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH-LHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~  109 (158)
                      ++||.|+++.  +.... ..++.++...     .|++++.||+|.......-......+..... ...+.+||+.|.|+.
T Consensus        89 ilfvvd~~~~--~~~~d~~il~~lk~~~-----~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~  161 (298)
T COG1159          89 ILFVVDADEG--WGPGDEFILEQLKKTK-----TPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDNVD  161 (298)
T ss_pred             EEEEEecccc--CCccHHHHHHHHhhcC-----CCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCCHH
Confidence            8899998762  22232 3344444422     8999999999976543311122222222332 468999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      .+.+.+...+.+
T Consensus       162 ~L~~~i~~~Lpe  173 (298)
T COG1159         162 TLLEIIKEYLPE  173 (298)
T ss_pred             HHHHHHHHhCCC
Confidence            999988887754

>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=98.80  E-value=7.5e-08  Score=69.21  Aligned_cols=85  Identities=19%  Similarity=0.110  Sum_probs=55.7

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHH----HHHHHhC------CeE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA----KLAQSLH------LHS   97 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~----~~~~~~~------~~~   97 (158)
                      ..|++|+|.|+.+.-... ....+..+...+     +|+++|.||+|+...+ . .+...    .+.+..+      .++
T Consensus        93 ~~D~ailvVda~~g~~~~-~~~~l~~~~~~~-----~p~ivvlNK~D~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~~v  164 (188)
T PF00009_consen   93 QADIAILVVDANDGIQPQ-TEEHLKILRELG-----IPIIVVLNKMDLIEKE-L-EEIIEEIKEKLLKEYGENGEEIVPV  164 (188)
T ss_dssp             TSSEEEEEEETTTBSTHH-HHHHHHHHHHTT------SEEEEEETCTSSHHH-H-HHHHHHHHHHHHHHTTSTTTSTEEE
T ss_pred             ccccceeeeecccccccc-cccccccccccc-----cceEEeeeeccchhhh-H-HHHHHHHHHHhccccccCccccceE
Confidence            557799999998653322 233444444444     8899999999986211 1 11122    2333332      469


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      +.+||.+|.|+.+|++.+.+.++
T Consensus       165 i~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  165 IPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             EEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             EEEecCCCCCHHHHHHHHHHhCc
Confidence            99999999999999999988764

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 ....

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=98.78  E-value=3.6e-08  Score=65.48  Aligned_cols=80  Identities=25%  Similarity=0.263  Sum_probs=57.5

Q ss_pred             EEEEEECCCCCCeE-----------------------------------EEEEEECCChhHHhhHHHHHHHHhhhcCCCC
Q psy2600          18 LKVVLLGDPSCGKI-----------------------------------VIFMYDITSGQSFHSIPTWVDLFHLNRKSST   62 (158)
Q Consensus        18 ~ki~~~G~~~vgk~-----------------------------------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~   62 (158)
                      +|++++|+.++||+                                   +++||+.++.++++.+  |...+....... 
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~s~~~~~~v~~~~~~~s~~~~--~~~~i~~~~k~d-   77 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIGIDVYDPTSYESFDVVLQCWRVDDRDSADNK--NVPEVLVGNKSD-   77 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhhhhhccccccCCCCEEEEEEEccCHHHHHHH--hHHHHHhcCCCC-
Confidence            47888888888887                                   6677999999998766  887776443333 


Q ss_pred             CcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          63 PTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        63 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                       +|.++++||+|+.....+..        ..+..|+++|++++.|+.
T Consensus        78 -l~~~~~~nk~dl~~~~~~~~--------~~~~~~~~~s~~~~~~~~  115 (124)
T smart00010       78 -LPILVGGNRDVLEEERQVAT--------EEGLEFAETSAKTPEEGE  115 (124)
T ss_pred             -CcEEEEeechhhHhhCcCCH--------HHHHHHHHHhCCCcchhh
Confidence             88999999999853223322        222345677899999874

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=98.78  E-value=5e-08  Score=81.46  Aligned_cols=85  Identities=15%  Similarity=0.090  Sum_probs=58.5

Q ss_pred             CeEEEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCccc--cHHHHHHHHHHh----CCeEE
Q psy2600          29 GKIVIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVV--TLERHAKLAQSL----HLHSF   98 (158)
Q Consensus        29 gk~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~--~~~~~~~~~~~~----~~~~~   98 (158)
                      .|.+++|+|+++   +++++.+.    .+....     +| +++|+||+|+.....+  ..++...+.+..    +.+++
T Consensus        74 aD~aILVVDa~~G~~~qT~ehl~----il~~lg-----i~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii  144 (581)
T TIGR00475        74 IDAALLVVDADEGVMTQTGEHLA----VLDLLG-----IPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIF  144 (581)
T ss_pred             CCEEEEEEECCCCCcHHHHHHHH----HHHHcC-----CCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEE
Confidence            467999999987   45554432    223222     66 9999999998643322  122344444444    46799


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          99 AVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      ++||++|.|+.+++..+...+...
T Consensus       145 ~vSA~tG~GI~eL~~~L~~l~~~~  168 (581)
T TIGR00475       145 KTSAKTGQGIGELKKELKNLLESL  168 (581)
T ss_pred             EEeCCCCCCchhHHHHHHHHHHhC
Confidence            999999999999999988776543

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.

>cd00880 Era_like Era (E

Probab=98.78  E-value=5e-08  Score=66.59  Aligned_cols=83  Identities=22%  Similarity=0.088  Sum_probs=57.2

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHH---HHHHHHHhCCeEEEEeCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLER---HAKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~---~~~~~~~~~~~~~~~Sa~~~~  106 (158)
                      +.+++|+|.++..+..... |........     .|+++|+||+|+..........   ........+.+++++||+++.
T Consensus        77 d~il~v~~~~~~~~~~~~~-~~~~~~~~~-----~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  150 (163)
T cd00880          77 DLILFVVDADLRADEEEEK-LLELLRERG-----KPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGE  150 (163)
T ss_pred             CEEEEEEeCCCCCCHHHHH-HHHHHHhcC-----CeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccC
Confidence            4599999999876655544 444444333     8999999999986533221110   112222335789999999999


Q ss_pred             CHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEIN  118 (158)
Q Consensus       107 ~i~~lf~~l~~~  118 (158)
                      |++++++.+.+.
T Consensus       151 ~v~~l~~~l~~~  162 (163)
T cd00880         151 GIDELREALIEA  162 (163)
T ss_pred             CHHHHHHHHHhh
Confidence            999999998875

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

>KOG1423|consensus

Probab=98.78  E-value=5.7e-08  Score=74.04  Aligned_cols=112  Identities=19%  Similarity=0.196  Sum_probs=75.7

Q ss_pred             cccccccCCCCcceEEEEEEECCCCCCeE---------------------------------------------------
Q psy2600           3 EVKMLNLHNDNYEIQLKVVLLGDPSCGKI---------------------------------------------------   31 (158)
Q Consensus         3 ~~~~~~~~~~~~~~~~ki~~~G~~~vgk~---------------------------------------------------   31 (158)
                      ....+++++++....+.++++|.+|+||+                                                   
T Consensus        58 pa~~esrde~e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r  137 (379)
T KOG1423|consen   58 PAALESRDEEEAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMHR  137 (379)
T ss_pred             cccccCCCchhcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCceEEEEecCCcccccchhh
Confidence            34456677777778899999999999998                                                   


Q ss_pred             ---------------------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc---------
Q psy2600          32 ---------------------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV---------   81 (158)
Q Consensus        32 ---------------------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~---------   81 (158)
                                           +++++|++++...-+ ...+..++.+..    +|-++|.||+|......+         
T Consensus       138 ~~~l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~~ys~----ips~lvmnkid~~k~k~~Ll~l~~~Lt  212 (379)
T KOG1423|consen  138 RHHLMMSVLQNPRDAAQNADCVVVVVDASATRTPLH-PRVLHMLEEYSK----IPSILVMNKIDKLKQKRLLLNLKDLLT  212 (379)
T ss_pred             hHHHHHHhhhCHHHHHhhCCEEEEEEeccCCcCccC-hHHHHHHHHHhc----CCceeeccchhcchhhhHHhhhHHhcc
Confidence                                 889999987433222 233444554443    899999999997432221         


Q ss_pred             ----cHHHHHHHHHHh-------------CC----eEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          82 ----TLERHAKLAQSL-------------HL----HSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        82 ----~~~~~~~~~~~~-------------~~----~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                          .. ...++.++.             |+    .+|.+||++|+||+++.++|...+.
T Consensus       213 ~g~l~~-~kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~  271 (379)
T KOG1423|consen  213 NGELAK-LKLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAP  271 (379)
T ss_pred             ccccch-hhhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCC
Confidence                10 011122211             11    2799999999999999999987664

>KOG0071|consensus

Probab=98.75  E-value=3.6e-08  Score=67.04  Aligned_cols=85  Identities=13%  Similarity=0.053  Sum_probs=62.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-----HhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-----SLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~  105 (158)
                      +|||.|..+.+..+..++-+..+. ......  .++++.+||.|++...  ...+...+.+     ...+.+..++|.+|
T Consensus        88 lIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~--~~~LvlANkQDlp~A~--~pqei~d~leLe~~r~~~W~vqp~~a~~g  163 (180)
T KOG0071|consen   88 LIFVVDSADRDRIEEARNELHRIINDREMRD--AIILILANKQDLPDAM--KPQEIQDKLELERIRDRNWYVQPSCALSG  163 (180)
T ss_pred             EEEEEeccchhhHHHHHHHHHHHhCCHhhhc--ceEEEEecCccccccc--CHHHHHHHhccccccCCccEeeccccccc
Confidence            999999999888888877776666 222233  8999999999997533  3444443322     22355788999999


Q ss_pred             CCHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPL  120 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~  120 (158)
                      .++.+-|.++...+.
T Consensus       164 dgL~eglswlsnn~~  178 (180)
T KOG0071|consen  164 DGLKEGLSWLSNNLK  178 (180)
T ss_pred             hhHHHHHHHHHhhcc
Confidence            999999999987653

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=98.75  E-value=3e-08  Score=82.32  Aligned_cols=82  Identities=15%  Similarity=-0.034  Sum_probs=61.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      ++-|.|+++.+.   -....-++.+..     .|++++.|++|+.+.+.+ .-+.+++.+.+|++++.+||++|.|++++
T Consensus        85 ivnVvDAtnLeR---nLyltlQLlE~g-----~p~ilaLNm~D~A~~~Gi-~ID~~~L~~~LGvPVv~tvA~~g~G~~~l  155 (653)
T COG0370          85 IVNVVDATNLER---NLYLTLQLLELG-----IPMILALNMIDEAKKRGI-RIDIEKLSKLLGVPVVPTVAKRGEGLEEL  155 (653)
T ss_pred             EEEEcccchHHH---HHHHHHHHHHcC-----CCeEEEeccHhhHHhcCC-cccHHHHHHHhCCCEEEEEeecCCCHHHH
Confidence            777888776432   222233344444     899999999998755544 34677888999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      ...+.+.....
T Consensus       156 ~~~i~~~~~~~  166 (653)
T COG0370         156 KRAIIELAESK  166 (653)
T ss_pred             HHHHHHhcccc
Confidence            99998765443

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=98.74  E-value=1.1e-07  Score=79.30  Aligned_cols=74  Identities=18%  Similarity=0.108  Sum_probs=49.2

Q ss_pred             EEEEEECCCh---hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH-------hC--CeEEE
Q psy2600          32 VIFMYDITSG---QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS-------LH--LHSFA   99 (158)
Q Consensus        32 ~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-------~~--~~~~~   99 (158)
                      +++|+|+++.   ++++.    +..+....     +|+++++||+|+...   ..+........       ++  ..+++
T Consensus       162 aILVVda~dgv~~qT~e~----i~~~~~~~-----vPiIVviNKiDl~~~---~~e~v~~~L~~~g~~~~~~~~~~~~v~  229 (587)
T TIGR00487       162 VVLVVAADDGVMPQTIEA----ISHAKAAN-----VPIIVAINKIDKPEA---NPDRVKQELSEYGLVPEDWGGDTIFVP  229 (587)
T ss_pred             EEEEEECCCCCCHhHHHH----HHHHHHcC-----CCEEEEEECcccccC---CHHHHHHHHHHhhhhHHhcCCCceEEE
Confidence            8899998763   33322    22222222     899999999998642   12233333222       22  46899


Q ss_pred             EeCCCCCCHHHHHHHHHH
Q psy2600         100 VSARTGDNCWVNTRTPEI  117 (158)
Q Consensus       100 ~Sa~~~~~i~~lf~~l~~  117 (158)
                      +||++|.|+.++|+.+..
T Consensus       230 iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       230 VSALTGDGIDELLDMILL  247 (587)
T ss_pred             EECCCCCChHHHHHhhhh
Confidence            999999999999999874

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=98.71  E-value=2.3e-07  Score=77.71  Aligned_cols=87  Identities=14%  Similarity=0.058  Sum_probs=62.3

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCe---EEEEeCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLH---SFAVSART  104 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~Sa~~  104 (158)
                      .++++|+|+|+++....+....|..... ..     +|+++|+||+|+....  .......+.+.+++.   ++.+||++
T Consensus        97 ~aD~aILVVDas~gv~~qt~~~~~~~~~-~~-----lpiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~~vi~iSAkt  168 (600)
T PRK05433         97 ACEGALLVVDASQGVEAQTLANVYLALE-ND-----LEIIPVLNKIDLPAAD--PERVKQEIEDVIGIDASDAVLVSAKT  168 (600)
T ss_pred             HCCEEEEEEECCCCCCHHHHHHHHHHHH-CC-----CCEEEEEECCCCCccc--HHHHHHHHHHHhCCCcceEEEEecCC
Confidence            4567999999998655555555654332 22     8999999999986422  122233444545553   89999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy2600         105 GDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~~~  122 (158)
                      |.|+.++++.+.+.+...
T Consensus       169 G~GI~~Ll~~I~~~lp~P  186 (600)
T PRK05433        169 GIGIEEVLEAIVERIPPP  186 (600)
T ss_pred             CCCHHHHHHHHHHhCccc
Confidence            999999999999888654

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.67  E-value=1.9e-07  Score=65.20  Aligned_cols=82  Identities=20%  Similarity=0.191  Sum_probs=53.9

Q ss_pred             eEEEEEEECCChhHHhhHHHHHH--HHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVD--LFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~--~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      |.+++|+|+.++.+...  .|+.  .+....     +|+++|.||+|+.....+ ......+.+..+..++.+||+++.|
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~~~~~~~~-----~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~g   72 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIERVLIKEKG-----KKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQG   72 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHHHHHhcCC-----CCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcC
Confidence            45789999988765543  2443  222222     899999999998532211 1111223233355689999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINP  119 (158)
Q Consensus       108 i~~lf~~l~~~~  119 (158)
                      ++++++.+.+..
T Consensus        73 i~~L~~~i~~~~   84 (155)
T cd01849          73 IEKKESAFTKQT   84 (155)
T ss_pred             hhhHHHHHHHHh
Confidence            999999987654

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.

>COG2262 HflX GTPases [General function prediction only]

Probab=98.66  E-value=2.6e-07  Score=72.81  Aligned_cols=84  Identities=13%  Similarity=0.033  Sum_probs=60.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      ++.|.|.+++...+.+..-.+-+.+.....  +|+|+|.||+|+.....     .........-..+.+||+++.|++.|
T Consensus       275 llhVVDaSdp~~~~~~~~v~~vL~el~~~~--~p~i~v~NKiD~~~~~~-----~~~~~~~~~~~~v~iSA~~~~gl~~L  347 (411)
T COG2262         275 LLHVVDASDPEILEKLEAVEDVLAEIGADE--IPIILVLNKIDLLEDEE-----ILAELERGSPNPVFISAKTGEGLDLL  347 (411)
T ss_pred             EEEEeecCChhHHHHHHHHHHHHHHcCCCC--CCEEEEEecccccCchh-----hhhhhhhcCCCeEEEEeccCcCHHHH
Confidence            999999999977777665555555544443  99999999999754322     11122221115899999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      +..|...+...
T Consensus       348 ~~~i~~~l~~~  358 (411)
T COG2262         348 RERIIELLSGL  358 (411)
T ss_pred             HHHHHHHhhhc
Confidence            99999988754

>CHL00189 infB translation initiation factor 2; Provisional

Probab=98.65  E-value=2.8e-07  Score=78.50  Aligned_cols=79  Identities=18%  Similarity=0.149  Sum_probs=51.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH-H------HHHhC--CeEEEEeC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK-L------AQSLH--LHSFAVSA  102 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-~------~~~~~--~~~~~~Sa  102 (158)
                      +|+|+|+++....+....| ..+....     +|+++++||+|+....   ...... +      .+.++  ++++++||
T Consensus       322 aILVVDA~dGv~~QT~E~I-~~~k~~~-----iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~~vpvv~VSA  392 (742)
T CHL00189        322 AILIIAADDGVKPQTIEAI-NYIQAAN-----VPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGGDTPMIPISA  392 (742)
T ss_pred             EEEEEECcCCCChhhHHHH-HHHHhcC-----ceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCCCceEEEEEC
Confidence            8899998773222222222 2222222     9999999999986421   112211 1      22333  67999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy2600         103 RTGDNCWVNTRTPEINP  119 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~  119 (158)
                      ++|.|+.++|+.+....
T Consensus       393 ktG~GIdeLle~I~~l~  409 (742)
T CHL00189        393 SQGTNIDKLLETILLLA  409 (742)
T ss_pred             CCCCCHHHHHHhhhhhh
Confidence            99999999999998764

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=98.63  E-value=2.4e-07  Score=79.48  Aligned_cols=77  Identities=17%  Similarity=0.136  Sum_probs=51.2

Q ss_pred             eEEEEEEECCCh---hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHH-------HHHHHhC--CeE
Q psy2600          30 KIVIFMYDITSG---QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA-------KLAQSLH--LHS   97 (158)
Q Consensus        30 k~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~-------~~~~~~~--~~~   97 (158)
                      |.+|||+|+++.   ++++.   | ..+....     +|+|+++||+|+....   .....       .+++.++  +++
T Consensus       362 DiaILVVdAddGv~~qT~e~---i-~~a~~~~-----vPiIVviNKiDl~~a~---~e~V~~eL~~~~~~~e~~g~~vp~  429 (787)
T PRK05306        362 DIVVLVVAADDGVMPQTIEA---I-NHAKAAG-----VPIIVAINKIDKPGAN---PDRVKQELSEYGLVPEEWGGDTIF  429 (787)
T ss_pred             CEEEEEEECCCCCCHhHHHH---H-HHHHhcC-----CcEEEEEECccccccC---HHHHHHHHHHhcccHHHhCCCceE
Confidence            348999999873   33332   2 2222222     8999999999996421   11111       1233344  679


Q ss_pred             EEEeCCCCCCHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      +++||++|.||.++|+.+...
T Consensus       430 vpvSAktG~GI~eLle~I~~~  450 (787)
T PRK05306        430 VPVSAKTGEGIDELLEAILLQ  450 (787)
T ss_pred             EEEeCCCCCCchHHHHhhhhh
Confidence            999999999999999998754

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.61  E-value=3.7e-07  Score=65.79  Aligned_cols=83  Identities=12%  Similarity=-0.038  Sum_probs=51.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh----CCe--EEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL----HLH--SFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~--~~~~Sa~~~  105 (158)
                      ++++.|+...-.-.+ ...++.+.+..     +|+++|+||+|.....+. .......++..    ...  ++..|+..+
T Consensus       110 vvlliD~r~~~~~~D-~em~~~l~~~~-----i~~~vv~tK~DKi~~~~~-~k~l~~v~~~l~~~~~~~~~~~~~ss~~k  182 (200)
T COG0218         110 VVLLIDARHPPKDLD-REMIEFLLELG-----IPVIVVLTKADKLKKSER-NKQLNKVAEELKKPPPDDQWVVLFSSLKK  182 (200)
T ss_pred             EEEEEECCCCCcHHH-HHHHHHHHHcC-----CCeEEEEEccccCChhHH-HHHHHHHHHHhcCCCCccceEEEEecccc
Confidence            888888754322211 23344444444     999999999997643221 11122333332    222  788899999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~  121 (158)
                      .|++++...|.+.+..
T Consensus       183 ~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         183 KGIDELKAKILEWLKE  198 (200)
T ss_pred             cCHHHHHHHHHHHhhc
Confidence            9999999998877653

>COG2229 Predicted GTPase [General function prediction only]

Probab=98.59  E-value=1.2e-06  Score=62.12  Aligned_cols=80  Identities=14%  Similarity=0.151  Sum_probs=61.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh--CCeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL--HLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~i~  109 (158)
                      +|++.|.+.+..| .....++.+....+    +|+++.+||.||...+  ..++...+.+..  ..+.++++|.++.+..
T Consensus        95 aivlVDss~~~~~-~a~~ii~f~~~~~~----ip~vVa~NK~DL~~a~--ppe~i~e~l~~~~~~~~vi~~~a~e~~~~~  167 (187)
T COG2229          95 AIVLVDSSRPITF-HAEEIIDFLTSRNP----IPVVVAINKQDLFDAL--PPEKIREALKLELLSVPVIEIDATEGEGAR  167 (187)
T ss_pred             EEEEEecCCCcch-HHHHHHHHHhhccC----CCEEEEeeccccCCCC--CHHHHHHHHHhccCCCceeeeecccchhHH
Confidence            8999999998888 55566666664433    8999999999997644  455655555543  7889999999999988


Q ss_pred             HHHHHHHHH
Q psy2600         110 VNTRTPEIN  118 (158)
Q Consensus       110 ~lf~~l~~~  118 (158)
                      +.++.+...
T Consensus       168 ~~L~~ll~~  176 (187)
T COG2229         168 DQLDVLLLK  176 (187)
T ss_pred             HHHHHHHhh
Confidence            888777654

>KOG0072|consensus

Probab=98.58  E-value=5.8e-07  Score=61.48  Aligned_cols=86  Identities=13%  Similarity=-0.019  Sum_probs=56.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH-----HHHHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAK-----LAQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~  105 (158)
                      +|+|.|.+|.+...-....+..+. +..-.  +..+++++||.|.+....  ..++..     -.++.-+.+|++||..|
T Consensus        89 vIyVVDssd~dris~a~~el~~mL~E~eLq--~a~llv~anKqD~~~~~t--~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg  164 (182)
T KOG0072|consen   89 VIYVVDSSDRDRISIAGVELYSMLQEEELQ--HAKLLVFANKQDYSGALT--RSEVLKMLGLQKLKDRIWQIVKTSAVKG  164 (182)
T ss_pred             EEEEEeccchhhhhhhHHHHHHHhccHhhc--CceEEEEeccccchhhhh--HHHHHHHhChHHHhhheeEEEeeccccc
Confidence            999999999876655543332222 21111  167899999999864322  112211     11222367899999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~  121 (158)
                      .|+++.++++.+-+.+
T Consensus       165 ~Gld~~~DWL~~~l~~  180 (182)
T KOG0072|consen  165 EGLDPAMDWLQRPLKS  180 (182)
T ss_pred             cCCcHHHHHHHHHHhc
Confidence            9999999999988764

>cd04165 GTPBP1_like GTPBP1-like

Probab=98.55  E-value=9.3e-07  Score=65.52  Aligned_cols=83  Identities=17%  Similarity=0.123  Sum_probs=52.4

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh--------------
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL--------------   93 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~--------------   93 (158)
                      ..+.+++|+|++.... .....++..+....     +|+++|.||+|+.+.... ......+.+.+              
T Consensus       109 ~~D~~llVvda~~g~~-~~d~~~l~~l~~~~-----ip~ivvvNK~D~~~~~~~-~~~~~~l~~~L~~~g~~~~p~~~~~  181 (224)
T cd04165         109 APDYAMLVVAANAGII-GMTKEHLGLALALN-----IPVFVVVTKIDLAPANIL-QETLKDLKRILKVPGVRKLPVPVKS  181 (224)
T ss_pred             CCCEEEEEEECCCCCc-HHHHHHHHHHHHcC-----CCEEEEEECccccCHHHH-HHHHHHHHHHhcCCCccccceeeec
Confidence            3577999999875422 22334455555444     889999999998542221 11222222211              


Q ss_pred             ---------------CCeEEEEeCCCCCCHHHHHHHHHH
Q psy2600          94 ---------------HLHSFAVSARTGDNCWVNTRTPEI  117 (158)
Q Consensus        94 ---------------~~~~~~~Sa~~~~~i~~lf~~l~~  117 (158)
                                     ..++|.+||.+|.|++++...|..
T Consensus       182 ~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         182 DDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             ccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence                           137899999999999988877643

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

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.54  E-value=4.7e-07  Score=71.57  Aligned_cols=104  Identities=16%  Similarity=0.151  Sum_probs=67.3

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH----HHHHhCC---eEEEEeC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK----LAQSLHL---HSFAVSA  102 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~----~~~~~~~---~~~~~Sa  102 (158)
                      +.+++|+|+.+..     ..|..++.+....   .|+++|+||+|+... ....+....    +++.+++   .++.+||
T Consensus        65 ~~Il~VvD~~d~~-----~s~~~~l~~~~~~---~piilV~NK~DLl~k-~~~~~~~~~~l~~~~k~~g~~~~~i~~vSA  135 (360)
T TIGR03597        65 ALIVYVVDIFDFE-----GSLIPELKRFVGG---NPVLLVGNKIDLLPK-SVNLSKIKEWMKKRAKELGLKPVDIILVSA  135 (360)
T ss_pred             cEEEEEEECcCCC-----CCccHHHHHHhCC---CCEEEEEEchhhCCC-CCCHHHHHHHHHHHHHHcCCCcCcEEEecC
Confidence            5689999987643     2355666544322   899999999998642 222334333    3555665   4899999


Q ss_pred             CCCCCHHHHHHHHHHHHHHhHhhcccccccccccccccccccccc
Q psy2600         103 RTGDNCWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAVK  147 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (158)
                      +++.|++++|..+.+...     .........++..+.++..++.
T Consensus       136 k~g~gv~eL~~~l~~~~~-----~~~v~~vG~~nvGKStliN~l~  175 (360)
T TIGR03597       136 KKGNGIDELLDKIKKARN-----KKDVYVVGVTNVGKSSLINKLL  175 (360)
T ss_pred             CCCCCHHHHHHHHHHHhC-----CCeEEEECCCCCCHHHHHHHHH
Confidence            999999999999865421     1233444555555555554443

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.

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

Probab=98.53  E-value=6.4e-07  Score=72.30  Aligned_cols=81  Identities=14%  Similarity=0.080  Sum_probs=50.7

Q ss_pred             CCeEEEEEEECCChhHHhhH--HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc----ccHHHHHHHHHHhC-----Ce
Q psy2600          28 CGKIVIFMYDITSGQSFHSI--PTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV----VTLERHAKLAQSLH-----LH   96 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~~~~~~~~~~~-----~~   96 (158)
                      .+|.+++|+|+++.+++...  ..++.......  .  .++++|+||+|+.....    ....+...+++..+     ++
T Consensus       108 ~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~--~--~~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~~~g~~~~~~~  183 (426)
T TIGR00483       108 QADAAVLVVAVGDGEFEVQPQTREHAFLARTLG--I--NQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTVP  183 (426)
T ss_pred             hCCEEEEEEECCCCCcccCCchHHHHHHHHHcC--C--CeEEEEEEChhccCccHHHHHHHHHHHHHHHHHcCCCcccce
Confidence            46789999999987543221  11122222222  1  67999999999863111    11234455566555     56


Q ss_pred             EEEEeCCCCCCHHHHH
Q psy2600          97 SFAVSARTGDNCWVNT  112 (158)
Q Consensus        97 ~~~~Sa~~~~~i~~lf  112 (158)
                      ++++||++|.||.+++
T Consensus       184 ~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       184 FIPISAWNGDNVIKKS  199 (426)
T ss_pred             EEEeeccccccccccc
Confidence            8999999999998744

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=98.49  E-value=8e-07  Score=74.40  Aligned_cols=89  Identities=16%  Similarity=-0.020  Sum_probs=61.0

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc-cHHHHHHHHH-------HhCCeEEE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV-TLERHAKLAQ-------SLHLHSFA   99 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~-~~~~~~~~~~-------~~~~~~~~   99 (158)
                      ..|++++|+|+++. .+.+...|+..+....     +|+++|+||+|+...+.. ...+...+..       ...++++.
T Consensus        87 ~aD~alLVVDa~~G-~~~qT~~~l~~a~~~~-----ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~pvl~  160 (594)
T TIGR01394        87 MVDGVLLLVDASEG-PMPQTRFVLKKALELG-----LKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFPIVY  160 (594)
T ss_pred             hCCEEEEEEeCCCC-CcHHHHHHHHHHHHCC-----CCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCcEEe
Confidence            44679999999763 3445566777776554     889999999998643210 0122222222       23467899


Q ss_pred             EeCCCCC----------CHHHHHHHHHHHHHHh
Q psy2600         100 VSARTGD----------NCWVNTRTPEINPLKY  122 (158)
Q Consensus       100 ~Sa~~~~----------~i~~lf~~l~~~~~~~  122 (158)
                      +||++|.          |+..+|+.+++.++..
T Consensus       161 ~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~P  193 (594)
T TIGR01394       161 ASGRAGWASLDLDDPSDNMAPLFDAIVRHVPAP  193 (594)
T ss_pred             chhhcCcccccCcccccCHHHHHHHHHHhCCCC
Confidence            9999995          7999999999887654

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.

>cd01858 NGP_1 NGP-1

Probab=98.46  E-value=1e-06  Score=61.57  Aligned_cols=115  Identities=10%  Similarity=0.031  Sum_probs=64.2

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      -.|.+++|.|+.++.... ...+...+.... ..  +|+++|.||+|+.....+ ......+.+.+....+.+||+.+.|
T Consensus         8 ~aD~il~VvD~~~p~~~~-~~~i~~~l~~~~-~~--~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~~~~~   82 (157)
T cd01858           8 SSDVVIQVLDARDPMGTR-CKHVEEYLKKEK-PH--KHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASINNPFG   82 (157)
T ss_pred             hCCEEEEEEECCCCcccc-CHHHHHHHHhcc-CC--CCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeecccccc
Confidence            357799999998763221 122222232221 12  889999999998532211 1122222222223357799999999


Q ss_pred             HHHHHHHHHHHHHHhHh-hcccccccccccccccccccccc
Q psy2600         108 CWVNTRTPEINPLKYLQ-SNNEYNFLSMVGFEAGTFYMAVK  147 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  147 (158)
                      ++++++.+......... .....-....++..+.++...+.
T Consensus        83 ~~~L~~~l~~~~~~~~~~~~~~v~~~G~~nvGKStliN~l~  123 (157)
T cd01858          83 KGSLIQLLRQFSKLHSDKKQISVGFIGYPNVGKSSIINTLR  123 (157)
T ss_pred             HHHHHHHHHHHHhhhccccceEEEEEeCCCCChHHHHHHHh
Confidence            99999998765432111 11111244566666666655553

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=98.46  E-value=1.4e-06  Score=69.98  Aligned_cols=89  Identities=11%  Similarity=-0.009  Sum_probs=56.4

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc--cHHHHHHHHHHh---CCeEEEEeCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV--TLERHAKLAQSL---HLHSFAVSAR  103 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~---~~~~~~~Sa~  103 (158)
                      .|.+++|+|+++.....+....+..+.....    .++++|+||+|+......  ..++...+.+..   +.+++++||+
T Consensus       104 aD~aIlVVDa~~g~~~~qt~e~l~~l~~~gi----~~iIVvvNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA~  179 (406)
T TIGR03680       104 MDGALLVIAANEPCPQPQTKEHLMALEIIGI----KNIVIVQNKIDLVSKEKALENYEEIKEFVKGTVAENAPIIPVSAL  179 (406)
T ss_pred             CCEEEEEEECCCCccccchHHHHHHHHHcCC----CeEEEEEEccccCCHHHHHHHHHHHHhhhhhcccCCCeEEEEECC
Confidence            4789999999864311222222333332221    578999999998643221  112233333332   5679999999


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q psy2600         104 TGDNCWVNTRTPEINPLK  121 (158)
Q Consensus       104 ~~~~i~~lf~~l~~~~~~  121 (158)
                      +|.|++++++.|...+..
T Consensus       180 ~g~gi~~L~e~L~~~l~~  197 (406)
T TIGR03680       180 HNANIDALLEAIEKFIPT  197 (406)
T ss_pred             CCCChHHHHHHHHHhCCC
Confidence            999999999999987653

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

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=98.45  E-value=1.6e-06  Score=70.01  Aligned_cols=81  Identities=17%  Similarity=0.083  Sum_probs=49.5

Q ss_pred             CCeEEEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc----ccHHHHHHHHHHhC-----CeE
Q psy2600          28 CGKIVIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV----VTLERHAKLAQSLH-----LHS   97 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~~~~~~~~~~~-----~~~   97 (158)
                      .+|.+++|+|+++..++... ..++..+.....    .++++++||+|+.....    ...++...+.+..+     .++
T Consensus       107 ~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~~----~~iivviNK~Dl~~~~~~~~~~~~~~i~~~l~~~g~~~~~~~i  182 (425)
T PRK12317        107 QADAAVLVVAADDAGGVMPQTREHVFLARTLGI----NQLIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVGYKPDDIPF  182 (425)
T ss_pred             cCCEEEEEEEcccCCCCCcchHHHHHHHHHcCC----CeEEEEEEccccccccHHHHHHHHHHHHHHHHhhCCCcCcceE
Confidence            35789999999873222222 222333333221    47999999999864111    11223444555454     468


Q ss_pred             EEEeCCCCCCHHHHH
Q psy2600          98 FAVSARTGDNCWVNT  112 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf  112 (158)
                      +.+||++|.|+.+++
T Consensus       183 i~iSA~~g~gi~~~~  197 (425)
T PRK12317        183 IPVSAFEGDNVVKKS  197 (425)
T ss_pred             EEeecccCCCccccc
Confidence            999999999998754

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

Probab=98.44  E-value=1.3e-06  Score=70.25  Aligned_cols=85  Identities=14%  Similarity=0.036  Sum_probs=55.2

Q ss_pred             CeEEEEEEECCCh----hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc--cHHHHHHHHHHh---CCeEEE
Q psy2600          29 GKIVIFMYDITSG----QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV--TLERHAKLAQSL---HLHSFA   99 (158)
Q Consensus        29 gk~~i~v~d~~~~----~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~---~~~~~~   99 (158)
                      .|.+++|+|+++.    ++++.+    ..+.....    .|+++|+||+|+......  ..++...+.+..   +.++++
T Consensus       109 ~D~~llVVDa~~~~~~~~t~~~l----~~l~~~~i----~~iiVVlNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~  180 (411)
T PRK04000        109 MDGAILVIAANEPCPQPQTKEHL----MALDIIGI----KNIVIVQNKIDLVSKERALENYEQIKEFVKGTVAENAPIIP  180 (411)
T ss_pred             CCEEEEEEECCCCCCChhHHHHH----HHHHHcCC----CcEEEEEEeeccccchhHHHHHHHHHHHhccccCCCCeEEE
Confidence            4789999999854    233322    22222221    468999999998643221  112233333322   467999


Q ss_pred             EeCCCCCCHHHHHHHHHHHHHH
Q psy2600         100 VSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus       100 ~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +||+++.|++++++.|.+.+..
T Consensus       181 vSA~~g~gI~~L~~~L~~~l~~  202 (411)
T PRK04000        181 VSALHKVNIDALIEAIEEEIPT  202 (411)
T ss_pred             EECCCCcCHHHHHHHHHHhCCC
Confidence            9999999999999999887654

>KOG3905|consensus

Probab=98.40  E-value=5.9e-06  Score=63.80  Aligned_cols=60  Identities=15%  Similarity=0.025  Sum_probs=46.2

Q ss_pred             CcEEEEEEeCCCC----CCCccccHH-------HHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          63 PTYVALVANKGDM----EHQRVVTLE-------RHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        63 ~~piilv~nK~Dl----~~~~~~~~~-------~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      -+|+++|.+|||.    ....+..++       ..+.|+-.+|...+.+|++...||+-+..+|+..+...
T Consensus       222 Gi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr~yG~  292 (473)
T KOG3905|consen  222 GIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHRSYGF  292 (473)
T ss_pred             CCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHHhcCc
Confidence            4899999999997    322232222       24556677888999999999999999999999887654

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.40  E-value=2.3e-06  Score=71.94  Aligned_cols=84  Identities=10%  Similarity=0.068  Sum_probs=54.2

Q ss_pred             CCeEEEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCcccc--HHHHHHHHHHhC---CeEE
Q psy2600          28 CGKIVIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVT--LERHAKLAQSLH---LHSF   98 (158)
Q Consensus        28 vgk~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~~--~~~~~~~~~~~~---~~~~   98 (158)
                      ..|.+++|+|+++   +++.+.+    ..+....     +| +++|+||+|+.+.....  .++...+....+   .+++
T Consensus        74 ~~D~~lLVVda~eg~~~qT~ehl----~il~~lg-----i~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii  144 (614)
T PRK10512         74 GIDHALLVVACDDGVMAQTREHL----AILQLTG-----NPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLF  144 (614)
T ss_pred             cCCEEEEEEECCCCCcHHHHHHH----HHHHHcC-----CCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEE
Confidence            3466999999876   3343332    2233222     44 68999999986422211  123333444333   5799


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHH
Q psy2600          99 AVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      .+||++|.|++++++.|.....
T Consensus       145 ~VSA~tG~gI~~L~~~L~~~~~  166 (614)
T PRK10512        145 VTAATEGRGIDALREHLLQLPE  166 (614)
T ss_pred             EEeCCCCCCCHHHHHHHHHhhc
Confidence            9999999999999999987543

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=98.40  E-value=4.1e-06  Score=56.08  Aligned_cols=98  Identities=15%  Similarity=0.191  Sum_probs=67.4

Q ss_pred             EEEEECCCCCCeE-----------------EEEE---EECCChhHHhhHHHHHHHHhhhcCC----------C-------
Q psy2600          19 KVVLLGDPSCGKI-----------------VIFM---YDITSGQSFHSIPTWVDLFHLNRKS----------S-------   61 (158)
Q Consensus        19 ki~~~G~~~vgk~-----------------~i~v---~d~~~~~s~~~~~~~~~~~~~~~~~----------~-------   61 (158)
                      |+.++|..++||+                 ++=.   ++++.+..|-+-+.|+..+.-...+          +       
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~lykKTQAve~~d~~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~and~~s~f~   82 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDTLYKKTQAVEFNDKGDIDTPGEYFEHPRWYHALITTLQDADVIIYVHAANDPESRFP   82 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchhhhcccceeeccCccccCCchhhhhhhHHHHHHHHHhhccceeeeeecccCccccCC
Confidence            7899999999998                 2211   2444555555556776655421110          0       


Q ss_pred             ------CCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC-CeEEEEeCCCCCCHHHHHHHHHHH
Q psy2600          62 ------TPTYVALVANKGDMEHQRVVTLERHAKLAQSLH-LHSFAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        62 ------~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                            ...|.|-|.+|+||.+...+  +..+.|....| .++|++|+.++.||+++++.|...
T Consensus        83 p~f~~~~~k~vIgvVTK~DLaed~dI--~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~~  144 (148)
T COG4917          83 PGFLDIGVKKVIGVVTKADLAEDADI--SLVKRWLREAGAEPIFETSAVDNQGVEELVDYLASL  144 (148)
T ss_pred             cccccccccceEEEEecccccchHhH--HHHHHHHHHcCCcceEEEeccCcccHHHHHHHHHhh
Confidence                  02458999999999864433  45666777777 459999999999999999988754

>KOG0074|consensus

Probab=98.33  E-value=1.2e-06  Score=59.86  Aligned_cols=84  Identities=20%  Similarity=0.126  Sum_probs=56.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH----HHHHhCCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAK----LAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~----~~~~~~~~~~~~Sa~~~~  106 (158)
                      +|||+|.+|...|+++..-+.++. ..+...  +|+.+.+||.|+.....+. +.+..    ..+..-+++.++||..++
T Consensus        89 lIyVIDS~D~krfeE~~~el~ELleeeKl~~--vpvlIfankQdlltaa~~e-eia~klnl~~lrdRswhIq~csals~e  165 (185)
T KOG0074|consen   89 LIYVIDSTDEKRFEEISEELVELLEEEKLAE--VPVLIFANKQDLLTAAKVE-EIALKLNLAGLRDRSWHIQECSALSLE  165 (185)
T ss_pred             EEEEEeCCchHhHHHHHHHHHHHhhhhhhhc--cceeehhhhhHHHhhcchH-HHHHhcchhhhhhceEEeeeCcccccc
Confidence            999999999999998865555544 333333  9999999999986433221 11211    112223567899999999


Q ss_pred             CHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEIN  118 (158)
Q Consensus       107 ~i~~lf~~l~~~  118 (158)
                      |+.+-.+++.+.
T Consensus       166 g~~dg~~wv~sn  177 (185)
T KOG0074|consen  166 GSTDGSDWVQSN  177 (185)
T ss_pred             CccCcchhhhcC
Confidence            988877776543

>COG1084 Predicted GTPase [General function prediction only]

Probab=98.31  E-value=4.3e-06  Score=64.44  Aligned_cols=84  Identities=14%  Similarity=0.119  Sum_probs=57.4

Q ss_pred             EEEEEECCChh--HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh-CCeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQ--SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL-HLHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i  108 (158)
                      ++|+||++...  +.+.....+++++..-.    .|+++|.||+|+.....+.  +.......- +.....+++..+.++
T Consensus       251 IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~----~p~v~V~nK~D~~~~e~~~--~~~~~~~~~~~~~~~~~~~~~~~~~  324 (346)
T COG1084         251 ILFLFDPSETCGYSLEEQISLLEEIKELFK----APIVVVINKIDIADEEKLE--EIEASVLEEGGEEPLKISATKGCGL  324 (346)
T ss_pred             EEEEEcCccccCCCHHHHHHHHHHHHHhcC----CCeEEEEecccccchhHHH--HHHHHHHhhccccccceeeeehhhH
Confidence            99999998765  45555677888874432    7999999999986433332  333333333 344778888888888


Q ss_pred             HHHHHHHHHHHHH
Q psy2600         109 WVNTRTPEINPLK  121 (158)
Q Consensus       109 ~~lf~~l~~~~~~  121 (158)
                      +.+-..+.....+
T Consensus       325 d~~~~~v~~~a~~  337 (346)
T COG1084         325 DKLREEVRKTALE  337 (346)
T ss_pred             HHHHHHHHHHhhc
Confidence            8777777666444

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.30  E-value=2.3e-06  Score=58.74  Aligned_cols=72  Identities=17%  Similarity=0.152  Sum_probs=47.1

Q ss_pred             CCeEEEEEEECCChhHHhh--HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHS--IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTG  105 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  105 (158)
                      -.|.+++|+|+.++.+..+  +..|+...   . .+  +|+++|+||+|+.....  ........+..+..++.+||.++
T Consensus        11 ~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~-~~--k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa~~~   82 (141)
T cd01857          11 RSDIVVQIVDARNPLLFRPPDLERYVKEV---D-PR--KKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSALKE   82 (141)
T ss_pred             hCCEEEEEEEccCCcccCCHHHHHHHHhc---c-CC--CcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEecCC
Confidence            3577999999988765442  33444432   1 12  89999999999854222  12333445556778999999987


Q ss_pred             CC
Q psy2600         106 DN  107 (158)
Q Consensus       106 ~~  107 (158)
                      .+
T Consensus        83 ~~   84 (141)
T cd01857          83 NA   84 (141)
T ss_pred             Cc
Confidence            64

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.

>TIGR00101 ureG urease accessory protein UreG

Probab=98.29  E-value=6.6e-06  Score=59.90  Aligned_cols=93  Identities=17%  Similarity=0.083  Sum_probs=58.6

Q ss_pred             EEEEEECCCC----------CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHH
Q psy2600          18 LKVVLLGDPS----------CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA   87 (158)
Q Consensus        18 ~ki~~~G~~~----------vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~   87 (158)
                      +..++++..|          ..+.+|.|+|+++..+...  .+...+.        .--++++||+|+........+...
T Consensus        92 ~D~iiIEt~G~~l~~~~~~~l~~~~i~vvD~~~~~~~~~--~~~~qi~--------~ad~~~~~k~d~~~~~~~~~~~~~  161 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFSPELADLTIFVIDVAAGDKIPR--KGGPGIT--------RSDLLVINKIDLAPMVGADLGVME  161 (199)
T ss_pred             CCEEEEECCCCCcccccchhhhCcEEEEEEcchhhhhhh--hhHhHhh--------hccEEEEEhhhccccccccHHHHH
Confidence            4556666655          2355899999886544221  1112211        222899999998632111223334


Q ss_pred             HHHHH--hCCeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          88 KLAQS--LHLHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        88 ~~~~~--~~~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      ...+.  .+.+++++||++|.|++++|+++.+.+.
T Consensus       162 ~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       162 RDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             HHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            44444  3578999999999999999999987653

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.

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

Probab=98.29  E-value=8.7e-06  Score=65.61  Aligned_cols=87  Identities=14%  Similarity=0.030  Sum_probs=62.4

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCe---EEEEeCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLH---SFAVSARTGD  106 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~Sa~~~~  106 (158)
                      .++++|.|++..---+.+.+.+..+.++      .-++.|.||+||+....  +....+...-.|++   .+.+||++|.
T Consensus       101 EGalLvVDAsQGveAQTlAN~YlAle~~------LeIiPViNKIDLP~Adp--ervk~eIe~~iGid~~dav~~SAKtG~  172 (603)
T COG0481         101 EGALLVVDASQGVEAQTLANVYLALENN------LEIIPVLNKIDLPAADP--ERVKQEIEDIIGIDASDAVLVSAKTGI  172 (603)
T ss_pred             CCcEEEEECccchHHHHHHHHHHHHHcC------cEEEEeeecccCCCCCH--HHHHHHHHHHhCCCcchheeEecccCC
Confidence            4499999998754444455555555432      78999999999986431  22333444446754   6899999999


Q ss_pred             CHHHHHHHHHHHHHHhHh
Q psy2600         107 NCWVNTRTPEINPLKYLQ  124 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~~~~  124 (158)
                      ||+++++.+++.++-...
T Consensus       173 gI~~iLe~Iv~~iP~P~g  190 (603)
T COG0481         173 GIEDVLEAIVEKIPPPKG  190 (603)
T ss_pred             CHHHHHHHHHhhCCCCCC
Confidence            999999999999877653

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.29  E-value=1.1e-05  Score=58.53  Aligned_cols=74  Identities=15%  Similarity=-0.027  Sum_probs=46.6

Q ss_pred             HhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc-----------ccHHHHHH-HHHHh---C---CeEEEEeCC-
Q psy2600          44 FHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV-----------VTLERHAK-LAQSL---H---LHSFAVSAR-  103 (158)
Q Consensus        44 ~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-----------~~~~~~~~-~~~~~---~---~~~~~~Sa~-  103 (158)
                      |... ..|+..+....     .|+++|+||+|+.....           ...++.++ +....   +   .++|.+|+. 
T Consensus        92 ~~~~d~~~~~~l~~~~-----~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~vS~~~  166 (197)
T cd04104          92 FSSNDVKLAKAIQCMG-----KKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGVSEPPVFLVSNFD  166 (197)
T ss_pred             CCHHHHHHHHHHHHhC-----CCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeCCC
Confidence            4444 35666666553     88999999999842100           00111111 11111   2   358999998 


Q ss_pred             -CCCCHHHHHHHHHHHHHHh
Q psy2600         104 -TGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       104 -~~~~i~~lf~~l~~~~~~~  122 (158)
                       .+.++..+.+.+...+.+.
T Consensus       167 ~~~~~~~~l~~~~~~~l~~~  186 (197)
T cd04104         167 PSDYDFPKLRETLLKDLPAH  186 (197)
T ss_pred             hhhcChHHHHHHHHHHhhHH
Confidence             5789999999999988764

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

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.27  E-value=7.3e-06  Score=62.55  Aligned_cols=85  Identities=16%  Similarity=0.135  Sum_probs=55.5

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      ..|.+++|.|+.++.+...  .++.++..    +  .|+++|.||+|+......  .......+..+..++.+||+++.|
T Consensus        21 ~aDvVl~V~Dar~p~~~~~--~~i~~~l~----~--kp~IiVlNK~DL~~~~~~--~~~~~~~~~~~~~vi~iSa~~~~g   90 (276)
T TIGR03596        21 LVDVVIEVLDARIPLSSRN--PMIDEIRG----N--KPRLIVLNKADLADPAVT--KQWLKYFEEKGIKALAINAKKGKG   90 (276)
T ss_pred             hCCEEEEEEeCCCCCCCCC--hhHHHHHC----C--CCEEEEEEccccCCHHHH--HHHHHHHHHcCCeEEEEECCCccc
Confidence            3477999999976644332  12222221    1  789999999998532111  111122233456789999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy2600         108 CWVNTRTPEINPLKY  122 (158)
Q Consensus       108 i~~lf~~l~~~~~~~  122 (158)
                      ++++.+.+.+.+.+.
T Consensus        91 i~~L~~~i~~~~~~~  105 (276)
T TIGR03596        91 VKKIIKAAKKLLKEK  105 (276)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999998877654

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.

>PRK13796 GTPase YqeH; Provisional

Probab=98.26  E-value=7.2e-06  Score=64.99  Aligned_cols=102  Identities=20%  Similarity=0.192  Sum_probs=64.6

Q ss_pred             EEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH----HHHHhCC---eEEEEeCC
Q psy2600          31 IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK----LAQSLHL---HSFAVSAR  103 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~----~~~~~~~---~~~~~Sa~  103 (158)
                      .+++|.|+.|..     ..|...+.+....   .|+++|+||+|+... ....+....    +++.+|+   .++.+||+
T Consensus        72 lIv~VVD~~D~~-----~s~~~~L~~~~~~---kpviLViNK~DLl~~-~~~~~~i~~~l~~~~k~~g~~~~~v~~vSAk  142 (365)
T PRK13796         72 LVVNVVDIFDFN-----GSWIPGLHRFVGN---NPVLLVGNKADLLPK-SVKKNKVKNWLRQEAKELGLRPVDVVLISAQ  142 (365)
T ss_pred             EEEEEEECccCC-----CchhHHHHHHhCC---CCEEEEEEchhhCCC-ccCHHHHHHHHHHHHHhcCCCcCcEEEEECC
Confidence            578999987632     2355555543322   789999999999642 222233333    3455565   57999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhHhhccccccccccccccccccccc
Q psy2600         104 TGDNCWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAV  146 (158)
Q Consensus       104 ~~~~i~~lf~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (158)
                      ++.|++++++.+.+...     .........++..+.++..++
T Consensus       143 ~g~gI~eL~~~I~~~~~-----~~~v~vvG~~NvGKSTLiN~L  180 (365)
T PRK13796        143 KGHGIDELLEAIEKYRE-----GRDVYVVGVTNVGKSTLINRI  180 (365)
T ss_pred             CCCCHHHHHHHHHHhcC-----CCeEEEEcCCCCcHHHHHHHH
Confidence            99999999999976421     123334455555555555444

>KOG0462|consensus

Probab=98.23  E-value=7e-06  Score=67.06  Aligned_cols=86  Identities=17%  Similarity=0.081  Sum_probs=59.4

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH-hC---CeEEEEeCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS-LH---LHSFAVSAR  103 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-~~---~~~~~~Sa~  103 (158)
                      ..+++|+|.|++...--+...+++..+..+      .-+|.|.||+|++..+   .+........ ++   .+.+.+||+
T Consensus       148 ac~G~lLvVDA~qGvqAQT~anf~lAfe~~------L~iIpVlNKIDlp~ad---pe~V~~q~~~lF~~~~~~~i~vSAK  218 (650)
T KOG0462|consen  148 ACDGALLVVDASQGVQAQTVANFYLAFEAG------LAIIPVLNKIDLPSAD---PERVENQLFELFDIPPAEVIYVSAK  218 (650)
T ss_pred             hcCceEEEEEcCcCchHHHHHHHHHHHHcC------CeEEEeeeccCCCCCC---HHHHHHHHHHHhcCCccceEEEEec
Confidence            556799999998643333333444444432      7789999999998643   2333333332 33   458999999


Q ss_pred             CCCCHHHHHHHHHHHHHHh
Q psy2600         104 TGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       104 ~~~~i~~lf~~l~~~~~~~  122 (158)
                      +|.|++++++.+++.++-+
T Consensus       219 ~G~~v~~lL~AII~rVPpP  237 (650)
T KOG0462|consen  219 TGLNVEELLEAIIRRVPPP  237 (650)
T ss_pred             cCccHHHHHHHHHhhCCCC
Confidence            9999999999999988654

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

Probab=98.21  E-value=1.8e-05  Score=64.43  Aligned_cols=82  Identities=16%  Similarity=0.091  Sum_probs=56.2

Q ss_pred             CCCeEEEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHH-------HHHhC--
Q psy2600          27 SCGKIVIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKL-------AQSLH--   94 (158)
Q Consensus        27 ~vgk~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~-------~~~~~--   94 (158)
                      .+.|.++||.|++|   +++.+.+    +-++..+     +|++++.||+|.+...   +.....-       ++.|+  
T Consensus        77 ~vtDIaILVVa~dDGv~pQTiEAI----~hak~a~-----vP~iVAiNKiDk~~~n---p~~v~~el~~~gl~~E~~gg~  144 (509)
T COG0532          77 SVTDIAILVVAADDGVMPQTIEAI----NHAKAAG-----VPIVVAINKIDKPEAN---PDKVKQELQEYGLVPEEWGGD  144 (509)
T ss_pred             ccccEEEEEEEccCCcchhHHHHH----HHHHHCC-----CCEEEEEecccCCCCC---HHHHHHHHHHcCCCHhhcCCc
Confidence            36788999999988   4454432    2234333     9999999999987422   2222222       22333  


Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      ..++.+||++|+|+.+|+..++-..-
T Consensus       145 v~~VpvSA~tg~Gi~eLL~~ill~ae  170 (509)
T COG0532         145 VIFVPVSAKTGEGIDELLELILLLAE  170 (509)
T ss_pred             eEEEEeeccCCCCHHHHHHHHHHHHH
Confidence            45899999999999999998875443

>PRK10218 GTP-binding protein; Provisional

Probab=98.20  E-value=1.2e-05  Score=67.47  Aligned_cols=89  Identities=15%  Similarity=-0.056  Sum_probs=55.5

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc-cHHHHHHHHH-------HhCCeEEE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV-TLERHAKLAQ-------SLHLHSFA   99 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~-~~~~~~~~~~-------~~~~~~~~   99 (158)
                      ..|++|+|+|+++.... ....++..+....     +|.++++||+|+...+.. ...+...+..       ...++++.
T Consensus        91 ~aDg~ILVVDa~~G~~~-qt~~~l~~a~~~g-----ip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~PVi~  164 (607)
T PRK10218         91 MVDSVLLVVDAFDGPMP-QTRFVTKKAFAYG-----LKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDFPIVY  164 (607)
T ss_pred             hCCEEEEEEecccCccH-HHHHHHHHHHHcC-----CCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCCCEEE
Confidence            34569999999874322 2333344444333     888999999998642210 0112222211       12467899


Q ss_pred             EeCCCCC----------CHHHHHHHHHHHHHHh
Q psy2600         100 VSARTGD----------NCWVNTRTPEINPLKY  122 (158)
Q Consensus       100 ~Sa~~~~----------~i~~lf~~l~~~~~~~  122 (158)
                      +||++|.          ++..+++.+++.++..
T Consensus       165 ~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~P  197 (607)
T PRK10218        165 ASALNGIAGLDHEDMAEDMTPLYQAIVDHVPAP  197 (607)
T ss_pred             eEhhcCcccCCccccccchHHHHHHHHHhCCCC
Confidence            9999998          5888888888877654

>KOG1490|consensus

Probab=98.19  E-value=1.4e-05  Score=64.70  Aligned_cols=87  Identities=13%  Similarity=0.044  Sum_probs=60.6

Q ss_pred             EEEEEECCChh--HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHH---HHHHHHhCCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQ--SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERH---AKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~---~~~~~~~~~~~~~~Sa~~~~  106 (158)
                      ++|+.|++...  |.+.....+..++..=.+   .|+|+|.||||+-....++.+..   ..+...-++.++++|+.+.+
T Consensus       251 VLYfmDLSe~CGySva~QvkLfhsIKpLFaN---K~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~~~ee  327 (620)
T KOG1490|consen  251 VLYFMDLSEMCGYSVAAQVKLYHSIKPLFAN---KVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSCVQEE  327 (620)
T ss_pred             heeeeechhhhCCCHHHHHHHHHHhHHHhcC---CceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEecccchh
Confidence            89999998765  444445667777633222   89999999999865555544332   22333344889999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      ||-++...+...+..
T Consensus       328 gVm~Vrt~ACe~LLa  342 (620)
T KOG1490|consen  328 GVMDVRTTACEALLA  342 (620)
T ss_pred             ceeeHHHHHHHHHHH
Confidence            999888877765544

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

Probab=98.18  E-value=1.7e-05  Score=66.50  Aligned_cols=84  Identities=18%  Similarity=0.105  Sum_probs=53.4

Q ss_pred             CCeEEEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc------------cHHHH------
Q psy2600          28 CGKIVIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV------------TLERH------   86 (158)
Q Consensus        28 vgk~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~------------~~~~~------   86 (158)
                      .++.+++|+|+++   +++++.+..    +....     +|+++++||+|+......            .....      
T Consensus        92 ~aD~~IlVvD~~~g~~~qt~e~i~~----l~~~~-----vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v~~~~~~  162 (590)
T TIGR00491        92 LADLAILIVDINEGFKPQTQEALNI----LRMYK-----TPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQVQQNLDT  162 (590)
T ss_pred             hCCEEEEEEECCcCCCHhHHHHHHH----HHHcC-----CCEEEEEECCCccchhhhccCchHHHHHHhhhHHHHHHHHH
Confidence            4678999999987   555554432    22222     899999999998531100            00000      


Q ss_pred             ------HHHHH------------Hh--CCeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          87 ------AKLAQ------------SL--HLHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        87 ------~~~~~------------~~--~~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                            ..+.+            .+  ..+++.+||++|+|+++|..++.....
T Consensus       163 ~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~  216 (590)
T TIGR00491       163 KVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQ  216 (590)
T ss_pred             HHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHH
Confidence                  01111            12  257899999999999999998875543

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.

>KOG0077|consensus

Probab=98.17  E-value=7.4e-06  Score=57.35  Aligned_cols=86  Identities=13%  Similarity=0.049  Sum_probs=55.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH-HHHHh--------------CCe
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK-LAQSL--------------HLH   96 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-~~~~~--------------~~~   96 (158)
                      +++.+|+-|.+.|.+.+..++.+..... .+.+|+++.+||+|.+......+..... +.+.-              ...
T Consensus        91 iv~lvda~d~er~~es~~eld~ll~~e~-la~vp~lilgnKId~p~a~se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~e  169 (193)
T KOG0077|consen   91 IVYLVDAYDQERFAESKKELDALLSDES-LATVPFLILGNKIDIPYAASEDELRFHLGLSNFTTGKGKVNLTDSNVRPLE  169 (193)
T ss_pred             eEeeeehhhHHHhHHHHHHHHHHHhHHH-HhcCcceeecccccCCCcccHHHHHHHHHHHHHhcccccccccCCCCCeEE
Confidence            8999999999999988776666653221 0129999999999987543211111111 11100              124


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHH
Q psy2600          97 SFAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        97 ~~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      .|.||...+.+..+.|.++...
T Consensus       170 vfmcsi~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  170 VFMCSIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             EEEEEEEccCccceeeeehhhh
Confidence            6889999988877877776543

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.16  E-value=1.7e-05  Score=60.94  Aligned_cols=85  Identities=15%  Similarity=0.125  Sum_probs=56.1

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      ..|.+|+|.|..++.+.+.  .++.++.. .     .|+++|.||+|+.....  ......+.+..+..++.+||+++.|
T Consensus        24 ~aDvIL~VvDar~p~~~~~--~~l~~~~~-~-----kp~iiVlNK~DL~~~~~--~~~~~~~~~~~~~~vi~vSa~~~~g   93 (287)
T PRK09563         24 LVDVVIEVLDARIPLSSEN--PMIDKIIG-N-----KPRLLILNKSDLADPEV--TKKWIEYFEEQGIKALAINAKKGQG   93 (287)
T ss_pred             hCCEEEEEEECCCCCCCCC--hhHHHHhC-C-----CCEEEEEEchhcCCHHH--HHHHHHHHHHcCCeEEEEECCCccc
Confidence            3477999999976544332  22333322 1     78999999999853211  1112222233456789999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy2600         108 CWVNTRTPEINPLKY  122 (158)
Q Consensus       108 i~~lf~~l~~~~~~~  122 (158)
                      +.++.+.+...+.+.
T Consensus        94 i~~L~~~l~~~l~~~  108 (287)
T PRK09563         94 VKKILKAAKKLLKEK  108 (287)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999988877654

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.15  E-value=1.5e-05  Score=58.16  Aligned_cols=55  Identities=18%  Similarity=0.099  Sum_probs=40.3

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHhC--CeEEEEeCCCCCCHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSLH--LHSFAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      .+.++++||+|+...............+..+  .+++++||+++.|++++|+++.+.
T Consensus       149 ~a~iiv~NK~Dl~~~~~~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       149 EADLIVINKADLAEAVGFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             hCCEEEEEHHHccccchhhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            6789999999996432222233444444433  789999999999999999999875

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd01856 YlqF YlqF

Probab=98.15  E-value=1.8e-05  Score=56.09  Aligned_cols=83  Identities=16%  Similarity=0.080  Sum_probs=53.2

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      -.|.+++|+|++++...... .+...+    ..   .|.++|.||+|+.....+  ....++.+..+..++.+||+++.|
T Consensus        19 ~aD~il~v~D~~~~~~~~~~-~i~~~~----~~---k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~vi~iSa~~~~g   88 (171)
T cd01856          19 LVDLVIEVRDARIPLSSRNP-LLEKIL----GN---KPRIIVLNKADLADPKKT--KKWLKYFESKGEKVLFVNAKSGKG   88 (171)
T ss_pred             hCCEEEEEeeccCccCcCCh-hhHhHh----cC---CCEEEEEehhhcCChHHH--HHHHHHHHhcCCeEEEEECCCccc
Confidence            34678999999765432221 122222    11   788999999998532111  111122233345689999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINPL  120 (158)
Q Consensus       108 i~~lf~~l~~~~~  120 (158)
                      ++++...+...+.
T Consensus        89 i~~L~~~l~~~l~  101 (171)
T cd01856          89 VKKLLKAAKKLLK  101 (171)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988764

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.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=98.13  E-value=3.8e-05  Score=57.39  Aligned_cols=42  Identities=14%  Similarity=0.017  Sum_probs=29.9

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      .+++++|+|.++.... ....|+..+....     +|+++++||+|+.
T Consensus        88 aD~~IlVvd~~~g~~~-~~~~~~~~~~~~~-----~P~iivvNK~D~~  129 (237)
T cd04168          88 LDGAILVISAVEGVQA-QTRILWRLLRKLN-----IPTIIFVNKIDRA  129 (237)
T ss_pred             hCeEEEEEeCCCCCCH-HHHHHHHHHHHcC-----CCEEEEEECcccc
Confidence            3569999999875433 3345555555443     8999999999985

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=98.11  E-value=1.9e-05  Score=62.38  Aligned_cols=79  Identities=18%  Similarity=0.170  Sum_probs=53.8

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-HhCCeEEEEeCCCCCCH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-SLHLHSFAVSARTGDNC  108 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~i  108 (158)
                      |.+++|++++..-+...+..++..+...+     ++.++|.||+||....   .+....+.. ..+.+++.+|++++.|+
T Consensus       114 D~vliV~s~~p~~~~~~ldr~L~~a~~~~-----i~piIVLNK~DL~~~~---~~~~~~~~~~~~g~~Vi~vSa~~g~gl  185 (356)
T PRK01889        114 DTVFIVCSLNHDFNLRRIERYLALAWESG-----AEPVIVLTKADLCEDA---EEKIAEVEALAPGVPVLAVSALDGEGL  185 (356)
T ss_pred             CEEEEEEecCCCCChhHHHHHHHHHHHcC-----CCEEEEEEChhcCCCH---HHHHHHHHHhCCCCcEEEEECCCCccH
Confidence            56889999864334444566666666544     6778899999996431   112222222 34678899999999999


Q ss_pred             HHHHHHHH
Q psy2600         109 WVNTRTPE  116 (158)
Q Consensus       109 ~~lf~~l~  116 (158)
                      ++|...+.
T Consensus       186 ~~L~~~L~  193 (356)
T PRK01889        186 DVLAAWLS  193 (356)
T ss_pred             HHHHHHhh
Confidence            99888764

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=98.10  E-value=1.3e-05  Score=58.44  Aligned_cols=46  Identities=17%  Similarity=0.241  Sum_probs=34.1

Q ss_pred             eEEEEEEECCCh-hHHhhHHHHHHHHhhh---cCCCCCcEEEEEEeCCCCCC
Q psy2600          30 KIVIFMYDITSG-QSFHSIPTWVDLFHLN---RKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        30 k~~i~v~d~~~~-~s~~~~~~~~~~~~~~---~~~~~~~piilv~nK~Dl~~   77 (158)
                      +++|||+|+++. .++.....|+..+...   ....  +|+++++||+|+..
T Consensus        74 ~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~--~pvliv~NK~Dl~~  123 (203)
T cd04105          74 KGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNK--IPVLIACNKQDLFT  123 (203)
T ss_pred             CEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCC--CCEEEEecchhhcc
Confidence            779999999987 6777776666555421   1122  99999999999864

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

>cd01884 EF_Tu EF-Tu subfamily

Probab=98.10  E-value=6.3e-05  Score=54.57  Aligned_cols=74  Identities=15%  Similarity=0.004  Sum_probs=44.6

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCcccc---HHHHHHHHHHhC-----CeEEE
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVT---LERHAKLAQSLH-----LHSFA   99 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~~---~~~~~~~~~~~~-----~~~~~   99 (158)
                      .|.+++|+|++..-. ......+..+....     +| +|++.||+|+.......   ..+...+....+     .+++.
T Consensus        89 ~D~~ilVvda~~g~~-~~~~~~~~~~~~~~-----~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~v~iip  162 (195)
T cd01884          89 MDGAILVVSATDGPM-PQTREHLLLARQVG-----VPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDNTPIVR  162 (195)
T ss_pred             CCEEEEEEECCCCCc-HHHHHHHHHHHHcC-----CCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccCCeEEE
Confidence            466999999876322 12233444444433     55 78999999985322211   122333444433     56999


Q ss_pred             EeCCCCCCH
Q psy2600         100 VSARTGDNC  108 (158)
Q Consensus       100 ~Sa~~~~~i  108 (158)
                      +||.+|.|+
T Consensus       163 iSa~~g~n~  171 (195)
T cd01884         163 GSALKALEG  171 (195)
T ss_pred             eeCccccCC
Confidence            999999985

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.

>PRK09866 hypothetical protein; Provisional

Probab=98.08  E-value=5.2e-05  Score=63.66  Aligned_cols=85  Identities=16%  Similarity=0.060  Sum_probs=54.2

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh----C---CeEEEEeC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL----H---LHSFAVSA  102 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~----~---~~~~~~Sa  102 (158)
                      |.++||.|.+..-+..+ ....+.+++....   .|+++|.||+|+.....-..+....+.+..    +   ..+|.+||
T Consensus       260 DvVLFVVDat~~~s~~D-eeIlk~Lkk~~K~---~PVILVVNKIDl~dreeddkE~Lle~V~~~L~q~~i~f~eIfPVSA  335 (741)
T PRK09866        260 SAVLAVLDYTQLKSISD-EEVREAILAVGQS---VPLYVLVNKFDQQDRNSDDADQVRALISGTLMKGCITPQQIFPVSS  335 (741)
T ss_pred             CEEEEEEeCCCCCChhH-HHHHHHHHhcCCC---CCEEEEEEcccCCCcccchHHHHHHHHHHHHHhcCCCCceEEEEeC
Confidence            44999999887433333 2234444433211   599999999998532221233444443321    2   35899999


Q ss_pred             CCCCCHHHHHHHHHHH
Q psy2600         103 RTGDNCWVNTRTPEIN  118 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~  118 (158)
                      ++|.|++++++.+.+.
T Consensus       336 lkG~nid~LLdeI~~~  351 (741)
T PRK09866        336 MWGYLANRARHELANN  351 (741)
T ss_pred             CCCCCHHHHHHHHHhC
Confidence            9999999999998873

>KOG1191|consensus

Probab=98.06  E-value=1.2e-05  Score=64.97  Aligned_cols=92  Identities=15%  Similarity=0.104  Sum_probs=52.9

Q ss_pred             EEEEEEC--CChhHHhhHHHHHHHHhhhc----CCCCCcEEEEEEeCCCCCCC-ccccHHHHHHHHHHhC---Ce-EEEE
Q psy2600          32 VIFMYDI--TSGQSFHSIPTWVDLFHLNR----KSSTPTYVALVANKGDMEHQ-RVVTLERHAKLAQSLH---LH-SFAV  100 (158)
Q Consensus        32 ~i~v~d~--~~~~s~~~~~~~~~~~~~~~----~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~---~~-~~~~  100 (158)
                      +++|+|+  ++..+-..+...++......    ......+++++.||.|+... .+... ....+....+   .+ ..++
T Consensus       352 i~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~-~~~~~~~~~~~~~~~i~~~v  430 (531)
T KOG1191|consen  352 ILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTK-IPVVYPSAEGRSVFPIVVEV  430 (531)
T ss_pred             EEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccC-CceeccccccCcccceEEEe
Confidence            8899998  44333333334444333111    00012689999999998643 12111 1111112122   22 4569


Q ss_pred             eCCCCCCHHHHHHHHHHHHHHhHh
Q psy2600         101 SARTGDNCWVNTRTPEINPLKYLQ  124 (158)
Q Consensus       101 Sa~~~~~i~~lf~~l~~~~~~~~~  124 (158)
                      ||++++++++|.+.+.+.+.....
T Consensus       431 s~~tkeg~~~L~~all~~~~~~~~  454 (531)
T KOG1191|consen  431 SCTTKEGCERLSTALLNIVERLVV  454 (531)
T ss_pred             eechhhhHHHHHHHHHHHHHHhhc
Confidence            999999999999999988766544

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=98.04  E-value=2.7e-05  Score=57.96  Aligned_cols=86  Identities=12%  Similarity=0.135  Sum_probs=50.5

Q ss_pred             EEEEEECCChhHHhh---HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc---cc---HHHHHHHHHHhC---CeEEE
Q psy2600          32 VIFMYDITSGQSFHS---IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV---VT---LERHAKLAQSLH---LHSFA   99 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~---~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~---~~---~~~~~~~~~~~~---~~~~~   99 (158)
                      +|||+|+...+-.++   +...+..+.++++.   ..+-+...|.|+.....   +-   .+.........+   +.++.
T Consensus        80 LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~---~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~  156 (232)
T PF04670_consen   80 LIYVFDAQSDDYDEDLAYLSDCIEALRQYSPN---IKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFL  156 (232)
T ss_dssp             EEEEEETT-STCHHHHHHHHHHHHHHHHHSTT----EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEE
T ss_pred             EEEEEEcccccHHHHHHHHHHHHHHHHHhCCC---CeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEe
Confidence            999999984443333   34455555566654   88999999999853111   10   111222333445   66788


Q ss_pred             EeCCCCCCHHHHHHHHHHHHHH
Q psy2600         100 VSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus       100 ~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      ||..+ ..+-+.|..++..+.-
T Consensus       157 TSI~D-~Sly~A~S~Ivq~LiP  177 (232)
T PF04670_consen  157 TSIWD-ESLYEAWSKIVQKLIP  177 (232)
T ss_dssp             E-TTS-THHHHHHHHHHHTTST
T ss_pred             ccCcC-cHHHHHHHHHHHHHcc
Confidence            87765 6888888888876653

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.

>cd04167 Snu114p Snu114p subfamily

Probab=98.02  E-value=2.5e-05  Score=57.20  Aligned_cols=43  Identities=21%  Similarity=0.199  Sum_probs=30.0

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      .++++++|+|.++..++.. ..|+..+....     +|+++|+||+|+.
T Consensus        94 ~aD~~llVvD~~~~~~~~~-~~~~~~~~~~~-----~p~iiviNK~D~~  136 (213)
T cd04167          94 LSDGVVLVVDVVEGVTSNT-ERLIRHAILEG-----LPIVLVINKIDRL  136 (213)
T ss_pred             hCCEEEEEEECCCCCCHHH-HHHHHHHHHcC-----CCEEEEEECcccC
Confidence            4467999999987655532 34444444322     8999999999974

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.

>KOG1707|consensus

Probab=98.02  E-value=3.3e-05  Score=63.51  Aligned_cols=86  Identities=14%  Similarity=0.082  Sum_probs=64.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCe-EEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLH-SFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~i~~  110 (158)
                      +.++||.+++.+|+.....++......  .  .|++.|+.|+|+....+.......+++.+++++ ...+|+++... .+
T Consensus       499 ~~~~YDsS~p~sf~~~a~v~~~~~~~~--~--~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~  573 (625)
T KOG1707|consen  499 ACLVYDSSNPRSFEYLAEVYNKYFDLY--K--IPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS-NE  573 (625)
T ss_pred             EEEecccCCchHHHHHHHHHHHhhhcc--C--CceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC-ch
Confidence            899999999999998776666555331  1  999999999999754432233347889999965 67778886444 78


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|..|+......
T Consensus       574 lf~kL~~~A~~P  585 (625)
T KOG1707|consen  574 LFIKLATMAQYP  585 (625)
T ss_pred             HHHHHHHhhhCC
Confidence            999998877554

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

Probab=98.01  E-value=1.8e-05  Score=58.30  Aligned_cols=77  Identities=16%  Similarity=0.142  Sum_probs=44.5

Q ss_pred             CCeEEEEEEECCChhH---H----hhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc--cccHH----HHHHHHHHhC
Q psy2600          28 CGKIVIFMYDITSGQS---F----HSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQR--VVTLE----RHAKLAQSLH   94 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s---~----~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~----~~~~~~~~~~   94 (158)
                      .++++|+|+|+++...   |    +....| .......  .  .|+++++||+|+....  ....+    +...+.+..+
T Consensus       100 ~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~-~~~~~~~--~--~~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~~  174 (219)
T cd01883         100 QADVAVLVVDARKGEFEAGFEKGGQTREHA-LLARTLG--V--KQLIVAVNKMDDVTVNWSEERYDEIKKELSPFLKKVG  174 (219)
T ss_pred             hCCEEEEEEECCCCccccccccccchHHHH-HHHHHcC--C--CeEEEEEEccccccccccHHHHHHHHHHHHHHHHHcC
Confidence            4688999999987421   1    112222 2222222  1  6899999999986311  00011    1222233333


Q ss_pred             -----CeEEEEeCCCCCCHH
Q psy2600          95 -----LHSFAVSARTGDNCW  109 (158)
Q Consensus        95 -----~~~~~~Sa~~~~~i~  109 (158)
                           .+++.+||++|.||.
T Consensus       175 ~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         175 YNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             CCcCCceEEEeecCcCCCCC
Confidence                 569999999999976

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

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=98.00  E-value=4e-05  Score=56.01  Aligned_cols=78  Identities=19%  Similarity=0.188  Sum_probs=45.6

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc----cHHHHHHHHHHhC---CeEEEE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV----TLERHAKLAQSLH---LHSFAV  100 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~----~~~~~~~~~~~~~---~~~~~~  100 (158)
                      .++.+|+|+|+++... .....+...+.....    .++++|+||+|+......    ...+...+.+.++   .+++.+
T Consensus       100 ~ad~~llVvD~~~~~~-~~~~~~~~~~~~~~~----~~iIvviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ii~i  174 (208)
T cd04166         100 TADLAILLVDARKGVL-EQTRRHSYILSLLGI----RHVVVAVNKMDLVDYSEEVFEEIVADYLAFAAKLGIEDITFIPI  174 (208)
T ss_pred             hCCEEEEEEECCCCcc-HhHHHHHHHHHHcCC----CcEEEEEEchhcccCCHHHHHHHHHHHHHHHHHcCCCCceEEEE
Confidence            4467999999986421 112222222222221    457889999998642110    1123334445555   348999


Q ss_pred             eCCCCCCHHH
Q psy2600         101 SARTGDNCWV  110 (158)
Q Consensus       101 Sa~~~~~i~~  110 (158)
                      ||++|.|+.+
T Consensus       175 SA~~g~ni~~  184 (208)
T cd04166         175 SALDGDNVVS  184 (208)
T ss_pred             eCCCCCCCcc
Confidence            9999999874

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=97.98  E-value=0.00011  Score=56.74  Aligned_cols=51  Identities=25%  Similarity=0.061  Sum_probs=41.5

Q ss_pred             CcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          63 PTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        63 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      .+|.++|.||+|+..     .+....+.+..  .++.+||..+.|+++|.+.+.+.+.
T Consensus       239 Y~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L~  289 (365)
T COG1163         239 YKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVLG  289 (365)
T ss_pred             eeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhhC
Confidence            489999999999864     34555555554  6899999999999999999998764

>PRK14845 translation initiation factor IF-2; Provisional

Probab=97.95  E-value=0.00014  Score=64.44  Aligned_cols=84  Identities=19%  Similarity=0.177  Sum_probs=53.4

Q ss_pred             CCeEEEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccH------------HH-HHH---
Q psy2600          28 CGKIVIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTL------------ER-HAK---   88 (158)
Q Consensus        28 vgk~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~------------~~-~~~---   88 (158)
                      .++.+++|+|+++   +++++.+.    .+...+     +|+++|+||+|+........            +. ..+   
T Consensus       549 ~aDivlLVVDa~~Gi~~qT~e~I~----~lk~~~-----iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~  619 (1049)
T PRK14845        549 LADLAVLVVDINEGFKPQTIEAIN----ILRQYK-----TPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEI  619 (1049)
T ss_pred             cCCEEEEEEECcccCCHhHHHHHH----HHHHcC-----CCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHH
Confidence            3578999999986   45555433    233332     89999999999853211100            00 000   


Q ss_pred             --------HH------------HHh--CCeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          89 --------LA------------QSL--HLHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        89 --------~~------------~~~--~~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                              ++            +++  ..+++.+||++|.||.+|...+.....
T Consensus       620 ~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~~  673 (1049)
T PRK14845        620 KLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLAQ  673 (1049)
T ss_pred             HHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhhH
Confidence                    11            112  257899999999999999988875543

>PRK12735 elongation factor Tu; Reviewed

Probab=97.94  E-value=8.9e-05  Score=59.42  Aligned_cols=85  Identities=12%  Similarity=-0.049  Sum_probs=51.2

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEE-EEEEeCCCCCCCcccc---HHHHHHHHHHhC-----CeEEEE
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYV-ALVANKGDMEHQRVVT---LERHAKLAQSLH-----LHSFAV  100 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~~~~~~---~~~~~~~~~~~~-----~~~~~~  100 (158)
                      |.+++|+|+++... .+...++..+....     +|. +++.||+|+.......   ..+...+.+.++     .+++.+
T Consensus       100 D~~llVvda~~g~~-~qt~e~l~~~~~~g-----i~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~~~~~~ii~~  173 (396)
T PRK12735        100 DGAILVVSAADGPM-PQTREHILLARQVG-----VPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRG  173 (396)
T ss_pred             CEEEEEEECCCCCc-hhHHHHHHHHHHcC-----CCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCCCcCceeEEec
Confidence            45899999876322 22223344444333     674 4689999986322111   123444455443     568999


Q ss_pred             eCCCCC----------CHHHHHHHHHHHHH
Q psy2600         101 SARTGD----------NCWVNTRTPEINPL  120 (158)
Q Consensus       101 Sa~~~~----------~i~~lf~~l~~~~~  120 (158)
                      ||.++.          ++.+|++.+.+.+.
T Consensus       174 Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~~  203 (396)
T PRK12735        174 SALKALEGDDDEEWEAKILELMDAVDSYIP  203 (396)
T ss_pred             chhccccCCCCCcccccHHHHHHHHHhcCC
Confidence            999984          56777777776653

>TIGR00485 EF-Tu translation elongation factor TU

Probab=97.94  E-value=8.5e-05  Score=59.48  Aligned_cols=71  Identities=15%  Similarity=0.025  Sum_probs=42.1

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCcccc---HHHHHHHHHHhC-----CeEEEE
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVT---LERHAKLAQSLH-----LHSFAV  100 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~~---~~~~~~~~~~~~-----~~~~~~  100 (158)
                      |.+++|+|+++....+ ....+..+....     +| ++++.||+|+.......   ..+...+.+.++     ++++.+
T Consensus       100 D~~ilVvda~~g~~~q-t~e~l~~~~~~g-----i~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~~~~~~ii~v  173 (394)
T TIGR00485       100 DGAILVVSATDGPMPQ-TREHILLARQVG-----VPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFPGDDTPIIRG  173 (394)
T ss_pred             CEEEEEEECCCCCcHH-HHHHHHHHHHcC-----CCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcCCCccCccEEEC
Confidence            5589999998632211 122333344333     55 55789999986432211   123455555554     679999


Q ss_pred             eCCCCC
Q psy2600         101 SARTGD  106 (158)
Q Consensus       101 Sa~~~~  106 (158)
                      ||.++.
T Consensus       174 Sa~~g~  179 (394)
T TIGR00485       174 SALKAL  179 (394)
T ss_pred             cccccc
Confidence            999875

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.

>KOG0705|consensus

Probab=97.94  E-value=4.5e-05  Score=62.51  Aligned_cols=90  Identities=18%  Similarity=0.272  Sum_probs=69.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC--CCccccHHHHHHHHHHhC-CeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME--HQRVVTLERHAKLAQSLH-LHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i  108 (158)
                      +||||.+.+..+|+.+..+...+..+... .++|+++++++--..  ..+.+.+..++.+..++. +.||++++.+|.++
T Consensus        99 vIfvf~~~d~~s~q~v~~l~~~l~~~r~r-~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv  177 (749)
T KOG0705|consen   99 VVFVFSVEDEQSFQAVQALAHEMSSYRNI-SDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNV  177 (749)
T ss_pred             eEEEEEeccccCHHHHHHHHhhccccccc-ccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecchhhhhhH
Confidence            89999999999999988777766633322 138999999987654  355566667777666654 77999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy2600         109 WVNTRTPEINPLKY  122 (158)
Q Consensus       109 ~~lf~~l~~~~~~~  122 (158)
                      +..|+.+...+...
T Consensus       178 ~rvf~~~~~k~i~~  191 (749)
T KOG0705|consen  178 ERVFQEVAQKIVQL  191 (749)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998776654

>PRK13351 elongation factor G; Reviewed

Probab=97.92  E-value=0.00018  Score=61.56  Aligned_cols=28  Identities=11%  Similarity=-0.352  Sum_probs=24.4

Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      ++|..||++|.||..|++.++..++...
T Consensus       254 PV~~gSA~~~~Gv~~LLd~I~~~lPsP~  281 (687)
T PRK13351        254 PVLFGSALKNIGIEPLLDAVVDYLPSPL  281 (687)
T ss_pred             EEEecccCcCccHHHHHHHHHHHCCChh
Confidence            4778899999999999999999887654

>PRK12736 elongation factor Tu; Reviewed

Probab=97.91  E-value=0.00015  Score=58.14  Aligned_cols=86  Identities=12%  Similarity=-0.046  Sum_probs=51.8

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCcccc---HHHHHHHHHHhC-----CeEEE
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVT---LERHAKLAQSLH-----LHSFA   99 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~~---~~~~~~~~~~~~-----~~~~~   99 (158)
                      .|.+++|+|+++... .....++..+....     +| +|++.||+|+.......   ..+...+.+..+     .+++.
T Consensus        99 ~d~~llVvd~~~g~~-~~t~~~~~~~~~~g-----~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~~ii~  172 (394)
T PRK12736         99 MDGAILVVAATDGPM-PQTREHILLARQVG-----VPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPVIR  172 (394)
T ss_pred             CCEEEEEEECCCCCc-hhHHHHHHHHHHcC-----CCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCcCCccEEE
Confidence            356999999876321 12223333344333     66 78899999986322221   123334444444     47899


Q ss_pred             EeCCCCC--------CHHHHHHHHHHHHH
Q psy2600         100 VSARTGD--------NCWVNTRTPEINPL  120 (158)
Q Consensus       100 ~Sa~~~~--------~i~~lf~~l~~~~~  120 (158)
                      +||++|.        ++.++++.+.+.+.
T Consensus       173 vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        173 GSALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             eeccccccCCCcchhhHHHHHHHHHHhCC
Confidence            9999983        56777777776654

>PRK13768 GTPase; Provisional

Probab=97.91  E-value=8.8e-05  Score=55.97  Aligned_cols=87  Identities=20%  Similarity=0.114  Sum_probs=54.7

Q ss_pred             CeEEEEEEECCChhHHhhH--HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH------------------
Q psy2600          29 GKIVIFMYDITSGQSFHSI--PTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK------------------   88 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~------------------   88 (158)
                      .+.+++++|.+......+.  ..|+.........   +|+++|+||+|+......  +....                  
T Consensus       129 ~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~---~~~i~v~nK~D~~~~~~~--~~~~~~l~~~~~~~~~l~~~~~~  203 (253)
T PRK13768        129 KSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLG---LPQIPVLNKADLLSEEEL--ERILKWLEDPEYLLEELKLEKGL  203 (253)
T ss_pred             CeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcC---CCEEEEEEhHhhcCchhH--HHHHHHHhCHHHHHHHHhcccch
Confidence            4679999998654333222  1233322222222   899999999998643221  11111                  


Q ss_pred             ----------HHHHhC--CeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          89 ----------LAQSLH--LHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        89 ----------~~~~~~--~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                                ..++.+  ..++.+|+.++.|++++.+.+.+.+.
T Consensus       204 ~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~  247 (253)
T PRK13768        204 QGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFC  247 (253)
T ss_pred             HHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcC
Confidence                      122334  47899999999999999999988764

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=97.90  E-value=0.00011  Score=59.94  Aligned_cols=90  Identities=9%  Similarity=0.000  Sum_probs=54.6

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc--HHHHHHHHHH---hCCeEEEEeC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT--LERHAKLAQS---LHLHSFAVSA  102 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~---~~~~~~~~Sa  102 (158)
                      ..|.+++|.|+++...-.+....+..+....-    .++++|.||+|+.......  .++...+.+.   .+.+++.+||
T Consensus       140 ~~D~alLVVda~~g~~~~qT~ehl~i~~~lgi----~~iIVvlNKiDlv~~~~~~~~~~ei~~~l~~~~~~~~~iipVSA  215 (460)
T PTZ00327        140 VMDAALLLIAANESCPQPQTSEHLAAVEIMKL----KHIIILQNKIDLVKEAQAQDQYEEIRNFVKGTIADNAPIIPISA  215 (460)
T ss_pred             hCCEEEEEEECCCCccchhhHHHHHHHHHcCC----CcEEEEEecccccCHHHHHHHHHHHHHHHHhhccCCCeEEEeeC
Confidence            34779999999863111111222222332221    5689999999986422211  1122222222   2467999999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q psy2600         103 RTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~~~  121 (158)
                      ++|.|+++|++.|.+.+..
T Consensus       216 ~~G~nI~~Ll~~L~~~lp~  234 (460)
T PTZ00327        216 QLKYNIDVVLEYICTQIPI  234 (460)
T ss_pred             CCCCCHHHHHHHHHhhCCC
Confidence            9999999999999876654

>PRK04004 translation initiation factor IF-2; Validated

Probab=97.86  E-value=0.00014  Score=60.99  Aligned_cols=83  Identities=20%  Similarity=0.117  Sum_probs=52.4

Q ss_pred             CCeEEEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc--c----------HHH-------
Q psy2600          28 CGKIVIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV--T----------LER-------   85 (158)
Q Consensus        28 vgk~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~----------~~~-------   85 (158)
                      .++.+++|+|+++   +++++.+..    +....     +|+++++||+|+......  .          ...       
T Consensus        94 ~aD~~IlVvDa~~g~~~qt~e~i~~----~~~~~-----vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~~v~~~f~~  164 (586)
T PRK04004         94 LADIAILVVDINEGFQPQTIEAINI----LKRRK-----TPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQRVQQELEE  164 (586)
T ss_pred             hCCEEEEEEECCCCCCHhHHHHHHH----HHHcC-----CCEEEEEECcCCchhhhhhcCchHHHHHhhhhHHHHHHHHH
Confidence            3678999999987   566655432    22222     899999999998421000  0          000       


Q ss_pred             ----HHHHHHH-------------h--CCeEEEEeCCCCCCHHHHHHHHHHHH
Q psy2600          86 ----HAKLAQS-------------L--HLHSFAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        86 ----~~~~~~~-------------~--~~~~~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                          .......             +  ..+++.+||.+|.|+.+++..+...+
T Consensus       165 ~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        165 KLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             HHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence                0001111             1  25689999999999999998887544

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.86  E-value=0.00015  Score=55.66  Aligned_cols=82  Identities=13%  Similarity=0.102  Sum_probs=58.4

Q ss_pred             EEEEEECCChh-HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQ-SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      .++|+.+.+|+ +...+..++-......     +.-+++.||+||.........+.....+..|...+.+|++++.++++
T Consensus        83 ~iiIvs~~~P~~~~~~ldR~Lv~ae~~g-----i~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~~s~~~~~~~~~  157 (301)
T COG1162          83 AIIVVSLVDPDFNTNLLDRYLVLAEAGG-----IEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFVSAKNGDGLEE  157 (301)
T ss_pred             EEEEEeccCCCCCHHHHHHHHHHHHHcC-----CcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEEecCcCcccHHH
Confidence            67777777765 5555566666665444     66688899999975443222345556677899999999999999999


Q ss_pred             HHHHHHHH
Q psy2600         111 NTRTPEIN  118 (158)
Q Consensus       111 lf~~l~~~  118 (158)
                      +...+...
T Consensus       158 l~~~l~~~  165 (301)
T COG1162         158 LAELLAGK  165 (301)
T ss_pred             HHHHhcCC
Confidence            88876554

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=97.84  E-value=0.00015  Score=59.29  Aligned_cols=59  Identities=8%  Similarity=-0.047  Sum_probs=44.1

Q ss_pred             cEEEEEEeCCCCC----CCcccc-------HHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          64 TYVALVANKGDME----HQRVVT-------LERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        64 ~piilv~nK~Dl~----~~~~~~-------~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      +|++||++|+|.-    ......       ....+.++-.+|..+|.||++...|++.|+.+|...+...
T Consensus       197 ipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~~  266 (472)
T PF05783_consen  197 IPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLYGF  266 (472)
T ss_pred             cceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHHHhccC
Confidence            8999999999952    221111       1224556667899999999999999999999988877654

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 [].

>cd01850 CDC_Septin CDC/Septin

Probab=97.78  E-value=0.00011  Score=56.19  Aligned_cols=40  Identities=10%  Similarity=0.048  Sum_probs=27.9

Q ss_pred             cEEEEEEeCCCCCCCc--cccHHHHHHHHHHhCCeEEEEeCC
Q psy2600          64 TYVALVANKGDMEHQR--VVTLERHAKLAQSLHLHSFAVSAR  103 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~Sa~  103 (158)
                      +|+++|+||+|+....  ........+.++.+++.+|.....
T Consensus       144 v~vi~VinK~D~l~~~e~~~~k~~i~~~l~~~~i~~~~~~~~  185 (276)
T cd01850         144 VNIIPVIAKADTLTPEELKEFKQRIMEDIEEHNIKIYKFPED  185 (276)
T ss_pred             CCEEEEEECCCcCCHHHHHHHHHHHHHHHHHcCCceECCCCC
Confidence            8999999999985422  223344556677788888876653

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.

>KOG1532|consensus

Probab=97.77  E-value=0.00089  Score=50.95  Aligned_cols=28  Identities=21%  Similarity=0.146  Sum_probs=23.4

Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      +..+-+|+.+|.|.+++|..+-..+.++
T Consensus       239 lrtv~VSs~tG~G~ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  239 LRTVGVSSVTGEGFDDFFTAVDESVDEY  266 (366)
T ss_pred             CceEEEecccCCcHHHHHHHHHHHHHHH
Confidence            4578999999999999999887766554

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=97.75  E-value=0.00025  Score=57.04  Aligned_cols=78  Identities=21%  Similarity=0.163  Sum_probs=44.7

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc-cc---HHHHHHHHHHhC---CeEEEE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV-VT---LERHAKLAQSLH---LHSFAV  100 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-~~---~~~~~~~~~~~~---~~~~~~  100 (158)
                      ..|.+++|+|++....-+..+.|. .+.....    .+++++.||+|+..... .-   .++...+.+..+   .+++.+
T Consensus       103 ~aD~allVVda~~G~~~qt~~~~~-~~~~~~~----~~iivviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~iipi  177 (406)
T TIGR02034       103 TADLAVLLVDARKGVLEQTRRHSY-IASLLGI----RHVVLAVNKMDLVDYDEEVFENIKKDYLAFAEQLGFRDVTFIPL  177 (406)
T ss_pred             hCCEEEEEEECCCCCccccHHHHH-HHHHcCC----CcEEEEEEecccccchHHHHHHHHHHHHHHHHHcCCCCccEEEe
Confidence            446799999987542222222222 2222221    56899999999863211 10   112222334444   469999


Q ss_pred             eCCCCCCHHH
Q psy2600         101 SARTGDNCWV  110 (158)
Q Consensus       101 Sa~~~~~i~~  110 (158)
                      ||++|.|+.+
T Consensus       178 SA~~g~ni~~  187 (406)
T TIGR02034       178 SALKGDNVVS  187 (406)
T ss_pred             ecccCCCCcc
Confidence            9999999875

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).

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=97.71  E-value=0.00019  Score=58.93  Aligned_cols=78  Identities=21%  Similarity=0.194  Sum_probs=43.3

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHH----HHHHHHHhC----CeEEEE
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLER----HAKLAQSLH----LHSFAV  100 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~----~~~~~~~~~----~~~~~~  100 (158)
                      .|.+++|+|++..-.-.....|. .+.....    .+++++.||+|+.........+    ...+.+..+    .+++.+
T Consensus       131 aD~allVVDa~~G~~~qt~~~~~-l~~~lg~----~~iIvvvNKiD~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~iipv  205 (474)
T PRK05124        131 CDLAILLIDARKGVLDQTRRHSF-IATLLGI----KHLVVAVNKMDLVDYSEEVFERIREDYLTFAEQLPGNLDIRFVPL  205 (474)
T ss_pred             CCEEEEEEECCCCccccchHHHH-HHHHhCC----CceEEEEEeeccccchhHHHHHHHHHHHHHHHhcCCCCCceEEEE
Confidence            35599999987532111111221 1222221    5789999999986321111111    222223332    668999


Q ss_pred             eCCCCCCHHHH
Q psy2600         101 SARTGDNCWVN  111 (158)
Q Consensus       101 Sa~~~~~i~~l  111 (158)
                      ||++|.|+.++
T Consensus       206 SA~~g~ni~~~  216 (474)
T PRK05124        206 SALEGDNVVSQ  216 (474)
T ss_pred             EeecCCCcccc
Confidence            99999998765

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

Probab=97.70  E-value=0.0004  Score=58.89  Aligned_cols=76  Identities=22%  Similarity=0.177  Sum_probs=42.3

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC-CccccH---HHHHHHHHHhC---CeEEEEeC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH-QRVVTL---ERHAKLAQSLH---LHSFAVSA  102 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~~~~~~---~~~~~~~~~~~---~~~~~~Sa  102 (158)
                      |.+++|+|.+....-+... .+..+.....    .+++++.||+|+.. ......   .+...+.+..+   .+++.+||
T Consensus       129 D~~llVvda~~g~~~~t~e-~~~~~~~~~~----~~iivvvNK~D~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iipiSA  203 (632)
T PRK05506        129 DLAIILVDARKGVLTQTRR-HSFIASLLGI----RHVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGLHDVTFIPISA  203 (632)
T ss_pred             CEEEEEEECCCCccccCHH-HHHHHHHhCC----CeEEEEEEecccccchhHHHHHHHHHHHHHHHHcCCCCccEEEEec
Confidence            3388899986532211111 2222222221    57899999999863 111111   12222334444   35899999


Q ss_pred             CCCCCHHH
Q psy2600         103 RTGDNCWV  110 (158)
Q Consensus       103 ~~~~~i~~  110 (158)
                      ++|.|+.+
T Consensus       204 ~~g~ni~~  211 (632)
T PRK05506        204 LKGDNVVT  211 (632)
T ss_pred             ccCCCccc
Confidence            99999874

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=97.69  E-value=0.00064  Score=56.45  Aligned_cols=29  Identities=10%  Similarity=-0.348  Sum_probs=25.5

Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      .++|..||.+|.||..+++.+++.++...
T Consensus       249 ~PV~~GSA~~n~Gv~~LLd~i~~~~P~P~  277 (526)
T PRK00741        249 TPVFFGSALNNFGVQEFLDAFVEWAPAPQ  277 (526)
T ss_pred             EEEEEeecccCcCHHHHHHHHHHHCCCCC
Confidence            46899999999999999999999987653

>PLN00043 elongation factor 1-alpha; Provisional

Probab=97.66  E-value=0.0002  Score=58.36  Aligned_cols=77  Identities=14%  Similarity=0.128  Sum_probs=48.3

Q ss_pred             CCeEEEEEEECCChhHHh-------hHHHHHHHHhhhcCCCCCc-EEEEEEeCCCCCCCcc----c--cHHHHHHHHHHh
Q psy2600          28 CGKIVIFMYDITSGQSFH-------SIPTWVDLFHLNRKSSTPT-YVALVANKGDMEHQRV----V--TLERHAKLAQSL   93 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~-------~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl~~~~~----~--~~~~~~~~~~~~   93 (158)
                      .+|++|+|+|+++ .+|+       .....+..+....     + ++|+++||+|+.....    .  ..++...+.+..
T Consensus       108 ~aD~aIlVVda~~-G~~e~g~~~~~qT~eh~~~~~~~g-----i~~iIV~vNKmD~~~~~~~~~~~~~i~~ei~~~l~~~  181 (447)
T PLN00043        108 QADCAVLIIDSTT-GGFEAGISKDGQTREHALLAFTLG-----VKQMICCCNKMDATTPKYSKARYDEIVKEVSSYLKKV  181 (447)
T ss_pred             hccEEEEEEEccc-CceecccCCCchHHHHHHHHHHcC-----CCcEEEEEEcccCCchhhhHHHHHHHHHHHHHHHHHc
Confidence            6678999999986 3443       2333333333333     5 5788999999752100    0  123445555555


Q ss_pred             C-----CeEEEEeCCCCCCHHH
Q psy2600          94 H-----LHSFAVSARTGDNCWV  110 (158)
Q Consensus        94 ~-----~~~~~~Sa~~~~~i~~  110 (158)
                      |     ++|+.+||.+|.|+.+
T Consensus       182 g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        182 GYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             CCCcccceEEEEeccccccccc
Confidence            5     5699999999999853

>CHL00071 tufA elongation factor Tu

Probab=97.65  E-value=0.00063  Score=54.82  Aligned_cols=72  Identities=13%  Similarity=0.036  Sum_probs=42.4

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCcccc---HHHHHHHHHHhC-----CeEEEE
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVT---LERHAKLAQSLH-----LHSFAV  100 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~~---~~~~~~~~~~~~-----~~~~~~  100 (158)
                      |.+++|+|++..- .......+..+....     +| +|++.||+|+.......   ..+...+.+..+     .+++.+
T Consensus       100 D~~ilVvda~~g~-~~qt~~~~~~~~~~g-----~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ii~~  173 (409)
T CHL00071        100 DGAILVVSAADGP-MPQTKEHILLAKQVG-----VPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFPGDDIPIVSG  173 (409)
T ss_pred             CEEEEEEECCCCC-cHHHHHHHHHHHHcC-----CCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEc
Confidence            3389999987532 122233344444433     67 77899999986432211   123334444433     578999


Q ss_pred             eCCCCCC
Q psy2600         101 SARTGDN  107 (158)
Q Consensus       101 Sa~~~~~  107 (158)
                      ||.+|.|
T Consensus       174 Sa~~g~n  180 (409)
T CHL00071        174 SALLALE  180 (409)
T ss_pred             chhhccc
Confidence            9998874

>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=97.56  E-value=0.00038  Score=40.24  Aligned_cols=44  Identities=18%  Similarity=0.125  Sum_probs=28.1

Q ss_pred             CCeEEEEEEECCChh--HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCC
Q psy2600          28 CGKIVIFMYDITSGQ--SFHSIPTWVDLFHLNRKSSTPTYVALVANKGD   74 (158)
Q Consensus        28 vgk~~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~piilv~nK~D   74 (158)
                      .+.+++|++|++...  |.++....+++++..=.+   .|+++|.||+|
T Consensus        13 L~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~~---~P~i~V~nK~D   58 (58)
T PF06858_consen   13 LADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFPN---KPVIVVLNKID   58 (58)
T ss_dssp             T-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTTT---S-EEEEE--TT
T ss_pred             hcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcCC---CCEEEEEeccC
Confidence            456799999999865  456666778888854322   99999999998

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.

>KOG1145|consensus

Probab=97.55  E-value=0.0013  Score=54.24  Aligned_cols=80  Identities=18%  Similarity=0.215  Sum_probs=53.5

Q ss_pred             CCeEEEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHH-HHH------HHHhC--C
Q psy2600          28 CGKIVIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERH-AKL------AQSLH--L   95 (158)
Q Consensus        28 vgk~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~-~~~------~~~~~--~   95 (158)
                      +.|.+++|...+|   +++.+.       ++.....+  +|+|+..||||.+..   +.+.. +++      .+++|  .
T Consensus       224 vtDIvVLVVAadDGVmpQT~Ea-------IkhAk~A~--VpiVvAinKiDkp~a---~pekv~~eL~~~gi~~E~~GGdV  291 (683)
T KOG1145|consen  224 VTDIVVLVVAADDGVMPQTLEA-------IKHAKSAN--VPIVVAINKIDKPGA---NPEKVKRELLSQGIVVEDLGGDV  291 (683)
T ss_pred             cccEEEEEEEccCCccHhHHHH-------HHHHHhcC--CCEEEEEeccCCCCC---CHHHHHHHHHHcCccHHHcCCce
Confidence            5577888888877   444443       33222223  999999999997642   22332 222      23454  4


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHH
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      ..+.+||++|.|+..|-+.++-..
T Consensus       292 QvipiSAl~g~nl~~L~eaill~A  315 (683)
T KOG1145|consen  292 QVIPISALTGENLDLLEEAILLLA  315 (683)
T ss_pred             eEEEeecccCCChHHHHHHHHHHH
Confidence            689999999999999988876443

>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=97.54  E-value=0.00065  Score=48.72  Aligned_cols=44  Identities=16%  Similarity=0.293  Sum_probs=27.1

Q ss_pred             EEEEEECCC-hhHHhhHHHHHHHHh-hhc--CCCCCcEEEEEEeCCCCCC
Q psy2600          32 VIFMYDITS-GQSFHSIPTWVDLFH-LNR--KSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        32 ~i~v~d~~~-~~s~~~~~~~~~~~~-~~~--~~~~~~piilv~nK~Dl~~   77 (158)
                      +|||.|.+. .....+.-.++..+. ...  ...  +|+++++||.|+..
T Consensus        79 IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~--~piLIacNK~Dl~~  126 (181)
T PF09439_consen   79 IIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNK--PPILIACNKQDLFT  126 (181)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT----EEEEEEE-TTSTT
T ss_pred             EEEEEeCccchhhHHHHHHHHHHHHHhhhhccCC--CCEEEEEeCccccc
Confidence            999999974 445555544444444 211  222  99999999999865

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.

>PRK00049 elongation factor Tu; Reviewed

Probab=97.46  E-value=0.0015  Score=52.51  Aligned_cols=86  Identities=12%  Similarity=-0.054  Sum_probs=49.9

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEE-EEEeCCCCCCCcccc---HHHHHHHHHHh-----CCeEE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVA-LVANKGDMEHQRVVT---LERHAKLAQSL-----HLHSF   98 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~pii-lv~nK~Dl~~~~~~~---~~~~~~~~~~~-----~~~~~   98 (158)
                      ..|.+++|+|++... ......++..+....     +|.+ ++.||+|+.......   ..+...+....     ..+++
T Consensus        98 ~aD~~llVVDa~~g~-~~qt~~~~~~~~~~g-----~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~iv  171 (396)
T PRK00049         98 QMDGAILVVSAADGP-MPQTREHILLARQVG-----VPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPII  171 (396)
T ss_pred             cCCEEEEEEECCCCC-chHHHHHHHHHHHcC-----CCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCCCccCCcEE
Confidence            346699999987632 222334444454443     7765 689999986422211   11223333332     25789


Q ss_pred             EEeCCCCC----------CHHHHHHHHHHHH
Q psy2600          99 AVSARTGD----------NCWVNTRTPEINP  119 (158)
Q Consensus        99 ~~Sa~~~~----------~i~~lf~~l~~~~  119 (158)
                      .+||.++.          ++..+++.|.+.+
T Consensus       172 ~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~~  202 (396)
T PRK00049        172 RGSALKALEGDDDEEWEKKILELMDAVDSYI  202 (396)
T ss_pred             EeecccccCCCCcccccccHHHHHHHHHhcC
Confidence            99999875          4566776666654

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

Probab=97.45  E-value=0.00094  Score=51.82  Aligned_cols=111  Identities=11%  Similarity=0.023  Sum_probs=73.3

Q ss_pred             CCcceEEEEEEECCCC-------------CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC
Q psy2600          12 DNYEIQLKVVLLGDPS-------------CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQ   78 (158)
Q Consensus        12 ~~~~~~~ki~~~G~~~-------------vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~   78 (158)
                      ...++..++.++-.++             +-|++++|...+.+..--+....+..+.-..-    ..+++|-||+|+...
T Consensus        80 ~~~~l~R~VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIigi----k~iiIvQNKIDlV~~  155 (415)
T COG5257          80 AETELVRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIGI----KNIIIVQNKIDLVSR  155 (415)
T ss_pred             CCccEEEEEEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhhcc----ceEEEEecccceecH
Confidence            3446777888887776             44779999998875443333333333432221    568999999999642


Q ss_pred             cc--ccHHHHHHHHHH---hCCeEEEEeCCCCCCHHHHHHHHHHHHHHhHhhc
Q psy2600          79 RV--VTLERHAKLAQS---LHLHSFAVSARTGDNCWVNTRTPEINPLKYLQSN  126 (158)
Q Consensus        79 ~~--~~~~~~~~~~~~---~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~~~~  126 (158)
                      ..  ...++..+|.+-   -+.+++.+||..+.||+.+++.|.+.+.......
T Consensus       156 E~AlE~y~qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP~rd~  208 (415)
T COG5257         156 ERALENYEQIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTPERDL  208 (415)
T ss_pred             HHHHHHHHHHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCCccCC
Confidence            11  122333344332   2467999999999999999999999998765433

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=97.44  E-value=0.0019  Score=46.58  Aligned_cols=88  Identities=8%  Similarity=-0.047  Sum_probs=46.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc------HHHHHHHHHHhCCeEEEEe----
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT------LERHAKLAQSLHLHSFAVS----  101 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~------~~~~~~~~~~~~~~~~~~S----  101 (158)
                      +++|.++.+. + ......++.+++.-.+....++++|.|++|......+.      ......+.+..+-.|+..+    
T Consensus        87 illVi~~~~~-t-~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r~~~f~~~~~  164 (196)
T cd01852          87 FLLVVPLGRF-T-EEEEQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGRYVAFNNKAK  164 (196)
T ss_pred             EEEEEECCCc-C-HHHHHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCeEEEEeCCCC
Confidence            8888887651 1 11122333333211110015678999999965332211      1233444455454444443    


Q ss_pred             -CCCCCCHHHHHHHHHHHHHH
Q psy2600         102 -ARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus       102 -a~~~~~i~~lf~~l~~~~~~  121 (158)
                       +..+..+.+|++.+.+.+.+
T Consensus       165 ~~~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         165 GEEQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             cchhHHHHHHHHHHHHHHHHh
Confidence             34466788888888887765

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).

>TIGR00750 lao LAO/AO transport system ATPase

Probab=97.40  E-value=0.0006  Score=52.67  Aligned_cols=94  Identities=15%  Similarity=0.062  Sum_probs=55.5

Q ss_pred             EEEEEEECCCCCCeE----------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHH-
Q psy2600          17 QLKVVLLGDPSCGKI----------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLER-   85 (158)
Q Consensus        17 ~~ki~~~G~~~vgk~----------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~-   85 (158)
                      -+.++++-.+|+|..          ++++-   .+.+.+++......+.  .     +|.++|.||+|+.......... 
T Consensus       126 g~D~viidT~G~~~~e~~i~~~aD~i~vv~---~~~~~~el~~~~~~l~--~-----~~~ivv~NK~Dl~~~~~~~~~~~  195 (300)
T TIGR00750       126 GYDVIIVETVGVGQSEVDIANMADTFVVVT---IPGTGDDLQGIKAGLM--E-----IADIYVVNKADGEGATNVTIARL  195 (300)
T ss_pred             CCCEEEEeCCCCchhhhHHHHhhceEEEEe---cCCccHHHHHHHHHHh--h-----hccEEEEEcccccchhHHHHHHH
Confidence            356777777777654          33332   2333444433333221  1     7889999999986432111000 


Q ss_pred             -----HHHHHHH---hCCeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          86 -----HAKLAQS---LHLHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        86 -----~~~~~~~---~~~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                           ...+.+.   +..+++.+||+++.|++++++.+.+...
T Consensus       196 ~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       196 MLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence                 0111111   2235899999999999999999988744

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=97.35  E-value=0.0021  Score=50.45  Aligned_cols=93  Identities=12%  Similarity=0.015  Sum_probs=54.5

Q ss_pred             EEEEEECCCCCCeE----------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc--cHHH
Q psy2600          18 LKVVLLGDPSCGKI----------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV--TLER   85 (158)
Q Consensus        18 ~ki~~~G~~~vgk~----------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~   85 (158)
                      +.++++-..|+|.+          ++++.++   .+-+++......+.+       ..-++|.||+|+......  ...+
T Consensus       149 ~d~viieT~Gv~qs~~~i~~~aD~vlvv~~p---~~gd~iq~~k~gi~E-------~aDIiVVNKaDl~~~~~a~~~~~e  218 (332)
T PRK09435        149 YDVILVETVGVGQSETAVAGMVDFFLLLQLP---GAGDELQGIKKGIME-------LADLIVINKADGDNKTAARRAAAE  218 (332)
T ss_pred             CCEEEEECCCCccchhHHHHhCCEEEEEecC---CchHHHHHHHhhhhh-------hhheEEeehhcccchhHHHHHHHH
Confidence            56677777777655          5666543   233333222221111       344899999998642211  1111


Q ss_pred             HHHHHHH-------hCCeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          86 HAKLAQS-------LHLHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        86 ~~~~~~~-------~~~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      .......       +..+++.+||.++.||+++++.+.+.+.
T Consensus       219 l~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~  260 (332)
T PRK09435        219 YRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRA  260 (332)
T ss_pred             HHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            1111111       2246899999999999999999998765

>cd04169 RF3 RF3 subfamily

Probab=97.32  E-value=0.0029  Score=48.14  Aligned_cols=43  Identities=16%  Similarity=0.137  Sum_probs=28.9

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      .+++|+|+|.++.... ....++.......     +|+++++||+|+..
T Consensus        95 aD~~IlVvda~~g~~~-~~~~i~~~~~~~~-----~P~iivvNK~D~~~  137 (267)
T cd04169          95 VDSAVMVIDAAKGVEP-QTRKLFEVCRLRG-----IPIITFINKLDREG  137 (267)
T ss_pred             CCEEEEEEECCCCccH-HHHHHHHHHHhcC-----CCEEEEEECCccCC
Confidence            5779999999874321 2234444443333     89999999999864

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.

>PLN03127 Elongation factor Tu; Provisional

Probab=97.32  E-value=0.0022  Score=52.29  Aligned_cols=85  Identities=13%  Similarity=-0.014  Sum_probs=47.4

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCccccH---HHHHHHHHHh-----CCeEEEE
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVTL---ERHAKLAQSL-----HLHSFAV  100 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~~~---~~~~~~~~~~-----~~~~~~~  100 (158)
                      |.+++|.|.++... .+....+..+....     +| +|++.||+|+........   .+...+....     .++++.+
T Consensus       149 D~allVVda~~g~~-~qt~e~l~~~~~~g-----ip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~~~~~vpiip~  222 (447)
T PLN03127        149 DGGILVVSAPDGPM-PQTKEHILLARQVG-----VPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKFPGDEIPIIRG  222 (447)
T ss_pred             CEEEEEEECCCCCc-hhHHHHHHHHHHcC-----CCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEe
Confidence            45999999875321 22233334444333     77 578999999864222111   1122222222     2567888


Q ss_pred             eCC---CCCC-------HHHHHHHHHHHHH
Q psy2600         101 SAR---TGDN-------CWVNTRTPEINPL  120 (158)
Q Consensus       101 Sa~---~~~~-------i~~lf~~l~~~~~  120 (158)
                      |+.   ++.|       +.+|++.+.+.+.
T Consensus       223 Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~lp  252 (447)
T PLN03127        223 SALSALQGTNDEIGKNAILKLMDAVDEYIP  252 (447)
T ss_pred             ccceeecCCCcccccchHHHHHHHHHHhCC
Confidence            775   4544       6777777776654

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

Probab=97.29  E-value=0.0023  Score=48.47  Aligned_cols=72  Identities=15%  Similarity=0.177  Sum_probs=41.2

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeE--EEEeCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHS--FAVSARTGD  106 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~--~~~Sa~~~~  106 (158)
                      ++.+++|+|+++.........| ..+....     +|.++++||+|+....  .......+.+.++...  +.+...++.
T Consensus        88 aD~~i~Vvd~~~g~~~~~~~~~-~~~~~~~-----~p~iivvNK~D~~~~~--~~~~~~~l~~~~~~~~~~~~ip~~~~~  159 (268)
T cd04170          88 ADAALVVVSAQSGVEVGTEKLW-EFADEAG-----IPRIIFINKMDRERAD--FDKTLAALQEAFGRPVVPLQLPIGEGD  159 (268)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHH-HHHHHcC-----CCEEEEEECCccCCCC--HHHHHHHHHHHhCCCeEEEEecccCCC
Confidence            3679999999876544333333 2333333     8999999999986532  1223344444555443  334444444


Q ss_pred             CH
Q psy2600         107 NC  108 (158)
Q Consensus       107 ~i  108 (158)
                      ++
T Consensus       160 ~~  161 (268)
T cd04170         160 DF  161 (268)
T ss_pred             ce
Confidence            43

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

>PLN03126 Elongation factor Tu; Provisional

Probab=97.26  E-value=0.0021  Score=52.85  Aligned_cols=70  Identities=14%  Similarity=0.031  Sum_probs=41.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCccccH---HHHHHHHHHh-----CCeEEEEeC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVTL---ERHAKLAQSL-----HLHSFAVSA  102 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~~~---~~~~~~~~~~-----~~~~~~~Sa  102 (158)
                      +++|+|+++... .....++..+....     +| ++++.||+|+........   .+...+.+..     ..+++.+|+
T Consensus       171 ailVVda~~G~~-~qt~e~~~~~~~~g-----i~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~vp~Sa  244 (478)
T PLN03126        171 AILVVSGADGPM-PQTKEHILLAKQVG-----VPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFPGDDIPIISGSA  244 (478)
T ss_pred             EEEEEECCCCCc-HHHHHHHHHHHHcC-----CCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCCCcCcceEEEEEc
Confidence            899999876422 22234444444443     66 788999999864222111   1233344443     356899999


Q ss_pred             CCCCC
Q psy2600         103 RTGDN  107 (158)
Q Consensus       103 ~~~~~  107 (158)
                      .++.+
T Consensus       245 ~~g~n  249 (478)
T PLN03126        245 LLALE  249 (478)
T ss_pred             ccccc
Confidence            88754

>TIGR00503 prfC peptide chain release factor 3

Probab=97.25  E-value=0.004  Score=51.85  Aligned_cols=29  Identities=10%  Similarity=-0.380  Sum_probs=25.1

Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      .++|.-||.+|.||..|++.+++.++...
T Consensus       250 ~PV~~GSA~~n~Gv~~LLd~i~~~~PsP~  278 (527)
T TIGR00503       250 TPVFFGTALGNFGVDHFLDGLLQWAPKPE  278 (527)
T ss_pred             eEEEEeecccCccHHHHHHHHHHHCCCCc
Confidence            35788999999999999999999987653

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.

>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=97.19  E-value=0.001  Score=49.77  Aligned_cols=82  Identities=13%  Similarity=0.103  Sum_probs=42.3

Q ss_pred             EEEEEEECCC---hhHHhhHHHHHHHHh---hhcCCCCCcEEEEEEeCCCCCCCc-ccc------------------HHH
Q psy2600          31 IVIFMYDITS---GQSFHSIPTWVDLFH---LNRKSSTPTYVALVANKGDMEHQR-VVT------------------LER   85 (158)
Q Consensus        31 ~~i~v~d~~~---~~s~~~~~~~~~~~~---~~~~~~~~~piilv~nK~Dl~~~~-~~~------------------~~~   85 (158)
                      +++++.|...   +..|-+  .++-.+.   +..     .|.|.|.||+|+.+.. ...                  ..-
T Consensus       125 ~~v~LvD~~~~~~~~~f~s--~~L~s~s~~~~~~-----lP~vnvlsK~Dl~~~~~~~~l~~~~d~~~l~~~~~~~~~~l  197 (238)
T PF03029_consen  125 VVVFLVDSSFCSDPSKFVS--SLLLSLSIMLRLE-----LPHVNVLSKIDLLSKYLEFILEWFEDPDSLEDLLESDYKKL  197 (238)
T ss_dssp             EEEEEE-GGG-SSHHHHHH--HHHHHHHHHHHHT-----SEEEEEE--GGGS-HHHHHHHHHHHSHHHHHHHHHT-HHHH
T ss_pred             EEEEEEecccccChhhHHH--HHHHHHHHHhhCC-----CCEEEeeeccCcccchhHHHHHHhcChHHHHHHHHHHHHHH
Confidence            3788888753   333322  2222222   223     9999999999996411 000                  001


Q ss_pred             HHHHHH---HhC-C-eEEEEeCCCCCCHHHHHHHHHHHH
Q psy2600          86 HAKLAQ---SLH-L-HSFAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        86 ~~~~~~---~~~-~-~~~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      .+.+++   .++ . .++.+|+.++.++.+++..+-+.+
T Consensus       198 ~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  198 NEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             HHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            111222   223 3 689999999999999998876653

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK12739 elongation factor G; Reviewed

Probab=97.18  E-value=0.007  Score=52.02  Aligned_cols=28  Identities=11%  Similarity=-0.248  Sum_probs=23.4

Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      +++..||.++.|+..+++.+++.++...
T Consensus       254 Pv~~gSa~~~~Gv~~LLd~I~~~lPsP~  281 (691)
T PRK12739        254 PVLCGSAFKNKGVQPLLDAVVDYLPSPL  281 (691)
T ss_pred             EEEeccccCCccHHHHHHHHHHHCCChh
Confidence            4677899999999999999999887654

>KOG0090|consensus

Probab=97.16  E-value=0.0073  Score=44.29  Aligned_cols=43  Identities=16%  Similarity=0.272  Sum_probs=26.0

Q ss_pred             EEEEEECCC-hhHHhhHHHHHHHHh-hh--cCCCCCcEEEEEEeCCCCC
Q psy2600          32 VIFMYDITS-GQSFHSIPTWVDLFH-LN--RKSSTPTYVALVANKGDME   76 (158)
Q Consensus        32 ~i~v~d~~~-~~s~~~~~~~~~~~~-~~--~~~~~~~piilv~nK~Dl~   76 (158)
                      ++||.|..- .....+.-.++-.+. ..  ....  +|++++.||.|+.
T Consensus       112 iVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~--~~vLIaCNKqDl~  158 (238)
T KOG0090|consen  112 IVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNK--PPVLIACNKQDLF  158 (238)
T ss_pred             EEEEEeccccchhhHHHHHHHHHHHHhhccccCC--CCEEEEecchhhh
Confidence            888888653 333334434444443 22  1222  8999999999985

>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=97.15  E-value=0.0017  Score=42.71  Aligned_cols=13  Identities=38%  Similarity=0.887  Sum_probs=10.4

Q ss_pred             EEEEECCCCCCeE
Q psy2600          19 KVVLLGDPSCGKI   31 (158)
Q Consensus        19 ki~~~G~~~vgk~   31 (158)
                      +|+++|.+++|||
T Consensus         1 ~V~iiG~~~~GKS   13 (116)
T PF01926_consen    1 RVAIIGRPNVGKS   13 (116)
T ss_dssp             EEEEEESTTSSHH
T ss_pred             CEEEECCCCCCHH
Confidence            5778888888887

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 ....

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.13  E-value=0.0012  Score=46.94  Aligned_cols=42  Identities=17%  Similarity=0.154  Sum_probs=26.3

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHH--HhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDL--FHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~--~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      |.+++|.|+.++-+..+ ..+.+.  +...+     .|.++|.||+|+..
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~l~~~~-----kp~IlVlNK~DL~~   44 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVLQAGGN-----KKLVLVLNKIDLVP   44 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHHhccCC-----CCEEEEEehhhcCC
Confidence            45789999877533221 223333  22222     89999999999853

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

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

Probab=97.08  E-value=0.0056  Score=46.67  Aligned_cols=44  Identities=14%  Similarity=-0.050  Sum_probs=28.8

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      ..+++++|.|.++...- ....++..+....     +|++++.||+|+.+
T Consensus        87 ~aD~ailVVDa~~g~~~-~t~~~~~~~~~~~-----~p~ivviNK~D~~~  130 (270)
T cd01886          87 VLDGAVAVFDAVAGVEP-QTETVWRQADRYN-----VPRIAFVNKMDRTG  130 (270)
T ss_pred             HcCEEEEEEECCCCCCH-HHHHHHHHHHHcC-----CCEEEEEECCCCCC
Confidence            44669999998764221 1223444444443     89999999999864

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

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.01  E-value=0.0021  Score=49.41  Aligned_cols=55  Identities=16%  Similarity=0.105  Sum_probs=38.4

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHh--CCeEEEEeCCCCCCHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSL--HLHSFAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      ..-++|.||+|+........+......+..  ...++.+||++|+|++++.++|...
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            456999999998642111122333333333  4779999999999999999999764

>PRK00007 elongation factor G; Reviewed

Probab=97.00  E-value=0.014  Score=50.15  Aligned_cols=29  Identities=10%  Similarity=-0.219  Sum_probs=24.1

Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      ++++..||.++.|+..|++.+++.++...
T Consensus       255 ~Pv~~gSa~~~~Gv~~LLd~I~~~lPsP~  283 (693)
T PRK00007        255 VPVLCGSAFKNKGVQPLLDAVVDYLPSPL  283 (693)
T ss_pred             EEEEecccccCcCHHHHHHHHHHHCCChh
Confidence            34677899999999999999999887654

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=96.96  E-value=0.0021  Score=46.45  Aligned_cols=53  Identities=25%  Similarity=0.109  Sum_probs=40.3

Q ss_pred             EEEEEeCCCCCCCccccHHHHHHHHHHh--CCeEEEEeCCCCCCHHHHHHHHHHH
Q psy2600          66 VALVANKGDMEHQRVVTLERHAKLAQSL--HLHSFAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        66 iilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      =++|.||.||...-..+.+....-++..  +.+++++|+++|+|+++++.++...
T Consensus       145 DllVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~  199 (202)
T COG0378         145 DLLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQ  199 (202)
T ss_pred             eEEEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhh
Confidence            4789999999654344445566655554  4789999999999999998887654

>cd00066 G-alpha G protein alpha subunit

Probab=96.95  E-value=0.0089  Score=46.60  Aligned_cols=106  Identities=15%  Similarity=0.134  Sum_probs=65.4

Q ss_pred             ceEEEEEEECCCCC-----------CeEEEEEEECCCh----------hHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeC
Q psy2600          15 EIQLKVVLLGDPSC-----------GKIVIFMYDITSG----------QSFHSIPTWVDLFHLNRK-SSTPTYVALVANK   72 (158)
Q Consensus        15 ~~~~ki~~~G~~~v-----------gk~~i~v~d~~~~----------~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK   72 (158)
                      ++.++++.+|....           .++++||.|+++-          ..+.+....++.+..... .+  +|+++++||
T Consensus       160 ~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~--~pill~~NK  237 (317)
T cd00066         160 NLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFAN--TSIILFLNK  237 (317)
T ss_pred             ceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccC--CCEEEEccC
Confidence            46788898988753           2569999999873          345444444444443211 22  899999999


Q ss_pred             CCCCC----------------CccccHHHHHHHHHH-----h-----CCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          73 GDMEH----------------QRVVTLERHAKLAQS-----L-----HLHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        73 ~Dl~~----------------~~~~~~~~~~~~~~~-----~-----~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      .|+..                ....+.+.+..+...     .     .+-...++|.+-.++..+|+.+.+.+...
T Consensus       238 ~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~  313 (317)
T cd00066         238 KDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQN  313 (317)
T ss_pred             hHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHH
Confidence            99621                101123334333322     1     12245678888888888888888777654

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.

>PRK12740 elongation factor G; Reviewed

Probab=96.95  E-value=0.0068  Score=51.84  Aligned_cols=29  Identities=14%  Similarity=-0.152  Sum_probs=24.9

Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      ++++..||++|.|+..|++.++..++...
T Consensus       237 ~Pv~~gSA~~~~Gv~~LLd~i~~~lPsp~  265 (668)
T PRK12740        237 VPVFCGSALKNKGVQRLLDAVVDYLPSPL  265 (668)
T ss_pred             EEEEeccccCCccHHHHHHHHHHHCCChh
Confidence            34788999999999999999999887654

>TIGR00484 EF-G translation elongation factor EF-G

Probab=96.86  E-value=0.0082  Score=51.57  Aligned_cols=42  Identities=14%  Similarity=-0.039  Sum_probs=28.4

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      |++++|+|.++......... +..+....     +|+++++||+|+..
T Consensus       100 D~~ilVvda~~g~~~~~~~~-~~~~~~~~-----~p~ivviNK~D~~~  141 (689)
T TIGR00484       100 DGAVAVLDAVGGVQPQSETV-WRQANRYE-----VPRIAFVNKMDKTG  141 (689)
T ss_pred             CEEEEEEeCCCCCChhHHHH-HHHHHHcC-----CCEEEEEECCCCCC
Confidence            34999999987544443333 33344333     89999999999874

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=96.85  E-value=0.0048  Score=45.68  Aligned_cols=43  Identities=19%  Similarity=0.062  Sum_probs=28.9

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      .++++++|+|+++..+.+....| .......     +|+++|+||+|+.
T Consensus        96 ~aD~~ilVvD~~~g~~~~t~~~l-~~~~~~~-----~p~ilviNKiD~~  138 (222)
T cd01885          96 LCDGALVVVDAVEGVCVQTETVL-RQALKER-----VKPVLVINKIDRL  138 (222)
T ss_pred             hcCeeEEEEECCCCCCHHHHHHH-HHHHHcC-----CCEEEEEECCCcc
Confidence            44679999999876555433222 2222222     8899999999975

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

>smart00275 G_alpha G protein alpha subunit

Probab=96.83  E-value=0.034  Score=43.84  Aligned_cols=107  Identities=15%  Similarity=0.085  Sum_probs=65.3

Q ss_pred             ceEEEEEEECCCCC-----------CeEEEEEEECCCh----------hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCC
Q psy2600          15 EIQLKVVLLGDPSC-----------GKIVIFMYDITSG----------QSFHSIPTWVDLFHLNRKSSTPTYVALVANKG   73 (158)
Q Consensus        15 ~~~~ki~~~G~~~v-----------gk~~i~v~d~~~~----------~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~   73 (158)
                      .+.++++.+|..+.           .++++||.|+++-          ..+.+....++.+.+.. .....|++|++||.
T Consensus       183 ~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~-~~~~~piil~~NK~  261 (342)
T smart00275      183 KLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSR-WFANTSIILFLNKI  261 (342)
T ss_pred             CeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCc-cccCCcEEEEEecH
Confidence            35578899998752           3569999999862          34555555555554321 11128999999999


Q ss_pred             CCCCC---------------ccccHHHHHHHHHH-----h----C--CeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          74 DMEHQ---------------RVVTLERHAKLAQS-----L----H--LHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        74 Dl~~~---------------~~~~~~~~~~~~~~-----~----~--~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      |+...               ...+.+.+..+...     .    +  +-.+.|+|.+-.++..+|+.+...+...
T Consensus       262 D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~  336 (342)
T smart00275      262 DLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQR  336 (342)
T ss_pred             HhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHH
Confidence            97210               00122333333221     1    1  2245677888888999998888777654

Subunit of G proteins that contains the guanine nucleotide binding site

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=96.76  E-value=0.014  Score=47.73  Aligned_cols=78  Identities=14%  Similarity=0.104  Sum_probs=43.9

Q ss_pred             CCeEEEEEEECCChh---HH---hhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCC---C-ccc--cHHHHHHHHHHhC
Q psy2600          28 CGKIVIFMYDITSGQ---SF---HSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEH---Q-RVV--TLERHAKLAQSLH   94 (158)
Q Consensus        28 vgk~~i~v~d~~~~~---s~---~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~---~-~~~--~~~~~~~~~~~~~   94 (158)
                      ..|.+++|.|++...   .|   .+....+..+....     +| +|++.||+|...   . ...  ...+...+....+
T Consensus       108 ~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~g-----i~~iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g  182 (446)
T PTZ00141        108 QADVAILVVASTAGEFEAGISKDGQTREHALLAFTLG-----VKQMIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVG  182 (446)
T ss_pred             hcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcC-----CCeEEEEEEccccccchhhHHHHHHHHHHHHHHHHhcC
Confidence            446699999987531   11   12223333344333     55 789999999532   1 111  0112222333333


Q ss_pred             -----CeEEEEeCCCCCCHHH
Q psy2600          95 -----LHSFAVSARTGDNCWV  110 (158)
Q Consensus        95 -----~~~~~~Sa~~~~~i~~  110 (158)
                           ++++.+|+.+|.|+.+
T Consensus       183 ~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        183 YNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             CCcccceEEEeecccCCCccc
Confidence                 5689999999999864

>KOG3886|consensus

Probab=96.68  E-value=0.01  Score=44.26  Aligned_cols=43  Identities=14%  Similarity=0.250  Sum_probs=29.2

Q ss_pred             EEEEEECCChhHHhhHHH---HHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPT---WVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~---~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      +++|||+...+-..++..   .++.+.++.+.   ..+.+...|.|+..
T Consensus        85 li~vFDves~e~~~D~~~yqk~Le~ll~~SP~---AkiF~l~hKmDLv~  130 (295)
T KOG3886|consen   85 LIYVFDVESREMEKDFHYYQKCLEALLQNSPE---AKIFCLLHKMDLVQ  130 (295)
T ss_pred             eeeeeeccchhhhhhHHHHHHHHHHHHhcCCc---ceEEEEEeechhcc
Confidence            889999987654444443   44444455544   67888899999863

>COG3596 Predicted GTPase [General function prediction only]

Probab=96.66  E-value=0.018  Score=43.89  Aligned_cols=58  Identities=17%  Similarity=-0.002  Sum_probs=37.1

Q ss_pred             cEEEEEEeCCCCCCC--------ccc-------cHHHHHHHHHHh--CCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQ--------RVV-------TLERHAKLAQSL--HLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        64 ~piilv~nK~Dl~~~--------~~~-------~~~~~~~~~~~~--~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      .+++++.|.+|....        ..-       ..+++....+..  =.+++..|...+.|++++...++..+..
T Consensus       149 ~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~~~~~~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp~  223 (296)
T COG3596         149 KRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALGRLFQEVKPVVAVSGRLPWGLKELVRALITALPV  223 (296)
T ss_pred             ceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHHhhcCCeEEeccccCccHHHHHHHHHHhCcc
Confidence            789999999996322        111       111111111111  1357788889999999999999988764

>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=96.56  E-value=0.0039  Score=47.08  Aligned_cols=57  Identities=14%  Similarity=-0.014  Sum_probs=33.2

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHH---H----hCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQ---S----LHLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~---~----~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +.=++|.||+|.+.... ...+.+....   .    |..+++.|||.++.||+++++.+.+....
T Consensus       168 iaDi~vVNKaD~~gA~~-~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~~  231 (266)
T PF03308_consen  168 IADIFVVNKADRPGADR-TVRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRDY  231 (266)
T ss_dssp             H-SEEEEE--SHHHHHH-HHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHHH
T ss_pred             hccEEEEeCCChHHHHH-HHHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            44489999999643111 1112222221   1    22478999999999999999998875433

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.

>KOG1486|consensus

Probab=96.52  E-value=0.048  Score=41.29  Aligned_cols=51  Identities=22%  Similarity=0.005  Sum_probs=41.6

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      ++.+.|.||+|.     ++.++...+++..+  -+.+||.-+.|++.+++.++..+.-
T Consensus       239 ~~ClYvYnKID~-----vs~eevdrlAr~Pn--svViSC~m~lnld~lle~iWe~l~L  289 (364)
T KOG1486|consen  239 IKCLYVYNKIDQ-----VSIEEVDRLARQPN--SVVISCNMKLNLDRLLERIWEELNL  289 (364)
T ss_pred             EEEEEEeeccce-----ecHHHHHHHhcCCC--cEEEEeccccCHHHHHHHHHHHhce
Confidence            788999999994     45678888888754  3577899999999999999987754

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=96.50  E-value=0.033  Score=45.15  Aligned_cols=64  Identities=8%  Similarity=-0.000  Sum_probs=43.2

Q ss_pred             HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCC--CCHHHHHHHHHH
Q psy2600          47 IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTG--DNCWVNTRTPEI  117 (158)
Q Consensus        47 ~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~--~~i~~lf~~l~~  117 (158)
                      ...|++++++.+     +|+++|.||+|-....  +......+.+.++.+++.+||..-  ..|..++..++-
T Consensus       169 Ee~~i~eLk~~~-----kPfiivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~vL~  234 (492)
T TIGR02836       169 EERVIEELKELN-----KPFIILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDVESMRESDILSVLEEVLY  234 (492)
T ss_pred             HHHHHHHHHhcC-----CCEEEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHHHHh
Confidence            458999998776     9999999999932211  233445666778888888887643  345555554443

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

>cd01882 BMS1 Bms1

Probab=96.49  E-value=0.024  Score=41.98  Aligned_cols=73  Identities=12%  Similarity=0.176  Sum_probs=38.9

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCcc-ccH--HHHHH-HHHHh--CCeEEEEe
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRV-VTL--ERHAK-LAQSL--HLHSFAVS  101 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~-~~~--~~~~~-~~~~~--~~~~~~~S  101 (158)
                      .|.+++++|.+....... ..++..+....     .| +++|.||+|+.+... ...  ..... +....  +..++.+|
T Consensus       104 aDvVllviDa~~~~~~~~-~~i~~~l~~~g-----~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iS  177 (225)
T cd01882         104 ADLVLLLIDASFGFEMET-FEFLNILQVHG-----FPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLS  177 (225)
T ss_pred             cCEEEEEEecCcCCCHHH-HHHHHHHHHcC-----CCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEe
Confidence            455999999875332221 23344443333     56 456999999853221 110  11111 22221  35689999


Q ss_pred             CCCCCC
Q psy2600         102 ARTGDN  107 (158)
Q Consensus       102 a~~~~~  107 (158)
                      |++...
T Consensus       178 a~~~~~  183 (225)
T cd01882         178 GIVHGR  183 (225)
T ss_pred             eccCCC
Confidence            998743

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.

>KOG0461|consensus

Probab=96.41  E-value=0.014  Score=45.98  Aligned_cols=100  Identities=18%  Similarity=0.216  Sum_probs=59.8

Q ss_pred             EECCCCCCeEEEEEEECCChhHHhhHHH-HHHHHhhhcCCCCCcEEEEEEeCCCCCC--CccccHHH-HHHHHHHh----
Q psy2600          22 LLGDPSCGKIVIFMYDITSGQSFHSIPT-WVDLFHLNRKSSTPTYVALVANKGDMEH--QRVVTLER-HAKLAQSL----   93 (158)
Q Consensus        22 ~~G~~~vgk~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~--~~~~~~~~-~~~~~~~~----   93 (158)
                      ++|.+.+=|-.++|+|+....-.+..+. .+.++.  +     ...++|.||+|...  ++....++ ..++.+.+    
T Consensus        87 iiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~--c-----~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~  159 (522)
T KOG0461|consen   87 IIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELL--C-----KKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTG  159 (522)
T ss_pred             HHhhhheeeeeeEEEehhcccccccchhhhhhhhh--c-----cceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcC
Confidence            3566666677999999875322222221 222322  2     44688888888642  22211111 22222221    


Q ss_pred             --C-CeEEEEeCCCC----CCHHHHHHHHHHHHHHhHhhccc
Q psy2600          94 --H-LHSFAVSARTG----DNCWVNTRTPEINPLKYLQSNNE  128 (158)
Q Consensus        94 --~-~~~~~~Sa~~~----~~i~~lf~~l~~~~~~~~~~~~~  128 (158)
                        | .+++++||+.|    +.|.+|.+.+.+.+.+..+....
T Consensus       160 f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P~Rd~~g  201 (522)
T KOG0461|consen  160 FDGNSPIVEVSAADGYFKEEMIQELKEALESRIFEPKRDEEG  201 (522)
T ss_pred             cCCCCceeEEecCCCccchhHHHHHHHHHHHhhcCCCcCCCC
Confidence              2 57899999999    78888888888888877655444

>KOG1144|consensus

Probab=96.12  E-value=0.046  Score=47.05  Aligned_cols=33  Identities=12%  Similarity=-0.148  Sum_probs=26.8

Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHHhHhhccc
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEINPLKYLQSNNE  128 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~~~~~~~~~~~~  128 (158)
                      +++.|||.+|.||.+|+.+|++.....+.....
T Consensus       663 siVPTSA~sGeGipdLl~llv~ltQk~m~~kl~  695 (1064)
T KOG1144|consen  663 SIVPTSAISGEGIPDLLLLLVQLTQKTMVEKLA  695 (1064)
T ss_pred             EeeecccccCCCcHHHHHHHHHHHHHHHHHHHh
Confidence            467899999999999999999887766554443

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

Probab=95.96  E-value=0.064  Score=43.07  Aligned_cols=76  Identities=18%  Similarity=0.166  Sum_probs=42.5

Q ss_pred             EEEEEECCChh---HHhh---HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHH----HHHHHHHhC-----Ce
Q psy2600          32 VIFMYDITSGQ---SFHS---IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLER----HAKLAQSLH-----LH   96 (158)
Q Consensus        32 ~i~v~d~~~~~---s~~~---~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~----~~~~~~~~~-----~~   96 (158)
                      +|||.|..+.+   .|.-   .+...-..+...-    .-+|++.||.|+.+=.+-..++    ...+.+..|     ..
T Consensus       112 aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi----~~lIVavNKMD~v~wde~rf~ei~~~v~~l~k~~G~~~~~v~  187 (428)
T COG5256         112 AVLVVDARDGEFEAGFGVGGQTREHAFLARTLGI----KQLIVAVNKMDLVSWDEERFEEIVSEVSKLLKMVGYNPKDVP  187 (428)
T ss_pred             EEEEEECCCCccccccccCCchhHHHHHHHhcCC----ceEEEEEEcccccccCHHHHHHHHHHHHHHHHHcCCCccCCe
Confidence            99999987642   2211   1221212222221    5689999999987411111111    122333433     45


Q ss_pred             EEEEeCCCCCCHHHH
Q psy2600          97 SFAVSARTGDNCWVN  111 (158)
Q Consensus        97 ~~~~Sa~~~~~i~~l  111 (158)
                      |+.+|+..|.|+.+.
T Consensus       188 FIPiSg~~G~Nl~~~  202 (428)
T COG5256         188 FIPISGFKGDNLTKK  202 (428)
T ss_pred             EEecccccCCccccc
Confidence            999999999997654

>cd01899 Ygr210 Ygr210 subfamily

Probab=95.94  E-value=0.017  Score=45.06  Aligned_cols=54  Identities=15%  Similarity=0.005  Sum_probs=38.8

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHh-CCeEEEEeCCCCCCHHHHHH-HHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSL-HLHSFAVSARTGDNCWVNTR-TPEINPLK  121 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i~~lf~-~l~~~~~~  121 (158)
                      +|+|+|+||+|+.....    ....+.... ...++.+||+.+.++.++.+ .+.+.+++
T Consensus       215 KPvI~VlNK~Dl~~~~~----~~~~l~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe  270 (318)
T cd01899         215 KPMVIAANKADIPDAEN----NISKLRLKYPDEIVVPTSAEAELALRRAAKQGLIKYDPG  270 (318)
T ss_pred             CcEEEEEEHHHccChHH----HHHHHHhhCCCCeEEEEeCcccccHHHHHHhhHHHhCCC
Confidence            89999999999753221    111222233 45689999999999999997 58887754

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.

>KOG1143|consensus

Probab=95.92  E-value=0.17  Score=40.51  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=18.0

Q ss_pred             CCCCcceEEEEEEECCCCCCeE
Q psy2600          10 HNDNYEIQLKVVLLGDPSCGKI   31 (158)
Q Consensus        10 ~~~~~~~~~ki~~~G~~~vgk~   31 (158)
                      .+.-.-+.++++++|+.-+||+
T Consensus       160 Pd~QqfievRvAVlGg~D~GKS  181 (591)
T KOG1143|consen  160 PDSQQFIEVRVAVLGGCDVGKS  181 (591)
T ss_pred             CCcccceEEEEEEecCcccCcc
Confidence            3445558899999999999998

>COG1161 Predicted GTPases [General function prediction only]

Probab=95.86  E-value=0.022  Score=44.51  Aligned_cols=76  Identities=17%  Similarity=0.106  Sum_probs=48.3

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      .+.++-|.|+-++.+...     ..+......   .+.++|+||+||..... .......+.+..+...+.+++..+.+.
T Consensus        35 ~d~vvevvDar~P~~s~~-----~~l~~~v~~---k~~i~vlNK~DL~~~~~-~~~W~~~~~~~~~~~~~~v~~~~~~~~  105 (322)
T COG1161          35 VDVVVEVVDARDPLGTRN-----PELERIVKE---KPKLLVLNKADLAPKEV-TKKWKKYFKKEEGIKPIFVSAKSRQGG  105 (322)
T ss_pred             CCEEEEEEeccccccccC-----ccHHHHHcc---CCcEEEEehhhcCCHHH-HHHHHHHHHhcCCCccEEEEeecccCc
Confidence            356899999988765443     222222222   55599999999975332 333444455555666788888888876


Q ss_pred             HHHHH
Q psy2600         109 WVNTR  113 (158)
Q Consensus       109 ~~lf~  113 (158)
                      ..+..
T Consensus       106 ~~i~~  110 (322)
T COG1161         106 KKIRK  110 (322)
T ss_pred             cchHH
Confidence            66664

>KOG2486|consensus

Probab=95.81  E-value=0.0071  Score=46.13  Aligned_cols=54  Identities=15%  Similarity=-0.107  Sum_probs=32.2

Q ss_pred             cEEEEEEeCCCCCCCcc--c--cHHHHH----HHHHH---hCCeEEEEeCCCCCCHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRV--V--TLERHA----KLAQS---LHLHSFAVSARTGDNCWVNTRTPEI  117 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~--~--~~~~~~----~~~~~---~~~~~~~~Sa~~~~~i~~lf~~l~~  117 (158)
                      +|+.+|.||||....-.  -  ....+.    .+.+.   ...+++.+|+.++.|+++|..-+..
T Consensus       249 VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  249 VPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIRGVFLVDLPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             CCeEEeeehhhhhhhccccccCccccceeehhhccccceeccCCceeeecccccCceeeeeehhh
Confidence            99999999999632110  0  001111    11111   1245678999999999887765544

>PTZ00258 GTP-binding protein; Provisional

Probab=95.76  E-value=0.081  Score=42.50  Aligned_cols=43  Identities=12%  Similarity=0.044  Sum_probs=27.8

Q ss_pred             CcEEEEEEeCC--CC-CCCccccHHHHHHHHHHh-CCeEEEEeCCCCC
Q psy2600          63 PTYVALVANKG--DM-EHQRVVTLERHAKLAQSL-HLHSFAVSARTGD  106 (158)
Q Consensus        63 ~~piilv~nK~--Dl-~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~  106 (158)
                      .+|+++|+|+.  |+ ..... .......++... +..++.+||+...
T Consensus       220 ~KP~iyv~N~~E~D~~~~~~~-~~~~l~~~~~~~~~~~~v~~sa~~E~  266 (390)
T PTZ00258        220 AKPMIYLVNMSEKDFIRQKNK-WLAKIKEWVGEKGGGPIIPYSAEFEE  266 (390)
T ss_pred             cCCEEEEEECchhhhcccchH-HHHHHHHHHHhcCCCeEEEeeHHHHH
Confidence            38999999999  76 22211 223444555555 4778999986554

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

Probab=95.59  E-value=0.092  Score=42.46  Aligned_cols=84  Identities=13%  Similarity=0.035  Sum_probs=53.7

Q ss_pred             CCeEEEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh---CCeEEEEe
Q psy2600          28 CGKIVIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL---HLHSFAVS  101 (158)
Q Consensus        28 vgk~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~---~~~~~~~S  101 (158)
                      .-+.+++|.+.++   .++.+.+    .-+.....    .-.++|.+|+|..+...+ .+...+.....   ..++|.+|
T Consensus        73 ~~d~alLvV~~deGl~~qtgEhL----~iLdllgi----~~giivltk~D~~d~~r~-e~~i~~Il~~l~l~~~~i~~~s  143 (447)
T COG3276          73 GIDYALLVVAADEGLMAQTGEHL----LILDLLGI----KNGIIVLTKADRVDEARI-EQKIKQILADLSLANAKIFKTS  143 (447)
T ss_pred             CCceEEEEEeCccCcchhhHHHH----HHHHhcCC----CceEEEEeccccccHHHH-HHHHHHHHhhcccccccccccc
Confidence            3466999999864   3343332    22332221    346999999998653322 12222232222   35679999


Q ss_pred             CCCCCCHHHHHHHHHHHHH
Q psy2600         102 ARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus       102 a~~~~~i~~lf~~l~~~~~  120 (158)
                      +.+|.||++|.+.|.+...
T Consensus       144 ~~~g~GI~~Lk~~l~~L~~  162 (447)
T COG3276         144 AKTGRGIEELKNELIDLLE  162 (447)
T ss_pred             cccCCCHHHHHHHHHHhhh
Confidence            9999999999999999884

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

Probab=95.51  E-value=0.075  Score=43.51  Aligned_cols=88  Identities=18%  Similarity=0.027  Sum_probs=54.1

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc--ccHHHHHHHH------HHhCCeEEEEe
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV--VTLERHAKLA------QSLHLHSFAVS  101 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~------~~~~~~~~~~S  101 (158)
                      |+++++.|+.+. ..-+.+--+....+..     .+-|+|.||+|.+..+.  +-++...-|.      ++++++++..|
T Consensus        93 DgvlLlVDA~EG-pMPQTrFVlkKAl~~g-----L~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdFPivYAS  166 (603)
T COG1217          93 DGVLLLVDASEG-PMPQTRFVLKKALALG-----LKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDFPIVYAS  166 (603)
T ss_pred             ceEEEEEEcccC-CCCchhhhHHHHHHcC-----CCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCCcEEEee
Confidence            569999998752 2222222222333333     44588999999875332  2222222232      24567889999


Q ss_pred             CCCCC----------CHHHHHHHHHHHHHHhH
Q psy2600         102 ARTGD----------NCWVNTRTPEINPLKYL  123 (158)
Q Consensus       102 a~~~~----------~i~~lf~~l~~~~~~~~  123 (158)
                      ++.|.          +..-||+.|++.++...
T Consensus       167 ~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P~  198 (603)
T COG1217         167 ARNGTASLDPEDEADDMAPLFETILDHVPAPK  198 (603)
T ss_pred             ccCceeccCccccccchhHHHHHHHHhCCCCC
Confidence            99873          57889999998887664

>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=95.48  E-value=0.077  Score=38.85  Aligned_cols=14  Identities=43%  Similarity=0.840  Sum_probs=12.3

Q ss_pred             EEEEEECCCCCCeE
Q psy2600          18 LKVVLLGDPSCGKI   31 (158)
Q Consensus        18 ~ki~~~G~~~vgk~   31 (158)
                      ++|+++|..|+|||
T Consensus         1 l~IlllG~tGsGKS   14 (212)
T PF04548_consen    1 LRILLLGKTGSGKS   14 (212)
T ss_dssp             EEEEEECSTTSSHH
T ss_pred             CEEEEECCCCCCHH
Confidence            47899999999998

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 ....

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=95.31  E-value=0.12  Score=41.25  Aligned_cols=76  Identities=14%  Similarity=-0.028  Sum_probs=36.7

Q ss_pred             HHhhHHHHHH-HHhhhcCCCCCcEEEEEEeCCCCC-------CCccccHHH----HHHH-HHH---hC---CeEEEEeCC
Q psy2600          43 SFHSIPTWVD-LFHLNRKSSTPTYVALVANKGDME-------HQRVVTLER----HAKL-AQS---LH---LHSFAVSAR  103 (158)
Q Consensus        43 s~~~~~~~~~-~~~~~~~~~~~~piilv~nK~Dl~-------~~~~~~~~~----~~~~-~~~---~~---~~~~~~Sa~  103 (158)
                      .|.....|+. .+.+..     +++.+|-+|+|..       ..+....++    .++. .+.   .|   ..+|-+|+.
T Consensus       125 rf~~ndv~La~~i~~~g-----K~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~k~gv~~P~VFLVS~~  199 (376)
T PF05049_consen  125 RFTENDVQLAKEIQRMG-----KKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQKAGVSEPQVFLVSSF  199 (376)
T ss_dssp             S--HHHHHHHHHHHHTT------EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHHCTT-SS--EEEB-TT
T ss_pred             CCchhhHHHHHHHHHcC-----CcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHHHcCCCcCceEEEeCC
Confidence            3544444443 344444     8999999999951       111222222    2221 222   23   258899998


Q ss_pred             CC--CCHHHHHHHHHHHHHHhH
Q psy2600         104 TG--DNCWVNTRTPEINPLKYL  123 (158)
Q Consensus       104 ~~--~~i~~lf~~l~~~~~~~~  123 (158)
                      +-  .+...|.+.+.+.+....
T Consensus       200 dl~~yDFp~L~~tL~~dLp~~K  221 (376)
T PF05049_consen  200 DLSKYDFPKLEETLEKDLPAHK  221 (376)
T ss_dssp             TTTSTTHHHHHHHHHHHS-GGG
T ss_pred             CcccCChHHHHHHHHHHhHHHH
Confidence            74  457788888888776543

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=95.27  E-value=0.19  Score=38.86  Aligned_cols=94  Identities=14%  Similarity=0.048  Sum_probs=52.7

Q ss_pred             EEEEECCCCCCeE----------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc--cHHHH
Q psy2600          19 KVVLLGDPSCGKI----------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV--TLERH   86 (158)
Q Consensus        19 ki~~~G~~~vgk~----------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~   86 (158)
                      -++++--.|+|.+          +++|.-+.--+.   +.-...-+-+       +-=++|.||.|.......  ....+
T Consensus       145 DvIIVETVGvGQsev~I~~~aDt~~~v~~pg~GD~---~Q~iK~GimE-------iaDi~vINKaD~~~A~~a~r~l~~a  214 (323)
T COG1703         145 DVIIVETVGVGQSEVDIANMADTFLVVMIPGAGDD---LQGIKAGIME-------IADIIVINKADRKGAEKAARELRSA  214 (323)
T ss_pred             CEEEEEecCCCcchhHHhhhcceEEEEecCCCCcH---HHHHHhhhhh-------hhheeeEeccChhhHHHHHHHHHHH
Confidence            4566666676655          555553332233   3222222222       344899999996432110  00011


Q ss_pred             HHHHH----H--hCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          87 AKLAQ----S--LHLHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        87 ~~~~~----~--~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      ..+..    .  |..+++.|||..|+||.+|++.+.+.....
T Consensus       215 l~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~  256 (323)
T COG1703         215 LDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFL  256 (323)
T ss_pred             HHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHH
Confidence            11111    1  224589999999999999999998776544

>KOG0410|consensus

Probab=95.11  E-value=0.017  Score=45.06  Aligned_cols=80  Identities=20%  Similarity=0.143  Sum_probs=51.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCC--CcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSST--PTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      ++-|-|++.|..-++...-+.-+++..-...  -..++=|-||+|...... .       .+.++  .+.+||.+|.|.+
T Consensus       261 llHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~-e-------~E~n~--~v~isaltgdgl~  330 (410)
T KOG0410|consen  261 LLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEV-E-------EEKNL--DVGISALTGDGLE  330 (410)
T ss_pred             EEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccC-c-------cccCC--ccccccccCccHH
Confidence            8899999998776666655555554442110  022556778888643211 1       12222  5688999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      ++...+-.....
T Consensus       331 el~~a~~~kv~~  342 (410)
T KOG0410|consen  331 ELLKAEETKVAS  342 (410)
T ss_pred             HHHHHHHHHhhh
Confidence            999887766554

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=95.02  E-value=0.048  Score=41.88  Aligned_cols=62  Identities=11%  Similarity=0.134  Sum_probs=28.6

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc--HHHHHHHHHHhCCeEEEE
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT--LERHAKLAQSLHLHSFAV  100 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~  100 (158)
                      |||+++++... +..+ .....++...      +++|.|..|+|.....++.  ......-.+.+++.+|.-
T Consensus       117 cLYfI~pt~~~-L~~~Di~~mk~Ls~~------vNvIPvIaKaD~lt~~el~~~k~~i~~~l~~~~I~~f~f  181 (281)
T PF00735_consen  117 CLYFIPPTGHG-LKPLDIEFMKRLSKR------VNVIPVIAKADTLTPEELQAFKQRIREDLEENNIKIFDF  181 (281)
T ss_dssp             EEEEE-TTSSS-S-HHHHHHHHHHTTT------SEEEEEESTGGGS-HHHHHHHHHHHHHHHHHTT--S---
T ss_pred             EEEEEcCCCcc-chHHHHHHHHHhccc------ccEEeEEecccccCHHHHHHHHHHHHHHHHHcCceeecc
Confidence            88888876532 2221 1233333322      8899999999975432221  122333344567765553

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.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=94.86  E-value=0.12  Score=40.23  Aligned_cols=17  Identities=24%  Similarity=0.472  Sum_probs=15.2

Q ss_pred             ceEEEEEEECCCCCCeE
Q psy2600          15 EIQLKVVLLGDPSCGKI   31 (158)
Q Consensus        15 ~~~~ki~~~G~~~vgk~   31 (158)
                      ...++|+++|.+|+|||
T Consensus        36 ~~~~rIllvGktGVGKS   52 (313)
T TIGR00991        36 VSSLTILVMGKGGVGKS   52 (313)
T ss_pred             ccceEEEEECCCCCCHH
Confidence            46789999999999998

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=94.77  E-value=0.15  Score=38.50  Aligned_cols=82  Identities=16%  Similarity=0.193  Sum_probs=46.0

Q ss_pred             CCcceEEEEEEECCCCCCeE----------------------------------EEEEEECCChhHH--hh--HHHHHHH
Q psy2600          12 DNYEIQLKVVLLGDPSCGKI----------------------------------VIFMYDITSGQSF--HS--IPTWVDL   53 (158)
Q Consensus        12 ~~~~~~~ki~~~G~~~vgk~----------------------------------~i~v~d~~~~~s~--~~--~~~~~~~   53 (158)
                      +..+..++|+++|.+|+|||                                  -+.++|.-.-...  +.  ....+..
T Consensus        26 ~~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~~~~~~~~~~~~~~  105 (249)
T cd01853          26 EELDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDGFKLNIIDTPGLLESVMDQRVNRKILSS  105 (249)
T ss_pred             hhccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCeEEEEEECCCcCcchhhHHHHHHHHHH
Confidence            35567889999999999998                                  3566775332111  11  1223333


Q ss_pred             HhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC
Q psy2600          54 FHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH   94 (158)
Q Consensus        54 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~   94 (158)
                      +..+.... .+++++..++.|.......+....+.+.+.+|
T Consensus       106 I~~~l~~~-~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG  145 (249)
T cd01853         106 IKRYLKKK-TPDVVLYVDRLDMYRRDYLDLPLLRAITDSFG  145 (249)
T ss_pred             HHHHHhcc-CCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhC
Confidence            33222110 17789999999975433332233444444444

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.

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

Probab=94.53  E-value=0.27  Score=38.99  Aligned_cols=76  Identities=21%  Similarity=0.229  Sum_probs=47.3

Q ss_pred             CCCeEEEEEEECCChhHHhhHH--HHHHHHhhhcCCCCCcEEEEEEeCCCCCC-Ccccc---HHHHHHHHHHhCC---eE
Q psy2600          27 SCGKIVIFMYDITSGQSFHSIP--TWVDLFHLNRKSSTPTYVALVANKGDMEH-QRVVT---LERHAKLAQSLHL---HS   97 (158)
Q Consensus        27 ~vgk~~i~v~d~~~~~s~~~~~--~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~~~~~---~~~~~~~~~~~~~---~~   97 (158)
                      +.++.+|++.|+-. .-+++.+  .++..+...      ..+++..||.||.. +++.-   ..+...+++++++   .+
T Consensus       108 STadlAIlLVDAR~-Gvl~QTrRHs~I~sLLGI------rhvvvAVNKmDLvdy~e~~F~~I~~dy~~fa~~L~~~~~~~  180 (431)
T COG2895         108 STADLAILLVDARK-GVLEQTRRHSFIASLLGI------RHVVVAVNKMDLVDYSEEVFEAIVADYLAFAAQLGLKDVRF  180 (431)
T ss_pred             ccccEEEEEEecch-hhHHHhHHHHHHHHHhCC------cEEEEEEeeecccccCHHHHHHHHHHHHHHHHHcCCCcceE
Confidence            35577999999732 2233322  233333321      56899999999974 22211   1234557777774   58


Q ss_pred             EEEeCCCCCCHH
Q psy2600          98 FAVSARTGDNCW  109 (158)
Q Consensus        98 ~~~Sa~~~~~i~  109 (158)
                      +.+||..|.||-
T Consensus       181 IPiSAl~GDNV~  192 (431)
T COG2895         181 IPISALLGDNVV  192 (431)
T ss_pred             EechhccCCccc
Confidence            999999998864

>KOG2423|consensus

Probab=94.23  E-value=0.3  Score=39.42  Aligned_cols=86  Identities=13%  Similarity=0.041  Sum_probs=51.6

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      .|.+|-|.|+-|+....- ...-..++...+   +..+|+|.|||||.. ..++......+.+.+..--|..|..+..|=
T Consensus       214 SDVvvqVlDARDPmGTrc-~~ve~ylkke~p---hKHli~vLNKvDLVP-twvt~~Wv~~lSkeyPTiAfHAsi~nsfGK  288 (572)
T KOG2423|consen  214 SDVVVQVLDARDPMGTRC-KHVEEYLKKEKP---HKHLIYVLNKVDLVP-TWVTAKWVRHLSKEYPTIAFHASINNSFGK  288 (572)
T ss_pred             cceeEEeeeccCCccccc-HHHHHHHhhcCC---cceeEEEeecccccc-HHHHHHHHHHHhhhCcceeeehhhcCccch
Confidence            355999999988643221 122222222222   277999999999964 234455566666666655578887777775


Q ss_pred             HHHHHHHHHHH
Q psy2600         109 WVNTRTPEINP  119 (158)
Q Consensus       109 ~~lf~~l~~~~  119 (158)
                      ..+++.+-+..
T Consensus       289 galI~llRQf~  299 (572)
T KOG2423|consen  289 GALIQLLRQFA  299 (572)
T ss_pred             hHHHHHHHHHH
Confidence            55555544443

>PRK09602 translation-associated GTPase; Reviewed

Probab=94.16  E-value=0.095  Score=42.21  Aligned_cols=52  Identities=15%  Similarity=0.010  Sum_probs=35.4

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH-HHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV-NTRTPEINP  119 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~-lf~~l~~~~  119 (158)
                      +|+++|+||+|+....    .....+.+..+..++.+||..+.++.+ +.+.+++.+
T Consensus       218 KPvI~VlNK~D~~~~~----~~l~~i~~~~~~~vvpISA~~e~~l~~~l~~~i~~~l  270 (396)
T PRK09602        218 KPMVIAANKADLPPAE----ENIERLKEEKYYIVVPTSAEAELALRRAAKAGLIDYI  270 (396)
T ss_pred             CCEEEEEEchhcccch----HHHHHHHhcCCCcEEEEcchhhhhHHHHHHHhHHhhC
Confidence            8999999999975321    112222222345689999999999988 666665554

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=93.88  E-value=0.11  Score=45.10  Aligned_cols=43  Identities=14%  Similarity=-0.070  Sum_probs=25.9

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      .+|++|+|+|..+.-..+....|.. +....     +|.++++||+|..
T Consensus       109 ~aD~~llVvda~~g~~~~t~~~~~~-~~~~~-----~p~ivviNKiD~~  151 (720)
T TIGR00490       109 AVDGAIVVVCAVEGVMPQTETVLRQ-ALKEN-----VKPVLFINKVDRL  151 (720)
T ss_pred             hcCEEEEEEecCCCCCccHHHHHHH-HHHcC-----CCEEEEEEChhcc
Confidence            3456999999876322222222322 22222     6778999999974

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.

>KOG1424|consensus

Probab=93.38  E-value=0.17  Score=41.78  Aligned_cols=64  Identities=23%  Similarity=0.251  Sum_probs=41.9

Q ss_pred             eEEEEEEECCChhHHhh--HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH---HhCCeEEEEeCCC
Q psy2600          30 KIVIFMYDITSGQSFHS--IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ---SLHLHSFAVSART  104 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~  104 (158)
                      |.+|.+.|+-++--|..  +..++.+..   ..   +-.+|+.||+||..     .+....|++   +.++.+++-||..
T Consensus       176 DivvqIVDARnPllfr~~dLe~Yvke~d---~~---K~~~LLvNKaDLl~-----~~qr~aWa~YF~~~ni~~vf~SA~~  244 (562)
T KOG1424|consen  176 DIVVQIVDARNPLLFRSPDLEDYVKEVD---PS---KANVLLVNKADLLP-----PEQRVAWAEYFRQNNIPVVFFSALA  244 (562)
T ss_pred             ceEEEEeecCCccccCChhHHHHHhccc---cc---cceEEEEehhhcCC-----HHHHHHHHHHHHhcCceEEEEeccc
Confidence            56888899888755543  233444332   22   56799999999964     334445544   4468888888876

>KOG0466|consensus

Probab=93.27  E-value=0.065  Score=41.70  Aligned_cols=60  Identities=17%  Similarity=-0.003  Sum_probs=44.4

Q ss_pred             cEEEEEEeCCCCCCCcc--ccHHHHHHHHHH---hCCeEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          64 TYVALVANKGDMEHQRV--VTLERHAKLAQS---LHLHSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~--~~~~~~~~~~~~---~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      ..++++-||+||....+  ...++...|.+.   -+.+++.+||.-+.||+.+.+.+++.++...
T Consensus       180 khiiilQNKiDli~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvPv  244 (466)
T KOG0466|consen  180 KHIIILQNKIDLIKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVPV  244 (466)
T ss_pred             ceEEEEechhhhhhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCCc
Confidence            67899999999864222  123334445443   2568999999999999999999999987654

>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=92.84  E-value=0.59  Score=37.45  Aligned_cols=102  Identities=14%  Similarity=0.111  Sum_probs=58.5

Q ss_pred             ceEEEEEEECCCCCC-----------eEEEEEEECCC----------hhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeC
Q psy2600          15 EIQLKVVLLGDPSCG-----------KIVIFMYDITS----------GQSFHSIPTWVDLFHLN-RKSSTPTYVALVANK   72 (158)
Q Consensus        15 ~~~~ki~~~G~~~vg-----------k~~i~v~d~~~----------~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK   72 (158)
                      ...++++.+|+.+..           +++|||.++++          ...+.+.....+.+... .-.+  .|++|+.||
T Consensus       235 ~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~--~~iil~lnK  312 (389)
T PF00503_consen  235 SRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKN--TPIILFLNK  312 (389)
T ss_dssp             TEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTT--SEEEEEEE-
T ss_pred             ccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCccccc--CceEEeeec
Confidence            346799999999833           57999999764          12233333444444421 1122  999999999


Q ss_pred             CCCC-----CCc-----------c--ccHHHHHHHHHH--------h----CCeEEEEeCCCCCCHHHHHHHHHHH
Q psy2600          73 GDME-----HQR-----------V--VTLERHAKLAQS--------L----HLHSFAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        73 ~Dl~-----~~~-----------~--~~~~~~~~~~~~--------~----~~~~~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      .|+.     ...           .  -+.+.+..+...        .    .+-+..|+|.+..++..+|..+.+.
T Consensus       313 ~D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~~~v~~~  388 (389)
T PF00503_consen  313 IDLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVFNAVKDI  388 (389)
T ss_dssp             HHHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHHHHhcCc
Confidence            9962     110           0  122334443331        1    1124567777777888888877654

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 ....

>KOG0780|consensus

Probab=92.72  E-value=0.9  Score=36.62  Aligned_cols=89  Identities=9%  Similarity=0.016  Sum_probs=60.5

Q ss_pred             EEEECCCCCCeE-----------------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc
Q psy2600          20 VVLLGDPSCGKI-----------------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT   82 (158)
Q Consensus        20 i~~~G~~~vgk~-----------------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~   82 (158)
                      |.++|-.|+||+                 +++|-|.=....|+++..|....+        +|+..-++++|-.   .+.
T Consensus       104 imfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~--------iP~ygsyte~dpv---~ia  172 (483)
T KOG0780|consen  104 IMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKAR--------VPFYGSYTEADPV---KIA  172 (483)
T ss_pred             EEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhC--------CeeEecccccchH---HHH
Confidence            789999999998                 888888777778888877776664        9999888888832   122


Q ss_pred             HHHHHHHHHHhCCe--EEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          83 LERHAKLAQSLHLH--SFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        83 ~~~~~~~~~~~~~~--~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                       .++-.-.++.+++  ++.||-+..+. ..||+.+.+....
T Consensus       173 -~egv~~fKke~fdvIIvDTSGRh~qe-~sLfeEM~~v~~a  211 (483)
T KOG0780|consen  173 -SEGVDRFKKENFDVIIVDTSGRHKQE-ASLFEEMKQVSKA  211 (483)
T ss_pred             -HHHHHHHHhcCCcEEEEeCCCchhhh-HHHHHHHHHHHhh
Confidence             2333333344444  45666666655 5688877765443

>KOG0458|consensus

Probab=92.53  E-value=1.5  Score=36.97  Aligned_cols=75  Identities=16%  Similarity=0.157  Sum_probs=43.1

Q ss_pred             EEEEEECCChhHHhh-------HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHH----HHHH-HHhC-----
Q psy2600          32 VIFMYDITSGQSFHS-------IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERH----AKLA-QSLH-----   94 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~-------~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~----~~~~-~~~~-----   94 (158)
                      +++|.|.+. ..|+.       .+.....++..+-    .-++++.||.|+..=.+-..+++    ..|. +..|     
T Consensus       282 avLvvd~s~-~~FE~gfd~~gQtrEha~llr~Lgi----~qlivaiNKmD~V~Wsq~RF~eIk~~l~~fL~~~~gf~es~  356 (603)
T KOG0458|consen  282 AVLVVDAST-GEFESGFDPGGQTREHALLLRSLGI----SQLIVAINKMDLVSWSQDRFEEIKNKLSSFLKESCGFKESS  356 (603)
T ss_pred             EEEEEECCc-chhhhccCCCCchHHHHHHHHHcCc----ceEEEEeecccccCccHHHHHHHHHHHHHHHHHhcCcccCC
Confidence            999999864 33333       3333333333332    56899999999863111111121    1222 3333     


Q ss_pred             CeEEEEeCCCCCCHHHH
Q psy2600          95 LHSFAVSARTGDNCWVN  111 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~l  111 (158)
                      +.|+.||+..|+|+...
T Consensus       357 v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  357 VKFIPISGLSGENLIKI  373 (603)
T ss_pred             cceEecccccCCccccc
Confidence            46999999999996544

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=92.43  E-value=0.47  Score=43.46  Aligned_cols=43  Identities=16%  Similarity=0.099  Sum_probs=27.2

Q ss_pred             EEEEEECCChh-----HH----hhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQ-----SF----HSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        32 ~i~v~d~~~~~-----s~----~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      +|+++|+.+.-     ..    ..++..+.++.+.-.-.  .|+.+|.+|||+.
T Consensus       205 vil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~--~PVYvv~Tk~Dll  256 (1169)
T TIGR03348       205 VVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGAR--FPVYLVLTKADLL  256 (1169)
T ss_pred             EEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCC--CCEEEEEecchhh
Confidence            88999876521     11    12344555555332323  9999999999975

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=92.10  E-value=1.4  Score=30.91  Aligned_cols=63  Identities=16%  Similarity=0.189  Sum_probs=42.7

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFA   99 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   99 (158)
                      ..|.++++...+ ..+......+++.++...     .++.+|.||+|....   ...+..++.+.+|++++.
T Consensus       114 ~aD~vliv~~~~-~~~~~~~~~~~~~l~~~~-----~~~~vV~N~~~~~~~---~~~~~~~~~~~~~~~vl~  176 (179)
T cd03110         114 GADAALLVTEPT-PSGLHDLERAVELVRHFG-----IPVGVVINKYDLNDE---IAEEIEDYCEEEGIPILG  176 (179)
T ss_pred             cCCEEEEEecCC-cccHHHHHHHHHHHHHcC-----CCEEEEEeCCCCCcc---hHHHHHHHHHHcCCCeEE
Confidence            346688888776 446666777777666543     678899999996432   234566777777877653

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=92.04  E-value=1.5  Score=37.22  Aligned_cols=98  Identities=16%  Similarity=0.171  Sum_probs=63.1

Q ss_pred             ccccccccCCCCcceEEEEEEECCCCCCeE--------------------------------------------------
Q psy2600           2 LEVKMLNLHNDNYEIQLKVVLLGDPSCGKI--------------------------------------------------   31 (158)
Q Consensus         2 ~~~~~~~~~~~~~~~~~ki~~~G~~~vgk~--------------------------------------------------   31 (158)
                      +++.|+.+..+....-+=++++|.+|+||+                                                  
T Consensus        54 lhVPmvdrtp~d~PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~GPiTvvsgK~RRiTflEcp~Dl~~miDvaKI  133 (1077)
T COG5192          54 LHVPMVDRTPKDLPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPITVVSGKTRRITFLECPSDLHQMIDVAKI  133 (1077)
T ss_pred             cccccccCCcccCCCCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCCceEEeecceeEEEEEeChHHHHHHHhHHHh
Confidence            578888888777778888899999999998                                                  


Q ss_pred             ---EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHH-----HHHHHHh-CCeEEEEe
Q psy2600          32 ---VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERH-----AKLAQSL-HLHSFAVS  101 (158)
Q Consensus        32 ---~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~-----~~~~~~~-~~~~~~~S  101 (158)
                         +++++|.+-  .|+-. ..+++-+.....    +.++-|++..|+......-....     +-|.+-+ |..+|..|
T Consensus       134 aDLVlLlIdgnf--GfEMETmEFLnil~~HGm----PrvlgV~ThlDlfk~~stLr~~KKrlkhRfWtEiyqGaKlFyls  207 (1077)
T COG5192         134 ADLVLLLIDGNF--GFEMETMEFLNILISHGM----PRVLGVVTHLDLFKNPSTLRSIKKRLKHRFWTEIYQGAKLFYLS  207 (1077)
T ss_pred             hheeEEEecccc--CceehHHHHHHHHhhcCC----CceEEEEeecccccChHHHHHHHHHHhhhHHHHHcCCceEEEec
Confidence               667776543  34443 245555555542    44888999999965332111111     1122322 67788888


Q ss_pred             CCCC
Q psy2600         102 ARTG  105 (158)
Q Consensus       102 a~~~  105 (158)
                      -..+
T Consensus       208 gV~n  211 (1077)
T COG5192         208 GVEN  211 (1077)
T ss_pred             cccc
Confidence            7654

>PRK14974 cell division protein FtsY; Provisional

Probab=92.03  E-value=1.2  Score=35.21  Aligned_cols=41  Identities=10%  Similarity=0.002  Sum_probs=22.7

Q ss_pred             EEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHH
Q psy2600          67 ALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTR  113 (158)
Q Consensus        67 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~  113 (158)
                      -+|.||.|....    .-.+..++...+.++..++  +|++++++..
T Consensus       283 giIlTKlD~~~~----~G~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~~  323 (336)
T PRK14974        283 GVILTKVDADAK----GGAALSIAYVIGKPILFLG--VGQGYDDLIP  323 (336)
T ss_pred             EEEEeeecCCCC----ccHHHHHHHHHCcCEEEEe--CCCChhhccc
Confidence            556677775321    1233444445566766665  5777766544

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=91.90  E-value=1.4  Score=34.49  Aligned_cols=42  Identities=12%  Similarity=-0.016  Sum_probs=24.9

Q ss_pred             EEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHH
Q psy2600          66 VALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTR  113 (158)
Q Consensus        66 iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~  113 (158)
                      .-+|.||.|....    .-.+..++...++++..++  +|++++++-.
T Consensus       262 ~giIlTKlD~t~~----~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~~  303 (318)
T PRK10416        262 TGIILTKLDGTAK----GGVVFAIADELGIPIKFIG--VGEGIDDLQP  303 (318)
T ss_pred             CEEEEECCCCCCC----ccHHHHHHHHHCCCEEEEe--CCCChhhCcc
Confidence            3567778774321    2244555566677777776  6777665543

>PRK07560 elongation factor EF-2; Reviewed

Probab=91.75  E-value=0.84  Score=39.75  Aligned_cols=43  Identities=19%  Similarity=0.024  Sum_probs=27.2

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      .+|++|+|+|....-.-.....|.. .....     .|.+++.||+|+.
T Consensus       110 ~~D~avlVvda~~g~~~~t~~~~~~-~~~~~-----~~~iv~iNK~D~~  152 (731)
T PRK07560        110 AVDGAIVVVDAVEGVMPQTETVLRQ-ALRER-----VKPVLFINKVDRL  152 (731)
T ss_pred             hcCEEEEEEECCCCCCccHHHHHHH-HHHcC-----CCeEEEEECchhh
Confidence            4577999999876433222233332 23222     6779999999975

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=91.36  E-value=3.8  Score=33.61  Aligned_cols=69  Identities=7%  Similarity=0.002  Sum_probs=45.2

Q ss_pred             hhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCC--CCHHHHHHHHH
Q psy2600          41 GQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTG--DNCWVNTRTPE  116 (158)
Q Consensus        41 ~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~--~~i~~lf~~l~  116 (158)
                      ++++... ..-++++++..     +|++++.|-.+-...  .+.+-+..+.++++.+++.++|..-  ..|..++..++
T Consensus       162 Re~Y~eAEervI~ELk~ig-----KPFvillNs~~P~s~--et~~L~~eL~ekY~vpVlpvnc~~l~~~DI~~Il~~vL  233 (492)
T PF09547_consen  162 RENYVEAEERVIEELKEIG-----KPFVILLNSTKPYSE--ETQELAEELEEKYDVPVLPVNCEQLREEDITRILEEVL  233 (492)
T ss_pred             hHHHHHHHHHHHHHHHHhC-----CCEEEEEeCCCCCCH--HHHHHHHHHHHHhCCcEEEeehHHcCHHHHHHHHHHHH
Confidence            3455444 46777887766     999999999884332  2345567788889999988887643  23444444433

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.

>smart00053 DYNc Dynamin, GTPase

Probab=91.19  E-value=0.65  Score=34.88  Aligned_cols=41  Identities=7%  Similarity=-0.061  Sum_probs=22.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      +++|.|.+..-.-++...+...+...   .  .++++|.||+|...
T Consensus       166 IL~Vvda~~d~~~~d~l~ia~~ld~~---~--~rti~ViTK~D~~~  206 (240)
T smart00053      166 ILAVTPANVDLANSDALKLAKEVDPQ---G--ERTIGVITKLDLMD  206 (240)
T ss_pred             EEEEEECCCCCCchhHHHHHHHHHHc---C--CcEEEEEECCCCCC
Confidence            67777764321111222333333322   2  78999999999764

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>KOG0463|consensus

Probab=91.07  E-value=2.2  Score=34.48  Aligned_cols=19  Identities=26%  Similarity=0.559  Sum_probs=16.0

Q ss_pred             Ccc-eEEEEEEECCCCCCeE
Q psy2600          13 NYE-IQLKVVLLGDPSCGKI   31 (158)
Q Consensus        13 ~~~-~~~ki~~~G~~~vgk~   31 (158)
                      ..| +.+++.++|+.-.||+
T Consensus       128 ~~DF~E~RVAVVGNVDAGKS  147 (641)
T KOG0463|consen  128 EKDFIEARVAVVGNVDAGKS  147 (641)
T ss_pred             CccceeEEEEEEecccCCcc
Confidence            344 6789999999999998

>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=90.90  E-value=4.4  Score=28.78  Aligned_cols=67  Identities=13%  Similarity=0.083  Sum_probs=46.4

Q ss_pred             HhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHH
Q psy2600          44 FHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTP  115 (158)
Q Consensus        44 ~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l  115 (158)
                      ..++..|++++++....   .-+++|-|-.-...  .....+++.+.+.+|++++.-+++.-.+..++...+
T Consensus        61 ~~~~~~~~~~l~~~~~~---~~v~IvSNsaGs~~--d~~~~~a~~~~~~lgIpvl~h~~kKP~~~~~i~~~~  127 (168)
T PF09419_consen   61 PPEYAEWLNELKKQFGK---DRVLIVSNSAGSSD--DPDGERAEALEKALGIPVLRHRAKKPGCFREILKYF  127 (168)
T ss_pred             CHHHHHHHHHHHHHCCC---CeEEEEECCCCccc--CccHHHHHHHHHhhCCcEEEeCCCCCccHHHHHHHH
Confidence            34567899999865432   24788888764322  234678889999999999888887776666555544

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.

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=90.71  E-value=4  Score=33.12  Aligned_cols=26  Identities=19%  Similarity=-0.003  Sum_probs=18.0

Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      .++|.+|+.+|.|++-| ..+...++.
T Consensus       314 vPi~~tSsVTg~GldlL-~e~f~~Lp~  339 (527)
T COG5258         314 VPIFYTSSVTGEGLDLL-DEFFLLLPK  339 (527)
T ss_pred             EEEEEEecccCccHHHH-HHHHHhCCc
Confidence            46899999999997644 444444443

>KOG4273|consensus

Probab=90.66  E-value=0.41  Score=36.34  Aligned_cols=41  Identities=15%  Similarity=0.390  Sum_probs=31.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      +++|||.+....+..+..|+.-..-+.-    -.++.+|||+|..
T Consensus        82 ~vmvfdlse~s~l~alqdwl~htdinsf----dillcignkvdrv  122 (418)
T KOG4273|consen   82 FVMVFDLSEKSGLDALQDWLPHTDINSF----DILLCIGNKVDRV  122 (418)
T ss_pred             EEEEEeccchhhhHHHHhhccccccccc----hhheecccccccc
Confidence            8999999998889999999875442221    2357789999964

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=90.28  E-value=0.71  Score=39.81  Aligned_cols=22  Identities=27%  Similarity=0.582  Sum_probs=18.6

Q ss_pred             CCCCcceEEEEEEECCCCCCeE
Q psy2600          10 HNDNYEIQLKVVLLGDPSCGKI   31 (158)
Q Consensus        10 ~~~~~~~~~ki~~~G~~~vgk~   31 (158)
                      +.+.-++.+.|+++|.+|+|||
T Consensus       111 g~~~LdfslrIvLVGKTGVGKS  132 (763)
T TIGR00993       111 GQDPLDFSLNILVLGKSGVGKS  132 (763)
T ss_pred             hccccCcceEEEEECCCCCCHH
Confidence            3455678899999999999998

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.

>KOG1547|consensus

Probab=89.57  E-value=3.4  Score=31.36  Aligned_cols=18  Identities=17%  Similarity=0.466  Sum_probs=14.4

Q ss_pred             cceEEEEEEECCCCCCeE
Q psy2600          14 YEIQLKVVLLGDPSCGKI   31 (158)
Q Consensus        14 ~~~~~ki~~~G~~~vgk~   31 (158)
                      ..|.|.|+++|.++.||+
T Consensus        43 ~GF~FNIMVVgqSglgks   60 (336)
T KOG1547|consen   43 TGFDFNIMVVGQSGLGKS   60 (336)
T ss_pred             ccCceEEEEEecCCCCch
Confidence            457788888888888887

>KOG0082|consensus

Probab=89.43  E-value=7.4  Score=31.00  Aligned_cols=106  Identities=16%  Similarity=0.112  Sum_probs=62.5

Q ss_pred             eEEEEEEECCCCCC-----------eEEEEEEECCCh--hHHhh--------HHHHHHHHhhhc-CCCCCcEEEEEEeCC
Q psy2600          16 IQLKVVLLGDPSCG-----------KIVIFMYDITSG--QSFHS--------IPTWVDLFHLNR-KSSTPTYVALVANKG   73 (158)
Q Consensus        16 ~~~ki~~~G~~~vg-----------k~~i~v~d~~~~--~s~~~--------~~~~~~~~~~~~-~~~~~~piilv~nK~   73 (158)
                      ..++++.+|..+..           +++|||.++++=  ..+++        -....+.+.+.. -.+  .++||..||.
T Consensus       195 ~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~--tsiiLFLNK~  272 (354)
T KOG0082|consen  195 LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFAN--TSIILFLNKK  272 (354)
T ss_pred             CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCccccc--CcEEEEeecH
Confidence            56789999988732           568999988751  11111        122333333211 123  8999999999


Q ss_pred             CCCCC---------------ccccHHHHHHHHHH--------h--CCeEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          74 DMEHQ---------------RVVTLERHAKLAQS--------L--HLHSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        74 Dl~~~---------------~~~~~~~~~~~~~~--------~--~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      ||-.+               ...+.+++..+.+.        .  .+=...+.|.+-.+|..+|+++.+.+....
T Consensus       273 DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~~n  347 (354)
T KOG0082|consen  273 DLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQNN  347 (354)
T ss_pred             HHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHHHH
Confidence            98210               00123344333321        1  111345678888899999999998887654

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=89.42  E-value=0.59  Score=41.37  Aligned_cols=43  Identities=16%  Similarity=0.038  Sum_probs=29.7

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      +.|++|+|.|++..-.......|.. +....     +|++++.||+|..
T Consensus       121 ~~D~ailVvda~~Gv~~~t~~~~~~-~~~~~-----~p~i~~iNK~D~~  163 (843)
T PLN00116        121 ITDGALVVVDCIEGVCVQTETVLRQ-ALGER-----IRPVLTVNKMDRC  163 (843)
T ss_pred             hcCEEEEEEECCCCCcccHHHHHHH-HHHCC-----CCEEEEEECCccc
Confidence            6678999999886544333333433 33333     8999999999975

>KOG0468|consensus

Probab=89.29  E-value=0.91  Score=39.07  Aligned_cols=38  Identities=24%  Similarity=0.311  Sum_probs=26.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDM   75 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl   75 (158)
                      +++++|+...-.+...+-+...+ +++     .|+++|.||+|.
T Consensus       224 vVlvvDv~EGVmlntEr~ikhai-q~~-----~~i~vviNKiDR  261 (971)
T KOG0468|consen  224 VVLVVDVAEGVMLNTERIIKHAI-QNR-----LPIVVVINKVDR  261 (971)
T ss_pred             EEEEEEcccCceeeHHHHHHHHH-hcc-----CcEEEEEehhHH
Confidence            99999998766665433333332 333     899999999995

>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=89.25  E-value=0.57  Score=33.99  Aligned_cols=46  Identities=13%  Similarity=0.250  Sum_probs=35.1

Q ss_pred             EEEEECCCCCCeE-----------------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeC
Q psy2600          19 KVVLLGDPSCGKI-----------------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANK   72 (158)
Q Consensus        19 ki~~~G~~~vgk~-----------------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK   72 (158)
                      -++++|..|+|||                 .++..|.-....++++..|.+.+.        +|+..+.+.
T Consensus         3 vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~--------vp~~~~~~~   65 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILG--------VPFYVARTE   65 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHT--------EEEEESSTT
T ss_pred             EEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhc--------cccchhhcc
Confidence            4789999999998                 788888777778888887777765        666654333

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 ....

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=89.19  E-value=3.5  Score=34.71  Aligned_cols=71  Identities=10%  Similarity=0.016  Sum_probs=47.8

Q ss_pred             HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeC--CCCCCHHHHHHHHHHHHH
Q psy2600          43 SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSA--RTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        43 s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa--~~~~~i~~lf~~l~~~~~  120 (158)
                      .+.++...++.++++.     +|++++.||.|...+.+  .+..++++++.|+.+..+.+  .-|.|-.++-+.+++.+.
T Consensus       357 Gl~NL~RHIenvr~FG-----vPvVVAINKFd~DTe~E--i~~I~~~c~e~Gv~va~~~~~~~Gg~Gai~LA~aVveA~~  429 (557)
T PRK13505        357 GFANLERHIENIRKFG-----VPVVVAINKFVTDTDAE--IAALKELCEELGVEVALSEVWAKGGEGGVELAEKVVELIE  429 (557)
T ss_pred             HHHHHHHHHHHHHHcC-----CCEEEEEeCCCCCCHHH--HHHHHHHHHHcCCCEEEecccccCCcchHHHHHHHHHHHh
Confidence            4555666777777666     99999999999864332  35678889999987653322  235566666666666554

>KOG0447|consensus

Probab=89.18  E-value=1.7  Score=36.72  Aligned_cols=66  Identities=20%  Similarity=0.208  Sum_probs=39.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH-h----CCeEEEEeC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS-L----HLHSFAVSA  102 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-~----~~~~~~~Sa  102 (158)
                      +|+|+.   ..|.+..+..+..+- +.++.+  ...|+|.+|+|+......++..+++..+- +    .+.||.+-.
T Consensus       452 IILCIQ---DGSVDAERSnVTDLVsq~DP~G--rRTIfVLTKVDlAEknlA~PdRI~kIleGKLFPMKALGYfaVVT  523 (980)
T KOG0447|consen  452 IILCIQ---DGSVDAERSIVTDLVSQMDPHG--RRTIFVLTKVDLAEKNVASPSRIQQIIEGKLFPMKALGYFAVVT  523 (980)
T ss_pred             EEEEec---cCCcchhhhhHHHHHHhcCCCC--CeeEEEEeecchhhhccCCHHHHHHHHhcCccchhhcceeEEEe
Confidence            566653   234555555555555 445544  77899999999976545556666665442 1    245666533

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=89.07  E-value=4  Score=31.28  Aligned_cols=55  Identities=11%  Similarity=0.131  Sum_probs=41.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEE
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSF   98 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   98 (158)
                      +|+|-.+| +..+.++...++..+...     +|..+|.||.++..     . +.+.+++..|++++
T Consensus       189 ai~VTEPT-p~glhD~kr~~el~~~f~-----ip~~iViNr~~~g~-----s-~ie~~~~e~gi~il  243 (284)
T COG1149         189 AILVTEPT-PFGLHDLKRALELVEHFG-----IPTGIVINRYNLGD-----S-EIEEYCEEEGIPIL  243 (284)
T ss_pred             EEEEecCC-ccchhHHHHHHHHHHHhC-----CceEEEEecCCCCc-----h-HHHHHHHHcCCCee
Confidence            77776665 567777878788777776     99999999996532     2 77888888887754

>KOG2484|consensus

Probab=88.75  E-value=1.2  Score=35.81  Aligned_cols=43  Identities=21%  Similarity=0.133  Sum_probs=29.9

Q ss_pred             CeEEEEEEECCChhHHhh--HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHS--IPTWVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      .|.+|.|.|+-||.+...  .+.|+.....    +  ..+|+|.||+||..
T Consensus       147 sDVVleVlDARDPlgtR~~~vE~~V~~~~g----n--KkLILVLNK~DLVP  191 (435)
T KOG2484|consen  147 SDVVLEVLDARDPLGTRCPEVEEAVLQAHG----N--KKLILVLNKIDLVP  191 (435)
T ss_pred             hheEEEeeeccCCCCCCChhHHHHHHhccC----C--ceEEEEeehhccCC
Confidence            466999999999865443  3444433221    1  67899999999964

>PTZ00416 elongation factor 2; Provisional

Probab=88.27  E-value=0.67  Score=40.99  Aligned_cols=43  Identities=19%  Similarity=0.103  Sum_probs=29.1

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      .+|++|+|+|.++.-..... ..+..+....     +|++++.||+|+.
T Consensus       115 ~~D~ailVvda~~g~~~~t~-~~~~~~~~~~-----~p~iv~iNK~D~~  157 (836)
T PTZ00416        115 VTDGALVVVDCVEGVCVQTE-TVLRQALQER-----IRPVLFINKVDRA  157 (836)
T ss_pred             cCCeEEEEEECCCCcCccHH-HHHHHHHHcC-----CCEEEEEEChhhh
Confidence            56789999998874333322 3334444333     8999999999985

>KOG3887|consensus

Probab=87.92  E-value=7.8  Score=29.54  Aligned_cols=88  Identities=10%  Similarity=0.078  Sum_probs=44.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC-Ccc------ccHHHHHHHHHH----hCCeEEEE
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH-QRV------VTLERHAKLAQS----LHLHSFAV  100 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~~~------~~~~~~~~~~~~----~~~~~~~~  100 (158)
                      +++|+|+-+. -.+.+.+....+.....-++++.+=+...|.|-.. +..      +.....+.++..    ..+.|+-|
T Consensus       105 LifvIDaQdd-y~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~LT  183 (347)
T KOG3887|consen  105 LIFVIDAQDD-YMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQRTNDELADAGLEKVQVSFYLT  183 (347)
T ss_pred             EEEEEechHH-HHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHHHhhHHHHhhhhccceEEEEEe
Confidence            8888887542 22222222222221111222388889999999542 111      111112222222    12345555


Q ss_pred             eCCCCCCHHHHHHHHHHHHHH
Q psy2600         101 SARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus       101 Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      |. ...+|-|.|..+++.+..
T Consensus       184 SI-yDHSIfEAFSkvVQkLip  203 (347)
T KOG3887|consen  184 SI-YDHSIFEAFSKVVQKLIP  203 (347)
T ss_pred             ee-cchHHHHHHHHHHHHHhh
Confidence            54 566888899888876543

>KOG1954|consensus

Probab=87.87  E-value=0.76  Score=36.90  Aligned_cols=41  Identities=17%  Similarity=0.256  Sum_probs=27.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      ++++||+...+--++....+..++.+.     -.+-+|.||+|...
T Consensus       185 IiLlfD~hKLDIsdEf~~vi~aLkG~E-----dkiRVVLNKADqVd  225 (532)
T KOG1954|consen  185 IILLFDAHKLDISDEFKRVIDALKGHE-----DKIRVVLNKADQVD  225 (532)
T ss_pred             EEEEechhhccccHHHHHHHHHhhCCc-----ceeEEEeccccccC
Confidence            899999865444444445555565333     45788899999643

>KOG1970|consensus

Probab=86.96  E-value=2.8  Score=35.37  Aligned_cols=44  Identities=9%  Similarity=0.103  Sum_probs=21.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      +|+|=|+-+..-+++.+.+.+-+..+.... ..|+|++.+-+-..
T Consensus       197 liLveDLPn~~~~d~~~~f~evL~~y~s~g-~~PlIf~iTd~~~~  240 (634)
T KOG1970|consen  197 LILVEDLPNQFYRDDSETFREVLRLYVSIG-RCPLIFIITDSLSN  240 (634)
T ss_pred             EEEeeccchhhhhhhHHHHHHHHHHHHhcC-CCcEEEEEeccccC
Confidence            677777654322222222222222222211 27888888877653

>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=86.85  E-value=9.3  Score=27.31  Aligned_cols=89  Identities=12%  Similarity=0.053  Sum_probs=59.6

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      |-++|++|.+..-|++..+.-+..+...-.-   =.+.++++-....+...+...+..+++..+..+++.+--....+..
T Consensus        66 DlIVFvinl~sk~SL~~ve~SL~~vd~~ffl---GKVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~~  142 (176)
T PF11111_consen   66 DLIVFVINLHSKYSLQSVEASLSHVDPSFFL---GKVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGRT  142 (176)
T ss_pred             EEEEEEEecCCcccHHHHHHHHhhCChhhhc---cceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHHH
Confidence            4489999999988888876555544311111   1245556655555556778889999999999998887666666655


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      .+=+.|++.+.-
T Consensus       143 ~lAqRLL~~lqi  154 (176)
T PF11111_consen  143 SLAQRLLRMLQI  154 (176)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555443

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 [].

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=85.83  E-value=7.6  Score=31.71  Aligned_cols=41  Identities=15%  Similarity=-0.005  Sum_probs=25.9

Q ss_pred             EEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH-HHHHH
Q psy2600          67 ALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC-WVNTR  113 (158)
Q Consensus        67 ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i-~~lf~  113 (158)
                      =+|.+|.|...    ..-.+..++...++++..+  .+|++| +++..
T Consensus       330 ~~I~TKlDEt~----~~G~~l~~~~~~~lPi~yv--t~Gq~VP~Dl~~  371 (420)
T PRK14721        330 GCIITKVDEAA----SLGIALDAVIRRKLVLHYV--TNGQKVPEDLHE  371 (420)
T ss_pred             EEEEEeeeCCC----CccHHHHHHHHhCCCEEEE--ECCCCchhhhhh
Confidence            56788888643    2335666677778777666  357777 44443

>KOG0448|consensus

Probab=84.62  E-value=6.9  Score=33.85  Aligned_cols=41  Identities=24%  Similarity=0.177  Sum_probs=22.6

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHhC--------CeEEEEeCCC
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSLH--------LHSFAVSART  104 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~--------~~~~~~Sa~~  104 (158)
                      +-+.++-||+|.........+........++        --+|++||+.
T Consensus       262 pniFIlnnkwDasase~ec~e~V~~Qi~eL~v~~~~eA~DrvfFVS~~e  310 (749)
T KOG0448|consen  262 PNIFILNNKWDASASEPECKEDVLKQIHELSVVTEKEAADRVFFVSAKE  310 (749)
T ss_pred             CcEEEEechhhhhcccHHHHHHHHHHHHhcCcccHhhhcCeeEEEeccc
Confidence            5578889999986543322333332222222        2368888653

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=84.45  E-value=13  Score=31.46  Aligned_cols=39  Identities=13%  Similarity=0.057  Sum_probs=24.9

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      .+.-+|.||+|...    ..-....+....++++..++  +|++|
T Consensus       485 ~~~gvILTKlDEt~----~lG~aLsv~~~~~LPI~yvt--~GQ~V  523 (559)
T PRK12727        485 KPQGVVLTKLDETG----RFGSALSVVVDHQMPITWVT--DGQRV  523 (559)
T ss_pred             CCeEEEEecCcCcc----chhHHHHHHHHhCCCEEEEe--CCCCc
Confidence            35568899999632    23456666667777766653  46666

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

Probab=83.77  E-value=7.3  Score=30.54  Aligned_cols=81  Identities=16%  Similarity=0.064  Sum_probs=45.5

Q ss_pred             EEEEEECCCh---hHHhhHHHHHHHHhhhcCCCCCc-EEEEEEeCCCCCCCccc---cHHHHHHHHHHhCC-----eEEE
Q psy2600          32 VIFMYDITSG---QSFHSIPTWVDLFHLNRKSSTPT-YVALVANKGDMEHQRVV---TLERHAKLAQSLHL-----HSFA   99 (158)
Q Consensus        32 ~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl~~~~~~---~~~~~~~~~~~~~~-----~~~~   99 (158)
                      +|+|..++|.   ++-++    +...++..     + .++++.||||+..+.++   -..+.+.+...+++     +++.
T Consensus       102 AILVVsA~dGpmPqTrEH----iLlarqvG-----vp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~gd~~Pii~  172 (394)
T COG0050         102 AILVVAATDGPMPQTREH----ILLARQVG-----VPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFPGDDTPIIR  172 (394)
T ss_pred             cEEEEEcCCCCCCcchhh----hhhhhhcC-----CcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCCCCCcceee
Confidence            8888888873   33332    22233433     4 58888999999764432   22334556666654     3555


Q ss_pred             EeCCCC--------CCHHHHHHHHHHHHHH
Q psy2600         100 VSARTG--------DNCWVNTRTPEINPLK  121 (158)
Q Consensus       100 ~Sa~~~--------~~i~~lf~~l~~~~~~  121 (158)
                      -||..-        ..|.+|++.+-+.+..
T Consensus       173 gSal~ale~~~~~~~~i~eLm~avd~yip~  202 (394)
T COG0050         173 GSALKALEGDAKWEAKIEELMDAVDSYIPT  202 (394)
T ss_pred             chhhhhhcCCcchHHHHHHHHHHHHhcCCC
Confidence            555421        2355666555555543

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=83.54  E-value=3.8  Score=26.69  Aligned_cols=52  Identities=19%  Similarity=0.155  Sum_probs=33.8

Q ss_pred             EEEECCCCCCeE------------EEEEEECCChh------HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          20 VVLLGDPSCGKI------------VIFMYDITSGQ------SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        20 i~~~G~~~vgk~------------~i~v~d~~~~~------s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      |++.|.+|+||+            -++-++.....      +...+..++.......     .|.+++.--+|..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~-----~~~vl~iDe~d~l   70 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSA-----KPCVLFIDEIDKL   70 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTS-----TSEEEEEETGGGT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccc-----cceeeeeccchhc
Confidence            579999999998            45556654322      3333455555554332     3789999999864

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>cd01873 RhoBTB RhoBTB subfamily

Probab=82.73  E-value=0.63  Score=33.57  Aligned_cols=19  Identities=32%  Similarity=0.607  Sum_probs=16.6

Q ss_pred             EEEEEEECCCCCCeEEEEE
Q psy2600          17 QLKVVLLGDPSCGKIVIFM   35 (158)
Q Consensus        17 ~~ki~~~G~~~vgk~~i~v   35 (158)
                      .+|++++|+.+|||+.|+.
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~   20 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLIC   20 (195)
T ss_pred             ceEEEEECCCCcCHHHHHH
Confidence            4799999999999997763

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.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=82.47  E-value=5.4  Score=31.84  Aligned_cols=36  Identities=17%  Similarity=0.118  Sum_probs=22.1

Q ss_pred             cEEEEEEeCCCCCCCccc--cHHHHHHHHHHhCCeEEE
Q psy2600          64 TYVALVANKGDMEHQRVV--TLERHAKLAQSLHLHSFA   99 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~   99 (158)
                      +-+|.|..|+|.....++  ......+....+++.+|.
T Consensus       163 vNlIPVI~KaD~lT~~El~~~K~~I~~~i~~~nI~vf~  200 (373)
T COG5019         163 VNLIPVIAKADTLTDDELAEFKERIREDLEQYNIPVFD  200 (373)
T ss_pred             cCeeeeeeccccCCHHHHHHHHHHHHHHHHHhCCceeC
Confidence            778999999997643322  222334444556777765

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

Probab=82.27  E-value=3.3  Score=35.97  Aligned_cols=42  Identities=17%  Similarity=0.094  Sum_probs=30.1

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDM   75 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl   75 (158)
                      +-|++++|+|+...-..+...-|....+ ++     +|.+++.||.|.
T Consensus        99 vlDgavvVvdaveGV~~QTEtv~rqa~~-~~-----vp~i~fiNKmDR  140 (697)
T COG0480          99 VLDGAVVVVDAVEGVEPQTETVWRQADK-YG-----VPRILFVNKMDR  140 (697)
T ss_pred             hhcceEEEEECCCCeeecHHHHHHHHhh-cC-----CCeEEEEECccc
Confidence            5577999999987544444445555443 33     899999999996

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	158
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		5e-10
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		1e-07
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		3e-07
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		7e-07
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		1e-06
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		1e-06
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		1e-06
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		1e-06
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		2e-06
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		2e-06
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		4e-06
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		5e-06
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		6e-06
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		7e-06
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		7e-06
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		9e-06
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		9e-06
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		1e-05
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		1e-05
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		1e-05
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		1e-05
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		1e-05
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		1e-05
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		2e-05
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-05
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		3e-05
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		3e-05
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		3e-05
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		3e-05
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		6e-05
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		6e-05
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		7e-05
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		7e-05
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		7e-05
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		7e-05
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		7e-05
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		7e-05
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		7e-05
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		7e-05
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		7e-05
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		8e-05
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		1e-04
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		2e-04
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		2e-04
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		2e-04
4fmc_B	171	Espg-Rab1 Complex Length = 171		3e-04
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		3e-04
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		3e-04
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		3e-04
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		3e-04
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		3e-04
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		3e-04
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		3e-04
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		3e-04
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		3e-04
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		3e-04
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		3e-04
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		4e-04
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		4e-04
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		4e-04
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		5e-04
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		5e-04
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		5e-04
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		6e-04
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		6e-04
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		7e-04
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		8e-04
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		8e-04
2efc_B	181	Ara7-GdpATVPS9A Length = 181		9e-04

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 60.1 bits (144), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 31/80 (38%), Positives = 48/80 (60%), Gaps = 1/80 (1%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           V+ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R +  E+H +  
Sbjct: 83  VLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFC 142
Query: 91  QSLHLHSFAVSARTGDNCWV 110
           Q     S  VSA+TGD+ ++
Sbjct: 143 QENGFSSHFVSAKTGDSVFL 162

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 29/71 (40%), Positives = 39/71 (54%), Gaps = 2/71 (2%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I MYDIT+ +SF+++  W     +   S     V LV NK DME +RVV+ ER  +LA  
Sbjct: 82  ILMYDITNEESFNAVQDWST--QIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADH 139
Query: 93  LHLHSFAVSAR 103
           L    F  SA+
Sbjct: 140 LGFEFFEASAK 150

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 28/71 (39%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I MYDIT+ +SF+++  W     +   S     V LV NK DME +RVV  E+   LA+ 
Sbjct: 100 ILMYDITNEESFNAVQDWAT--QIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQ 157
Query: 93  LHLHSFAVSAR 103
           L    F  SA+
Sbjct: 158 LGFDFFEASAK 168

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 49.7 bits (117), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + M+D+TS QSF ++  W+     N     P  V L+ NK D+  QR V   +  +LA+ 
Sbjct: 98  LLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV-LIGNKADLPDQREVNERQARELAEK 156
Query: 93  LHLHSFAVSARTGDN 107
             +  F  SA TG N
Sbjct: 157 YGIPYFETSAATGQN 171

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 25/75 (33%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + M+D+TS QSF ++  W+     N     P  + L+ NK D+  QR V   +  +LA+ 
Sbjct: 98  LLMFDLTSQQSFLNVRNWMSQLQANAYCENPD-IVLIGNKADLPDQREVNERQARELAEK 156
Query: 93  LHLHSFAVSARTGDN 107
             +  F  SA TG N
Sbjct: 157 YGIPYFETSAATGQN 171

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + M+D+TS QSF ++  W+     N     P  V L+ NK D+  QR V   +  +LA  
Sbjct: 112 LLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV-LIGNKADLPDQREVNERQARELADK 170
Query: 93  LHLHSFAVSARTGDN 107
             +  F  SA TG N
Sbjct: 171 YGIPYFETSAATGQN 185

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I  YDIT  +SF  +P W  L  + + +S      LV NK D+  +R V+ +R  + ++
Sbjct: 102 LILTYDITCEESFRCLPEW--LREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSE 159
Query: 92  SLHLHSFAVSARTGDN 107
           +  ++    SA+  DN
Sbjct: 160 AQDMYYLETSAKESDN 175

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           + + +YDIT+  SFH    W+D     R S     + LV NK D+  +R V+ E   + A
Sbjct: 89  VAVVVYDITNTNSFHQTSKWIDDVRTERGSD--VIIMLVGNKTDLSDKRQVSTEEGERKA 146
Query: 91  QSLHLHSFAVSARTGDNC 108
           + L++     SA+ G N 
Sbjct: 147 KELNVMFIETSAKAGYNV 164

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           + + +YDIT+  SF     W+D     R S     + LV NK D+  +R +T+E   + A
Sbjct: 77  VAVVVYDITNLNSFQQTSKWIDDVRTERGS--DVIIMLVGNKTDLADKRQITIEEGEQRA 134
Query: 91  QSLHLHSFAVSARTGDNC 108
           + L +     SA+TG N 
Sbjct: 135 KELSVMFIETSAKTGYNV 152

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + ++D+T+ QSF ++  W+    ++  S  P  + L  NK D+E QR V  E   +LA+ 
Sbjct: 98  LLLFDLTNEQSFLNVRNWISQLQMHAYSENPD-IVLCGNKSDLEDQRAVKEEEARELAEK 156
Query: 93  LHLHSFAVSARTGDN 107
             +  F  SA  G N
Sbjct: 157 YGIPYFETSAANGTN 171

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 47.0 bits (110), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           + + +YDIT+  SF     W+D     R S     + LV NK D+  +R V++E   + A
Sbjct: 91  VAVVVYDITNVNSFQQTTKWIDDVRTERGSD--VIIMLVGNKTDLADKRQVSIEEGERKA 148
Query: 91  QSLHLHSFAVSARTGDNC 108
           + L++     SA+ G N 
Sbjct: 149 KELNVMFIETSAKAGYNV 166

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           + + +YDIT+  SF     W+D     R S     + LV NK D+  +R V++E   + A
Sbjct: 81  VAVVVYDITNVNSFQQTTKWIDDVRTERGSD--VIIMLVGNKTDLADKRQVSIEEGERKA 138
Query: 91  QSLHLHSFAVSARTGDNC 108
           + L++     SA+ G N 
Sbjct: 139 KELNVMFIETSAKAGYNV 156

>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 = 46.6 bits (109), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           + + +YDIT+  SF     W+D     R S     + LV NK D+  +R V++E   + A
Sbjct: 76  VAVVVYDITNVNSFQQTTKWIDDVRTERGS--DVIIMLVGNKTDLADKRQVSIEEGERKA 133
Query: 91  QSLHLHSFAVSARTGDNC 108
           + L++     SA+ G N 
Sbjct: 134 KELNVMFIETSAKAGYNV 151

>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 = 46.2 bits (108), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 27/71 (38%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I  YDIT+ +SF+++  W     +   S     V LV NK D E +RVV+ ER  +LA  
Sbjct: 85  ILXYDITNEESFNAVQDWST--QIKTYSWDNAQVLLVGNKCDXEDERVVSSERGRQLADH 142
Query: 93  LHLHSFAVSAR 103
           L    F  SA+
Sbjct: 143 LGFEFFEASAK 153

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 46.2 bits (108), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 3/79 (3%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            K +I +YDIT  ++F  +P W+ +  +++ +S    + LV NK D E  R +T ++  K
Sbjct: 99  AKGIILVYDITKKETFDDLPKWMKM--IDKYASEDAELLLVGNKLDCETDREITRQQGEK 156
Query: 89  LAQSLHLHSFAVSARTGDN 107
            AQ +    F   A   DN
Sbjct: 157 FAQQITGMRFC-EASAKDN 174

>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 = 46.2 bits (108), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 25/75 (33%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           +  +D+TS QSF ++  W      N     P  V L+ NK D+  QR V   +  +LA+ 
Sbjct: 98  LLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIV-LIGNKADLPDQREVNERQARELAEK 156
Query: 93  LHLHSFAVSARTGDN 107
             +  F  SA TG N
Sbjct: 157 YGIPYFETSAATGQN 171

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 46.2 bits (108), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 26/79 (32%), Positives = 39/79 (49%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+ ++F    TWV    L R++S    +AL  NK D+ ++R+V  E    
Sbjct: 81  AQAAIVVYDITNQETFARAKTWVK--ELQRQASPSIVIALAGNKADLANKRMVEYEEAQA 138
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 139 YADDNSLLFMETSAKTAMN 157

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           +  +D+TS QSF ++  W      N     P  + L+ NK D+  QR V   +  +LA+ 
Sbjct: 98  LLXFDLTSQQSFLNVRNWXSQLQANAYCENPD-IVLIGNKADLPDQREVNERQARELAEK 156
Query: 93  LHLHSFAVSARTGDN 107
             +  F  SA TG N
Sbjct: 157 YGIPYFETSAATGQN 171

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/76 (31%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT+  SF     W+D     R S     + LV NK D+  +R V++E   + A+
Sbjct: 89  AVVVYDITNVNSFQQTTKWIDDVRTERGSD--VIIMLVGNKTDLADKRQVSIEEGERKAK 146
Query: 92  SLHLHSFAVSARTGDN 107
            L++     SA+ G N
Sbjct: 147 ELNVMFIETSAKAGYN 162

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 35/71 (49%), Gaps = 2/71 (2%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + MYDI + +SF ++  W     +   S     V LV NK D+E +RVV  E   +LA  
Sbjct: 99  LLMYDIANQESFAAVQDWAT--QIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADD 156
Query: 93  LHLHSFAVSAR 103
           L    F  SA+
Sbjct: 157 LGFEFFEASAK 167

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/77 (35%), Positives = 41/77 (53%), Gaps = 3/77 (3%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YDIT  ++F +I  W     +N  ++    + LV NK DME  RVVT ++   LA+
Sbjct: 79  IILVYDITDERTFTNIKQWFK--TVNEHANDEAQLLLVGNKSDMET-RVVTADQGEALAK 135
Query: 92  SLHLHSFAVSARTGDNC 108
            L +     SA+  DN 
Sbjct: 136 ELGIPFIESSAKNDDNV 152

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/76 (31%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + +YDIT+  SF     W+D     R S     + LV NK D+  +R V++E   + A+ 
Sbjct: 83  VVVYDITNVNSFQQTTKWIDDVRTERGSD--VIIMLVGNKTDLADKRQVSIEEGERKAKE 140
Query: 93  LHLHSFAVSARTGDNC 108
           L++     SA+ G N 
Sbjct: 141 LNVMFIETSAKAGYNV 156

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 29/79 (36%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQ---RVVTLERHAKL 89
           + +YD+T  QSF     WV   H   ++S    +ALV NK D   +   R V  E   KL
Sbjct: 80  LVVYDVTKPQSFIKARHWVKELH--EQASKDIIIALVGNKIDXLQEGGERKVAREEGEKL 137
Query: 90  AQSLHLHSFAVSARTGDNC 108
           A+   L  F  SA+TG+N 
Sbjct: 138 AEEKGLLFFETSAKTGENV 156

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 41/77 (53%), Gaps = 3/77 (3%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  ++F +I  W     +N  ++    + LV NK DME  RVVT ++   LA+
Sbjct: 83  IILVYDVTDERTFTNIKQWFK--TVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAK 139
Query: 92  SLHLHSFAVSARTGDNC 108
            L +     SA+  DN 
Sbjct: 140 ELGIPFIESSAKNDDNV 156

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 41/77 (53%), Gaps = 3/77 (3%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  ++F +I  W     +N  ++    + LV NK DME  RVVT ++   LA+
Sbjct: 96  IILVYDVTDERTFTNIKQWFK--TVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAK 152
Query: 92  SLHLHSFAVSARTGDNC 108
            L +     SA+  DN 
Sbjct: 153 ELGIPFIESSAKNDDNV 169

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/79 (32%), Positives = 39/79 (49%), Gaps = 1/79 (1%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
           G+  + +YDIT   SF  +    ++    +K    T + LV NK D++H R V+ E   K
Sbjct: 99  GEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLI-LVGNKADLDHSRQVSTEEGEK 157
Query: 89  LAQSLHLHSFAVSARTGDN 107
           LA  L    +  SA TG+ 
Sbjct: 158 LATELACAFYECSACTGEG 176

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT   +++ + +W  L      ++  T + L+ NK D+E QR VT E   + A+
Sbjct: 106 ALMVYDITRRSTYNHLSSW--LTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAE 163
Query: 92  SLHLHSFAVSARTGDN 107
              L     SA+TG+N
Sbjct: 164 ENGLLFLEASAKTGEN 179

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           ++ +YD+T+  SF +I  W  L  ++  +     + L+ NK D  H+RVV  E   KLA+
Sbjct: 87  LLLLYDVTNKASFDNIQAW--LTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAK 144
Query: 92  SLHLHSFAVSARTGDNC 108
              L     SA+TG N 
Sbjct: 145 EYGLPFMETSAKTGLNV 161

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT   +++ + +W  L      ++  T + L+ NK D+E QR VT E   + A+
Sbjct: 91  ALMVYDITRRSTYNHLSSW--LTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAE 148
Query: 92  SLHLHSFAVSARTGDN 107
              L     SA+TG+N
Sbjct: 149 ENGLLFLEASAKTGEN 164

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+ +SF     WV    L R++S    +AL  NK D+ ++R V  +    
Sbjct: 80  AQAAIVVYDITNEESFARAKNWVK--ELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 137
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 138 YADDNSLLFXETSAKTSXN 156

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 43.1 bits (100), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 3/77 (3%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YDIT  ++F +I  W     +N  ++    + LV NK D E  RVVT ++   LA+
Sbjct: 79  IILVYDITDERTFTNIKQWFK--TVNEHANDEAQLLLVGNKSDXET-RVVTADQGEALAK 135
Query: 92  SLHLHSFAVSARTGDNC 108
            L +     SA+  DN 
Sbjct: 136 ELGIPFIESSAKNDDNV 152

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 43.1 bits (100), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+ +SF     WV    L R++S    +AL  NK D+ ++R V  +    
Sbjct: 79  AQAAIVVYDITNEESFARAKNWVK--ELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 137 YADDNSLLFMETSAKTSMN 155

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 43.1 bits (100), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+ +SF     WV    L R++S    +AL  NK D+ ++R V  +    
Sbjct: 79  AQAAIVVYDITNEESFARAKNWVK--ELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 137 YADDNSLLFMETSAKTSMN 155

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 43.1 bits (100), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+ +SF     WV    L R++S    +AL  NK D+ ++R V  +    
Sbjct: 79  AQAAIVVYDITNEESFARAKNWVK--ELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 137 YADDNSLLFMETSAKTSMN 155

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 43.1 bits (100), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+ +SF     WV    L R++S    +AL  NK D+ ++R V  +    
Sbjct: 79  AQAAIVVYDITNEESFARAKNWVK--ELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 137 YADDNSLLFMETSAKTSMN 155

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 43.1 bits (100), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDITS ++++S+  W  L      +S    V L  NK D++ +R VT    ++ AQ
Sbjct: 101 ALLVYDITSRETYNSLAAW--LTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQ 158
Query: 92  SLHLHSFAVSARTGDN 107
              L     SA TG+N
Sbjct: 159 ENELMFLETSALTGEN 174

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 43.1 bits (100), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+ +SF     WV    L R++S    +AL  NK D+ ++R V  +    
Sbjct: 80  AQAAIVVYDITNEESFARAKNWVK--ELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 137
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 138 YADDNSLLFMETSAKTSMN 156

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 43.1 bits (100), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+ +SF     WV    L R++S    +AL  NK D+ ++R V  +    
Sbjct: 79  AQAAIVVYDITNEESFARAKNWVK--ELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 137 YADDNSLLFMETSAKTSMN 155

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 43.1 bits (100), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+ +SF     WV    L R++S    +AL  NK D+ ++R V  +    
Sbjct: 79  AQAAIVVYDITNEESFARAKNWVK--ELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 137 YADDNSLLFMETSAKTSMN 155

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 43.1 bits (100), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+ +SF     WV    L R++S    +AL  NK D+ ++R V  +    
Sbjct: 78  AQAAIVVYDITNEESFARAKNWVK--ELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 135
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 136 YADDNSLLFMETSAKTSMN 154

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 42.7 bits (99), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 38/79 (48%), Gaps = 2/79 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I +YDIT+ QSF +   W+    LN +      +ALV NK D+   R VT E   + AQ
Sbjct: 77  AIVVYDITNRQSFENTTKWIQDI-LNERGK-DVIIALVGNKTDLGDLRKVTYEEGXQKAQ 134
Query: 92  SLHLHSFAVSARTGDNCWV 110
             +      SA+ G N  V
Sbjct: 135 EYNTXFHETSAKAGHNIKV 153

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 40/77 (51%), Gaps = 3/77 (3%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  ++F +I  W     +N  ++    + LV NK D E  RVVT ++   LA+
Sbjct: 79  IILVYDVTDERTFTNIKQWFK--TVNEHANDEAQLLLVGNKSDXET-RVVTADQGEALAK 135
Query: 92  SLHLHSFAVSARTGDNC 108
            L +     SA+  DN 
Sbjct: 136 ELGIPFIESSAKNDDNV 152

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 3/72 (4%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           VI +YD+TS +SF ++  W  L  +N+       + LV NK D   ++VV  E   K A 
Sbjct: 85  VIVVYDVTSAESFVNVKRW--LHEINQNCDDVCRI-LVGNKNDDPERKVVETEDAYKFAG 141
Query: 92  SLHLHSFAVSAR 103
            + +  F  SA+
Sbjct: 142 QMGIQLFETSAK 153

>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 = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+++  W  L  ++R +S      LV NK D+  ++VV      + A 
Sbjct: 92  IIVVYDVTDQESFNNVKQW--LQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD 149
Query: 92  SLHLHSFAVSARTGDN 107
           SL +     SA+   N
Sbjct: 150 SLGIPFLETSAKNATN 165

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+  +F     WV    L R++S    +AL  NK D+  +R V  +    
Sbjct: 78  AQAAIVVYDITNTDTFARAKNWVK--ELQRQASPNIVIALAGNKADLASKRAVEFQEAQA 135
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 136 YADDNSLLFMETSAKTAMN 154

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+++  W  L  ++R +S      LV NK D+  ++VV      + A 
Sbjct: 82  IIVVYDVTDQESFNNVKQW--LQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD 139
Query: 92  SLHLHSFAVSARTGDN 107
           SL +     SA+   N
Sbjct: 140 SLGIPFLETSAKNATN 155

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+  +F     WV    L R++S    +AL  NK D+  +R V  +    
Sbjct: 78  AQAAIVVYDITNTDTFARAKNWVK--ELQRQASPNIVIALAGNKADLASKRAVEFQEAQA 135
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 136 YADDNSLLFMETSAKTAMN 154

>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 = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+++  W  L  ++R +S      LV NK D+  ++VV      + A 
Sbjct: 92  IIVVYDVTDQESFNNVKQW--LQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD 149
Query: 92  SLHLHSFAVSARTGDN 107
           SL +     SA+   N
Sbjct: 150 SLGIPFLETSAKNATN 165

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 2/79 (2%)
Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK 88
            +  I +YDIT+  +F     WV    L R++S    +AL  NK D+  +R V  +    
Sbjct: 76  AQAAIVVYDITNTDTFARAKNWVK--ELQRQASPNIVIALAGNKADLASKRAVEFQEAQA 133
Query: 89  LAQSLHLHSFAVSARTGDN 107
            A    L     SA+T  N
Sbjct: 134 YADDNSLLFMETSAKTAMN 152

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+++  W  L  ++R +S      LV NK D+  ++VV      + A 
Sbjct: 82  IIVVYDVTDQESFNNVKQW--LQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD 139
Query: 92  SLHLHSFAVSARTGDN 107
           SL +     SA+   N
Sbjct: 140 SLGIPFLETSAKNATN 155

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+++  W  L  ++R +S      LV NK D+  ++VV      + A 
Sbjct: 101 IIVVYDVTDQESFNNVKQW--LQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD 158
Query: 92  SLHLHSFAVSARTGDN 107
           SL +     SA+   N
Sbjct: 159 SLGIPFLETSAKNATN 174

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+++  W  L  ++R +S      LV NK D+  ++VV      + A 
Sbjct: 75  IIVVYDVTDQESFNNVKQW--LQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD 132
Query: 92  SLHLHSFAVSARTGDN 107
           SL +     SA+   N
Sbjct: 133 SLGIPFLETSAKNATN 148

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDITS ++++++  W  L      +S    + L  NK D++  R VT    ++ AQ
Sbjct: 86  ALLVYDITSRETYNALTNW--LTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQ 143
Query: 92  SLHLHSFAVSARTGDN 107
              L     SA TG+N
Sbjct: 144 ENELMFLETSALTGEN 159

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I +YDIT   SF  +  WV    L +       + +V NK D+E +R V+++     A+
Sbjct: 96  AILVYDITDEDSFQKVKNWVK--ELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAE 153
Query: 92  SLHLHSFAVSAR 103
           S+    +  SA+
Sbjct: 154 SVGAKHYHTSAK 165

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I +YDIT   SF  +  WV    L +       + +V NK D+E +R V+++     A+
Sbjct: 82  AILVYDITDEDSFQKVKNWVK--ELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAE 139
Query: 92  SLHLHSFAVSAR 103
           S+    +  SA+
Sbjct: 140 SVGAKHYHTSAK 151

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+++  W  L  ++R +S      LV NK D+  ++VV      + A 
Sbjct: 109 IIVVYDVTDQESFNNVKQW--LQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD 166
Query: 92  SLHLHSFAVSARTGDN 107
           SL +     SA+   N
Sbjct: 167 SLGIPFLETSAKNATN 182

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I +YDIT   SF  +  WV    L +       + +V NK D+E +R V+++     A+
Sbjct: 82  AILVYDITDEDSFQKVKNWVK--ELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAE 139
Query: 92  SLHLHSFAVSAR 103
           S+    +  SA+
Sbjct: 140 SVGAKHYHTSAK 151

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 40.4 bits (93), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 30/89 (33%), Positives = 46/89 (51%), Gaps = 6/89 (6%)
Query: 33  IFMYDITSGQSFHSIPTWVDLF--HLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK-L 89
           + +YD+T+  SF +I +W D F  H N  S       ++ NK D E  + +  E+ A+ L
Sbjct: 86  VLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQEL 145
Query: 90  AQSL-HLHSFAVSARTGDNCWVNTRTPEI 117
           A+SL  +  F  SA+   N  V+T   EI
Sbjct: 146 AKSLGDIPLFLTSAKNAIN--VDTAFEEI 172

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 40.4 bits (93), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+ +  W  L  ++R +++     LV NK D++ +RVV  +   + A 
Sbjct: 84  IIIVYDVTDQESFNGVKMW--LQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFAD 141
Query: 92  SLHLHSFAVSA 102
           +  +     SA
Sbjct: 142 ANKMPFLETSA 152

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 40.4 bits (93), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+ +  W  L  ++R +++     LV NK D++ +RVV  +   + A 
Sbjct: 84  IIIVYDVTDQESFNGVKMW--LQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFAD 141
Query: 92  SLHLHSFAVSA 102
           +  +     SA
Sbjct: 142 ANKMPFLETSA 152

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T   SF ++  W+    ++R +       LV NK D+  +RVVT +   +LA 
Sbjct: 85  IIIVYDVTDRDSFDNVKQWIQ--EIDRYAMENVNKLLVGNKCDLVSKRVVTSDEGRELAD 142
Query: 92  SLHLHSFAVSARTGDN 107
           S  +     SA+   N
Sbjct: 143 SHGIKFIETSAKNAYN 158

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 40.0 bits (92), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           ++ +YDIT+ +SF +I  W+   ++   +S      ++ NK D+  +R V+ ER  KLA 
Sbjct: 82  IMLVYDITNEKSFDNIRNWIR--NIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLAL 139
Query: 92  SLHLHSFAVSARTGDN 107
              +     SA+   N
Sbjct: 140 DYGIKFMETSAKANIN 155

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 40.0 bits (92), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           ++ +YDIT+ +SF +I  W+   ++   +S      ++ NK D+  +R V+ ER  KLA 
Sbjct: 84  IMLVYDITNEKSFDNIRNWIR--NIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLAL 141
Query: 92  SLHLHSFAVSARTGDN 107
              +     SA+   N
Sbjct: 142 DYGIKFMETSAKANIN 157

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 40.0 bits (92), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 42/84 (50%), Gaps = 5/84 (5%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT   +F+ + TW++     + S++   + L+ NK D+E +R V  E     A+
Sbjct: 86  ALLVYDITRRDTFNHLTTWLE--DARQHSNSNMVIMLIGNKSDLESRREVKKEEGEAFAR 143
Query: 92  SLHLHSFAVSARTGDN---CWVNT 112
              L     SA+T  N    ++NT
Sbjct: 144 EHGLIFMETSAKTASNVEEAFINT 167

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 39.7 bits (91), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+ +  W  L  ++R +++     LV NK D++ +RVV  +   + A 
Sbjct: 97  IIIVYDVTDQESFNGVKMW--LQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFAD 154
Query: 92  SLHLHSFAVSA 102
           +  +     SA
Sbjct: 155 ANKMPFLETSA 165

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 39.7 bits (91), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 43/84 (51%), Gaps = 5/84 (5%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT  ++F+ + +W++     + SS+   + L+ NK D+E +R V  E     A+
Sbjct: 97  ALLVYDITRRETFNHLTSWLE--DARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAR 154
Query: 92  SLHLHSFAVSARTGDN---CWVNT 112
              L     SA+T  N    ++NT
Sbjct: 155 EHGLIFMETSAKTACNVEEAFINT 178

>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 = 39.7 bits (91), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDITS ++++++  W  L      +S    + L  NK D++  R VT    ++ AQ
Sbjct: 84  ALLVYDITSRETYNALTNW--LTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQ 141
Query: 92  SLHLHSFAVSARTGDN 107
              L     SA TG++
Sbjct: 142 ENELMFLETSALTGED 157

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 39.7 bits (91), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDITS ++++++  W  L      +S    + L  NK D++  R VT    ++ AQ
Sbjct: 87  ALLVYDITSRETYNALTNW--LTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQ 144
Query: 92  SLHLHSFAVSARTGDN 107
              L     SA TG++
Sbjct: 145 ENELMFLETSALTGED 160

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 39.3 bits (90), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 27/93 (29%), Positives = 38/93 (40%), Gaps = 7/93 (7%)
Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I ++D+T+  SF     WV    L  + +    +AL  NK D+   R VT E     AQ
Sbjct: 88  AIIVFDVTNQASFERAKKWVQ--ELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQ 145
Query: 92  SLHLHSFAVSARTGDNC-----WVNTRTPEINP 119
              L     SA+T  N       +  R P + P
Sbjct: 146 ENGLFFMETSAKTATNVKEIFYEIARRLPRVQP 178

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	158
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	4e-19
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	2e-16
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	2e-16
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	4e-16
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	4e-16
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	5e-16
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	8e-16
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-15
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-15
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-15
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-15
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	1e-15
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-15
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	1e-15
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	1e-15
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-15
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	2e-15
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	2e-15
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	2e-15
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	2e-15
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	2e-15
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	2e-15
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	3e-15
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	3e-15
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	4e-15
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	4e-15
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	4e-15
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	4e-15
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	5e-15
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	5e-15
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	9e-15
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	1e-14
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	2e-14
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	7e-14
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	8e-14
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	9e-14
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	9e-14
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	2e-13
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	3e-13
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	4e-13
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	5e-13
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	8e-13
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	1e-12
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	1e-12
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	1e-12
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	1e-12
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-12
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	2e-12
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-12
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	2e-12
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	3e-12
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	4e-12
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	5e-12
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	9e-12
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	1e-11
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	1e-11
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	1e-11
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	2e-11
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	3e-11
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	5e-11
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	5e-11
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	7e-11
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	8e-11
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	1e-10
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	1e-10
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	1e-09
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	2e-09
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	3e-08
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	7e-08
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	2e-07
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	7e-07
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	6e-04

>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 = 78.4 bits (194), Expect = 4e-19
 Identities = 31/77 (40%), Positives = 46/77 (59%), Gaps = 1/77 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           V+ +YDIT+ QSF ++  W  +   ++ +S T   VALV NK D+EH R +  E+H +  
Sbjct: 83  VLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFC 142

Query: 91  QSLHLHSFAVSARTGDN 107
           Q     S  VSA+TGD+
Sbjct: 143 QENGFSSHFVSAKTGDS 159

>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 = 71.4 bits (176), Expect = 2e-16
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT+  SFH    W+D   +  +  +   + LV NK D+  +R V+ E   + A+
Sbjct: 90  AVVVYDITNTNSFHQTSKWID--DVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAK 147

Query: 92  SLHLHSFAVSARTGDN 107
            L++     SA+ G N
Sbjct: 148 ELNVMFIETSAKAGYN 163

>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 = 71.0 bits (175), Expect = 2e-16
 Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I +YDIT   SF  +  WV    L +       + +V NK D+E +R V+++     A+
Sbjct: 82  AILVYDITDEDSFQKVKNWVK--ELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAE 139

Query: 92  SLHLHSFAVSARTGDN 107
           S+    +  SA+    
Sbjct: 140 SVGAKHYHTSAKQNKG 155

>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 = 70.2 bits (173), Expect = 4e-16
 Identities = 22/76 (28%), Positives = 32/76 (42%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I +YDIT  ++F ++  WV    L +       VA+  NK D+   R V        A 
Sbjct: 82  AIIVYDITKEETFSTLKNWVR--ELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYAD 139

Query: 92  SLHLHSFAVSARTGDN 107
           S+H      SA+   N
Sbjct: 140 SIHAIFVETSAKNAIN 155

>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 = 71.2 bits (175), Expect = 4e-16
 Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT+  SF     W+D   +  +  +   + LV NK D+  +R V++E   + A+
Sbjct: 92  AVVVYDITNVNSFQQTTKWID--DVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAK 149

Query: 92  SLHLHSFAVSARTGDN 107
            L++     SA+ G N
Sbjct: 150 ELNVMFIETSAKAGYN 165

>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 = 70.8 bits (174), Expect = 5e-16
 Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDI    ++ ++  W+    L   + +   + LV NK D+ H R V  +     A+
Sbjct: 81  ALLVYDIAKHLTYENVERWLK--ELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAE 138

Query: 92  SLHLHSFAVSARTGDN 107
             +L     SA    N
Sbjct: 139 KNNLSFIETSALDSTN 154

>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 = 69.9 bits (172), Expect = 8e-16
 Identities = 19/76 (25%), Positives = 31/76 (40%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + ++D+T  Q++  +  W+    L   +     V LV NK D+   R V  E     A+
Sbjct: 101 ALLVFDLTKHQTYAVVERWLK--ELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAE 158

Query: 92  SLHLHSFAVSARTGDN 107
           +  L     SA    N
Sbjct: 159 NNGLLFLETSALDSTN 174

>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 = 69.6 bits (171), Expect = 1e-15
 Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDI    ++ ++  W+    L   + +   + LV NK D+ H R V  +     A+
Sbjct: 105 ALLVYDIAKHLTYENVERWLK--ELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAE 162

Query: 92  SLHLHSFAVSARTGDN 107
              L     SA    N
Sbjct: 163 KNGLSFIETSALDSTN 178

>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 = 69.5 bits (171), Expect = 1e-15
 Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           ++ +YDIT+ +SF +I  W  + ++   +S      ++ NK D+  +R V+ ER  KLA 
Sbjct: 84  IMLVYDITNEKSFDNIRNW--IRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLAL 141

Query: 92  SLHLHSFAVSARTGDN 107
              +     SA+   N
Sbjct: 142 DYGIKFMETSAKANIN 157

>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 = 69.5 bits (171), Expect = 1e-15
 Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDITS ++++++  W  L      +S    + L  NK D++  R VT    ++ AQ
Sbjct: 86  ALLVYDITSRETYNALTNW--LTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQ 143

Query: 92  SLHLHSFAVSARTGDN 107
              L     SA TG+N
Sbjct: 144 ENELMFLETSALTGEN 159

>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 = 69.1 bits (170), Expect = 1e-15
 Identities = 26/76 (34%), Positives = 40/76 (52%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           ++ +YD+T+  SF +I  W  L  ++  +     + L+ NK D  H+RVV  E   KLA+
Sbjct: 87  LLLLYDVTNKASFDNIQAW--LTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAK 144

Query: 92  SLHLHSFAVSARTGDN 107
              L     SA+TG N
Sbjct: 145 EYGLPFMETSAKTGLN 160

>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 = 69.2 bits (170), Expect = 1e-15
 Identities = 26/76 (34%), Positives = 36/76 (47%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + MYDI + +SF ++  W     +   S     V LV NK D+E +RVV  E   +LA 
Sbjct: 98  FLLMYDIANQESFAAVQDW--ATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLAD 155

Query: 92  SLHLHSFAVSARTGDN 107
            L    F  SA+   N
Sbjct: 156 DLGFEFFEASAKENIN 171

>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 = 69.6 bits (171), Expect = 1e-15
 Identities = 21/76 (27%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+ +  W  L  ++R +++     LV NK D++ +RVV  +   + A 
Sbjct: 84  IIIVYDVTDQESFNGVKMW--LQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFAD 141

Query: 92  SLHLHSFAVSARTGDN 107
           +  +     SA    N
Sbjct: 142 ANKMPFLETSALDSTN 157

>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 = 69.2 bits (170), Expect = 1e-15
 Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT  ++F+ + +W  L    + SS+   + L+ NK D+E +R V  E     A+
Sbjct: 97  ALLVYDITRRETFNHLTSW--LEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAR 154

Query: 92  SLHLHSFAVSARTGDN 107
              L     SA+T  N
Sbjct: 155 EHGLIFMETSAKTACN 170

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score = 69.2 bits (170), Expect = 1e-15
 Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 1/76 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + ++D+T+ QSF ++  W+    ++  S  P  V L  NK D+E QR V  E   +LA+
Sbjct: 97  FLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIV-LCGNKSDLEDQRAVKEEEARELAE 155

Query: 92  SLHLHSFAVSARTGDN 107
              +  F  SA  G N
Sbjct: 156 KYGIPYFETSAANGTN 171

>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 = 69.6 bits (171), Expect = 1e-15
 Identities = 30/76 (39%), Positives = 40/76 (52%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I MYDIT+ +SF+++  W     +   S     V LV NK DME +RVV+ ER  +LA 
Sbjct: 84  FILMYDITNEESFNAVQDW--STQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLAD 141

Query: 92  SLHLHSFAVSARTGDN 107
            L    F  SA+   N
Sbjct: 142 HLGFEFFEASAKDNIN 157

>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 = 69.2 bits (170), Expect = 2e-15
 Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDITS ++++S+  W  L      +S    V L  NK D++ +R VT    ++ AQ
Sbjct: 101 ALLVYDITSRETYNSLAAW--LTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQ 158

Query: 92  SLHLHSFAVSARTGDN 107
              L     SA TG+N
Sbjct: 159 ENELMFLETSALTGEN 174

>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 = 69.2 bits (170), Expect = 2e-15
 Identities = 22/76 (28%), Positives = 40/76 (52%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I  YDIT  +SF  +P W+    + + +S      LV NK D+  +R V+ +R  + ++
Sbjct: 102 LILTYDITCEESFRCLPEWLR--EIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSE 159

Query: 92  SLHLHSFAVSARTGDN 107
           +  ++    SA+  DN
Sbjct: 160 AQDMYYLETSAKESDN 175

>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 = 69.2 bits (170), Expect = 2e-15
 Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT   SF+++  WV    L         +A+  NK D+   R V L+   + A+
Sbjct: 99  AVIVYDITKQDSFYTLKKWVK--ELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAE 156

Query: 92  SLHLHSFAVSARTGDN 107
           S+       SA+   N
Sbjct: 157 SIGAIVVETSAKNAIN 172

>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 = 68.8 bits (169), Expect = 2e-15
 Identities = 23/76 (30%), Positives = 40/76 (52%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT   +++ + +W+        ++  T + L+ NK D+E QR VT E   + A+
Sbjct: 91  ALMVYDITRRSTYNHLSSWLT--DARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAE 148

Query: 92  SLHLHSFAVSARTGDN 107
              L     SA+TG+N
Sbjct: 149 ENGLLFLEASAKTGEN 164

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 68.8 bits (169), Expect = 2e-15
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+++  W  L  ++R +S      LV NK D+  ++VV      + A 
Sbjct: 92  IIVVYDVTDQESFNNVKQW--LQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD 149

Query: 92  SLHLHSFAVSARTGDN 107
           SL +     SA+   N
Sbjct: 150 SLGIPFLETSAKNATN 165

>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 = 68.8 bits (169), Expect = 2e-15
 Identities = 28/76 (36%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I MYDIT+ +SF+++  W     +   S     V LV NK DME +RVV  E+   LA+
Sbjct: 99  FILMYDITNEESFNAVQDW--ATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAE 156

Query: 92  SLHLHSFAVSARTGDN 107
            L    F  SA+   +
Sbjct: 157 QLGFDFFEASAKENIS 172

>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 = 68.4 bits (168), Expect = 3e-15
 Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  +SF+++  W+    ++R +S      LV NK D+  ++VV      + A 
Sbjct: 109 IIVVYDVTDQESFNNVKQWLQ--EIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD 166

Query: 92  SLHLHSFAVSARTGDN 107
           SL +     SA+   N
Sbjct: 167 SLGIPFLETSAKNATN 182

>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 = 68.4 bits (168), Expect = 3e-15
 Identities = 24/77 (31%), Positives = 40/77 (51%), Gaps = 3/77 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YDIT  ++F  +P W  +  +++ +S    + LV NK D E  R +T ++  K AQ
Sbjct: 102 IILVYDITKKETFDDLPKW--MKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQ 159

Query: 92  SLHLHSFA-VSARTGDN 107
            +    F   SA+   N
Sbjct: 160 QITGMRFCEASAKDNFN 176

>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 = 68.5 bits (168), Expect = 4e-15
 Identities = 26/76 (34%), Positives = 37/76 (48%), Gaps = 1/76 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + M+D+TS QSF ++  W+     N     P  V L+ NK D+  QR V   +  +LA 
Sbjct: 111 FLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV-LIGNKADLPDQREVNERQARELAD 169

Query: 92  SLHLHSFAVSARTGDN 107
              +  F  SA TG N
Sbjct: 170 KYGIPYFETSAATGQN 185

>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 = 67.5 bits (166), Expect = 4e-15
 Identities = 25/76 (32%), Positives = 36/76 (47%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I +YDIT+ +SF     WV    L R++S    +AL  NK D+ ++R V  +     A 
Sbjct: 82  AIVVYDITNEESFARAKNWVK--ELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYAD 139

Query: 92  SLHLHSFAVSARTGDN 107
              L     SA+T  N
Sbjct: 140 DNSLLFMETSAKTSMN 155

>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 = 68.1 bits (167), Expect = 4e-15
 Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 3/77 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I  YDIT   SF S+P W++   + + + +     L+ NK D+   R V+L     LA+
Sbjct: 105 AILAYDITKRSSFLSVPHWIE--DVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAE 162

Query: 92  SLHLHSFA-VSARTGDN 107
              +      SA+   N
Sbjct: 163 HYDILCAIETSAKDSSN 179

>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 = 67.6 bits (166), Expect = 4e-15
 Identities = 24/76 (31%), Positives = 33/76 (43%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I ++D+T+  SF     WV    L  + +    +AL  NK D+   R VT E     AQ
Sbjct: 88  AIIVFDVTNQASFERAKKWVQ--ELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQ 145

Query: 92  SLHLHSFAVSARTGDN 107
              L     SA+T  N
Sbjct: 146 ENGLFFMETSAKTATN 161

>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 = 68.5 bits (168), Expect = 5e-15
 Identities = 15/76 (19%), Positives = 36/76 (47%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I  +D+TS  +  ++  WV              + + ANK D+++++ ++ +   ++ +
Sbjct: 88  AILFFDVTSRITCQNLARWVK--EFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLK 145

Query: 92  SLHLHSFAVSARTGDN 107
             +   F +SA+T  N
Sbjct: 146 GKNYEYFEISAKTAHN 161

>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 = 67.1 bits (165), Expect = 5e-15
 Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 3/76 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + ++  T  +SF +I +W +              ALV NK D+     +  E    LA+
Sbjct: 81  CVLVFSTTDRESFEAISSWREKV---VAEVGDIPTALVQNKIDLLDDSCIKNEEAEGLAK 137

Query: 92  SLHLHSFAVSARTGDN 107
            L L  +  S +   N
Sbjct: 138 RLKLRFYRTSVKEDLN 153

>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 = 67.8 bits (166), Expect = 9e-15
 Identities = 21/76 (27%), Positives = 31/76 (40%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDI+   S+ +   W+    L   +     V L+ NK D+ H R V  E     AQ
Sbjct: 89  ALIVYDISKSSSYENCNHWLS--ELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQ 146

Query: 92  SLHLHSFAVSARTGDN 107
              L     SA   +N
Sbjct: 147 ENQLLFTETSALNSEN 162

>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 = 66.8 bits (164), Expect = 1e-14
 Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 1/73 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVTLERHAKLAQ 91
           + +Y + S QSF S  ++++L  L+ K +  +    L+ NK DM   R VT      LA 
Sbjct: 96  LVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAG 155

Query: 92  SLHLHSFAVSART 104
                 F VSA  
Sbjct: 156 RFGCLFFEVSACL 168

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 66.0 bits (162), Expect = 2e-14
 Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 3/76 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           VI +YD+TS +SF ++  W+       ++       LV NK D   ++VV  E   K A 
Sbjct: 85  VIVVYDVTSAESFVNVKRWLHEI---NQNCDDVCRILVGNKNDDPERKVVETEDAYKFAG 141

Query: 92  SLHLHSFAVSARTGDN 107
            + +  F  SA+   N
Sbjct: 142 QMGIQLFETSAKENVN 157

>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 = 64.5 bits (158), Expect = 7e-14
 Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 1/75 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I +Y +TS +SF  I        L+        + LV NK D+  +RV++ E    LA+S
Sbjct: 82  ILVYSVTSIKSFEVIKVIHGK-LLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAES 140

Query: 93  LHLHSFAVSARTGDN 107
            +      SA+    
Sbjct: 141 WNAAFLESSAKENQT 155

>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 = 64.5 bits (158), Expect = 8e-14
 Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 3/77 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYV-ALVANKGDMEHQRVVTLERHAKLA 90
           V+F+YD+T+  SFHS+P W++     +          LV NK D+     V  +   K A
Sbjct: 97  VVFVYDMTNMASFHSLPAWIE--ECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFA 154

Query: 91  QSLHLHSFAVSARTGDN 107
            +  +  F  SA+  ++
Sbjct: 155 DTHSMPLFETSAKNPND 171

>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 = 64.1 bits (157), Expect = 9e-14
 Identities = 27/76 (35%), Positives = 41/76 (53%), Gaps = 3/76 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YDIT  ++F +I  W     +N  ++    + LV NK DME  RVVT ++   LA+
Sbjct: 79  IILVYDITDERTFTNIKQW--FKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAK 135

Query: 92  SLHLHSFAVSARTGDN 107
            L +     SA+  DN
Sbjct: 136 ELGIPFIESSAKNDDN 151

>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 = 64.6 bits (158), Expect = 9e-14
 Identities = 18/78 (23%), Positives = 37/78 (47%), Gaps = 2/78 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYV--ALVANKGDMEHQRVVTLERHAKL 89
            + ++D+T+  +F ++ +W D F +      P      ++ NK D+E+++V T    A  
Sbjct: 84  CVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWC 143

Query: 90  AQSLHLHSFAVSARTGDN 107
               ++  F  SA+   N
Sbjct: 144 YSKNNIPYFETSAKEAIN 161

>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 = 63.9 bits (156), Expect = 2e-13
 Identities = 26/76 (34%), Positives = 41/76 (53%), Gaps = 3/76 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           +I +YD+T  ++F +I  W     +N  ++    + LV NK DME  RVVT ++   LA+
Sbjct: 96  IILVYDVTDERTFTNIKQW--FKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAK 152

Query: 92  SLHLHSFAVSARTGDN 107
            L +     SA+  DN
Sbjct: 153 ELGIPFIESSAKNDDN 168

>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 = 63.1 bits (154), Expect = 3e-13
 Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 8/82 (9%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH------QRVVTLER 85
           V+ +YD+T  +SF +I  WVD   +   +     + LV NK D+        Q+ V    
Sbjct: 104 VLLLYDVTCEKSFLNIREWVD--MIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHF 161

Query: 86  HAKLAQSLHLHSFAVSARTGDN 107
             KLA +        SA+ G N
Sbjct: 162 GEKLAMTYGALFCETSAKDGSN 183

>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 = 63.0 bits (154), Expect = 4e-13
 Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 1/75 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + ++ IT  +SF +   + +   L  K        LV NK D+E +R V++E     A+ 
Sbjct: 94  LCVFSITEMESFAATADFREQ-ILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQ 152

Query: 93  LHLHSFAVSARTGDN 107
            +++    SA+T  N
Sbjct: 153 WNVNYVETSAKTRAN 167

>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 = 62.6 bits (153), Expect = 5e-13
 Identities = 25/74 (33%), Positives = 35/74 (47%), Gaps = 3/74 (4%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
           + +YDIT   SF  +    +   L+  K      + LV NK D++H R V+ E   KLA 
Sbjct: 103 VLVYDITDRGSFEEVLPLKN--ILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLAT 160

Query: 92  SLHLHSFAVSARTG 105
            L    +  SA TG
Sbjct: 161 ELACAFYECSACTG 174

>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 = 61.3 bits (150), Expect = 8e-13
 Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 1/75 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + ++ IT  +SF +   + +   L  K        LV NK D+E +R V++E     A  
Sbjct: 80  LCVFSITEMESFAATADFREQ-ILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQ 138

Query: 93  LHLHSFAVSARTGDN 107
            +++    SA+T  N
Sbjct: 139 WNVNYVETSAKTRAN 153

>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 = 61.9 bits (151), Expect = 1e-12
 Identities = 24/77 (31%), Positives = 32/77 (41%), Gaps = 4/77 (5%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYV-ALVANKGDMEHQRVVTLERHAKLA 90
           VI +YD+T   +F  +  W  L  L    +    V  LV NK D E  R V      K A
Sbjct: 91  VILVYDVTRRDTFVKLDNW--LNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFA 147

Query: 91  QSLHLHSFAVSARTGDN 107
           +   +     SA+T D 
Sbjct: 148 RKHSMLFIEASAKTCDG 164

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 61.8 bits (151), Expect = 1e-12
 Identities = 22/75 (29%), Positives = 29/75 (38%), Gaps = 1/75 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + +Y +TS  SF  I +            T   V LV NK D+  +R V      KLA+S
Sbjct: 100 VLVYSVTSLHSFQVIESLYQKL-HEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAES 158

Query: 93  LHLHSFAVSARTGDN 107
                   SAR    
Sbjct: 159 WGATFMESSARENQL 173

>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 = 61.9 bits (151), Expect = 1e-12
 Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 1/75 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + ++ IT  +SF +   + +   L  K        LV NK D+E +R V++E     A+ 
Sbjct: 90  LCVFSITEMESFAATADFREQ-ILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQ 148

Query: 93  LHLHSFAVSARTGDN 107
            +++    SA+T  N
Sbjct: 149 WNVNYVETSAKTRAN 163

>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 = 61.0 bits (149), Expect = 1e-12
 Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 1/75 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I +Y + + QSF  I    D   +  K      V LV NK D+E +R V+      LA+ 
Sbjct: 79  ILVYSLVNQQSFQDIKPMRDQ-IIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEE 137

Query: 93  LHLHSFAVSARTGDN 107
                   SA++   
Sbjct: 138 WGCPFMETSAKSKTM 152

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 61.5 bits (150), Expect = 1e-12
 Identities = 26/79 (32%), Positives = 36/79 (45%), Gaps = 3/79 (3%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYV-ALVANKGDMEHQR-VVTLERHAKL 89
            I ++D++S +SF S   W +L    R          LVANK D+  QR  V L+     
Sbjct: 100 AILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDW 159

Query: 90  AQSLHLHSFAVSAR-TGDN 107
           A +  L  F VSA   G +
Sbjct: 160 ATTNTLDFFDVSANPPGKD 178

>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 = 61.0 bits (149), Expect = 2e-12
 Identities = 22/75 (29%), Positives = 31/75 (41%), Gaps = 1/75 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + ++ I   QSF+ +        L  K      V LV NK D+E QR V     +    S
Sbjct: 85  LLVFAINDRQSFNEVGKLFTQ-ILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGAS 143

Query: 93  LHLHSFAVSARTGDN 107
            H+  F  SA+   N
Sbjct: 144 HHVAYFEASAKLRLN 158

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 60.6 bits (148), Expect = 2e-12
 Identities = 21/76 (27%), Positives = 31/76 (40%), Gaps = 3/76 (3%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVTLERHAKLAQ 91
           + ++ +T  +SF  +P  +    L          V LV NK D+   R V+LE    LA 
Sbjct: 80  LIVFSVTDRRSFSKVPETLL--RLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAG 137

Query: 92  SLHLHSFAVSARTGDN 107
           +L       SA    N
Sbjct: 138 TLSCKHIETSAALHHN 153

>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 = 60.7 bits (148), Expect = 2e-12
 Identities = 22/80 (27%), Positives = 42/80 (52%), Gaps = 4/80 (5%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYV--ALVANKGDMEH-QRVVTLERHAK 88
            + +YD+T+  SF +I +W D F ++   ++P      ++ NK D E  +++V+ +   +
Sbjct: 85  CVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQE 144

Query: 89  LAQSLHLHSFA-VSARTGDN 107
           LA+SL        SA+   N
Sbjct: 145 LAKSLGDIPLFLTSAKNAIN 164

>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 = 60.2 bits (147), Expect = 3e-12
 Identities = 21/77 (27%), Positives = 28/77 (36%), Gaps = 4/77 (5%)

Query: 33  IFMYDITSGQSFHSIPTWVD--LFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           I +Y ITS QS   +    +          S P  + LV NK D    R V       LA
Sbjct: 79  ILVYSITSRQSLEELKPIYEQICEIKGDVESIP--IMLVGNKCDESPSREVQSSEAEALA 136

Query: 91  QSLHLHSFAVSARTGDN 107
           ++        SA+   N
Sbjct: 137 RTWKCAFMETSAKLNHN 153

>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 = 59.9 bits (146), Expect = 4e-12
 Identities = 18/73 (24%), Positives = 34/73 (46%), Gaps = 1/73 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           + +Y +T   SF  +  +  L    +   +   + LVANK D+ H R VT ++  ++A  
Sbjct: 94  LIVYSVTDKASFEHVDRFHQLILRVKDRESFPMI-LVANKVDLMHLRKVTRDQGKEMATK 152

Query: 93  LHLHSFAVSARTG 105
            ++     SA+  
Sbjct: 153 YNIPYIETSAKDP 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 = 59.9 bits (146), Expect = 5e-12
 Identities = 21/76 (27%), Positives = 31/76 (40%), Gaps = 3/76 (3%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVTLERHAKLAQ 91
           + ++ +T  +SF  +P  +    L          V LV NK D+   R V+LE    LA 
Sbjct: 101 LIVFSVTDRRSFSKVPETLL--RLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAG 158

Query: 92  SLHLHSFAVSARTGDN 107
           +L       SA    N
Sbjct: 159 TLSCKHIETSAALHHN 174

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 59.5 bits (144), Expect = 9e-12
 Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 5/76 (6%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I ++DI++  +     TWV+      K S+   + LVANK D      V +    K AQ
Sbjct: 120 AIVVFDISNSNTLDRAKTWVN----QLKISSNYIIILVANKIDKNK-FQVDILEVQKYAQ 174

Query: 92  SLHLHSFAVSARTGDN 107
             +L     SA+TG N
Sbjct: 175 DNNLLFIQTSAKTGTN 190

>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 = 58.3 bits (142), Expect = 1e-11
 Identities = 14/79 (17%), Positives = 31/79 (39%), Gaps = 4/79 (5%)

Query: 32  VIFMYDITSGQSFHSIPTWVD--LFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKL 89
            +  + +   QSF ++  W    +++ + K        ++ NK D+   R V+ E     
Sbjct: 83  CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAW 141

Query: 90  AQSLHLHSFA-VSARTGDN 107
            +    + +   SA+   N
Sbjct: 142 CRDNGDYPYFETSAKDATN 160

>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 = 58.3 bits (142), Expect = 1e-11
 Identities = 19/73 (26%), Positives = 24/73 (32%), Gaps = 3/73 (4%)

Query: 36  YDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH 94
           Y I    SF S         L R   +    + LV NK D+   R V++E     A    
Sbjct: 85  YSIADRGSFESASELRI--QLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFD 142

Query: 95  LHSFAVSARTGDN 107
                 SA    N
Sbjct: 143 CKFIETSATLQHN 155

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 60.4 bits (146), Expect = 1e-11
 Identities = 11/77 (14%), Positives = 26/77 (33%), Gaps = 6/77 (7%)

Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
           + + + D  +     +   W+         S    V +V NK D      +  ++  +  
Sbjct: 124 VYMLLLDSRT---DSNKHYWLRHIEKYGGKSP---VIVVMNKIDENPSYNIEQKKINERF 177

Query: 91  QSLHLHSFAVSARTGDN 107
            ++      +S + GD 
Sbjct: 178 PAIENRFHRISCKNGDG 194

>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 = 58.9 bits (143), Expect = 2e-11
 Identities = 16/76 (21%), Positives = 35/76 (46%), Gaps = 5/76 (6%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I M+D+TS  ++ ++P W        +      + L  NK D++ ++V    +     +
Sbjct: 91  AIIMFDVTSRVTYKNVPNWHRDL---VRVCENIPIVLCGNKVDIKDRKVK--AKSIVFHR 145

Query: 92  SLHLHSFAVSARTGDN 107
             +L  + +SA++  N
Sbjct: 146 KKNLQYYDISAKSNYN 161

>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 = 57.1 bits (139), Expect = 3e-11
 Identities = 17/73 (23%), Positives = 25/73 (34%), Gaps = 3/73 (4%)

Query: 36  YDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH 94
           Y +T   SF           L R + +    + LV NK D+   R V+++     A    
Sbjct: 80  YSVTDKGSFEKASELRV--QLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFD 137

Query: 95  LHSFAVSARTGDN 107
                 SA    N
Sbjct: 138 CKFIETSAALHHN 150

>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 = 57.2 bits (139), Expect = 5e-11
 Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + ++ I + +SF  I  + +      K S    + LV NK D+   R V  ++   LA+
Sbjct: 79  FLCVFAINNTKSFEDIHHYREQI-KRVKDSEDVPMVLVGNKCDLP-SRTVDTKQAQDLAR 136

Query: 92  SLHLHSFAVSARTGDN 107
           S  +     SA+T   
Sbjct: 137 SYGIPFIETSAKTRQG 152

>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 = 57.3 bits (139), Expect = 5e-11
 Identities = 18/73 (24%), Positives = 24/73 (32%), Gaps = 3/73 (4%)

Query: 36  YDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH 94
           Y IT   SF           L R + +    + LV NK D+   R V++      A    
Sbjct: 119 YSITDRASFEKASELRI--QLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFD 176

Query: 95  LHSFAVSARTGDN 107
                 SA    N
Sbjct: 177 CKFIETSAAVQHN 189

>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 = 56.3 bits (137), Expect = 7e-11
 Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 2/76 (2%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
             +Y IT+  +F+ +    +   L  K +    + LV NK D+E +RVV  E+   LA+ 
Sbjct: 79  ALVYSITAQSTFNDLQDLREQ-ILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQ 137

Query: 93  -LHLHSFAVSARTGDN 107
             +      SA++  N
Sbjct: 138 WCNCAFLESSAKSKIN 153

>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 = 56.4 bits (137), Expect = 8e-11
 Identities = 15/79 (18%), Positives = 35/79 (44%), Gaps = 4/79 (5%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDM--EHQRVVTLERHAKL 89
           V+F++ +    SF ++  +      + ++++   + LV  +  +   + RV+   R  KL
Sbjct: 89  VVFVFSLEDEISFQTVYNYFLRL-CSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKL 147

Query: 90  AQSLHLHSFA-VSARTGDN 107
           +  L   ++    A  G N
Sbjct: 148 STDLKRCTYYETCATYGLN 166

>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 = 55.6 bits (135), Expect = 1e-10
 Identities = 19/76 (25%), Positives = 32/76 (42%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + ++ I + +SF  I  + +      K S    + LV NK D+   R V   +   LA+
Sbjct: 78  FLCVFAINNTKSFEDIHQYREQI-KRVKDSDDVPMVLVGNKSDLA-ARTVESRQAQDLAR 135

Query: 92  SLHLHSFAVSARTGDN 107
           S  +     SA+T   
Sbjct: 136 SYGIPYIETSAKTRQG 151

>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 = 55.7 bits (135), Expect = 1e-10
 Identities = 19/76 (25%), Positives = 34/76 (44%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + ++ I + +SF  I  + +      K S    + LV NK D+   R V  ++  +LA+
Sbjct: 96  FLCVFAINNSKSFADINLYREQ-IKRVKDSDDVPMVLVGNKCDLP-TRTVDTKQAHELAK 153

Query: 92  SLHLHSFAVSARTGDN 107
           S  +     SA+T   
Sbjct: 154 SYGIPFIETSAKTRQG 169

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score = 53.8 bits (130), Expect = 1e-09
 Identities = 22/75 (29%), Positives = 29/75 (38%), Gaps = 1/75 (1%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS 92
           I ++ +TS QS   +     L    + S     V LV NK D E QR V       +AQ 
Sbjct: 84  ILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCD-ETQREVDTREAQAVAQE 142

Query: 93  LHLHSFAVSARTGDN 107
                   SA+   N
Sbjct: 143 WKCAFMETSAKMNYN 157

>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 = 52.6 bits (127), Expect = 2e-09
 Identities = 15/83 (18%), Positives = 24/83 (28%), Gaps = 4/83 (4%)

Query: 29  GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY---VALVANKGDMEHQRVVTLER 85
              VIF++ +    SF ++          R          +    ++      RVV   R
Sbjct: 73  ADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDAR 132

Query: 86  HAKL-AQSLHLHSFAVSARTGDN 107
              L A       +   A  G N
Sbjct: 133 ARALXADMKRCSYYETXATYGLN 155

>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 = 49.4 bits (118), Expect = 3e-08
 Identities = 29/79 (36%), Positives = 40/79 (50%), Gaps = 5/79 (6%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH---QRVVTLERHAK 88
            + +YD+T  QSF     WV    L+ ++S    +ALV NK D      +R V  E   K
Sbjct: 79  ALVVYDVTKPQSFIKARHWVK--ELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEK 136

Query: 89  LAQSLHLHSFAVSARTGDN 107
           LA+   L  F  SA+TG+N
Sbjct: 137 LAEEKGLLFFETSAKTGEN 155

>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 = 48.4 bits (116), Expect = 7e-08
 Identities = 18/73 (24%), Positives = 24/73 (32%), Gaps = 3/73 (4%)

Query: 36  YDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH 94
           Y IT   SF           L R + +    + LV NK D+   R V++      A    
Sbjct: 88  YSITDRASFEKASELRI--QLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFD 145

Query: 95  LHSFAVSARTGDN 107
                 SA    N
Sbjct: 146 XKFIETSAAVQHN 158

>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 = 47.0 bits (112), Expect = 2e-07
 Identities = 14/85 (16%), Positives = 29/85 (34%), Gaps = 12/85 (14%)

Query: 32  VIFMYDITSGQS-FHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQR---VVTLERHA 87
            + +YD++ GQ+   ++  W+        SS    V LV    D+  ++       +   
Sbjct: 83  YLAVYDLSKGQAEVDAMKPWLFNIKARASSSP---VILVGTHLDVSDEKQRKACMSKITK 139

Query: 88  KLAQSLHL-----HSFAVSARTGDN 107
           +L           + F  +    D 
Sbjct: 140 ELLNKRGFPAIRDYHFVNATEESDA 164

>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 = 46.1 bits (109), Expect = 7e-07
 Identities = 16/78 (20%), Positives = 32/78 (41%), Gaps = 4/78 (5%)

Query: 32  VIFMYDITSG--QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKL 89
            +   D++ G  ++F     +V     N+ + T   + +V  K D   +R +       L
Sbjct: 166 FLLGIDVSRGMNRNFDDQLKFVSNL-YNQLAKTKKPIVVVLTKCDEGVERYIRDAHTFAL 224

Query: 90  AQSLHLHSFAVSARTGDN 107
           ++  +L     SAR+  N
Sbjct: 225 SKK-NLQVVETSARSNVN 241

>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 = 37.7 bits (88), Expect = 6e-04
 Identities = 17/82 (20%), Positives = 30/82 (36%), Gaps = 9/82 (10%)

Query: 31  IVIFMYDITSGQSFHSIPT-WVD-LFHLNRKSSTPTYVALVANKGDM--EHQRVVTLERH 86
           +V+  + + +  SF +I T W   + H            LV  K D+  +    VT +  
Sbjct: 97  VVLLCFAVNNRTSFDNISTKWEPEIKHYIDT--AK--TVLVGLKVDLRKDGSDDVTKQEG 152

Query: 87  AKLAQSLHLHSFA-VSARTGDN 107
             L Q L   ++   S+     
Sbjct: 153 DDLCQKLGCVAYIEASSVAKIG 174

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	158
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.92
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.87
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.87
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.87
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.86
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.86
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.86
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.86
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.86
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.86
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.86
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.86
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.85
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.84
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.84
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.84
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.84
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.84
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.84
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.84
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.84
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.83
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.83
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.83
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.83
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.83
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.83
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.83
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.82
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.82
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.82
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.82
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.82
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.82
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.82
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.82
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.82
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.82
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.81
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.81
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.81
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.81
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.81
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.81
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.81
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.81
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.81
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.8
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.8
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.8
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.8
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.8
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.8
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.8
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.8
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.79
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.79
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.79
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.79
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.78
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.78
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.78
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.78
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.78
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.78
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.78
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.78
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.78
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.78
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.77
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.77
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.77
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.77
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.77
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.77
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.77
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.76
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.76
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.75
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.75
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.75
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.73
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.72
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.71
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.71
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.71
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.7
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.7
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.7
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.69
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.69
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.68
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.68
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.68
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.68
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.68
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.5
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.67
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.67
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.66
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.65
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.62
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.62
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.6
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.59
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.55
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.55
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.54
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.53
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.52
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.51
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.51
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.5
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.5
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.49
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.49
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.47
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.47
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.45
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.45
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.45
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.44
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.43
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.42
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.41
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.39
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.38
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.38
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.35
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.34
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.33
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.32
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.31
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.28
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.26
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.23
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.22
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.21
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.21
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.18
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.18
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.17
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.17
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.14
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.1
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.05
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.04
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.03
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.0
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.93
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.93
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	98.9
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	98.89
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	98.89
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	98.89
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	98.88
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	98.85
2ged_A	193	SR-beta, signal recognition particle receptor beta	98.85
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	98.84
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.83
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	98.8
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.78
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	98.77
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	98.75
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	98.75
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	98.73
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	98.73
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.71
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	98.71
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	98.69
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.68
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	98.66
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	98.64
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	98.64
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.63
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	98.61
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.59
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	98.58
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.55
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	98.48
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	98.47
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.47
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.41
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	98.41
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	98.4
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	98.37
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.35
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.32
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.28
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.2
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	98.18
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	98.18
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	98.12
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	98.11
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	98.09
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.03
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.98
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.95
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	97.9
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	97.86
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.81
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	97.79
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.63
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	97.62
1wxq_A	397	GTP-binding protein; structural genomics, riken st	97.46
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	97.42
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.42
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	97.28
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	97.28
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	96.85
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	96.74
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	96.62
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	96.32
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	95.96
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	95.57
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.88
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	93.5
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	92.83
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	89.97
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	84.22
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	80.14

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=99.92  E-value=9.1e-25  Score=159.71  Aligned_cols=89  Identities=28%  Similarity=0.394  Sum_probs=81.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.||+.+..|+..+.......  +|++|||||+|+...+.++.++++.+++.+++.|+||||++|.||+++
T Consensus        89 ~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~--~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~  166 (216)
T 4dkx_A           89 AVVVYDITNVNSFQQTTKWIDDVRTERGSD--VIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQL  166 (216)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTTS--SEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHH
T ss_pred             EEEEeecchhHHHHHHHHHHHHHHHhcCCC--CeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHH
Confidence            999999999999999999999998665544  999999999999888889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+.|++.+...
T Consensus       167 F~~i~~~i~~~  177 (216)
T 4dkx_A          167 FRRVAAALPGM  177 (216)
T ss_dssp             HHHHHHHC---
T ss_pred             HHHHHHHHHhh
Confidence            99999988654

>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=99.87  E-value=1.4e-21  Score=139.20  Aligned_cols=114  Identities=29%  Similarity=0.426  Sum_probs=102.3

Q ss_pred             ccCCCCcceEEEEEEECCCCCCeE--------------------------------------------------------
Q psy2600           8 NLHNDNYEIQLKVVLLGDPSCGKI--------------------------------------------------------   31 (158)
Q Consensus         8 ~~~~~~~~~~~ki~~~G~~~vgk~--------------------------------------------------------   31 (158)
                      ...+.+++..+||+++|.+++|||                                                        
T Consensus        14 ~~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~   93 (191)
T 3dz8_A           14 LYFQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYY   93 (191)
T ss_dssp             EEETTEEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHH
T ss_pred             cccccccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHH
Confidence            344567889999999999999998                                                        


Q ss_pred             -----EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCC
Q psy2600          32 -----VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        32 -----~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  106 (158)
                           +++|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..++++.+++.+++.++++||++|.
T Consensus        94 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  171 (191)
T 3dz8_A           94 RGAMGFILMYDITNEESFNAVQDWATQIKTYSWDN--AQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENI  171 (191)
T ss_dssp             TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTB
T ss_pred             ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCC
Confidence                 999999999999999999999998765444  9999999999998777778888999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhH
Q psy2600         107 NCWVNTRTPEINPLKYL  123 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~~~  123 (158)
                      ||+++|+.+.+.+.+..
T Consensus       172 gi~~l~~~l~~~i~~~~  188 (191)
T 3dz8_A          172 SVRQAFERLVDAICDKM  188 (191)
T ss_dssp             SHHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHHhc
Confidence            99999999999987653

>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=99.87  E-value=2.4e-21  Score=139.75  Aligned_cols=118  Identities=24%  Similarity=0.375  Sum_probs=99.0

Q ss_pred             ccccccCCCCcceEEEEEEECCCCCCeE----------------------------------------------------
Q psy2600           4 VKMLNLHNDNYEIQLKVVLLGDPSCGKI----------------------------------------------------   31 (158)
Q Consensus         4 ~~~~~~~~~~~~~~~ki~~~G~~~vgk~----------------------------------------------------   31 (158)
                      +.|.......++..+|++++|.+++|||                                                    
T Consensus        13 ~~~~~~~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~   92 (201)
T 2ew1_A           13 GLVPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSIT   92 (201)
T ss_dssp             ---------CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHH
T ss_pred             cccCCCCccccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHH
Confidence            4455666667889999999999999998                                                    


Q ss_pred             ---------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeC
Q psy2600          32 ---------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSA  102 (158)
Q Consensus        32 ---------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  102 (158)
                               +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..++++.+++..++.++++||
T Consensus        93 ~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa  170 (201)
T 2ew1_A           93 QSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNK--VITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSA  170 (201)
T ss_dssp             GGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCT
T ss_pred             HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeC
Confidence                     999999999999999999999998765444  999999999999866677788888999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHhH
Q psy2600         103 RTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      ++|.||+++|+.+++.+.+..
T Consensus       171 ~~g~gv~~l~~~l~~~i~~~~  191 (201)
T 2ew1_A          171 KESDNVEKLFLDLACRLISEA  191 (201)
T ss_dssp             TTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999887654

>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=99.87  E-value=7.3e-21  Score=134.07  Aligned_cols=91  Identities=24%  Similarity=0.323  Sum_probs=76.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..+++..+++.+++.++++||++|.||+++
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  161 (183)
T 2fu5_C           84 IMLVYDITNEKSFDNIRNWIRNIEEHASAD--VEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENA  161 (183)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            999999999999999999999998764433  999999999999876777788899999999999999999999999999


Q ss_pred             HHHHHHHHHHhHh
Q psy2600         112 TRTPEINPLKYLQ  124 (158)
Q Consensus       112 f~~l~~~~~~~~~  124 (158)
                      |+.+.+.+.+...
T Consensus       162 ~~~l~~~i~~~~~  174 (183)
T 2fu5_C          162 FFTLARDIKAKMD  174 (183)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999877644

>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=99.86  E-value=7.9e-21  Score=136.20  Aligned_cols=113  Identities=30%  Similarity=0.439  Sum_probs=100.5

Q ss_pred             CCcceEEEEEEECCCCCCeE------------------------------------------------------------
Q psy2600          12 DNYEIQLKVVLLGDPSCGKI------------------------------------------------------------   31 (158)
Q Consensus        12 ~~~~~~~ki~~~G~~~vgk~------------------------------------------------------------   31 (158)
                      ..+++.+||+++|.+++|||                                                            
T Consensus         3 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   82 (203)
T 1zbd_A            3 HMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAM   82 (203)
T ss_dssp             CSCSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCS
T ss_pred             cccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCC
Confidence            45678999999999999998                                                            


Q ss_pred             -EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 -VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 -~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                       +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..+++..+++.+++.++++||++|.||++
T Consensus        83 ~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  160 (203)
T 1zbd_A           83 GFILMYDITNEESFNAVQDWSTQIKTYSWDN--AQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQ  160 (203)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHSCSS--CEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHH
Confidence             999999999999999999999998765433  99999999999987777778889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhHhhc
Q psy2600         111 NTRTPEINPLKYLQSN  126 (158)
Q Consensus       111 lf~~l~~~~~~~~~~~  126 (158)
                      +|++|.+.+.+.....
T Consensus       161 l~~~l~~~i~~~~~~~  176 (203)
T 1zbd_A          161 TFERLVDVICEKMSES  176 (203)
T ss_dssp             HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999988765443

>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=99.86  E-value=5.1e-21  Score=137.60  Aligned_cols=116  Identities=28%  Similarity=0.410  Sum_probs=97.5

Q ss_pred             cccccCCCCcceEEEEEEECCCCCCeE-----------------------------------------------------
Q psy2600           5 KMLNLHNDNYEIQLKVVLLGDPSCGKI-----------------------------------------------------   31 (158)
Q Consensus         5 ~~~~~~~~~~~~~~ki~~~G~~~vgk~-----------------------------------------------------   31 (158)
                      .+....++.++..+||+++|.+++|||                                                     
T Consensus        17 ~~~~~~~~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~   96 (201)
T 2hup_A           17 RGSGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQ   96 (201)
T ss_dssp             ---------CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHH
T ss_pred             CCCCCcccccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHH
Confidence            344555677889999999999999998                                                     


Q ss_pred             --------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeC
Q psy2600          32 --------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSA  102 (158)
Q Consensus        32 --------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa  102 (158)
                              +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..+++..+++.+++ .++++||
T Consensus        97 ~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA  174 (201)
T 2hup_A           97 SYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSN--IVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSA  174 (201)
T ss_dssp             HHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBT
T ss_pred             HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeC
Confidence                    999999999999999999999998765443  99999999999987667778889999999998 9999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHh
Q psy2600         103 RTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~~~~  122 (158)
                      +++.||+++|++|++.+.+.
T Consensus       175 ~~g~gi~~l~~~l~~~i~~~  194 (201)
T 2hup_A          175 KDSSNVEEAFLRVATELIMR  194 (201)
T ss_dssp             TTTBSHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999998764

>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=99.86  E-value=8.3e-21  Score=135.10  Aligned_cols=119  Identities=23%  Similarity=0.357  Sum_probs=99.1

Q ss_pred             cccccccCCCCcceEEEEEEECCCCCCeE---------------------------------------------------
Q psy2600           3 EVKMLNLHNDNYEIQLKVVLLGDPSCGKI---------------------------------------------------   31 (158)
Q Consensus         3 ~~~~~~~~~~~~~~~~ki~~~G~~~vgk~---------------------------------------------------   31 (158)
                      |+.|.....+.++..+||+++|.+++|||                                                   
T Consensus        11 ~~~~~~~~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   90 (193)
T 2oil_A           11 SSGLVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAI   90 (193)
T ss_dssp             ---------CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTT
T ss_pred             ccccccccccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhh
Confidence            45677777888999999999999999998                                                   


Q ss_pred             ----------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEe
Q psy2600          32 ----------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVS  101 (158)
Q Consensus        32 ----------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  101 (158)
                                +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..+++..+++..++.++++|
T Consensus        91 ~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  168 (193)
T 2oil_A           91 TSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEAT--IVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETS  168 (193)
T ss_dssp             HHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTT--CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEC
T ss_pred             hHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEe
Confidence                      899999999999999999999998654333  99999999999976666777888899999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHhH
Q psy2600         102 ARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus       102 a~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      |+++.||+++|+.|.+.+.+..
T Consensus       169 a~~~~gi~~l~~~l~~~i~~~~  190 (193)
T 2oil_A          169 ALDSTNVELAFETVLKEIFAKV  190 (193)
T ss_dssp             TTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999887654

>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=99.86  E-value=1.6e-20  Score=133.59  Aligned_cols=115  Identities=23%  Similarity=0.317  Sum_probs=101.7

Q ss_pred             cccCCCCcceEEEEEEECCCCCCeE-------------------------------------------------------
Q psy2600           7 LNLHNDNYEIQLKVVLLGDPSCGKI-------------------------------------------------------   31 (158)
Q Consensus         7 ~~~~~~~~~~~~ki~~~G~~~vgk~-------------------------------------------------------   31 (158)
                      ...........+|++++|..++|||                                                       
T Consensus        11 ~~~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   90 (191)
T 2a5j_A           11 SSGLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSY   90 (191)
T ss_dssp             CCCCCCTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHH
T ss_pred             ccccccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHH
Confidence            3444556788999999999999998                                                       


Q ss_pred             ------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCC
Q psy2600          32 ------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  105 (158)
                            +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..++++.+++.+++.++++||+++
T Consensus        91 ~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~--~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~  168 (191)
T 2a5j_A           91 YRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSN--MVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTA  168 (191)
T ss_dssp             HTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTC
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCC
Confidence                  999999999999999999999998765444  999999999999776677788899999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHhH
Q psy2600         106 DNCWVNTRTPEINPLKYL  123 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~~  123 (158)
                      .||+++|+.|.+.+.+..
T Consensus       169 ~gi~~l~~~l~~~i~~~~  186 (191)
T 2a5j_A          169 CNVEEAFINTAKEIYRKI  186 (191)
T ss_dssp             TTHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHH
Confidence            999999999999987754

>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=99.86  E-value=1.1e-20  Score=135.65  Aligned_cols=119  Identities=24%  Similarity=0.329  Sum_probs=98.8

Q ss_pred             cccccCCCCcceEEEEEEECCCCCCeE-----------------------------------------------------
Q psy2600           5 KMLNLHNDNYEIQLKVVLLGDPSCGKI-----------------------------------------------------   31 (158)
Q Consensus         5 ~~~~~~~~~~~~~~ki~~~G~~~vgk~-----------------------------------------------------   31 (158)
                      .|.......++..+||+++|..++|||                                                     
T Consensus        13 ~~~~~~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~   92 (200)
T 2o52_A           13 GLVPRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTR   92 (200)
T ss_dssp             ---------CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCH
T ss_pred             ccccccccccCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHH
Confidence            344445557788999999999999998                                                     


Q ss_pred             --------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCC
Q psy2600          32 --------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSAR  103 (158)
Q Consensus        32 --------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  103 (158)
                              +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+...++..+++..++.++++||+
T Consensus        93 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~  170 (200)
T 2o52_A           93 SYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPN--IVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSAL  170 (200)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTT--CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTT
T ss_pred             HHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCC
Confidence                    899999999999999999999998655444  9999999999997666677788889999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhHhh
Q psy2600         104 TGDNCWVNTRTPEINPLKYLQS  125 (158)
Q Consensus       104 ~~~~i~~lf~~l~~~~~~~~~~  125 (158)
                      +|.||+++|++|.+.+.+....
T Consensus       171 ~g~gi~~l~~~l~~~i~~~~~~  192 (200)
T 2o52_A          171 TGENVEEAFLKCARTILNKIDS  192 (200)
T ss_dssp             TCTTHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHHHhc
Confidence            9999999999999998876543

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.86  E-value=1.6e-20  Score=133.53  Aligned_cols=110  Identities=26%  Similarity=0.422  Sum_probs=100.1

Q ss_pred             CCcceEEEEEEECCCCCCeE------------------------------------------------------------
Q psy2600          12 DNYEIQLKVVLLGDPSCGKI------------------------------------------------------------   31 (158)
Q Consensus        12 ~~~~~~~ki~~~G~~~vgk~------------------------------------------------------------   31 (158)
                      ...+..+||+++|.+++|||                                                            
T Consensus        11 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   90 (196)
T 3tkl_A           11 PEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAH   90 (196)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCS
T ss_pred             cccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCC
Confidence            45678899999999999998                                                            


Q ss_pred             -EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 -VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 -~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                       +++|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+...++..+++.+++.++++||+++.||++
T Consensus        91 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~  168 (196)
T 3tkl_A           91 GIIVVYDVTDQESFNNVKQWLQEIDRYASEN--VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQ  168 (196)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHH
Confidence             999999999999999999999998765544  99999999999987777888889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      +|+++.+.+.+..
T Consensus       169 l~~~l~~~i~~~~  181 (196)
T 3tkl_A          169 SFMTMAAEIKKRM  181 (196)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988764

>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=99.86  E-value=4.9e-21  Score=139.39  Aligned_cols=89  Identities=18%  Similarity=0.104  Sum_probs=77.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|||++++.||+.+..|+..+... ....  +|+++|+||+|+...+.+..+++..++..+++.|++|||++|.||++
T Consensus       115 ~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~--~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~e  192 (211)
T 2g3y_A          115 YLIVYSITDRASFEKASELRIQLRRARQTED--IPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKE  192 (211)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHTSGGGTT--SCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCCC--CcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            89999999999999999999888743 2223  89999999999976667777888888888999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|+.+++.+...
T Consensus       193 lf~~l~~~i~~~  204 (211)
T 2g3y_A          193 LFEGIVRQVRLR  204 (211)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999988543

>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=99.86  E-value=1.1e-20  Score=135.48  Aligned_cols=89  Identities=24%  Similarity=0.249  Sum_probs=79.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|||++++.+|+.+..|+.++..... ..  +|+++|+||+|+...+.+..+++..+++.+++.|+++||++|.||++
T Consensus       100 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~  177 (195)
T 3cbq_A          100 FLIVFSVTDRRSFSKVPETLLRLRAGRPHHD--LPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRE  177 (195)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSTTSC--CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCCHHH
Confidence            8999999999999999999999886543 23  99999999999987777788889999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|+.+++.+...
T Consensus       178 lf~~l~~~i~~~  189 (195)
T 3cbq_A          178 LFEGAVRQIRLR  189 (195)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            999999988653

>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=99.85  E-value=2.8e-20  Score=132.00  Aligned_cols=113  Identities=28%  Similarity=0.388  Sum_probs=99.7

Q ss_pred             cCCCCcceEEEEEEECCCCCCeE---------------------------------------------------------
Q psy2600           9 LHNDNYEIQLKVVLLGDPSCGKI---------------------------------------------------------   31 (158)
Q Consensus         9 ~~~~~~~~~~ki~~~G~~~vgk~---------------------------------------------------------   31 (158)
                      ......++.+||+++|.+++|||                                                         
T Consensus        14 ~~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   93 (189)
T 2gf9_A           14 LVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYR   93 (189)
T ss_dssp             CCCTTCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGT
T ss_pred             CCCcccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhcc
Confidence            34456778999999999999998                                                         


Q ss_pred             ----EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          32 ----VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        32 ----~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                          +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..++++.+++.+++.++++||++|.|
T Consensus        94 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g  171 (189)
T 2gf9_A           94 GAMGFLLMYDIANQESFAAVQDWATQIKTYSWDN--AQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENIN  171 (189)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBS
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCC
Confidence                999999999999999999999998765333  99999999999987666777888999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhH
Q psy2600         108 CWVNTRTPEINPLKYL  123 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~  123 (158)
                      |+++|+.|.+.+.+..
T Consensus       172 i~~l~~~l~~~i~~~~  187 (189)
T 2gf9_A          172 VKQVFERLVDVICEKM  187 (189)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            9999999999887643

>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=99.84  E-value=3.6e-20  Score=128.67  Aligned_cols=88  Identities=24%  Similarity=0.258  Sum_probs=79.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+.++..... ..  +|+++|+||+|+...+.+..+++..+++.+++.++++||++|.|+++
T Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  156 (169)
T 3q85_A           79 FLIVFSVTDRRSFSKVPETLLRLRAGRPHHD--LPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRE  156 (169)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSTTSC--CCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHH
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHhcccCCC--CCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHH
Confidence            9999999999999999999999986543 23  89999999999987777888899999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +|+.+++.+..
T Consensus       157 l~~~l~~~i~~  167 (169)
T 3q85_A          157 LFEGAVRQIRL  167 (169)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998765

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.84  E-value=4.9e-20  Score=129.10  Aligned_cols=91  Identities=27%  Similarity=0.336  Sum_probs=81.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+..+......   +|+++|+||+|+...+.+..++...++..++++++++||++|.|++++
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  161 (181)
T 3tw8_B           85 VIVVYDVTSAESFVNVKRWLHEINQNCDD---VCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEM  161 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHCTT---SEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCCC---CCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHH
Confidence            99999999999999999999999876543   999999999999877777888899999999999999999999999999


Q ss_pred             HHHHHHHHHHhHhh
Q psy2600         112 TRTPEINPLKYLQS  125 (158)
Q Consensus       112 f~~l~~~~~~~~~~  125 (158)
                      |+.+.+.+.+....
T Consensus       162 ~~~l~~~~~~~~~~  175 (181)
T 3tw8_B          162 FNCITELVLRAKKD  175 (181)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999998876543

>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=99.84  E-value=5.1e-20  Score=129.92  Aligned_cols=91  Identities=24%  Similarity=0.360  Sum_probs=81.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+...++..+++..++.++++||++|.||+++
T Consensus        86 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  163 (186)
T 2bme_A           86 ALLVYDITSRETYNALTNWLTDARMLASQN--IVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEA  163 (186)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHH
Confidence            999999999999999999999988665444  999999999999766677778889999999999999999999999999


Q ss_pred             HHHHHHHHHHhHh
Q psy2600         112 TRTPEINPLKYLQ  124 (158)
Q Consensus       112 f~~l~~~~~~~~~  124 (158)
                      |+.+.+.+.+...
T Consensus       164 ~~~l~~~~~~~~~  176 (186)
T 2bme_A          164 FVQCARKILNKIE  176 (186)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999887643

>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=99.84  E-value=8.5e-20  Score=128.59  Aligned_cols=88  Identities=23%  Similarity=0.222  Sum_probs=79.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCC-CCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSAR-TGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~-~~~~i~  109 (158)
                      +++|||++++.+|+.+..|+..+... ....  +|+++|+||+|+...+.+..+++..+++.++++|+++||+ ++.||+
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~v~  170 (183)
T 3kkq_A           93 FLIVYSVTDKASFEHVDRFHQLILRVKDRES--FPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVD  170 (183)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTSSC--CCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCCHH
Confidence            99999999999999999999998753 2233  8999999999998777888889999999999999999999 999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      ++|+.+.+.+.+
T Consensus       171 ~l~~~l~~~i~~  182 (183)
T 3kkq_A          171 KTFHDLVRVIRQ  182 (183)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999999998764

>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=99.84  E-value=6.1e-20  Score=128.06  Aligned_cols=90  Identities=19%  Similarity=0.110  Sum_probs=78.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+.... ...  +|+++|+||+|+...+.+..+++..++..++++++++||++|.||++
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~--~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  158 (175)
T 2nzj_A           81 YVIVYSIADRGSFESASELRIQLRRTHQADH--VPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAE  158 (175)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHCC------CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhccCC--CCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHH
Confidence            999999999999999999999887542 122  89999999999987777778888889999999999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      +|+.|.+.+....
T Consensus       159 l~~~l~~~~~~~~  171 (175)
T 2nzj_A          159 LFEGVVRQLRLRR  171 (175)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999887643

>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=99.84  E-value=3.7e-20  Score=128.63  Aligned_cols=88  Identities=23%  Similarity=0.329  Sum_probs=78.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..+++..+++.+++.++++||++|.|++++
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  159 (170)
T 1z08_A           82 AILVYDITDEDSFQKVKNWVKELRKMLGNE--ICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEEL  159 (170)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHGGG--SEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Confidence            999999999999999999999988544333  899999999999876677788899999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |+++.+.+.+
T Consensus       160 ~~~l~~~~~~  169 (170)
T 1z08_A          160 FLDLCKRMIE  169 (170)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhh
Confidence            9999988754

>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=99.84  E-value=7.6e-20  Score=127.90  Aligned_cols=88  Identities=26%  Similarity=0.374  Sum_probs=78.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..++++.+++.+++.++++||++|.||+++
T Consensus        91 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  168 (179)
T 1z0f_A           91 ALMVYDITRRSTYNHLSSWLTDARNLTNPN--TVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDA  168 (179)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEeCcCHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            999999999999999999999998765444  999999999999766667778899999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |+++.+.+.+
T Consensus       169 ~~~l~~~i~~  178 (179)
T 1z0f_A          169 FLEAAKKIYQ  178 (179)
T ss_dssp             HHHHHHHHC-
T ss_pred             HHHHHHHHhh
Confidence            9999987743

>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=99.84  E-value=3.5e-20  Score=128.42  Aligned_cols=89  Identities=18%  Similarity=0.140  Sum_probs=78.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+.... ...  +|+++|+||+|+...+.+..+++..++..++++++++||++|.|+++
T Consensus        76 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  153 (166)
T 3q72_A           76 YVIVYSVTDKGSFEKASELRVQLRRARQTDD--VPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQA  153 (166)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHCC---C--CCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHH
Confidence            899999999999999999999988542 223  89999999999987778888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|+.+.+.+.+.
T Consensus       154 l~~~l~~~~~~~  165 (166)
T 3q72_A          154 LFEGVVRQIRLR  165 (166)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc
Confidence            999999987653

>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=99.83  E-value=1.3e-19  Score=127.10  Aligned_cols=89  Identities=29%  Similarity=0.396  Sum_probs=79.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..++...+++.+++.++++||+++.|++++
T Consensus        87 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  164 (180)
T 2g6b_A           87 LLLLYDVTNKASFDNIQAWLTEIHEYAQHD--VALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLA  164 (180)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            899999999999999999999998765443  999999999999877777788889999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+++.+.+.+.
T Consensus       165 ~~~l~~~~~~~  175 (180)
T 2g6b_A          165 FTAIAKELKRR  175 (180)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHHHHHH
Confidence            99999988653

>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=99.83  E-value=1e-19  Score=129.21  Aligned_cols=109  Identities=22%  Similarity=0.265  Sum_probs=94.5

Q ss_pred             CCcceEEEEEEECCCCCCeE------------------------------------------------------EEEEEE
Q psy2600          12 DNYEIQLKVVLLGDPSCGKI------------------------------------------------------VIFMYD   37 (158)
Q Consensus        12 ~~~~~~~ki~~~G~~~vgk~------------------------------------------------------~i~v~d   37 (158)
                      ....-.+|++++|.+++|||                                                      +++|||
T Consensus        15 ~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~i~v~d   94 (184)
T 3ihw_A           15 YFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEGGRFKKEIVVDGQSYLLLIRDEGGPPELQFAAWVDAVVFVFS   94 (184)
T ss_dssp             -CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTCEEEEEEEEETTEEEEEEEEECSSSCCHHHHHHCSEEEEEEE
T ss_pred             CCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCcceEEEEEEECCEEEEEEEEECCCChhhheecCCCEEEEEEE
Confidence            34456789999999999998                                                      899999


Q ss_pred             CCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCC--CCccccHHHHHHHHHHhC-CeEEEEeCCCCCCHHHHHH
Q psy2600          38 ITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDME--HQRVVTLERHAKLAQSLH-LHSFAVSARTGDNCWVNTR  113 (158)
Q Consensus        38 ~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~lf~  113 (158)
                      ++++.+|+.+..|+..+..... ..  +|+++|+||+|+.  ..+.+..+++..+++.++ +.|+++||++|.||+++|+
T Consensus        95 ~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gv~~lf~  172 (184)
T 3ihw_A           95 LEDEISFQTVYNYFLRLCSFRNASE--VPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQ  172 (184)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTSCGGG--SCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBTHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCCCHHHHHH
Confidence            9999999999999999986532 22  8999999999993  466778889999999987 8999999999999999999


Q ss_pred             HHHHHHHHh
Q psy2600         114 TPEINPLKY  122 (158)
Q Consensus       114 ~l~~~~~~~  122 (158)
                      .+++.+.+.
T Consensus       173 ~l~~~i~~~  181 (184)
T 3ihw_A          173 DVAQKVVAL  181 (184)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988764

>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=99.83  E-value=1.3e-19  Score=130.13  Aligned_cols=90  Identities=23%  Similarity=0.316  Sum_probs=80.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..+++..+++.+++.++++||++|.||+++
T Consensus        84 vilv~d~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l  161 (206)
T 2bcg_Y           84 IIIVYDVTDQESFNGVKMWLQEIDRYATST--VLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDA  161 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            999999999999999999999998665444  999999999999876677788888999999999999999999999999


Q ss_pred             HHHHHHHHHHhH
Q psy2600         112 TRTPEINPLKYL  123 (158)
Q Consensus       112 f~~l~~~~~~~~  123 (158)
                      |+.+.+.+.+..
T Consensus       162 ~~~l~~~i~~~~  173 (206)
T 2bcg_Y          162 FLTMARQIKESM  173 (206)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHH
Confidence            999999887653

>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=99.83  E-value=9.2e-20  Score=130.30  Aligned_cols=89  Identities=19%  Similarity=0.133  Sum_probs=77.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.||+.+..|+..+.... ..+  +|+++|+||+|+...+.+..+++..++..+++.|++|||++|.||++
T Consensus        84 ~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~--~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~  161 (192)
T 2cjw_A           84 YLIVYSITDRASFEKASELRIQLRRARQTED--IPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKE  161 (192)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTTSC--CCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhCCCC--CeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHH
Confidence            899999999999999999998887542 223  89999999999976666777788888888899999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|+.+++.+...
T Consensus       162 lf~~l~~~~~~~  173 (192)
T 2cjw_A          162 LFEGIVRQVRLR  173 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999999988654

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.83  E-value=1e-19  Score=129.69  Aligned_cols=109  Identities=27%  Similarity=0.399  Sum_probs=95.6

Q ss_pred             CCCcceEEEEEEECCCCCCeE-----------------------------------------------------------
Q psy2600          11 NDNYEIQLKVVLLGDPSCGKI-----------------------------------------------------------   31 (158)
Q Consensus        11 ~~~~~~~~ki~~~G~~~vgk~-----------------------------------------------------------   31 (158)
                      ....+..+||+++|..++|||                                                           
T Consensus        20 p~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~   99 (192)
T 2il1_A           20 PRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSA   99 (192)
T ss_dssp             --CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHC
T ss_pred             CcccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCC
Confidence            346678899999999999998                                                           


Q ss_pred             --EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh-CCeEEEEeCCCCCCH
Q psy2600          32 --VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL-HLHSFAVSARTGDNC  108 (158)
Q Consensus        32 --~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i  108 (158)
                        +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..++++.+++.. +..++++||++|.||
T Consensus       100 d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~--~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi  177 (192)
T 2il1_A          100 KGIILVYDITKKETFDDLPKWMKMIDKYASED--AELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNV  177 (192)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSH
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCH
Confidence              999999999999999999999988765544  999999999999876677778888888875 789999999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2600         109 WVNTRTPEINPLK  121 (158)
Q Consensus       109 ~~lf~~l~~~~~~  121 (158)
                      +++|+.|.+.+.+
T Consensus       178 ~~l~~~l~~~i~~  190 (192)
T 2il1_A          178 DEIFLKLVDDILK  190 (192)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988764

>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=99.83  E-value=3.8e-20  Score=134.39  Aligned_cols=89  Identities=22%  Similarity=0.242  Sum_probs=78.3

Q ss_pred             EEEEEECCChhHHhh-HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHS-IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~   97 (158)
                      +|+|||++++.+|+. +..|+..+......   +|+++|+||+|+...            +.+..+++..+++.+++ .|
T Consensus       102 ~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  178 (214)
T 3q3j_B          102 VLLCFDISRPETVDSALKKWRTEILDYCPS---TRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIY  178 (214)
T ss_dssp             EEEEEETTCTHHHHHHHTHHHHHHHHHCTT---SEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEE
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEE
Confidence            999999999999999 68999999876543   999999999999652            56788899999999998 89


Q ss_pred             EEEeCCCCCC-HHHHHHHHHHHHHHhH
Q psy2600          98 FAVSARTGDN-CWVNTRTPEINPLKYL  123 (158)
Q Consensus        98 ~~~Sa~~~~~-i~~lf~~l~~~~~~~~  123 (158)
                      ++|||++|.| |+++|+.+++.+....
T Consensus       179 ~e~SA~~g~g~v~~lf~~l~~~~~~~~  205 (214)
T 3q3j_B          179 LEGSAFTSEKSIHSIFRTASMLCLNKP  205 (214)
T ss_dssp             EECCTTTCHHHHHHHHHHHHHHHHC--
T ss_pred             EEeccCCCcccHHHHHHHHHHHHhccC
Confidence            9999999998 9999999999887654

>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=99.83  E-value=1.7e-19  Score=125.15  Aligned_cols=88  Identities=31%  Similarity=0.389  Sum_probs=77.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+..+.......  +|+++|+||+|+. .+.+..+++..+++.++++++++||++|.|++++
T Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l  155 (170)
T 1g16_A           79 IILVYDITDERTFTNIKQWFKTVNEHANDE--AQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEI  155 (170)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCT-TCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECccCC-cCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHH
Confidence            899999999999999999999998765443  9999999999994 4456677888899999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+.+.+.+.+.
T Consensus       156 ~~~l~~~~~~~  166 (170)
T 1g16_A          156 FFTLAKLIQEK  166 (170)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            99999988764

>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=99.82  E-value=1.9e-19  Score=126.23  Aligned_cols=91  Identities=19%  Similarity=0.224  Sum_probs=76.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC---CCCCcEEEEEEeCCCCC--CCccccHHHHHHHHHHh-CCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK---SSTPTYVALVANKGDME--HQRVVTLERHAKLAQSL-HLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+.+..|++.+.....   ..  +|+++|+||+|+.  ..+.+..+++..+++.+ ++.++++||++|
T Consensus        76 ~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~--~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~  153 (178)
T 2iwr_A           76 VIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGG--LALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYG  153 (178)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCC--CEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTT
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEecccc
Confidence            9999999999999999998776664322   23  8999999999993  45567788888898886 688999999999


Q ss_pred             CCHHHHHHHHHHHHHHhHh
Q psy2600         106 DNCWVNTRTPEINPLKYLQ  124 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~~~  124 (158)
                      .||+++|+.+++.+.+...
T Consensus       154 ~~i~~lf~~l~~~~~~~~~  172 (178)
T 2iwr_A          154 LNVDRVFQEVAQKVVTLRK  172 (178)
T ss_dssp             BTHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHh
Confidence            9999999999998877543

>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=99.82  E-value=1.5e-19  Score=125.38  Aligned_cols=87  Identities=25%  Similarity=0.273  Sum_probs=77.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+++.+..|+..+.......  +|+++|+||+|+...+.+..++...+++.++..++++||+++.|++++
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~--~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  159 (170)
T 1z0j_A           82 AIIVYDITKEETFSTLKNWVRELRQHGPPS--IVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININEL  159 (170)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTT--SEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHH
Confidence            899999999999999999999998765444  999999999999876677788888999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |+.+.+.+.
T Consensus       160 ~~~i~~~i~  168 (170)
T 1z0j_A          160 FIEISRRIP  168 (170)
T ss_dssp             HHHHHHHCC
T ss_pred             HHHHHHHHh
Confidence            999988763

>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=99.82  E-value=2.7e-19  Score=126.51  Aligned_cols=92  Identities=25%  Similarity=0.397  Sum_probs=81.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|||++++.+++.+..|+..+..... ..  +|+++|+||+|+...+.+..+++..+++.+++.++++||+++.||++
T Consensus        97 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  174 (195)
T 3bc1_A           97 FLLLFDLTNEQSFLNVRNWISQLQMHAYSEN--PDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISH  174 (195)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSSSSS--CCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECcccccccccCHHHHHHHHHHcCCCEEEEECCCCCCHHH
Confidence            8999999999999999999999986543 23  89999999999976666777888999999999999999999999999


Q ss_pred             HHHHHHHHHHHhHhh
Q psy2600         111 NTRTPEINPLKYLQS  125 (158)
Q Consensus       111 lf~~l~~~~~~~~~~  125 (158)
                      +|+.|.+.+.+....
T Consensus       175 l~~~l~~~~~~~~~~  189 (195)
T 3bc1_A          175 AIEMLLDLIMKRMER  189 (195)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhh
Confidence            999999998776543

>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=99.82  E-value=2e-19  Score=126.23  Aligned_cols=89  Identities=26%  Similarity=0.288  Sum_probs=78.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..+++..+++.+++.++++||++|.||+++
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l  165 (181)
T 2efe_B           88 AIIVFDVTNQASFERAKKWVQELQAQGNPN--MVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEI  165 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHH
Confidence            999999999999999999999998765433  999999999999876777788899999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+.|.+.+...
T Consensus       166 ~~~l~~~~~~~  176 (181)
T 2efe_B          166 FYEIARRLPRV  176 (181)
T ss_dssp             HHHHHHTCC--
T ss_pred             HHHHHHHHHhc
Confidence            99999887553

>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=99.82  E-value=1.1e-19  Score=125.89  Aligned_cols=87  Identities=25%  Similarity=0.310  Sum_probs=77.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..+++..+++.+++.++++||++|.|++++
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l  159 (170)
T 1r2q_A           82 AIVVYDITNEESFARAKNWVKELQRQASPN--IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEI  159 (170)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            999999999999999999999998664443  999999999999766667778888999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |++|.+.+.
T Consensus       160 ~~~i~~~~~  168 (170)
T 1r2q_A          160 FMAIAKKLP  168 (170)
T ss_dssp             HHHHHHTSC
T ss_pred             HHHHHHHHh
Confidence            999988763

>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=99.82  E-value=8.3e-20  Score=130.11  Aligned_cols=88  Identities=23%  Similarity=0.265  Sum_probs=78.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..++++.+++.+++.++++||+++.||+++
T Consensus        99 iilV~d~~~~~s~~~~~~~~~~i~~~~~~~--~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  176 (192)
T 2fg5_A           99 AVIVYDITKQDSFYTLKKWVKELKEHGPEN--IVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEEL  176 (192)
T ss_dssp             EEEEEETTCTHHHHHHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhCCCC--CcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHH
Confidence            899999999999999999999998765444  999999999999766667788899999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |+.|.+.+.+
T Consensus       177 ~~~l~~~i~~  186 (192)
T 2fg5_A          177 FQGISRQIPP  186 (192)
T ss_dssp             HHHHHHTCC-
T ss_pred             HHHHHHHHHh
Confidence            9999988754

>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=99.82  E-value=1.8e-19  Score=130.45  Aligned_cols=91  Identities=29%  Similarity=0.407  Sum_probs=79.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|||++++.+|+.+..|+..+..... ..  +|+++|+||+|+...+.+..+++..+++.+++.++++||+++.||++
T Consensus       111 iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~--~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  188 (217)
T 2f7s_A          111 FLLMFDLTSQQSFLNVRNWMSQLQANAYCEN--PDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEK  188 (217)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHTCCCCCTTTC--CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBTHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCcCC--CCEEEEEECCccccccccCHHHHHHHHHHCCCcEEEEECCCCCCHHH
Confidence            8999999999999999999998875432 23  99999999999987667778889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhHh
Q psy2600         111 NTRTPEINPLKYLQ  124 (158)
Q Consensus       111 lf~~l~~~~~~~~~  124 (158)
                      +|++|.+.+.+...
T Consensus       189 l~~~l~~~i~~~~~  202 (217)
T 2f7s_A          189 AVETLLDLIMKRME  202 (217)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999877543

>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=99.82  E-value=9e-20  Score=129.58  Aligned_cols=88  Identities=27%  Similarity=0.281  Sum_probs=78.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC---CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeC-CCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK---SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSA-RTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa-~~~~~  107 (158)
                      +++|||++++.+|+.+..|+..+.....   ..  +|+++|+||+|+...+.+..+++..+++.+++.|+++|| ++|.|
T Consensus        95 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~--~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~g  172 (187)
T 3c5c_A           95 FLVVYSVDSRQSFDSSSSYLELLALHAKETQRS--IPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEH  172 (187)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCC--CCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhhccCCC--CCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCcccc
Confidence            9999999999999999999999986521   22  899999999999876777888999999999999999999 89999


Q ss_pred             HHHHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINPLK  121 (158)
Q Consensus       108 i~~lf~~l~~~~~~  121 (158)
                      |+++|+.+++.+.+
T Consensus       173 v~~lf~~l~~~i~~  186 (187)
T 3c5c_A          173 VQHVFHEAVREARR  186 (187)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999988753

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.82  E-value=1.1e-19  Score=132.40  Aligned_cols=90  Identities=23%  Similarity=0.308  Sum_probs=77.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..+++..+++.+++.++++||+++.||+++
T Consensus        89 vilV~D~~~~~s~~~~~~~l~~i~~~~~~~--~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  166 (223)
T 3cpj_B           89 ALIVYDISKSSSYENCNHWLSELRENADDN--VAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKA  166 (223)
T ss_dssp             EEEEEC-CCHHHHHHHHHHHHHHHHHCC----CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            999999999999999999999998664433  999999999999766677778889999999999999999999999999


Q ss_pred             HHHHHHHHHHhH
Q psy2600         112 TRTPEINPLKYL  123 (158)
Q Consensus       112 f~~l~~~~~~~~  123 (158)
                      |++|.+.+.+..
T Consensus       167 ~~~l~~~i~~~~  178 (223)
T 3cpj_B          167 FEELINTIYQKV  178 (223)
T ss_dssp             HHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHh
Confidence            999999887654

>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=99.82  E-value=2.2e-19  Score=125.72  Aligned_cols=91  Identities=24%  Similarity=0.265  Sum_probs=79.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+.. .....  +|+++|+||+|+...+.+..+++..++...++.++++||++|.||++
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~  161 (181)
T 2fn4_A           84 FLLVFAINDRQSFNEVGKLFTQILRVKDRDD--FPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDE  161 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSC--CCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Confidence            9999999999999999999999853 33333  89999999999987667778888899999999999999999999999


Q ss_pred             HHHHHHHHHHHhHh
Q psy2600         111 NTRTPEINPLKYLQ  124 (158)
Q Consensus       111 lf~~l~~~~~~~~~  124 (158)
                      +|+.|.+.+.+...
T Consensus       162 l~~~l~~~~~~~~~  175 (181)
T 2fn4_A          162 AFEQLVRAVRKYQE  175 (181)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhhc
Confidence            99999999876543

>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=99.81  E-value=2.2e-19  Score=127.85  Aligned_cols=88  Identities=17%  Similarity=0.130  Sum_probs=77.6

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCC--CccccHHHHHHHHHHhCCe-EEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEH--QRVVTLERHAKLAQSLHLH-SFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~  107 (158)
                      +++|||++++.+|+.+ ..|+..+......   +|+++|+||+|+..  .+.+..+++..+++.+++. ++++||++|.|
T Consensus        98 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  174 (194)
T 3reg_A           98 VLLCFAVNNRTSFDNISTKWEPEIKHYIDT---AKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIG  174 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCTT---SEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBS
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCC
Confidence            9999999999999997 6899888866443   99999999999974  3567788999999999988 99999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy2600         108 CWVNTRTPEINPLKY  122 (158)
Q Consensus       108 i~~lf~~l~~~~~~~  122 (158)
                      |+++|+.+++.+.+.
T Consensus       175 i~~l~~~l~~~i~~~  189 (194)
T 3reg_A          175 LNEVFEKSVDCIFSN  189 (194)
T ss_dssp             HHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999988654

>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=99.81  E-value=2.3e-19  Score=126.14  Aligned_cols=90  Identities=24%  Similarity=0.213  Sum_probs=79.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+.++..... ..  +|+++|+||+|+...+.+..+++..+++.+++.++++||++|.|+.+
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  158 (181)
T 3t5g_A           81 YILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ--IPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVD  158 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHC------CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHH
Confidence            9999999999999999999999875432 23  89999999999987778888999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      +|+.+++.+....
T Consensus       159 l~~~l~~~~~~~~  171 (181)
T 3t5g_A          159 VFRRIILEAEKMD  171 (181)
T ss_dssp             HHHHHHHHHHTC-
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999987653

>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=99.81  E-value=1.9e-19  Score=128.87  Aligned_cols=88  Identities=28%  Similarity=0.355  Sum_probs=76.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC------CCccccHHHHHHHHHHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME------HQRVVTLERHAKLAQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  105 (158)
                      +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+.      ..+.+..+.++.+++.+++.++++||++|
T Consensus       104 iilv~d~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g  181 (199)
T 2p5s_A          104 VLLLYDVTCEKSFLNIREWVDMIEDAAHET--VPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDG  181 (199)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHC-----CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTC
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHhcCCC--CCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCC
Confidence            999999999999999999999988665433  8999999999985      34566778888999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~  121 (158)
                      .||+++|..+.+.+.+
T Consensus       182 ~gv~el~~~l~~~i~~  197 (199)
T 2p5s_A          182 SNIVEAVLHLAREVKK  197 (199)
T ss_dssp             TTHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999988753

>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=99.81  E-value=2.5e-19  Score=124.00  Aligned_cols=87  Identities=22%  Similarity=0.275  Sum_probs=77.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+..+......   .|+++|+||+|+...+.+..++++.+++.+++.++++||+++.|++++
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  157 (168)
T 1z2a_A           81 CVLVFSTTDRESFEAISSWREKVVAEVGD---IPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEV  157 (168)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCS---CCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhCCC---CCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHH
Confidence            89999999999999999999999865432   899999999999766667778888999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |+.+.+.+.+
T Consensus       158 ~~~l~~~~~~  167 (168)
T 1z2a_A          158 FKYLAEKHLQ  167 (168)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhh
Confidence            9999987753

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.81  E-value=1.5e-19  Score=129.65  Aligned_cols=90  Identities=26%  Similarity=0.222  Sum_probs=78.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+.... ...  +|+++|+||+|+...+.+...++..+++.+++.++++||++|.||++
T Consensus        99 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  176 (201)
T 3oes_A           99 YVLVYSVTSLHSFQVIESLYQKLHEGHGKTR--VPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQG  176 (201)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHC-----C--CCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Confidence            899999999999999999999998542 222  89999999999987777888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      +|+.|.+.+.+..
T Consensus       177 l~~~l~~~i~~~~  189 (201)
T 3oes_A          177 IFTKVIQEIARVE  189 (201)
T ss_dssp             HHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHhhh
Confidence            9999999987654

>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=99.81  E-value=5.3e-19  Score=125.79  Aligned_cols=86  Identities=17%  Similarity=0.241  Sum_probs=75.7

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~   97 (158)
                      +++|||++++.+|+.+. .|+..+......   +|+++|+||+|+...            +.+..+++..+++.++. .|
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  169 (194)
T 2atx_A           93 FLICFSVVNPASFQNVKEEWVPELKEYAPN---VPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCY  169 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHSTT---CCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEE
Confidence            99999999999999997 899999876432   999999999999653            35677888999999997 89


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      +++||++|.||+++|+.+.+.+.
T Consensus       170 ~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          170 VECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHh
Confidence            99999999999999999998875

>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=99.81  E-value=2.9e-19  Score=123.79  Aligned_cols=87  Identities=32%  Similarity=0.337  Sum_probs=76.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC---ccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQ---RVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      +++|||++++.+|+.+..|+..+.......  +|+++|+||+|+...   +.+..++...+++.+++.++++||++|.|+
T Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi  156 (170)
T 1ek0_A           79 ALVVYDVTKPQSFIKARHWVKELHEQASKD--IIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENV  156 (170)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTH
T ss_pred             EEEEEecCChHHHHHHHHHHHHHHHhcCCC--CcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCH
Confidence            999999999999999999999998665433  999999999998654   567778888999999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         109 WVNTRTPEINPL  120 (158)
Q Consensus       109 ~~lf~~l~~~~~  120 (158)
                      +++|+.+.+.+.
T Consensus       157 ~~l~~~l~~~i~  168 (170)
T 1ek0_A          157 NDVFLGIGEKIP  168 (170)
T ss_dssp             HHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHh
Confidence            999999987653

>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=99.81  E-value=2.9e-19  Score=129.40  Aligned_cols=90  Identities=18%  Similarity=0.234  Sum_probs=77.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||+++..+|+.+..|+..+.......  +|+++|+||+|+...+.+..+....+++..++.++++||++|.||+++
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l  165 (218)
T 4djt_A           88 AILFFDVTSRITCQNLARWVKEFQAVVGNE--APIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLP  165 (218)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCSS--SCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHHH
Confidence            899999999999999999999998665444  899999999999876677788888888888999999999999999999


Q ss_pred             HHHHHHHHHHhH
Q psy2600         112 TRTPEINPLKYL  123 (158)
Q Consensus       112 f~~l~~~~~~~~  123 (158)
                      |+.|.+.+.+..
T Consensus       166 ~~~l~~~~~~~~  177 (218)
T 4djt_A          166 FLHLARIFTGRP  177 (218)
T ss_dssp             HHHHHHHHHCCT
T ss_pred             HHHHHHHHhccc
Confidence            999999987653

>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=99.81  E-value=4.4e-19  Score=122.50  Aligned_cols=88  Identities=20%  Similarity=0.203  Sum_probs=78.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+..... ..  +|+++|+||+|+...+.+..+++..+++.++++++++||++|.|+++
T Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  156 (168)
T 1u8z_A           79 FLCVFSITEMESFAATADFREQILRVKEDEN--VPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDK  156 (168)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHCCTT--SCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHH
Confidence            9999999999999999999999986543 23  89999999999976666778889999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +|+++.+.+.+
T Consensus       157 l~~~l~~~i~~  167 (168)
T 1u8z_A          157 VFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999988753

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.80  E-value=5.6e-19  Score=123.61  Aligned_cols=88  Identities=34%  Similarity=0.518  Sum_probs=76.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC---CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK---SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      +++|||++++.+|+.+..|+..+.....   ..  +|+++|+||+|+...+.+..+++..+++.++++++++||++|.||
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~--~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  160 (178)
T 2hxs_A           83 VLLVYDITNYQSFENLEDWYTVVKKVSEESETQ--PLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSV  160 (178)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCC--CEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhcccCCC--CeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCH
Confidence            9999999999999999999999886421   21  458999999999766667778889999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2600         109 WVNTRTPEINPLK  121 (158)
Q Consensus       109 ~~lf~~l~~~~~~  121 (158)
                      +++|+++.+.+.+
T Consensus       161 ~~l~~~l~~~~~~  173 (178)
T 2hxs_A          161 FLCFQKVAAEILG  173 (178)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988764

>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=99.80  E-value=7.9e-19  Score=121.39  Aligned_cols=87  Identities=22%  Similarity=0.202  Sum_probs=76.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh-CCeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL-HLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i~  109 (158)
                      +++|||++++.+|+.+..|+..+.... ...  +|+++|+||+|+...+.+..+++..+++.+ +.+++++||++|.|++
T Consensus        78 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  155 (167)
T 1c1y_A           78 FALVYSITAQSTFNDLQDLREQILRVKDTED--VPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVN  155 (167)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSC--CCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhCcCC--CcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHH
Confidence            999999999999999999999888543 223  899999999999876677788888999887 7899999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         110 VNTRTPEINPL  120 (158)
Q Consensus       110 ~lf~~l~~~~~  120 (158)
                      ++|+++.+.+.
T Consensus       156 ~l~~~l~~~i~  166 (167)
T 1c1y_A          156 EIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999998763

>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=99.80  E-value=1.2e-18  Score=124.65  Aligned_cols=90  Identities=20%  Similarity=0.187  Sum_probs=80.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+..... ..  +|+++|+||+|+...+.+..+++..+++.+++.++++||++|.||++
T Consensus        89 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  166 (206)
T 2bov_A           89 FLCVFSITEMESFAATADFREQILRVKEDEN--VPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDK  166 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTCSC--CCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Confidence            9999999999999999999999986543 23  89999999999987666778889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      +|+++++.+.+..
T Consensus       167 l~~~l~~~i~~~~  179 (206)
T 2bov_A          167 VFFDLMREIRARK  179 (206)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcc
Confidence            9999999987753

>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=99.80  E-value=8.7e-19  Score=123.26  Aligned_cols=90  Identities=20%  Similarity=0.187  Sum_probs=79.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+..... ..  +|+++|+||+|+...+.+..+++..+++.+++.++++||+++.||++
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  170 (187)
T 2a9k_A           93 FLCVFSITEMESFAATADFREQILRVKEDEN--VPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDK  170 (187)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHCCTT--CCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHH
Confidence            9999999999999999999999886543 23  89999999999976666778889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      +|++|.+.+.+..
T Consensus       171 l~~~l~~~i~~~~  183 (187)
T 2a9k_A          171 VFFDLMREIRARK  183 (187)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999887653

>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=99.80  E-value=1.7e-18  Score=124.61  Aligned_cols=90  Identities=29%  Similarity=0.391  Sum_probs=79.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+. .+.+..++...+++.++++++++||+++.||+++
T Consensus        96 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  172 (213)
T 3cph_A           96 IILVYDVTDERTFTNIKQWFKTVNEHANDE--AQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEI  172 (213)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHTTTC--SEEEEEEECTTCS-SCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECCCCc-ccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            999999999999999999999998665433  9999999999994 4556677888899999999999999999999999


Q ss_pred             HHHHHHHHHHhHh
Q psy2600         112 TRTPEINPLKYLQ  124 (158)
Q Consensus       112 f~~l~~~~~~~~~  124 (158)
                      |+.|.+.+.+...
T Consensus       173 ~~~l~~~~~~~~~  185 (213)
T 3cph_A          173 FFTLAKLIQEKID  185 (213)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999887653

>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=99.80  E-value=3.6e-19  Score=126.31  Aligned_cols=88  Identities=13%  Similarity=0.188  Sum_probs=74.3

Q ss_pred             EEEEEECC------ChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCC
Q psy2600          32 VIFMYDIT------SGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSART  104 (158)
Q Consensus        32 ~i~v~d~~------~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~  104 (158)
                      +|+|||++      +..+|+.+..|+.++..... .  +|+++|+||+|+...  +..+++..+++.+++ .++++||++
T Consensus       101 ~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~-~--~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~  175 (198)
T 3t1o_A          101 IVFVADSAPNRLRANAESMRNMRENLAEYGLTLD-D--VPIVIQVNKRDLPDA--LPVEMVRAVVDPEGKFPVLEAVATE  175 (198)
T ss_dssp             EEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTT-S--SCEEEEEECTTSTTC--CCHHHHHHHHCTTCCSCEEECBGGG
T ss_pred             EEEEEECCcchhhHhHHHHHHHHHHHHhhccccC-C--CCEEEEEEchhcccc--cCHHHHHHHHHhcCCceEEEEecCC
Confidence            99999999      56788888889888753222 2  999999999999753  567788899999998 999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhHh
Q psy2600         105 GDNCWVNTRTPEINPLKYLQ  124 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~~~~~  124 (158)
                      |.||+++|++|++.+.+...
T Consensus       176 ~~gv~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          176 GKGVFETLKEVSRLVLARVA  195 (198)
T ss_dssp             TBTHHHHHHHHHHHHHHHHC
T ss_pred             CcCHHHHHHHHHHHHHHHhh
Confidence            99999999999999887643

>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=99.80  E-value=9e-19  Score=124.99  Aligned_cols=89  Identities=28%  Similarity=0.336  Sum_probs=79.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCC-CHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGD-NCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~i~  109 (158)
                      +++|||++++.+|+.+..|+..+..... ..  +|+++|+||+|+...+.+..+++..+++.+++.++++||++|. ||+
T Consensus       102 iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~  179 (196)
T 2atv_A          102 FVLVYDITDRGSFEEVLPLKNILDEIKKPKN--VTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNIT  179 (196)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTTSC--CCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhhCCCC--CcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHH
Confidence            8999999999999999999999886432 23  8999999999998766777888999999999999999999999 999


Q ss_pred             HHHHHHHHHHHHh
Q psy2600         110 VNTRTPEINPLKY  122 (158)
Q Consensus       110 ~lf~~l~~~~~~~  122 (158)
                      ++|+.|.+.+.+.
T Consensus       180 ~l~~~l~~~i~~~  192 (196)
T 2atv_A          180 EIFYELCREVRRR  192 (196)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999988654

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.80  E-value=1.7e-20  Score=134.42  Aligned_cols=108  Identities=27%  Similarity=0.427  Sum_probs=87.8

Q ss_pred             CCcceEEEEEEECCCCCCeE------------------------------------------------------------
Q psy2600          12 DNYEIQLKVVLLGDPSCGKI------------------------------------------------------------   31 (158)
Q Consensus        12 ~~~~~~~ki~~~G~~~vgk~------------------------------------------------------------   31 (158)
                      ...+..+||+++|.+++|||                                                            
T Consensus        28 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d  107 (199)
T 3l0i_B           28 PEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAH  107 (199)
T ss_dssp             CCCSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCS
T ss_pred             cccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCC
Confidence            35678899999999999998                                                            


Q ss_pred             -EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 -VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 -~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                       +|+|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..++++.+++.++++++++||+++.||++
T Consensus       108 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~  185 (199)
T 3l0i_B          108 GIIVVYDVTDQESFNNVKQWLQEIDRYASEN--VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQ  185 (199)
T ss_dssp             EEEECC-CCCSHHHHHHHHHHHHHHSCC-CC--SEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhccCC--CCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHH
Confidence             999999999999999999999998655444  99999999999986666666678888999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +|++|.+.+.+
T Consensus       186 l~~~l~~~l~~  196 (199)
T 3l0i_B          186 SFMTMAAEIKK  196 (199)
T ss_dssp             HHHHHTTTTTT
T ss_pred             HHHHHHHHHHH
Confidence            99999987754

>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=99.79  E-value=8.4e-19  Score=122.53  Aligned_cols=87  Identities=30%  Similarity=0.421  Sum_probs=77.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+..+.......  +|+++|+||+|+...+.+..++...+++.+++.++++||+++.|++++
T Consensus        90 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  167 (179)
T 2y8e_A           90 AVVVYDITNTNSFHQTSKWIDDVRTERGSD--VIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQL  167 (179)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTTS--SEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            999999999999999999999988654433  999999999999876677778888899999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |+.+.+.+.
T Consensus       168 ~~~l~~~~~  176 (179)
T 2y8e_A          168 FRRVAAALP  176 (179)
T ss_dssp             HHHHHHTCC
T ss_pred             HHHHHHHHh
Confidence            999988764

>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=99.79  E-value=8.9e-19  Score=120.83  Aligned_cols=88  Identities=23%  Similarity=0.171  Sum_probs=77.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+..... ..  +|+++|+||+|+...+.+..++...+++.++++++++||++|.|+++
T Consensus        78 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  155 (167)
T 1kao_A           78 FILVYSLVNQQSFQDIKPMRDQIIRVKRYEK--VPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDE  155 (167)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTTSC--CCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHH
Confidence            9999999999999999999998875432 23  89999999999976667778888899999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +|+.+.+.+.+
T Consensus       156 l~~~l~~~~~~  166 (167)
T 1kao_A          156 LFAEIVRQMNY  166 (167)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999987753

>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=99.79  E-value=3e-18  Score=119.97  Aligned_cols=89  Identities=24%  Similarity=0.355  Sum_probs=75.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC----CCCCcEEEEEEeCCCCC-CCccccHHHHHHHHH-HhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK----SSTPTYVALVANKGDME-HQRVVTLERHAKLAQ-SLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~----~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+.+..|+..+.....    ..  +|+++|+||+|+. ..+.+..+++..+++ ..+..++++||++|
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~--~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~  162 (182)
T 1ky3_A           85 CVLVYDVTNASSFENIKSWRDEFLVHANVNSPET--FPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNA  162 (182)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTT--CCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTT
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhcccCcCC--CcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCC
Confidence            8999999999999999999999885432    22  8999999999995 344566778888888 45688999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy2600         106 DNCWVNTRTPEINPLKY  122 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~  122 (158)
                      .||+++|+.+.+.+.+.
T Consensus       163 ~gi~~l~~~l~~~~~~~  179 (182)
T 1ky3_A          163 INVDTAFEEIARSALQQ  179 (182)
T ss_dssp             BSHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999999988764

>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=99.79  E-value=6e-19  Score=124.73  Aligned_cols=87  Identities=17%  Similarity=0.261  Sum_probs=75.0

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhC-CeE
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLH-LHS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~   97 (158)
                      +++|||++++.+|+.+ ..|+..+......   +|+++|+||+|+...            +.+..+++..+++.++ ..|
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  158 (184)
T 1m7b_A           82 VLICFDISRPETLDSVLKKWKGEIQEFCPN---TKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATY  158 (184)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCTT---CEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHHCCC---CCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEE
Confidence            9999999999999998 6899988866433   999999999999642            4567788999999888 789


Q ss_pred             EEEeCC-CCCCHHHHHHHHHHHHHH
Q psy2600          98 FAVSAR-TGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        98 ~~~Sa~-~~~~i~~lf~~l~~~~~~  121 (158)
                      +++||+ ++.||+++|+.+++.+..
T Consensus       159 ~e~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          159 IECSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             EECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             EEeeecCCCcCHHHHHHHHHHHHhc
Confidence            999999 689999999999988753

>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=99.78  E-value=4.6e-18  Score=119.85  Aligned_cols=90  Identities=21%  Similarity=0.215  Sum_probs=78.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+..... ..  +|+++|+||+|+.. +.+..+....+++.++++++++||++|.|+++
T Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  155 (189)
T 4dsu_A           79 FLCVFAINNTKSFEDIHHYREQIKRVKDSED--VPMVLVGNKCDLPS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDD  155 (189)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTCSC--CCEEEEEECTTSSS-CSSCHHHHHHHHHHHTCCEEECCTTTCTTHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CcEEEEEECccCcc-cccCHHHHHHHHHHcCCeEEEEeCCCCCCHHH
Confidence            8999999999999999999999986432 23  89999999999974 45567788999999999999999999999999


Q ss_pred             HHHHHHHHHHHhHh
Q psy2600         111 NTRTPEINPLKYLQ  124 (158)
Q Consensus       111 lf~~l~~~~~~~~~  124 (158)
                      +|+++.+.+.+...
T Consensus       156 l~~~l~~~~~~~~~  169 (189)
T 4dsu_A          156 AFYTLVREIRKHKE  169 (189)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999999877643

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.78  E-value=1.9e-18  Score=123.58  Aligned_cols=89  Identities=19%  Similarity=0.293  Sum_probs=77.4

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCC------------CccccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEH------------QRVVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~   97 (158)
                      +++|||++++.+|+.+. .|+..+......   +|+++|+||+|+..            .+.+..+++..+++.++. .|
T Consensus        95 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  171 (201)
T 2q3h_A           95 FLLCFSVVSPSSFQNVSEKWVPEIRCHCPK---APIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASY  171 (201)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCSS---SCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEE
Confidence            99999999999999997 799998876443   99999999999864            245677788899999887 89


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      +++||++|.||+++|+.+++.+.+..
T Consensus       172 ~~~Sa~~g~gi~~l~~~l~~~~~~~~  197 (201)
T 2q3h_A          172 IECSALTQKNLKEVFDAAIVAGIQYS  197 (201)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EEEecCCCCCHHHHHHHHHHHHhccc
Confidence            99999999999999999999887653

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.78  E-value=2.5e-18  Score=123.06  Aligned_cols=90  Identities=27%  Similarity=0.364  Sum_probs=70.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC---CCCCcEEEEEEeCCCCCC-CccccHHHHHHHHHHhCCeEEEEeCCC-CC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK---SSTPTYVALVANKGDMEH-QRVVTLERHAKLAQSLHLHSFAVSART-GD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~-~~  106 (158)
                      +|+|||++++.+|+.+..|+..+.....   ..  +|+++|+||+|+.. .+.+..+++..+++.+++.++++||++ +.
T Consensus       100 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~--~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~  177 (208)
T 2yc2_C          100 AILVFDVSSMESFESCKAWFELLKSARPDRERP--LRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGK  177 (208)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSC--CEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC-----
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhcccccC--CcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCc
Confidence            9999999999999999999999987654   33  99999999999987 667778899999999999999999999 99


Q ss_pred             CHHHHHHHHHHHHHHhH
Q psy2600         107 NCWVNTRTPEINPLKYL  123 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~~~  123 (158)
                      ||.++|+.+.+.+.+..
T Consensus       178 gi~~l~~~i~~~~~~~~  194 (208)
T 2yc2_C          178 DADAPFLSIATTFYRNY  194 (208)
T ss_dssp             --CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHH
Confidence            99999999999887654

>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=99.78  E-value=8.2e-19  Score=126.67  Aligned_cols=87  Identities=18%  Similarity=0.268  Sum_probs=75.1

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCC------------CccccHHHHHHHHHHhC-CeE
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEH------------QRVVTLERHAKLAQSLH-LHS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~   97 (158)
                      +|+|||++++.+|+.+ ..|+..+......   +|+++|+||+|+..            .+.+..+++..+++.++ ..|
T Consensus       103 ~ilv~D~~~~~s~~~~~~~~~~~i~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  179 (205)
T 1gwn_A          103 VLICFDISRPETLDSVLKKWKGEIQEFCPN---TKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATY  179 (205)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCTT---CEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHHCCC---CCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEE
Confidence            9999999999999998 7899998866433   99999999999964            24567788899999887 689


Q ss_pred             EEEeCC-CCCCHHHHHHHHHHHHHH
Q psy2600          98 FAVSAR-TGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        98 ~~~Sa~-~~~~i~~lf~~l~~~~~~  121 (158)
                      ++|||+ ++.||+++|+.+++.+..
T Consensus       180 ~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          180 IECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             EECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEeeeccCCcCHHHHHHHHHHHHhh
Confidence            999999 689999999999988764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.78  E-value=1.3e-18  Score=120.71  Aligned_cols=89  Identities=21%  Similarity=0.144  Sum_probs=75.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+++.+..|+..+.+.......+|+++|+||+|+...+.+...+...+++.++++++++||++|.|++++
T Consensus        78 ~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  157 (172)
T 2erx_A           78 FILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKEL  157 (172)
T ss_dssp             EEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHH
Confidence            99999999999999999999888765321112899999999999766667777888899999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |+++.+.+.
T Consensus       158 ~~~l~~~~~  166 (172)
T 2erx_A          158 FQELLNLEK  166 (172)
T ss_dssp             HHHHHHTCC
T ss_pred             HHHHHHHHh
Confidence            999998764

>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=99.78  E-value=4.3e-18  Score=118.95  Aligned_cols=87  Identities=20%  Similarity=0.287  Sum_probs=74.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC----CCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-HhCCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK----SSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-SLHLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~----~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~  106 (158)
                      +++|||++++.+|+.+..|+..+.....    ..  +|+++|+||+|+. .+.+..+++..+++ ..+..++++||++|.
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~--~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (177)
T 1wms_A           83 CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPES--FPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDAT  159 (177)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTT--SCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCT
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHccccccCC--CcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCC
Confidence            8999999999999999999999885432    22  8999999999997 44566778888888 557899999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      |++++|+.+.+.+.+
T Consensus       160 gi~~l~~~l~~~~~~  174 (177)
T 1wms_A          160 NVAAAFEEAVRRVLA  174 (177)
T ss_dssp             THHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999998764

>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=99.78  E-value=7.7e-19  Score=127.64  Aligned_cols=112  Identities=22%  Similarity=0.338  Sum_probs=95.1

Q ss_pred             ccccCCCCcceEEEEEEECCCCCCeE------------------------------------------------------
Q psy2600           6 MLNLHNDNYEIQLKVVLLGDPSCGKI------------------------------------------------------   31 (158)
Q Consensus         6 ~~~~~~~~~~~~~ki~~~G~~~vgk~------------------------------------------------------   31 (158)
                      |..+........+||+++|.+++|||                                                      
T Consensus         4 ~~~~~~~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   83 (221)
T 3gj0_A            4 MASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDG   83 (221)
T ss_dssp             --CCSTTCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHH
T ss_pred             cccccCCCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHH
Confidence            44555667778899999999999998                                                      


Q ss_pred             -------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCC
Q psy2600          32 -------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSART  104 (158)
Q Consensus        32 -------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  104 (158)
                             +++|||++++.+|+.+..|+..+......   +|+++|+||+|+......  .+...+++..++.|+++||++
T Consensus        84 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~p~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~Sa~~  158 (221)
T 3gj0_A           84 YYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN---IPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKS  158 (221)
T ss_dssp             HHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSTT---CCEEEEEECTTSSSCSSC--GGGCCHHHHHTCEEEECBGGG
T ss_pred             HHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC---CCEEEEEECCcccccccc--HHHHHHHHHcCCEEEEEeCCC
Confidence                   99999999999999999999999976543   899999999999754332  256667888899999999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy2600         105 GDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~~~  122 (158)
                      |.||+++|++|.+.+...
T Consensus       159 ~~gi~~l~~~l~~~l~~~  176 (221)
T 3gj0_A          159 NYNFEKPFLWLARKLIGD  176 (221)
T ss_dssp             TBTTTHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHhC
Confidence            999999999999988764

>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=99.78  E-value=2e-18  Score=122.47  Aligned_cols=87  Identities=28%  Similarity=0.367  Sum_probs=74.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCC---CC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTG---DN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~---~~  107 (158)
                      +|+|||++++.+|+.+..|+..+.... ...  +|+++|+||+|+...+.+..++...+++.+++.++++||+++   .|
T Consensus        97 iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~  174 (189)
T 1z06_A           97 VVFVYDMTNMASFHSLPAWIEECKQHLLAND--IPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDH  174 (189)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHCCCSC--CCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSC
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCC--CCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcccC
Confidence            999999999999999999999998653 233  899999999999776677788889999999999999999999   99


Q ss_pred             HHHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINPL  120 (158)
Q Consensus       108 i~~lf~~l~~~~~  120 (158)
                      |.++|+.|.+.+.
T Consensus       175 i~~l~~~l~~~i~  187 (189)
T 1z06_A          175 VEAIFMTLAHKLK  187 (189)
T ss_dssp             HHHHHHHHC----
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988764

>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=99.78  E-value=2e-18  Score=125.14  Aligned_cols=88  Identities=25%  Similarity=0.315  Sum_probs=76.4

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc------------cccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQR------------VVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~   97 (158)
                      +++|||++++.+|+.+. .|+..+......   +|+++|+||+|+....            .+..+++..+++.++. .+
T Consensus       109 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  185 (214)
T 2j1l_A          109 LLLCFDVTSPNSFDNIFNRWYPEVNHFCKK---VPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAY  185 (214)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCSS---CCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEE
Confidence            89999999999999996 799998866433   8999999999997542            4666788889999997 89


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      +++||++|.||+++|+.+.+.+.+.
T Consensus       186 ~~~SA~~g~gi~el~~~l~~~~~~~  210 (214)
T 2j1l_A          186 LECSARLHDNVHAVFQEAAEVALSS  210 (214)
T ss_dssp             EECBTTTTBSHHHHHHHHHHHHHHC
T ss_pred             EEecCCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999988754

>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=99.78  E-value=6.2e-19  Score=123.79  Aligned_cols=86  Identities=15%  Similarity=0.230  Sum_probs=74.5

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc----------ccHHHHHHHHHHhCC-eEEE
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRV----------VTLERHAKLAQSLHL-HSFA   99 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~   99 (158)
                      +++|||++++.+|+.+. .|+..+......   +|+++|+||+|+...+.          +..+++..+++.++. .|++
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  159 (182)
T 3bwd_D           83 FILAFSLISKASYENVSKKWIPELKHYAPG---VPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIE  159 (182)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCTT---CCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEE
Confidence            99999999999999997 799998876432   89999999999865443          366788889999896 8999


Q ss_pred             EeCCCCCCHHHHHHHHHHHHH
Q psy2600         100 VSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus       100 ~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      +||++|.||+++|+.+.+.+.
T Consensus       160 ~Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          160 CSSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHHHHHh
Confidence            999999999999999998764

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.77  E-value=1.6e-18  Score=123.36  Aligned_cols=119  Identities=16%  Similarity=0.127  Sum_probs=83.4

Q ss_pred             cccccccCCCCcceEEEEEEECCCCCCeE---------------------------------------------------
Q psy2600           3 EVKMLNLHNDNYEIQLKVVLLGDPSCGKI---------------------------------------------------   31 (158)
Q Consensus         3 ~~~~~~~~~~~~~~~~ki~~~G~~~vgk~---------------------------------------------------   31 (158)
                      ++.+.....+......||+++|..++|||                                                   
T Consensus         3 ~~~~~~~~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   82 (199)
T 4bas_A            3 SSHHHHHHMGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNVETFEKGRVAFTVFDMGGAKKFRGLWET   82 (199)
T ss_dssp             -------------CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEEEEEEETTEEEEEEEECCSGGGGGGGGG
T ss_pred             ccccccccccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeEEEEEeCCEEEEEEECCCCHhHHHHHHH
Confidence            34444555667778899999999999998                                                   


Q ss_pred             -------EEEEEECCChhHHhhHHHHHHHHhhhcC--------CCCCcEEEEEEeCCCCCCCccc---cHHHHHH-HHHH
Q psy2600          32 -------VIFMYDITSGQSFHSIPTWVDLFHLNRK--------SSTPTYVALVANKGDMEHQRVV---TLERHAK-LAQS   92 (158)
Q Consensus        32 -------~i~v~d~~~~~s~~~~~~~~~~~~~~~~--------~~~~~piilv~nK~Dl~~~~~~---~~~~~~~-~~~~   92 (158)
                             +|+|||++++.+|+.+..|+..+.....        ..  +|+++|+||+|+......   ....... +++.
T Consensus        83 ~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~--~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~  160 (199)
T 4bas_A           83 YYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGR--VPFLFFANKMDAAGAKTAAELVEILDLTTLMGD  160 (199)
T ss_dssp             GCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCB--CCEEEEEECTTSTTCCCHHHHHHHHTHHHHHTT
T ss_pred             HHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCC--CCEEEEEECcCCCCCCCHHHHHHHhcchhhccC
Confidence                   9999999999999999999988874311        12  899999999999754221   1111111 1134


Q ss_pred             hCCeEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          93 LHLHSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        93 ~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      .++.+++|||++|.||+++|+.|.+.+.+..
T Consensus       161 ~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          161 HPFVIFASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             SCEEEEECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             CeeEEEEeeCCCccCHHHHHHHHHHHHHHHh
Confidence            5678999999999999999999999987653

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.77  E-value=1.3e-18  Score=125.55  Aligned_cols=89  Identities=16%  Similarity=0.206  Sum_probs=76.5

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc--------ccHHHHHHHHHHhCC-eEEEEe
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRV--------VTLERHAKLAQSLHL-HSFAVS  101 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--------~~~~~~~~~~~~~~~-~~~~~S  101 (158)
                      +|+|||++++.+|+.+. .|+..+......   +|+++|+||+|+...+.        +..+++..+++.++. .|+++|
T Consensus        84 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  160 (212)
T 2j0v_A           84 FVLAFSLISKASYENVLKKWMPELRRFAPN---VPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECS  160 (212)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCTT---CCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECC
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEcc
Confidence            99999999999999996 899999876432   99999999999865443        367788889999985 899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHhH
Q psy2600         102 ARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus       102 a~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      |++|.||+++|+.+++.+.+..
T Consensus       161 a~~g~gi~~l~~~l~~~~~~~~  182 (212)
T 2j0v_A          161 SKTQQNVKAVFDTAIKVVLQPP  182 (212)
T ss_dssp             TTTCTTHHHHHHHHHHHHHCC-
T ss_pred             CCCCCCHHHHHHHHHHHHhhhh
Confidence            9999999999999999887653

>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=99.77  E-value=1.1e-17  Score=118.65  Aligned_cols=88  Identities=24%  Similarity=0.293  Sum_probs=76.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|||++++.+|+.+..|+..+..... ..  +|+++|+||+|+.. +.+..+++..+++.+++.++++||+++.||++
T Consensus        91 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  167 (195)
T 1x3s_A           91 VILVYDVTRRDTFVKLDNWLNELETYCTRND--IVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQC  167 (195)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHTTCCSCSC--CEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCcCC--CcEEEEEECCcCcc-cccCHHHHHHHHHHcCCEEEEecCCCCCCHHH
Confidence            8999999999999999999999986432 22  89999999999953 45667788899999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|+.|.+.+.+.
T Consensus       168 l~~~l~~~~~~~  179 (195)
T 1x3s_A          168 AFEELVEKIIQT  179 (195)
T ss_dssp             HHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhh
Confidence            999999988753

>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=99.77  E-value=5.1e-18  Score=121.66  Aligned_cols=87  Identities=20%  Similarity=0.260  Sum_probs=75.0

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~   97 (158)
                      +++|||++++.+|+.+ ..|+..+......   +|+++|+||+|+...            +.+..+++..+++..+. .+
T Consensus       100 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  176 (201)
T 2gco_A          100 ILMCFSIDSPDSLENIPEKWTPEVKHFCPN---VPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGY  176 (201)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHSTT---CCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEE
Confidence            9999999999999999 6898888865433   899999999999754            34667788889999887 89


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +++||++|.||+++|+.|.+.+.+
T Consensus       177 ~~~SA~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          177 LECSAKTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHhc
Confidence            999999999999999999987653

>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=99.77  E-value=8e-18  Score=120.56  Aligned_cols=89  Identities=24%  Similarity=0.346  Sum_probs=75.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC----CCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-HhCCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK----SSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-SLHLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~----~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~  106 (158)
                      +|+|||++++.+|+.+..|+..+.....    ..  +|+++|+||+|+. .+.+..+++..+++ ..+..++++||++|.
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~  160 (207)
T 1vg8_A           84 CVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPEN--FPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAI  160 (207)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGG--SCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTTTB
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcccccCCC--CcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCCCC
Confidence            8999999999999999999998875432    12  8999999999997 34556677888887 567899999999999


Q ss_pred             CHHHHHHHHHHHHHHhH
Q psy2600         107 NCWVNTRTPEINPLKYL  123 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~~~  123 (158)
                      ||+++|+.|.+.+.+..
T Consensus       161 gi~~l~~~l~~~~~~~~  177 (207)
T 1vg8_A          161 NVEQAFQTIARNALKQE  177 (207)
T ss_dssp             SHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhc
Confidence            99999999999887654

>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=99.77  E-value=1.1e-17  Score=115.14  Aligned_cols=87  Identities=21%  Similarity=0.237  Sum_probs=75.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||+++..+++.+..|+..+..... ..  +|+++|+||+|+.. +....++...+++.++++++++||+++.|+++
T Consensus        78 ~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~--~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  154 (166)
T 2ce2_X           78 FLCVFAINNTKSFEDIHQYREQIKRVKDSDD--VPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVED  154 (166)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTCSC--CCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCC--CcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Confidence            9999999999999999999999886543 23  89999999999875 44567788889999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +|+++.+.+.+
T Consensus       155 l~~~l~~~~~~  165 (166)
T 2ce2_X          155 AFYTLVREIRQ  165 (166)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999988753

>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=99.77  E-value=1.2e-17  Score=118.25  Aligned_cols=88  Identities=22%  Similarity=0.255  Sum_probs=77.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||+++..+|+.+..|+..+..... ..  +|+++|+||+|+.. +.+..+++..+++.+++.++++||+++.|+++
T Consensus        96 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  172 (190)
T 3con_A           96 FLCVFAINNSKSFADINLYREQIKRVKDSDD--VPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVED  172 (190)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTCSC--CCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHH
Confidence            8999999999999999999999886543 22  89999999999975 45567788899999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|++|.+.+.+.
T Consensus       173 l~~~l~~~~~~~  184 (190)
T 3con_A          173 AFYTLVREIRQY  184 (190)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988754

>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=99.76  E-value=3.4e-18  Score=120.25  Aligned_cols=87  Identities=17%  Similarity=0.183  Sum_probs=75.4

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~   97 (158)
                      +++|||++++.+|+.+. .|+..+......   +|+++|+||+|+...            +.+..+++..+++.++. .+
T Consensus        80 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  156 (186)
T 1mh1_A           80 SLICFSLVSPASFENVRAKWYPEVRHHCPN---TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY  156 (186)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHSTT---SCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             EEEEEECCChhhHHHHHHHHHHHHHHhCCC---CCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEE
Confidence            99999999999999997 799998876442   899999999998643            45667788889999886 89


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +++||++|.||+++|+.+.+.+.+
T Consensus       157 ~~~Sa~~g~gi~~l~~~l~~~~~~  180 (186)
T 1mh1_A          157 LECSALTQRGLKTVFDEAIRAVLC  180 (186)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHSC
T ss_pred             EEecCCCccCHHHHHHHHHHHHhc
Confidence            999999999999999999998754

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.76  E-value=2.4e-17  Score=117.12  Aligned_cols=89  Identities=26%  Similarity=0.294  Sum_probs=77.9

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      .+.+|+|||++++.+|+.+..|+..+.....    +|+++|+||+| ...+.+..+++..+++.+++.++++||+++.|+
T Consensus       117 ~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~----~piilv~NK~D-~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  191 (208)
T 3clv_A          117 ATCAIVVFDISNSNTLDRAKTWVNQLKISSN----YIIILVANKID-KNKFQVDILEVQKYAQDNNLLFIQTSAKTGTNI  191 (208)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHHHSC----CEEEEEEECTT-CC-CCSCHHHHHHHHHHTTCEEEEECTTTCTTH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHhhCC----CcEEEEEECCC-cccccCCHHHHHHHHHHcCCcEEEEecCCCCCH
Confidence            3559999999999999999999999986543    89999999999 444566778899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy2600         109 WVNTRTPEINPLKY  122 (158)
Q Consensus       109 ~~lf~~l~~~~~~~  122 (158)
                      +++|++|.+.+.+.
T Consensus       192 ~~l~~~l~~~~~~~  205 (208)
T 3clv_A          192 KNIFYMLAEEIYKN  205 (208)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999988764

>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=99.75  E-value=8.1e-18  Score=121.13  Aligned_cols=88  Identities=20%  Similarity=0.277  Sum_probs=75.5

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~   97 (158)
                      +++|||++++.+|+.+ ..|+..+......   +|+++|+||+|+...            +.+..+++..+++..+. .+
T Consensus       100 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  176 (207)
T 2fv8_A          100 ILMCFSVDSPDSLENIPEKWVPEVKHFCPN---VPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDY  176 (207)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHSTT---CCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEE
Confidence            9999999999999998 6899888865433   899999999999654            34667788888888887 89


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      +++||++|.||+++|+.|.+.+.+.
T Consensus       177 ~~~SA~~g~gi~el~~~l~~~i~~~  201 (207)
T 2fv8_A          177 LECSAKTKEGVREVFETATRAALQK  201 (207)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHSC
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999987653

>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=99.75  E-value=4e-18  Score=122.66  Aligned_cols=85  Identities=16%  Similarity=0.194  Sum_probs=73.2

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc------------ccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRV------------VTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~------------~~~~~~~~~~~~~~~-~~   97 (158)
                      +++|||++++.+|+.+. .|+..+......   +|+++|+||+|+.....            +..+++..+++.++. ++
T Consensus       105 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  181 (204)
T 4gzl_A          105 FLICFSLVSPASFENVRAKWYPEVRHHCPN---TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY  181 (204)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCSS---CCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCC---CCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEE
Confidence            99999999999999997 899998876533   99999999999865432            667788889999885 59


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      +++||++|.||+++|+.+.+.+
T Consensus       182 ~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          182 LECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             EECCTTTCTTHHHHHHHHHHTT
T ss_pred             EEeeCCCCCCHHHHHHHHHHHh
Confidence            9999999999999999998764

>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=99.75  E-value=1.2e-17  Score=118.81  Aligned_cols=90  Identities=22%  Similarity=0.149  Sum_probs=75.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+..+.........+|+++|+||+|+.. +.+..+++..+++.+++.++++||++|.||+++
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  161 (199)
T 2gf0_A           83 FILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKEL  161 (199)
T ss_dssp             EEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Confidence            9999999999999999988887775432111189999999999975 455677888899999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+++.+.+.+.
T Consensus       162 ~~~l~~~~~~~  172 (199)
T 2gf0_A          162 FQELLTLETRR  172 (199)
T ss_dssp             HHHHHHHCSSS
T ss_pred             HHHHHHHHhhh
Confidence            99999877543

>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=99.73  E-value=4.9e-18  Score=117.26  Aligned_cols=86  Identities=14%  Similarity=0.088  Sum_probs=63.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHH-H----HHHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAK-L----AQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-~----~~~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+....|+..+... ....  +|+++|+||+|+.....  ..+... +    ++..+++++++||++|
T Consensus        71 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  146 (164)
T 1r8s_A           71 LIFVVDSNDRERVNEAREELMRMLAEDELRD--AVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSG  146 (164)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCGGGTT--CEEEEEEECTTSTTCCC--HHHHHHHTTGGGCSSCCEEEEECBTTTT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhchhhcC--CeEEEEEECcCCcCCCC--HHHHHHHhCcccccCccEEEEEcccCCC
Confidence            99999999999999999999888742 2222  89999999999965321  122211 1    1123456999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~  121 (158)
                      .||+++|+.+.+.+.+
T Consensus       147 ~gi~~l~~~l~~~i~~  162 (164)
T 1r8s_A          147 DGLYEGLDWLSNQLRN  162 (164)
T ss_dssp             BTHHHHHHHHHHHC--
T ss_pred             cCHHHHHHHHHHHHhh
Confidence            9999999999988754

>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=99.72  E-value=2.5e-16  Score=112.60  Aligned_cols=90  Identities=20%  Similarity=0.326  Sum_probs=78.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||+++..+|+.+..|+..+.......  .|+++|+||+|+...+.+...+++.++...++.++++||+++.|++++
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l  158 (199)
T 2f9l_A           81 ALLVYDIAKHLTYENVERWLKELRDHADSN--IVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEA  158 (199)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            889999999999999999998887554333  899999999999766666777888999999999999999999999999


Q ss_pred             HHHHHHHHHHhH
Q psy2600         112 TRTPEINPLKYL  123 (158)
Q Consensus       112 f~~l~~~~~~~~  123 (158)
                      |+.+.+.+.+..
T Consensus       159 ~~~l~~~~~~~~  170 (199)
T 2f9l_A          159 FKNILTEIYRIV  170 (199)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999887654

>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=99.71  E-value=2.5e-17  Score=117.61  Aligned_cols=84  Identities=15%  Similarity=0.125  Sum_probs=67.6

Q ss_pred             EEEEEECCCh--hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC-------CccccHHHHHHHHH----HhCCeEE
Q psy2600          32 VIFMYDITSG--QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH-------QRVVTLERHAKLAQ----SLHLHSF   98 (158)
Q Consensus        32 ~i~v~d~~~~--~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-------~~~~~~~~~~~~~~----~~~~~~~   98 (158)
                      +|+|||+++.  +++..+..|+.++......   +|+++|+||+|+..       .+.+.......+++    .+++.|+
T Consensus        99 ~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~  175 (196)
T 3llu_A           99 LIYVIDAQDDYMEALTRLHITVSKAYKVNPD---MNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFY  175 (196)
T ss_dssp             EEEEEETTSCCHHHHHHHHHHHHHHHHHCTT---CEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTSCEEEE
T ss_pred             EEEEEECCCchHHHHHHHHHHHHHHHhcCCC---CcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcCCcceE
Confidence            9999999997  6777777888887544333   99999999999754       33455556777777    6678899


Q ss_pred             EEeCCCCCCHHHHHHHHHHHH
Q psy2600          99 AVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      +|||++ .||+++|..+++.+
T Consensus       176 e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          176 LTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             EECTTS-THHHHHHHHHHHHT
T ss_pred             EEEech-hhHHHHHHHHHHHh
Confidence            999999 99999999998865

>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=99.71  E-value=4.5e-17  Score=116.73  Aligned_cols=84  Identities=14%  Similarity=0.106  Sum_probs=67.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH-----------------h
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS-----------------L   93 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-----------------~   93 (158)
                      +++|||++++.+|+.+..|+.++... ....  +|+++|+||+|+..  .+..++...+...                 .
T Consensus        96 ~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  171 (198)
T 1f6b_A           96 IVFLVDCADHERLLESKEELDSLMTDETIAN--VPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNAR  171 (198)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCGGGTT--SCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSC
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhCcccCC--CcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCc
Confidence            99999999999999999999988743 2222  89999999999975  3455666665542                 2


Q ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHH
Q psy2600          94 HLHSFAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        94 ~~~~~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      +..+++|||++|.||+++|+++.+.+
T Consensus       172 ~~~~~~~SA~~g~gv~~l~~~l~~~l  197 (198)
T 1f6b_A          172 PLEVFMCSVLKRQGYGEGFRWMAQYI  197 (198)
T ss_dssp             CEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             eEEEEEEECCCCCCHHHHHHHHHHhc
Confidence            35799999999999999999998653

>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=99.71  E-value=1.3e-17  Score=118.92  Aligned_cols=85  Identities=15%  Similarity=0.108  Sum_probs=64.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHH-HH----HHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAK-LA----QSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-~~----~~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+.+..|+..+.... ...  +|+++|+||+|+.....  ..+... +.    +..++.++++||++|
T Consensus       100 iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~--~piilv~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~SA~~g  175 (192)
T 2b6h_A          100 LIFVVDSNDRERVQESADELQKMLQEDELRD--AVLLVFANKQDMPNAMP--VSELTDKLGLQHLRSRTWYVQATCATQG  175 (192)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCGGGTT--CEEEEEEECTTSTTCCC--HHHHHHHTTGGGCSSCCEEEEECBTTTT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHhcccccCC--CeEEEEEECCCCCCCCC--HHHHHHHhCcccccCCceEEEECcCCCc
Confidence            999999999999999999998887422 222  99999999999965321  122211 11    122356999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPL  120 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~  120 (158)
                      .||+++|++|++.+.
T Consensus       176 ~gi~~l~~~l~~~i~  190 (192)
T 2b6h_A          176 TGLYDGLDWLSHELS  190 (192)
T ss_dssp             BTHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999999999998764

>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=99.70  E-value=3.9e-17  Score=116.23  Aligned_cols=83  Identities=12%  Similarity=0.076  Sum_probs=66.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH------------hCCeEE
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS------------LHLHSF   98 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~   98 (158)
                      +++|||++++.+|+.+..|+..+... ....  +|+++|+||+|+..  .+..++.....+.            .++.++
T Consensus        94 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (190)
T 1m2o_B           94 IVFLVDAADPERFDEARVELDALFNIAELKD--VPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVF  169 (190)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCGGGTT--CCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEE
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHcchhhcC--CCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEE
Confidence            99999999999999999999988743 2222  89999999999975  3445555554432            346799


Q ss_pred             EEeCCCCCCHHHHHHHHHHH
Q psy2600          99 AVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      +|||++|.||+++|+++.+.
T Consensus       170 ~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          170 MCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             ECBTTTTBSHHHHHHHHHTT
T ss_pred             EeECCcCCCHHHHHHHHHhh
Confidence            99999999999999999864

>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=99.70  E-value=2.8e-17  Score=114.07  Aligned_cols=86  Identities=17%  Similarity=0.091  Sum_probs=65.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHH-H----HHHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAK-L----AQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-~----~~~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+....|+..+.... ...  +|+++|+||+|+.....  ..+... +    ++..++.++++||++|
T Consensus        78 ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  153 (171)
T 1upt_A           78 VIYVVDSCDRDRIGISKSELVAMLEEEELRK--AILVVFANKQDMEQAMT--SSEMANSLGLPALKDRKWQIFKTSATKG  153 (171)
T ss_dssp             EEEEEETTCCTTHHHHHHHHHHHHTCGGGTT--CEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTSCEEEEECCTTTC
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhchhhCC--CEEEEEEECCCCcCCCC--HHHHHHHhCchhccCCceEEEECcCCCC
Confidence            999999999999999999888876432 122  99999999999975432  122211 1    2234567999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~  121 (158)
                      .|++++|+++.+.+.+
T Consensus       154 ~gi~~l~~~l~~~i~~  169 (171)
T 1upt_A          154 TGLDEAMEWLVETLKS  169 (171)
T ss_dssp             TTHHHHHHHHHHHHHT
T ss_pred             cCHHHHHHHHHHHHhh
Confidence            9999999999988754

>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=99.70  E-value=3.2e-16  Score=111.62  Aligned_cols=110  Identities=26%  Similarity=0.421  Sum_probs=92.5

Q ss_pred             ccCCCCcceEEEEEEECCCCCCeE--------------------------------------------------------
Q psy2600           8 NLHNDNYEIQLKVVLLGDPSCGKI--------------------------------------------------------   31 (158)
Q Consensus         8 ~~~~~~~~~~~ki~~~G~~~vgk~--------------------------------------------------------   31 (158)
                      ......+++.+|++++|..|+|||                                                        
T Consensus        20 ~~~~~~~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~   99 (191)
T 1oix_A           20 GTRDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYY   99 (191)
T ss_dssp             ----CCCSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHH
T ss_pred             CCcccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHh
Confidence            334456778999999999999998                                                        


Q ss_pred             -----EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCC
Q psy2600          32 -----VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        32 -----~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  106 (158)
                           +++|||.++..+|+.+..|+..+.......  .|+++|+||+|+...+.+....+..++...++.++++||+++.
T Consensus       100 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~  177 (191)
T 1oix_A          100 RGAVGALLVYDIAKHLTYENVERWLKELRDHADSN--IVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDST  177 (191)
T ss_dssp             TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCT
T ss_pred             hcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCC
Confidence                 789999999999999989998877544333  8999999999997655666778899999999999999999999


Q ss_pred             CHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINP  119 (158)
Q Consensus       107 ~i~~lf~~l~~~~  119 (158)
                      |++++|+.+.+.+
T Consensus       178 ~v~~l~~~l~~~i  190 (191)
T 1oix_A          178 NVEAAFQTILTEI  190 (191)
T ss_dssp             THHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998765

>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=99.69  E-value=1.1e-16  Score=122.41  Aligned_cols=87  Identities=18%  Similarity=0.204  Sum_probs=75.7

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~   97 (158)
                      +++|||++++.+|+.+. .|+..+......   +|+++|+||+|+...            +.+..+++..+++..+. .+
T Consensus       230 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~---~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  306 (332)
T 2wkq_A          230 FLICFSLVSPASFHHVRAKWYPEVRHHCPN---TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY  306 (332)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCTT---SCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhhCCC---CcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEE
Confidence            99999999999999987 799888866442   999999999998543            45677888899999987 89


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      ++|||++|.||+++|+.+.+.+.+
T Consensus       307 ~~~Sa~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          307 LECSALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             EEecCCCCcCHHHHHHHHHHHHhc
Confidence            999999999999999999988754

>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=99.69  E-value=1.7e-16  Score=112.16  Aligned_cols=87  Identities=16%  Similarity=0.064  Sum_probs=67.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-----HhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-----SLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+.+..|+..+.... ...  +|+++|+||+|+....  ..++......     ..++.++++||++|
T Consensus        87 ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g  162 (187)
T 1zj6_A           87 VIVVVDSTDRERISVTREELYKMLAHEDLRK--AGLLIFANKQDVKECM--TVAEISQFLKLTSIKDHQWHIQACCALTG  162 (187)
T ss_dssp             EEEEEETTCTTTHHHHHHHHHHHHTSGGGTT--CEEEEEEECTTSTTCC--CHHHHHHHHTGGGCCSSCEEEEECBTTTT
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHhchhhCC--CeEEEEEECCCCcCCC--CHHHHHHHhChhhhcCCCcEEEEccCCCC
Confidence            999999999999999999999887532 122  9999999999996532  2333333322     23568999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy2600         106 DNCWVNTRTPEINPLKY  122 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~  122 (158)
                      .||+++|++|++.+...
T Consensus       163 ~gi~~l~~~l~~~~~~~  179 (187)
T 1zj6_A          163 EGLCQGLEWMMSRLKIR  179 (187)
T ss_dssp             BTHHHHHHHHHHHHCC-
T ss_pred             cCHHHHHHHHHHHHHHH
Confidence            99999999999987554

>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=99.68  E-value=3.5e-17  Score=116.07  Aligned_cols=86  Identities=12%  Similarity=0.123  Sum_probs=64.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHH-H----HHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKL-A----QSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~-~----~~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+.+..|+..+... ....  +|+++|+||+|+....  ...+.... .    ...++.++++||++|
T Consensus        94 ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~g  169 (188)
T 1zd9_A           94 IVYMVDAADQEKIEASKNELHNLLDKPQLQG--IPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEK  169 (188)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCGGGTT--CCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTC
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhCcccCC--CCEEEEEECCCCccCC--CHHHHHHHhChhhhccCCeeEEEEECCCC
Confidence            99999999999999999999888643 1122  8999999999996532  12222111 1    123457899999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~  121 (158)
                      .||+++|++|.+.+.+
T Consensus       170 ~gv~~l~~~l~~~~~~  185 (188)
T 1zd9_A          170 DNIDITLQWLIQHSKS  185 (188)
T ss_dssp             TTHHHHHHHHHHTCC-
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999987754

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.68  E-value=3.9e-17  Score=115.59  Aligned_cols=87  Identities=16%  Similarity=0.068  Sum_probs=66.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHH-H----HHHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAK-L----AQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-~----~~~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+....|+..+.... ...  +|+++|+||+|+.....  ..+... +    +...++.++++||+++
T Consensus        93 ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  168 (189)
T 2x77_A           93 VIYVVDSTDRDRMGVAKHELYALLDEDELRK--SLLLIFANKQDLPDAAS--EAEIAEQLGVSSIMNRTWTIVKSSSKTG  168 (189)
T ss_dssp             EEEEEETTCCTTHHHHHHHHHHHHTCSTTTT--CEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTC
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHhhhhcCC--CeEEEEEECCCCcCCCC--HHHHHHHhChhhccCCceEEEEccCCCc
Confidence            999999999999999999988876432 122  99999999999975422  122221 1    1223457999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy2600         106 DNCWVNTRTPEINPLKY  122 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~  122 (158)
                      .||+++|+.+.+.+.+.
T Consensus       169 ~gi~~l~~~l~~~i~~~  185 (189)
T 2x77_A          169 DGLVEGMDWLVERLREQ  185 (189)
T ss_dssp             TTHHHHHHHHHHHHHHT
T ss_pred             cCHHHHHHHHHHHHHhc
Confidence            99999999999988653

>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=99.68  E-value=7.7e-17  Score=113.81  Aligned_cols=86  Identities=17%  Similarity=0.068  Sum_probs=64.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHH-----HHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLA-----QSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+.+..|+..+... ....  +|+++|+||+|+.....  .++.....     ...++.+++|||++|
T Consensus        87 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~g  162 (181)
T 1fzq_A           87 LIYVIDSADRKRFEETGQELTELLEEEKLSC--VPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTG  162 (181)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHTTCGGGTT--CCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTC
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHhChhhcC--CCEEEEEECcCcccCCC--HHHHHHHhCchhccCCceEEEEccCCCC
Confidence            99999999999999999999887632 2222  89999999999975432  22222211     122457999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~  121 (158)
                      .||+++|+++.+.+.+
T Consensus       163 ~gi~~l~~~l~~~~~~  178 (181)
T 1fzq_A          163 EGVQDGMNWVCKNVNA  178 (181)
T ss_dssp             TTHHHHHHHHHHTC--
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999987754

>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=99.68  E-value=5.4e-17  Score=114.80  Aligned_cols=90  Identities=16%  Similarity=0.197  Sum_probs=69.9

Q ss_pred             eEEEEEEECCCh-hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc---HHHHHHHHHHhCCe----EEEEe
Q psy2600          30 KIVIFMYDITSG-QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT---LERHAKLAQSLHLH----SFAVS  101 (158)
Q Consensus        30 k~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~----~~~~S  101 (158)
                      +.+++|||++++ .+|+.+..|+.++......   +|+++|+||+|+...+.+.   ......+++.+++.    |+++|
T Consensus        81 ~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  157 (184)
T 2zej_A           81 ALYLAVYDLSKGQAEVDAMKPWLFNIKARASS---SPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVN  157 (184)
T ss_dssp             EEEEEEEEGGGCHHHHHTHHHHHHHHHHHCTT---CEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECC
T ss_pred             cEEEEEEeCCcchhHHHHHHHHHHHHHhhCCC---CcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEe
Confidence            348899999997 5899999999998865432   8999999999997543332   23345555566776    99999


Q ss_pred             CCCCC-CHHHHHHHHHHHHHHh
Q psy2600         102 ARTGD-NCWVNTRTPEINPLKY  122 (158)
Q Consensus       102 a~~~~-~i~~lf~~l~~~~~~~  122 (158)
                      |+++. +++++++.+.+.+...
T Consensus       158 a~~~~~~~~~l~~~i~~~~~~~  179 (184)
T 2zej_A          158 ATEESDALAKLRKTIINESLNF  179 (184)
T ss_dssp             TTSCCHHHHHHHHHHHHHHHCC
T ss_pred             cccCchhHHHHHHHHHHHHhcc
Confidence            99996 9999999998887653

>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=99.68  E-value=2.9e-16  Score=111.28  Aligned_cols=86  Identities=17%  Similarity=0.107  Sum_probs=67.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC---CCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-----HhCCeEEEEeCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK---SSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-----SLHLHSFAVSAR  103 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~  103 (158)
                      +++|||++++.+|+.+..|+..+.....   ..  +|+++|+||+|+...  ...++......     ..++.++++||+
T Consensus        94 ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  169 (190)
T 2h57_A           94 IIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRR--IPILFFANKMDLRDA--VTSVKVSQLLCLENIKDKPWHICASDAI  169 (190)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSC--CCEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChhhccCC--CeEEEEEeCcCcccC--CCHHHHHHHhChhhccCCceEEEEccCC
Confidence            9999999999999999999988875422   22  899999999999653  23445555443     235679999999


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q psy2600         104 TGDNCWVNTRTPEINPLK  121 (158)
Q Consensus       104 ~~~~i~~lf~~l~~~~~~  121 (158)
                      +|.||+++|+.|.+.+.+
T Consensus       170 ~~~gi~~l~~~l~~~i~~  187 (190)
T 2h57_A          170 KGEGLQEGVDWLQDQIQT  187 (190)
T ss_dssp             TTBTHHHHHHHHHHHC--
T ss_pred             CCcCHHHHHHHHHHHHHH
Confidence            999999999999987754

>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=99.50  E-value=3.3e-18  Score=122.73  Aligned_cols=85  Identities=16%  Similarity=0.198  Sum_probs=71.1

Q ss_pred             EEEEEECCChhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc------------cccHHHHHHHHHHhCC-eE
Q psy2600          32 VIFMYDITSGQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQR------------VVTLERHAKLAQSLHL-HS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~   97 (158)
                      +++|||++++.+|+.+. .|+..+......   +|+++|+||+|+....            .+..+++..+++.++. .+
T Consensus       105 iilv~D~~~~~s~~~~~~~~~~~l~~~~~~---~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  181 (204)
T 3th5_A          105 FLICFSLVSPASFENVRAKWYPEVRHHCPN---TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY  181 (204)
Confidence            89999999999999987 898888765432   8999999999996432            4455667778888887 89


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      +++||++|.||+++|+.+.+.+
T Consensus       182 ~~vSA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          182 LECSALTQRGLKTVFDEAIRAV  203 (204)
Confidence            9999999999999999998764

>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=99.67  E-value=3.7e-17  Score=115.18  Aligned_cols=83  Identities=17%  Similarity=0.101  Sum_probs=63.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHH-----HHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLA-----QSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+.+..|+..+.... ...  +|+++|+||+|+....  ..++.....     ...++.++++||++|
T Consensus        92 ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g  167 (181)
T 2h17_A           92 VIVVVDSTDRERISVTREELYKMLAHEDLRK--AGLLIFANKQDVKECM--TVAEISQFLKLTSIKDHQWHIQACCALTG  167 (181)
T ss_dssp             EEEEEETTCTTTHHHHHHHHHHHHTCGGGTT--CEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECBTTTT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChhhCC--CeEEEEEECCCcccCC--CHHHHHHHhCcccccCCceEEEEccCCCC
Confidence            999999999999999999998887431 122  9999999999996532  233333322     123457999999999


Q ss_pred             CCHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEIN  118 (158)
Q Consensus       106 ~~i~~lf~~l~~~  118 (158)
                      .||+++|++|.+.
T Consensus       168 ~gi~~l~~~l~~~  180 (181)
T 2h17_A          168 EGLCQGLEWMMSR  180 (181)
T ss_dssp             BTHHHHHHHHHTC
T ss_pred             cCHHHHHHHHHhh
Confidence            9999999999864

>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=99.67  E-value=5.8e-16  Score=109.17  Aligned_cols=87  Identities=16%  Similarity=0.109  Sum_probs=67.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-----HhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-----SLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+.+..|+..+... ....  +|+++|+||+|+.....  .++......     ..++.++++||++|
T Consensus        89 ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  164 (186)
T 1ksh_A           89 LIWVVDSADRQRMQDCQRELQSLLVEERLAG--ATLLIFANKQDLPGALS--CNAIQEALELDSIRSHHWRIQGCSAVTG  164 (186)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCGGGTT--CEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTC
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHhChhcCC--CcEEEEEeCccCCCCCC--HHHHHHHhChhhccCCceEEEEeeCCCC
Confidence            99999999999999999999888743 2122  99999999999975432  223222211     23567999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy2600         106 DNCWVNTRTPEINPLKY  122 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~  122 (158)
                      .|++++|+.+.+.+.+.
T Consensus       165 ~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          165 EDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             TTHHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhc
Confidence            99999999999988653

>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=99.66  E-value=9.2e-17  Score=112.81  Aligned_cols=87  Identities=17%  Similarity=0.048  Sum_probs=66.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-----HhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-----SLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.+|+.+..|+..+.... ...  +|+++|+||+|+....  ...+......     ..++.++++||++|
T Consensus        89 ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~  164 (183)
T 1moz_A           89 VIFVVDSTDKDRMSTASKELHLMLQEEELQD--AALLVFANKQDQPGAL--SASEVSKELNLVELKDRSWSIVASSAIKG  164 (183)
T ss_dssp             EEEEEETTCTTTHHHHHHHHHHHTTSSTTSS--CEEEEEEECTTSTTCC--CHHHHHHHTTTTTCCSSCEEEEEEBGGGT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHcChhhCC--CeEEEEEECCCCCCCC--CHHHHHHHhCcccccCCceEEEEccCCCC
Confidence            899999999999999999999887542 222  9999999999996532  2233333221     12347999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy2600         106 DNCWVNTRTPEINPLKY  122 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~  122 (158)
                      .||+++|+++.+.+.+.
T Consensus       165 ~gi~~l~~~l~~~~~~~  181 (183)
T 1moz_A          165 EGITEGLDWLIDVIKEE  181 (183)
T ss_dssp             BTHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhc
Confidence            99999999999988653

>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=99.65  E-value=1e-15  Score=111.80  Aligned_cols=89  Identities=11%  Similarity=0.014  Sum_probs=67.5

Q ss_pred             EEEEEECCChhHHhh--HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHH---HHHHHHHHhC--CeEEEEeCCC
Q psy2600          32 VIFMYDITSGQSFHS--IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLE---RHAKLAQSLH--LHSFAVSART  104 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~---~~~~~~~~~~--~~~~~~Sa~~  104 (158)
                      +|+|||++++.+|+.  ...|+..+......   +|+++|+||+|+...+.+...   ....+++..+  +.++++||++
T Consensus       112 ~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~---~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~  188 (228)
T 2qu8_A          112 ILFIIDISEQCGLTIKEQINLFYSIKSVFSN---KSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLT  188 (228)
T ss_dssp             EEEEEETTCTTSSCHHHHHHHHHHHHTCC-C---CCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEEECCTTT
T ss_pred             EEEEEecccccCcchHHHHHHHHHHHHhhcC---CcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEEEEeccc
Confidence            899999999888763  23566666643222   899999999999765555543   4556666666  7899999999


Q ss_pred             CCCHHHHHHHHHHHHHHhH
Q psy2600         105 GDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~~~~  123 (158)
                      |.||+++|+.|.+.+.+..
T Consensus       189 g~gi~~l~~~l~~~i~~~~  207 (228)
T 2qu8_A          189 GVGVEQAKITACELLKNDQ  207 (228)
T ss_dssp             CTTHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHH
Confidence            9999999999999887653

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.62  E-value=4.9e-16  Score=119.83  Aligned_cols=86  Identities=13%  Similarity=0.069  Sum_probs=64.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHH-----HHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA-----QSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~  105 (158)
                      +|+|||++++.+|+.+..|+..+.. .....  +|+++|+||+|+.....  ..+.....     ...++.++++||++|
T Consensus       236 vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~--~piilV~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~vSAk~g  311 (329)
T 3o47_A          236 LIFVVDSNDRERVNEAREELMRMLAEDELRD--AVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSG  311 (329)
T ss_dssp             EEEEEETTCSSSHHHHHHHHHHHHTCGGGTT--CEEEEEEECTTSTTCCC--HHHHHHHHTCTTCCSSCEEEEECBTTTT
T ss_pred             EEEEEECCchHHHHHHHHHHHHHHhhhccCC--CeEEEEEECccCCcccC--HHHHHHHhchhhhhcCCCEEEEEECCCC
Confidence            9999999999999999888877763 22222  99999999999975432  22222111     112356999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~  121 (158)
                      .||+++|+.|++.+.+
T Consensus       312 ~gi~el~~~l~~~l~~  327 (329)
T 3o47_A          312 DGLYEGLDWLSNQLRN  327 (329)
T ss_dssp             BTHHHHHHHHHHHHTC
T ss_pred             cCHHHHHHHHHHHHHh
Confidence            9999999999988754

>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=99.60  E-value=8.7e-16  Score=106.74  Aligned_cols=81  Identities=16%  Similarity=0.053  Sum_probs=63.5

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +.+++|+|+++.+   ....|+..+.+..     +|+++|+||+|+...+.+.. +...+++.++++++++||++|.||+
T Consensus        83 ~~~i~v~D~~~~~---~~~~~~~~~~~~~-----~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v~  153 (165)
T 2wji_A           83 DLVVNIVDATALE---RNLYLTLQLMEMG-----ANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIE  153 (165)
T ss_dssp             SEEEEEEETTCHH---HHHHHHHHHHHTT-----CCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBSHH
T ss_pred             CEEEEEecCCchh---HhHHHHHHHHhcC-----CCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCCHH
Confidence            4589999988754   3455777776533     89999999999864333332 4677888889999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         110 VNTRTPEINP  119 (158)
Q Consensus       110 ~lf~~l~~~~  119 (158)
                      ++|+.+.+.+
T Consensus       154 ~l~~~l~~~~  163 (165)
T 2wji_A          154 ELKKAISIAV  163 (165)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999998765

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.59  E-value=3.4e-15  Score=114.05  Aligned_cols=86  Identities=12%  Similarity=0.230  Sum_probs=68.7

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHh---hhcCCCCCcEEEEEEeCCCCCC--Ccc----ccHHHHHHHHHHhC---CeE
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFH---LNRKSSTPTYVALVANKGDMEH--QRV----VTLERHAKLAQSLH---LHS   97 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~---~~~~~~~~~piilv~nK~Dl~~--~~~----~~~~~~~~~~~~~~---~~~   97 (158)
                      +++|+|||++++.+|+++..|...+.   ...+.   +|+++|+||+|+..  .+.    +..+++..+++.+|   +++
T Consensus        82 d~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~---~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~  158 (307)
T 3r7w_A           82 QVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPD---AKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIG  158 (307)
T ss_dssp             SEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTT---CEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEE
T ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCC---CeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEE
Confidence            34999999999999999877755554   33322   99999999999975  343    45577888888887   789


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      ++|||++ .++.++|..+++.+
T Consensus       159 ~~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          159 FPTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             EECCTTS-SHHHHHHHHHHHTT
T ss_pred             EEeeecC-ChHHHHHHHHHHHH
Confidence            9999999 89999999888754

>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=99.55  E-value=1e-14  Score=108.57  Aligned_cols=88  Identities=19%  Similarity=0.137  Sum_probs=71.6

Q ss_pred             CeEEEEEEECCCh--hHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH-hCCeEEEEeCCC
Q psy2600          29 GKIVIFMYDITSG--QSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS-LHLHSFAVSART  104 (158)
Q Consensus        29 gk~~i~v~d~~~~--~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~  104 (158)
                      ++++|+|||++++  .+|+.+..|+.++... ....  +|+++|+||+|+...+.+  +++..+++. .++.++++||++
T Consensus       163 ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~--~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~  238 (255)
T 3c5h_A          163 VDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTK--KPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARS  238 (255)
T ss_dssp             CCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTT--CCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTT
T ss_pred             CCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCC--CCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCC
Confidence            5999999999998  9999999999998754 2222  899999999999654444  466777776 478999999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q psy2600         105 GDNCWVNTRTPEINPL  120 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~  120 (158)
                      |.||+++|+.|++.+.
T Consensus       239 g~gv~elf~~l~~~l~  254 (255)
T 3c5h_A          239 NVNVDLAFSTLVQLID  254 (255)
T ss_dssp             TBSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhc
Confidence            9999999999998763

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.55  E-value=2.4e-15  Score=115.55  Aligned_cols=104  Identities=11%  Similarity=0.081  Sum_probs=75.0

Q ss_pred             ceEEEEEEECCCC--------------CCeEEEEEEECCCh--hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC
Q psy2600          15 EIQLKVVLLGDPS--------------CGKIVIFMYDITSG--QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQ   78 (158)
Q Consensus        15 ~~~~ki~~~G~~~--------------vgk~~i~v~d~~~~--~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~   78 (158)
                      .+.+.+|..|...              -++++|+|||++++  +++..+..|+.++....+.   +|++++|||+|+...
T Consensus        45 ~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~~---ipillvgNK~DL~~~  121 (331)
T 3r7w_B           45 LIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKVNPS---INIEVLIHKVDGLSE  121 (331)
T ss_dssp             SSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEECCCSSCTTHHHHHHHHHHHHHHHHCTT---CEEEEECCCCCSSCS
T ss_pred             EEEEEEEECCCchhccchhhhhhhhccCCCEEEEEEECCchHHHHHHHHHHHHHHHhhcCCC---CcEEEEEECcccCch
Confidence            3667777776532              24679999999997  3333334445555544333   999999999999753


Q ss_pred             -------ccccHHHHHHHHHH----hCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          79 -------RVVTLERHAKLAQS----LHLHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        79 -------~~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                             +.+..++++.+++.    +++.||+|||++ .||.++|..+++.+...
T Consensus       122 ~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eTSAkd-~nV~eAFs~iv~~li~~  175 (331)
T 3r7w_B          122 DFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFD-HSIYEAFSRIVQKLIPE  175 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECCCSSS-SHHHHHHHHHHTTSSTT
T ss_pred             hhhhhHHHHhhHHHHHHHHhhcccccCceEEEeccCC-CcHHHHHHHHHHHHHhh
Confidence                   34666667777775    578899999997 59999999999876543

>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=99.54  E-value=1.4e-14  Score=102.08  Aligned_cols=86  Identities=19%  Similarity=0.114  Sum_probs=64.3

Q ss_pred             EEEEEECCChhHHhhH-HHHHHH--------H-hhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCe-----
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDL--------F-HLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLH-----   96 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~--------~-~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-----   96 (158)
                      +++||+++|..+|..+ ..|...        + .......  +|+++|+||+|+....   .+....+++.++..     
T Consensus        83 ~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~~  157 (190)
T 2cxx_A           83 IDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELD--IPTIVAVNKLDKIKNV---QEVINFLAEKFEVPLSEID  157 (190)
T ss_dssp             CCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTT--CCEEEEEECGGGCSCH---HHHHHHHHHHHTCCGGGHH
T ss_pred             CCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcC--CceEEEeehHhccCcH---HHHHHHHHHHhhhhhhccC
Confidence            4577777777788776 567642        2 1111122  8999999999997543   45677888888864     


Q ss_pred             --EEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          97 --SFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        97 --~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                        ++++||++|.||+++|+.+.+.+.+.
T Consensus       158 ~~~~~~Sa~~~~~v~~l~~~l~~~~~~~  185 (190)
T 2cxx_A          158 KVFIPISAKFGDNIERLKNRIFEVIRER  185 (190)
T ss_dssp             HHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             CcEEEEecCCCCCHHHHHHHHHHhcchh
Confidence              79999999999999999999988664

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.53  E-value=8.5e-15  Score=103.20  Aligned_cols=82  Identities=16%  Similarity=0.023  Sum_probs=63.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|.+   +++....|+..+....     +|+++|+||+|+...+.+. .....+++.+++.++++||+++.||+++
T Consensus        89 ~i~v~d~~---~~~~~~~~~~~~~~~~-----~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v~~l  159 (188)
T 2wjg_A           89 VVNIVDAT---ALERNLYLTLQLMEMG-----ANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMGIEEL  159 (188)
T ss_dssp             EEEEEEGG---GHHHHHHHHHHHHTTT-----CCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBSHHHH
T ss_pred             EEEEecch---hHHHHHHHHHHHHhcC-----CCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCCHHHH
Confidence            56666654   3555667887776533     8999999999986433333 3567788888999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+.+.+.+.+.
T Consensus       160 ~~~i~~~~~~~  170 (188)
T 2wjg_A          160 KKAISIAVKDK  170 (188)
T ss_dssp             HHHHHHHHTTC
T ss_pred             HHHHHHHHHhc
Confidence            99999988654

>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=99.52  E-value=2e-15  Score=105.83  Aligned_cols=82  Identities=20%  Similarity=0.137  Sum_probs=61.4

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +.+++|||+++..+++ ...|+..+.+.....  +|+++|+||+|+.....       .+++..+..++++||++|.||+
T Consensus        85 d~~i~v~D~~~~~s~~-~~~~~~~~~~~~~~~--~p~ilv~NK~Dl~~~~~-------~~~~~~~~~~~~~SA~~g~gv~  154 (172)
T 2gj8_A           85 DRVLFMVDGTTTDAVD-PAEIWPEFIARLPAK--LPITVVRNKADITGETL-------GMSEVNGHALIRLSARTGEGVD  154 (172)
T ss_dssp             SEEEEEEETTTCCCCS-HHHHCHHHHHHSCTT--CCEEEEEECHHHHCCCC-------EEEEETTEEEEECCTTTCTTHH
T ss_pred             CEEEEEEECCCCCCHH-HHHHHHHHHHhcccC--CCEEEEEECccCCcchh-------hhhhccCCceEEEeCCCCCCHH
Confidence            4599999999988876 457888877654433  89999999999853211       1112246689999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      ++|+.+.+.+..
T Consensus       155 ~l~~~l~~~~~~  166 (172)
T 2gj8_A          155 VLRNHLKQSMGF  166 (172)
T ss_dssp             HHHHHHHHHC--
T ss_pred             HHHHHHHHHhhh
Confidence            999999887643

>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=99.51  E-value=1.4e-13  Score=99.03  Aligned_cols=84  Identities=17%  Similarity=0.188  Sum_probs=53.9

Q ss_pred             EEEEEECCChh-HHhhHHHHHH-HHhhh--cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHH---H-------------
Q psy2600          32 VIFMYDITSGQ-SFHSIPTWVD-LFHLN--RKSSTPTYVALVANKGDMEHQRVVTLERHAKLA---Q-------------   91 (158)
Q Consensus        32 ~i~v~d~~~~~-s~~~~~~~~~-~~~~~--~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~-------------   91 (158)
                      +|+|||+++.. ++.....|+. .+...  ....  +|+++|+||+|+....... .....+.   .             
T Consensus        82 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~~~~-~~~~~l~~~l~~~~~~~~~~~s~~  158 (214)
T 2fh5_B           82 VVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNS--PSLLIACNKQDIAMAKSAK-LIQQQLEKELNTLRVTRSAAPSTL  158 (214)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTC--CEEEEEEECTTSTTCCCHH-HHHHHHHHHHHHHHHHCC------
T ss_pred             EEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccC--CCEEEEEECCCCCCcccHH-HHHHHHHHHHHHHhccchhccccc
Confidence            99999999854 4666655444 44332  1222  8999999999997543211 1111111   1             


Q ss_pred             --------------------Hh--CCeEEEEeCCCC------CCHHHHHHHHHHH
Q psy2600          92 --------------------SL--HLHSFAVSARTG------DNCWVNTRTPEIN  118 (158)
Q Consensus        92 --------------------~~--~~~~~~~Sa~~~------~~i~~lf~~l~~~  118 (158)
                                          .+  ++.|++|||++|      .||+++|++|.+.
T Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          159 DSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             ------CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             cCCccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence                                11  567999999999      9999999999875

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.51  E-value=2.9e-14  Score=116.29  Aligned_cols=85  Identities=13%  Similarity=0.118  Sum_probs=68.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||+++   ++....|+..+..+...   .|+++|+||+|+...+.+..+....++...+.+++++||++|.||+++
T Consensus       125 ii~V~D~s~---~~~~~~~~~~l~~~~~~---~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gi~eL  198 (535)
T 3dpu_A          125 YMLLLDSRT---DSNKHYWLRHIEKYGGK---SPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESI  198 (535)
T ss_dssp             EEEEECGGG---GGGHHHHHHHHHHHSSS---CCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC-----CTTH
T ss_pred             EEEEEeCCC---chhHHHHHHHHHHhCCC---CCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcccCHHHH
Confidence            889998864   46778899999877653   899999999999877777777888888888899999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+.+.+.+.+.
T Consensus       199 ~~~l~~~~~~~  209 (535)
T 3dpu_A          199 AKSLKSAVLHP  209 (535)
T ss_dssp             HHHHHHHHTCT
T ss_pred             HHHHHHHHhcc
Confidence            99999987653

>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=99.50  E-value=3.5e-14  Score=106.04  Aligned_cols=80  Identities=14%  Similarity=-0.024  Sum_probs=63.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|+++.++.   ..|...+....     +|+++|+||+|+...+.+. .+...+++.+|++++++||++|.|++++
T Consensus        87 ii~V~D~t~~~~~---~~~~~~l~~~~-----~pvilv~NK~Dl~~~~~i~-~~~~~l~~~lg~~vi~~SA~~g~gi~el  157 (258)
T 3a1s_A           87 VILVADSVNPEQS---LYLLLEILEME-----KKVILAMTAIDEAKKTGMK-IDRYELQKHLGIPVVFTSSVTGEGLEEL  157 (258)
T ss_dssp             EEEEEETTSCHHH---HHHHHHHHTTT-----CCEEEEEECHHHHHHTTCC-BCHHHHHHHHCSCEEECCTTTCTTHHHH
T ss_pred             EEEEeCCCchhhH---HHHHHHHHhcC-----CCEEEEEECcCCCCccchH-HHHHHHHHHcCCCEEEEEeeCCcCHHHH
Confidence            8899999875543   34666666543     9999999999986433333 2467788889999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |+.+.+.+.
T Consensus       158 ~~~i~~~~~  166 (258)
T 3a1s_A          158 KEKIVEYAQ  166 (258)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            999998764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.50  E-value=5.8e-14  Score=99.11  Aligned_cols=82  Identities=16%  Similarity=0.091  Sum_probs=56.0

Q ss_pred             EEEEEECCChhH--HhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc--cccHHHHHHHHHHhC-CeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQS--FHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQR--VVTLERHAKLAQSLH-LHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~-~~~~~~Sa~~~~  106 (158)
                      +++|+|.++..+  +..+..|+...   .     +|+++|+||+|+....  ....++...++...+ +.++++||++|.
T Consensus       108 vi~v~d~~~~~~~~~~~~~~~~~~~---~-----~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  179 (195)
T 3pqc_A          108 VFLLVDGRIPPQDSDLMMVEWMKSL---N-----IPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGEYTIIPTSSVTGE  179 (195)
T ss_dssp             EEEEEETTSCCCHHHHHHHHHHHHT---T-----CCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCCSCEEECCTTTCT
T ss_pred             EEEEecCCCCCCHHHHHHHHHHHHc---C-----CCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCCCceEEEecCCCC
Confidence            677888766432  22333444332   2     8999999999986432  223334455555534 689999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      ||+++|+++.+.+.+
T Consensus       180 gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          180 GISELLDLISTLLKE  194 (195)
T ss_dssp             THHHHHHHHHHHHC-
T ss_pred             CHHHHHHHHHHHhhc
Confidence            999999999988753

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.49  E-value=1.9e-13  Score=95.16  Aligned_cols=82  Identities=12%  Similarity=-0.005  Sum_probs=54.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh-------C--CeEEEEeC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL-------H--LHSFAVSA  102 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-------~--~~~~~~Sa  102 (158)
                      +++|||+++....+.. .++..+....     +|+++|+||+|+....   .++.....+..       +  ..++++||
T Consensus        82 ~i~v~d~~~~~~~~~~-~~l~~~~~~~-----~p~ilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  152 (178)
T 2lkc_A           82 VILVVAADDGVMPQTV-EAINHAKAAN-----VPIIVAINKMDKPEAN---PDRVMQELMEYNLVPEEWGGDTIFCKLSA  152 (178)
T ss_dssp             EEEEEETTCCCCHHHH-HHHHHHGGGS-----CCEEEEEETTTSSCSC---HHHHHHHHTTTTCCBTTTTSSEEEEECCS
T ss_pred             EEEEEECCCCCcHHHH-HHHHHHHhCC-----CCEEEEEECccCCcCC---HHHHHHHHHhcCcChhHcCCcccEEEEec
Confidence            8999999883222211 2233333322     8999999999996531   22332222222       2  47999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHh
Q psy2600         103 RTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~~~~  122 (158)
                      ++|.||+++|+.|.+.+...
T Consensus       153 ~~~~gv~~l~~~l~~~~~~~  172 (178)
T 2lkc_A          153 KTKEGLDHLLEMILLVSEME  172 (178)
T ss_dssp             SSSHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHhhhhh
Confidence            99999999999999987654

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.49  E-value=7.1e-14  Score=98.96  Aligned_cols=82  Identities=12%  Similarity=-0.008  Sum_probs=57.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH----HhCCeEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ----SLHLHSFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~  107 (158)
                      +++|+|+++..++.... ++..+....     +|+++|+||+|+...+.+.. ....+.+    ..+..++++||++|.|
T Consensus       109 ~i~v~d~~~~~~~~~~~-~~~~~~~~~-----~p~i~v~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~~~~~Sa~~~~g  181 (195)
T 1svi_A          109 VVQIVDLRHAPSNDDVQ-MYEFLKYYG-----IPVIVIATKADKIPKGKWDK-HAKVVRQTLNIDPEDELILFSSETKKG  181 (195)
T ss_dssp             EEEEEETTSCCCHHHHH-HHHHHHHTT-----CCEEEEEECGGGSCGGGHHH-HHHHHHHHHTCCTTSEEEECCTTTCTT
T ss_pred             EEEEEECCCCCCHHHHH-HHHHHHHcC-----CCEEEEEECcccCChHHHHH-HHHHHHHHHcccCCCceEEEEccCCCC
Confidence            88899998876666532 222222222     89999999999976544322 2222322    2357899999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINPL  120 (158)
Q Consensus       108 i~~lf~~l~~~~~  120 (158)
                      |+++|+.+.+.+.
T Consensus       182 v~~l~~~l~~~l~  194 (195)
T 1svi_A          182 KDEAWGAIKKMIN  194 (195)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988763

>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=99.47  E-value=3.6e-13  Score=102.86  Aligned_cols=85  Identities=19%  Similarity=0.081  Sum_probs=71.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC--CeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH--LHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i~  109 (158)
                      +++|+|+++..++.+...|+..+....     +|+++|+||+|+.............+.+.++  ..++++||++|.|++
T Consensus        96 il~VvD~~~~~~~~~~~~~~~~l~~~~-----~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~vSA~~g~gv~  170 (308)
T 3iev_A           96 ILFMIDATEGWRPRDEEIYQNFIKPLN-----KPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGANLD  170 (308)
T ss_dssp             EEEEEETTTBSCHHHHHHHHHHTGGGC-----CCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEECBTTTTBSHH
T ss_pred             EEEEEeCCCCCCchhHHHHHHHHHhcC-----CCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEEEeCCCCCCHH
Confidence            899999999888888888888887644     8999999999997334445666777777775  779999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      ++|+.+.+.+.+
T Consensus       171 ~L~~~l~~~l~~  182 (308)
T 3iev_A          171 ELVKTILKYLPE  182 (308)
T ss_dssp             HHHHHHHHHSCB
T ss_pred             HHHHHHHHhCcc
Confidence            999999988753

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.47  E-value=6.1e-14  Score=96.13  Aligned_cols=78  Identities=17%  Similarity=0.018  Sum_probs=55.4

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDN  107 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~  107 (158)
                      +.+++|+|+++..+.  ...|+.... ...     +|+++|+||+|+....    ++...++ .++. .++++||++|.|
T Consensus        81 ~~~i~v~d~~~~~~~--~~~~~~~~~~~~~-----~p~ilv~nK~Dl~~~~----~~~~~~~-~~~~~~~~~~Sa~~~~g  148 (161)
T 2dyk_A           81 EVVLFAVDGRAELTQ--ADYEVAEYLRRKG-----KPVILVATKVDDPKHE----LYLGPLY-GLGFGDPIPTSSEHARG  148 (161)
T ss_dssp             SEEEEEEESSSCCCH--HHHHHHHHHHHHT-----CCEEEEEECCCSGGGG----GGCGGGG-GGSSCSCEECBTTTTBS
T ss_pred             CEEEEEEECCCcccH--hHHHHHHHHHhcC-----CCEEEEEECcccccch----HhHHHHH-hCCCCCeEEEecccCCC
Confidence            349999999875333  223333333 322     8999999999986432    2334444 5676 799999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINP  119 (158)
Q Consensus       108 i~~lf~~l~~~~  119 (158)
                      ++++|+.+.+.+
T Consensus       149 v~~l~~~l~~~l  160 (161)
T 2dyk_A          149 LEELLEAIWERL  160 (161)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             hHHHHHHHHHhC
Confidence            999999998764

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.45  E-value=4.3e-13  Score=104.33  Aligned_cols=86  Identities=16%  Similarity=0.155  Sum_probs=69.7

Q ss_pred             EEEEEECCChh--HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQ--SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +++|+|+++..  +++....|+..+..... +  .|+++|+||+|+.....+  ++...+++..+.+++++||++|.||+
T Consensus       250 illV~D~s~~~~~~~~~~~~~~~~i~~~~~-~--~piilV~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~iSA~~g~gi~  324 (357)
T 2e87_A          250 IIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-D--LPFLVVINKIDVADEENI--KRLEKFVKEKGLNPIKISALKGTGID  324 (357)
T ss_dssp             EEEEECTTCTTSSCHHHHHHHHHHHHHHTT-T--SCEEEEECCTTTCCHHHH--HHHHHHHHHTTCCCEECBTTTTBTHH
T ss_pred             EEEEEeCCccccCCHHHHHHHHHHHHHhcC-C--CCEEEEEECcccCChHHH--HHHHHHHHhcCCCeEEEeCCCCcCHH
Confidence            88999998877  67778889998886443 2  899999999999754332  34556666778899999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2600         110 VNTRTPEINPLKY  122 (158)
Q Consensus       110 ~lf~~l~~~~~~~  122 (158)
                      ++|+++.+.+...
T Consensus       325 ~l~~~i~~~l~~~  337 (357)
T 2e87_A          325 LVKEEIIKTLRPL  337 (357)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988654

>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=99.45  E-value=1.1e-13  Score=107.21  Aligned_cols=86  Identities=17%  Similarity=0.114  Sum_probs=70.8

Q ss_pred             EEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC--CeEEEEeCCCCC
Q psy2600          32 VIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH--LHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~  106 (158)
                      +|+|+|+++   +.+++++..|+.++..+......+|+++|+||+|+...    .+..+.+.+.++  ..++++||+++.
T Consensus       240 ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~----~e~~~~l~~~l~~~~~v~~iSA~tg~  315 (342)
T 1lnz_A          240 IVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEA----AENLEAFKEKLTDDYPVFPISAVTRE  315 (342)
T ss_dssp             EEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTH----HHHHHHHHHHCCSCCCBCCCSSCCSS
T ss_pred             EEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCC----HHHHHHHHHHhhcCCCEEEEECCCCc
Confidence            899999998   78999999999999976543223999999999998642    234566777766  679999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      |++++|+.|.+.+.+
T Consensus       316 gi~eL~~~l~~~l~~  330 (342)
T 1lnz_A          316 GLRELLFEVANQLEN  330 (342)
T ss_dssp             TTHHHHHHHHHHHTS
T ss_pred             CHHHHHHHHHHHHhh
Confidence            999999999998754

>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=99.45  E-value=8.6e-14  Score=104.70  Aligned_cols=82  Identities=13%  Similarity=-0.028  Sum_probs=63.5

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +.+++|+|+++.+++   ..|...+.+..     +|+++|+||+|+...+.+. .+...+++.++++++++||++|.||+
T Consensus        82 d~vi~V~D~t~~e~~---~~~~~~l~~~~-----~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi~  152 (272)
T 3b1v_A           82 DSILNVVDATNLERN---LYLTTQLIETG-----IPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTGVD  152 (272)
T ss_dssp             SEEEEEEEGGGHHHH---HHHHHHHHHTC-----SCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBSHH
T ss_pred             CEEEEEecCCchHhH---HHHHHHHHhcC-----CCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCCHH
Confidence            448889998775443   45666666533     8999999999986433333 35677888899999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         110 VNTRTPEINPL  120 (158)
Q Consensus       110 ~lf~~l~~~~~  120 (158)
                      ++|+.+.+.+.
T Consensus       153 el~~~i~~~~~  163 (272)
T 3b1v_A          153 QVVKKAAHTTT  163 (272)
T ss_dssp             HHHHHHHHSCT
T ss_pred             HHHHHHHHHHh
Confidence            99999988653

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.44  E-value=3.8e-14  Score=112.63  Aligned_cols=110  Identities=16%  Similarity=0.064  Sum_probs=83.4

Q ss_pred             cccccccCCCCcceEEEEEEECCCCCCeE---------------------------------------------------
Q psy2600           3 EVKMLNLHNDNYEIQLKVVLLGDPSCGKI---------------------------------------------------   31 (158)
Q Consensus         3 ~~~~~~~~~~~~~~~~ki~~~G~~~vgk~---------------------------------------------------   31 (158)
                      ++.++.++.......+||+++|..++|||                                                   
T Consensus        20 e~~~msm~~~~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~~l~liDTpG~~d~~~l   99 (423)
T 3qq5_A           20 DPRRYTMRLPDAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIGPVTLVDTPGLDDVGEL   99 (423)
T ss_dssp             ----CCCCC---CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTTEEEEEEECSSTTCCCTT
T ss_pred             chhhCccccCCCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCCeEEEEECcCCCcccch
Confidence            34556777777788899999999999998                                                   


Q ss_pred             -----------------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC
Q psy2600          32 -----------------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH   94 (158)
Q Consensus        32 -----------------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~   94 (158)
                                       +|+|+|++..   +....|+..+.+.+     +|+++|+||+|+......  +..+.+++.++
T Consensus       100 ~~~~~~~~~~~l~~aD~vllVvD~~~~---~~~~~~l~~l~~~~-----~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g  169 (423)
T 3qq5_A          100 GRLRVEKARRVFYRADCGILVTDSAPT---PYEDDVVNLFKEME-----IPFVVVVNKIDVLGEKAE--ELKGLYESRYE  169 (423)
T ss_dssp             CCCCHHHHHHHHTSCSEEEEECSSSCC---HHHHHHHHHHHHTT-----CCEEEECCCCTTTTCCCT--HHHHHSSCCTT
T ss_pred             hHHHHHHHHHHHhcCCEEEEEEeCCCh---HHHHHHHHHHHhcC-----CCEEEEEeCcCCCCccHH--HHHHHHHHHcC
Confidence                             7888887332   33456788777664     999999999999765443  45666667778


Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      ++++++||++|.|++++|+.+.+.+.+.
T Consensus       170 ~~v~~vSAktg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          170 AKVLLVSALQKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             CCCCCCSSCCTTSTTTHHHHHHHHSCCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhhhhh
Confidence            9999999999999999999999988654

>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=99.43  E-value=3.2e-13  Score=102.90  Aligned_cols=82  Identities=18%  Similarity=0.093  Sum_probs=67.6

Q ss_pred             CeEEEEEEECCChh-HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC--CeEEEEeCCCC
Q psy2600          29 GKIVIFMYDITSGQ-SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH--LHSFAVSARTG  105 (158)
Q Consensus        29 gk~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~  105 (158)
                      .+.+|+|||++++. +|..+..|+..++...     +|+++|+||+|+...+.+  ++...+++.++  ..+++|||++|
T Consensus        85 ad~vilV~D~~~~~~s~~~l~~~l~~~~~~~-----~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg  157 (301)
T 1u0l_A           85 VDQVILVVTVKMPETSTYIIDKFLVLAEKNE-----LETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTG  157 (301)
T ss_dssp             CCEEEEEECSSTTCCCHHHHHHHHHHHHHTT-----CEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTC
T ss_pred             CCEEEEEEeCCCCCCCHHHHHHHHHHHHHCC-----CCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCC
Confidence            46799999999987 7888899999877532     999999999999754332  34667777777  89999999999


Q ss_pred             CCHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEI  117 (158)
Q Consensus       106 ~~i~~lf~~l~~  117 (158)
                      .||+++|..+..
T Consensus       158 ~gv~~lf~~l~g  169 (301)
T 1u0l_A          158 MGIEELKEYLKG  169 (301)
T ss_dssp             TTHHHHHHHHSS
T ss_pred             cCHHHHHHHhcC
Confidence            999999997654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.42  E-value=8.9e-13  Score=105.09  Aligned_cols=85  Identities=15%  Similarity=0.008  Sum_probs=63.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHH-HHHHH----hCCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA-KLAQS----LHLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~-~~~~~----~~~~~~~~Sa~~~~  106 (158)
                      +++|+|+++..++++. .|+..+....     +|+++|+||+|+........++.. .+.+.    .+.+++++||++|.
T Consensus       261 ~llv~D~~~~~s~~~~-~~~~~~~~~~-----~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~SA~tg~  334 (436)
T 2hjg_A          261 VAVVLDGEEGIIEQDK-RIAGYAHEAG-----KAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKK  334 (436)
T ss_dssp             EEEEEETTTCCCHHHH-HHHHHHHHTT-----CEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEEECCTTTCT
T ss_pred             EEEEEcCCcCCcHHHH-HHHHHHHHcC-----CcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEEEEecccCC
Confidence            8999999998777765 5777766543     999999999999765443333332 22333    25789999999999


Q ss_pred             CHHHHHHHHHHHHHHh
Q psy2600         107 NCWVNTRTPEINPLKY  122 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~~  122 (158)
                      ||+++|+.+.+.+...
T Consensus       335 ~v~~l~~~i~~~~~~~  350 (436)
T 2hjg_A          335 RIHTLMPAIIKASENH  350 (436)
T ss_dssp             TGGGHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            9999999999877653

>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=99.41  E-value=1.4e-12  Score=104.55  Aligned_cols=85  Identities=15%  Similarity=0.001  Sum_probs=64.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh-----CCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL-----HLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~~~Sa~~~~  106 (158)
                      +|+|+|+++..+ +....|...+....     +|+++|+||+|+...+....++....++..     +.+++++||++|.
T Consensus       281 ~llviD~~~~~~-~~~~~~~~~~~~~~-----~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~  354 (456)
T 4dcu_A          281 VAVVLDGEEGII-EQDKRIAGYAHEAG-----KAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKK  354 (456)
T ss_dssp             EEEEEETTTCCC-HHHHHHHHHHHHTT-----CEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEEECCTTTCT
T ss_pred             EEEEEeCCCCcC-HHHHHHHHHHHHcC-----CCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEEEEcCCCCc
Confidence            889999887422 23345666655533     899999999999865555556666666654     4789999999999


Q ss_pred             CHHHHHHHHHHHHHHh
Q psy2600         107 NCWVNTRTPEINPLKY  122 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~~  122 (158)
                      ||+++|+.+.+.+...
T Consensus       355 gv~~l~~~i~~~~~~~  370 (456)
T 4dcu_A          355 RIHTLMPAIIKASENH  370 (456)
T ss_dssp             TGGGHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            9999999999887554

>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=99.39  E-value=8.9e-14  Score=104.60  Aligned_cols=81  Identities=9%  Similarity=-0.056  Sum_probs=60.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|+++.+++.   .|...+.+..     +|+++|+||+|+...+.+. .....+++.+|++++++||++|.|++++
T Consensus        89 ii~VvD~~~~~~~~---~~~~~l~~~~-----~p~ivv~NK~Dl~~~~~~~-~~~~~l~~~lg~~~i~~SA~~g~gi~el  159 (274)
T 3i8s_A           89 LINVVDASNLERNL---YLTLQLLELG-----IPCIVALNMLDIAEKQNIR-IEIDALSARLGCPVIPLVSTRGRGIEAL  159 (274)
T ss_dssp             EEEEEEGGGHHHHH---HHHHHHHHHT-----CCEEEEEECHHHHHHTTEE-ECHHHHHHHHTSCEEECCCGGGHHHHHH
T ss_pred             EEEEecCCChHHHH---HHHHHHHhcC-----CCEEEEEECccchhhhhHH-HHHHHHHHhcCCCEEEEEcCCCCCHHHH
Confidence            88899988755444   3444444443     9999999999986433222 2356677888999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |+.+.+.+..
T Consensus       160 ~~~i~~~~~~  169 (274)
T 3i8s_A          160 KLAIDRYKAN  169 (274)
T ss_dssp             HHHHHTCCCC
T ss_pred             HHHHHHHHhc
Confidence            9999887653

>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=99.38  E-value=2.6e-13  Score=97.93  Aligned_cols=74  Identities=14%  Similarity=0.145  Sum_probs=51.4

Q ss_pred             EEEEEECC-ChhHHhhHHHHHHHHhhh----cCCCCCcEEEEEEeCCCCCCCcccc------HHHHHHHHHHhCCeEEEE
Q psy2600          32 VIFMYDIT-SGQSFHSIPTWVDLFHLN----RKSSTPTYVALVANKGDMEHQRVVT------LERHAKLAQSLHLHSFAV  100 (158)
Q Consensus        32 ~i~v~d~~-~~~s~~~~~~~~~~~~~~----~~~~~~~piilv~nK~Dl~~~~~~~------~~~~~~~~~~~~~~~~~~  100 (158)
                      +|+|+|++ ++.+|.....|+.++...    ....  +|+++|+||+|+...+.+.      .++...++...+..|+++
T Consensus        86 ~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  163 (218)
T 1nrj_B           86 LIFMVDSTVDPKKLTTTAEFLVDILSITESSCENG--IDILIACNKSELFTARPPSKIKDALESEIQKVIERRKKSLNEV  163 (218)
T ss_dssp             EEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTC--CCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             EEEEEECCCChHHHHHHHHHHHHHHhcccccccCC--CCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHhcccccc
Confidence            89999999 889999999998888743    2223  9999999999997655433      345666777777889999


Q ss_pred             eCCCCCC
Q psy2600         101 SARTGDN  107 (158)
Q Consensus       101 Sa~~~~~  107 (158)
                      ||++|.+
T Consensus       164 Sa~~~~~  170 (218)
T 1nrj_B          164 ERKINEE  170 (218)
T ss_dssp             -------
T ss_pred             ccccccc
Confidence            9998876

>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=99.38  E-value=3e-12  Score=103.10  Aligned_cols=82  Identities=15%  Similarity=0.067  Sum_probs=60.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|++++.+++.+..+...+....  +  +|+++|+||+|+......   ..+.+.+....+++++||++|.||+++
T Consensus       316 vl~VvD~s~~~s~~~~~~~~~~l~~l~--~--~piIvV~NK~Dl~~~~~~---~~~~l~~~~~~~~i~vSAktg~GI~eL  388 (476)
T 3gee_A          316 ILYLLDLGTERLDDELTEIRELKAAHP--A--AKFLTVANKLDRAANADA---LIRAIADGTGTEVIGISALNGDGIDTL  388 (476)
T ss_dssp             EEEEEETTTCSSGGGHHHHHHHHHHCT--T--SEEEEEEECTTSCTTTHH---HHHHHHHHHTSCEEECBTTTTBSHHHH
T ss_pred             EEEEEECCCCcchhhhHHHHHHHHhcC--C--CCEEEEEECcCCCCccch---hHHHHHhcCCCceEEEEECCCCCHHHH
Confidence            899999999888875433333333222  2  899999999999765433   223344442367999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |+.+.+.+.
T Consensus       389 ~~~i~~~~~  397 (476)
T 3gee_A          389 KQHMGDLVK  397 (476)
T ss_dssp             HHHHTHHHH
T ss_pred             HHHHHHHHh
Confidence            999999876

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.35  E-value=1.4e-12  Score=94.30  Aligned_cols=85  Identities=14%  Similarity=-0.028  Sum_probs=56.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc--HHHHHHHHHH-------hCCeEEEEeC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT--LERHAKLAQS-------LHLHSFAVSA  102 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~-------~~~~~~~~Sa  102 (158)
                      +++|+|.++..+ .....|+..+....     +|+++|+||+|+.......  ..........       .+.+++++||
T Consensus       119 vi~v~d~~~~~~-~~~~~~~~~l~~~~-----~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~SA  192 (223)
T 4dhe_A          119 MILMMDARRPLT-ELDRRMIEWFAPTG-----KPIHSLLTKCDKLTRQESINALRATQKSLDAYRDAGYAGKLTVQLFSA  192 (223)
T ss_dssp             EEEEEETTSCCC-HHHHHHHHHHGGGC-----CCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTCCSCEEEEEEBT
T ss_pred             EEEEEeCCCCCC-HHHHHHHHHHHhcC-----CCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhcccCCCCeEEEeec
Confidence            889999876422 22235566665533     8999999999986533321  1112222222       3567999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHh
Q psy2600         103 RTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~~~~  122 (158)
                      ++|.||.++|+.|.+.+...
T Consensus       193 ~~g~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          193 LKRTGLDDAHALIESWLRPA  212 (223)
T ss_dssp             TTTBSHHHHHHHHHHHHC--
T ss_pred             CCCcCHHHHHHHHHHhcCcc
Confidence            99999999999999988654

>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=99.34  E-value=1.5e-12  Score=101.30  Aligned_cols=106  Identities=18%  Similarity=0.165  Sum_probs=83.6

Q ss_pred             ceEEEEEEECCCC-----------CCeEEEEEEECCC----------hhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeC
Q psy2600          15 EIQLKVVLLGDPS-----------CGKIVIFMYDITS----------GQSFHSIPTWVDLFHLNR-KSSTPTYVALVANK   72 (158)
Q Consensus        15 ~~~~ki~~~G~~~-----------vgk~~i~v~d~~~----------~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK   72 (158)
                      .+.+.+|.+|...           -.+++|||||+++          ..+|.+...|+..+.... ..+  +|++|++||
T Consensus       192 ~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~--~piiLv~NK  269 (353)
T 1cip_A          192 DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTD--TSIILFLNK  269 (353)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTT--SEEEEEEEC
T ss_pred             CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccC--CcEEEEEEC
Confidence            5778899998764           3578999999999          567888888888887532 123  999999999


Q ss_pred             CCCCCCc---------------cccHHHHHHHHH-----------HhCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          73 GDMEHQR---------------VVTLERHAKLAQ-----------SLHLHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        73 ~Dl~~~~---------------~~~~~~~~~~~~-----------~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      +|+...+               .++.+++..++.           ..++.+++|||+++.||.++|+++.+.+.+.
T Consensus       270 ~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~~~  345 (353)
T 1cip_A          270 KDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  345 (353)
T ss_dssp             HHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             cCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHHHH
Confidence            9985321               245677888776           2456789999999999999999999988654

>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=99.33  E-value=2.9e-13  Score=100.97  Aligned_cols=80  Identities=13%  Similarity=0.019  Sum_probs=59.5

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +.+|+|+|+++.+++..+   ...+....     +|+++|+||+|+...+.+. .....+.+.+|++++++||++|.|++
T Consensus        85 d~vi~VvDas~~~~~~~l---~~~l~~~~-----~pvilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi~  155 (256)
T 3iby_A           85 DCIINVIDACHLERHLYL---TSQLFELG-----KPVVVALNMMDIAEHRGIS-IDTEKLESLLGCSVIPIQAHKNIGIP  155 (256)
T ss_dssp             SEEEEEEEGGGHHHHHHH---HHHHTTSC-----SCEEEEEECHHHHHHTTCE-ECHHHHHHHHCSCEEECBGGGTBSHH
T ss_pred             CEEEEEeeCCCchhHHHH---HHHHHHcC-----CCEEEEEEChhcCCcCCcH-HHHHHHHHHcCCCEEEEECCCCCCHH
Confidence            448899998876555443   33333332     9999999999986433222 13456778889999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         110 VNTRTPEIN  118 (158)
Q Consensus       110 ~lf~~l~~~  118 (158)
                      ++|+.+.+.
T Consensus       156 el~~~i~~~  164 (256)
T 3iby_A          156 ALQQSLLHC  164 (256)
T ss_dssp             HHHHHHHTC
T ss_pred             HHHHHHHhh
Confidence            999999886

>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=99.32  E-value=1.3e-12  Score=97.83  Aligned_cols=83  Identities=14%  Similarity=0.053  Sum_probs=60.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|.++.   +....|...+.....    +|+++|+||+|+...+.... ....+.+.++++++++||++|.|+.++
T Consensus        85 vi~v~D~~~~---~~~~~~~~~~~~~~~----~p~ilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~~~~Sa~~g~gi~~l  156 (271)
T 3k53_A           85 IVDIVDSTCL---MRNLFLTLELFEMEV----KNIILVLNKFDLLKKKGAKI-DIKKMRKELGVPVIPTNAKKGEGVEEL  156 (271)
T ss_dssp             EEEEEEGGGH---HHHHHHHHHHHHTTC----CSEEEEEECHHHHHHHTCCC-CHHHHHHHHSSCEEECBGGGTBTHHHH
T ss_pred             EEEEecCCcc---hhhHHHHHHHHhcCC----CCEEEEEEChhcCcccccHH-HHHHHHHHcCCcEEEEEeCCCCCHHHH
Confidence            6777777653   233345555554332    79999999999853322222 366788889999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+.+.+.+...
T Consensus       157 ~~~i~~~~~~~  167 (271)
T 3k53_A          157 KRMIALMAEGK  167 (271)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHhcc
Confidence            99999887543

>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=99.31  E-value=5.3e-12  Score=96.22  Aligned_cols=82  Identities=18%  Similarity=0.152  Sum_probs=65.7

Q ss_pred             eEEEEEEECCChh-HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc-HHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          30 KIVIFMYDITSGQ-SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT-LERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        30 k~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      |.+++|+|++++. ++..+..|+..+....     +|+++|+||+|+.....+. .++...+++..+.+++++||++|.|
T Consensus        81 D~vliV~d~~~p~~s~~~l~~~l~~~~~~~-----~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g~~~~~~SA~~g~g  155 (302)
T 2yv5_A           81 DRVIIVETLKMPEFNNYLLDNMLVVYEYFK-----VEPVIVFNKIDLLNEEEKKELERWISIYRDAGYDVLKVSAKTGEG  155 (302)
T ss_dssp             CEEEEEECSTTTTCCHHHHHHHHHHHHHTT-----CEEEEEECCGGGCCHHHHHHHHHHHHHHHHTTCEEEECCTTTCTT
T ss_pred             CEEEEEEECCCCCCCHHHHHHHHHHHHhCC-----CCEEEEEEcccCCCccccHHHHHHHHHHHHCCCeEEEEECCCCCC
Confidence            5599999999886 8888899999877533     8999999999996533222 3445566677789999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         108 CWVNTRTPE  116 (158)
Q Consensus       108 i~~lf~~l~  116 (158)
                      ++++|..+.
T Consensus       156 i~~L~~~l~  164 (302)
T 2yv5_A          156 IDELVDYLE  164 (302)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHhhcc
Confidence            999998643

>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=99.28  E-value=7.9e-12  Score=97.21  Aligned_cols=108  Identities=14%  Similarity=0.069  Sum_probs=79.4

Q ss_pred             cceEEEEEEECCCC-----------CCeEEEEEEECC----------ChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEe
Q psy2600          14 YEIQLKVVLLGDPS-----------CGKIVIFMYDIT----------SGQSFHSIPTWVDLFHLNR-KSSTPTYVALVAN   71 (158)
Q Consensus        14 ~~~~~ki~~~G~~~-----------vgk~~i~v~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~n   71 (158)
                      ..+.+.+|.+|...           -++++|+|||++          +..+|++...|++.+.... ...  +|++||+|
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~--~piiLvgN  258 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEK--TSFMLFLN  258 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSS--CEEEEEEE
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCC--CeEEEEEE
Confidence            56889999998875           347799999998          7889999999998887432 223  99999999


Q ss_pred             CCCCCCCcc--c-------------------cHHHHHHHHHH----------------hCCeEEEEeCCCCCCHHHHHHH
Q psy2600          72 KGDMEHQRV--V-------------------TLERHAKLAQS----------------LHLHSFAVSARTGDNCWVNTRT  114 (158)
Q Consensus        72 K~Dl~~~~~--~-------------------~~~~~~~~~~~----------------~~~~~~~~Sa~~~~~i~~lf~~  114 (158)
                      |+|+...+.  +                   +.+++..++..                ..+.+++|||+++.||.++|+.
T Consensus       259 K~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~  338 (354)
T 2xtz_A          259 KFDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKL  338 (354)
T ss_dssp             CHHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHH
T ss_pred             CcchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHH
Confidence            999843211  1                   23556666443                1234689999999999999999


Q ss_pred             HHHHHHHhH
Q psy2600         115 PEINPLKYL  123 (158)
Q Consensus       115 l~~~~~~~~  123 (158)
                      +.+.+.+..
T Consensus       339 v~~~I~~~~  347 (354)
T 2xtz_A          339 VDETLRRRN  347 (354)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887653

>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=99.26  E-value=1.4e-11  Score=96.15  Aligned_cols=107  Identities=17%  Similarity=0.139  Sum_probs=81.3

Q ss_pred             ceEEEEEEECCCC-----------CCeEEEEEEECCC----------hhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeC
Q psy2600          15 EIQLKVVLLGDPS-----------CGKIVIFMYDITS----------GQSFHSIPTWVDLFHLNR-KSSTPTYVALVANK   72 (158)
Q Consensus        15 ~~~~ki~~~G~~~-----------vgk~~i~v~d~~~----------~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK   72 (158)
                      .+.+.++.+|...           -.+++|||||+++          ..+|.+...|+..+.... ..+  +|+||++||
T Consensus       200 ~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~--~piILv~NK  277 (362)
T 1zcb_A          200 NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSN--VSIILFLNK  277 (362)
T ss_dssp             TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTT--SEEEEEEEC
T ss_pred             CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCC--CCEEEEEEC
Confidence            4778899998764           3467999999999          789999999998887432 223  999999999


Q ss_pred             CCCCCCc----------------cccHHHHHHHHH-----------HhCCeEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          73 GDMEHQR----------------VVTLERHAKLAQ-----------SLHLHSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        73 ~Dl~~~~----------------~~~~~~~~~~~~-----------~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      +|+...+                .++.+++..++.           ..++.+++|||+++.||.++|+++.+.+.+..
T Consensus       278 ~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~~  355 (362)
T 1zcb_A          278 TDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHDN  355 (362)
T ss_dssp             HHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHHHHH
Confidence            9985321                245667777652           23567899999999999999999999887643

>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=99.23  E-value=1.8e-11  Score=96.54  Aligned_cols=107  Identities=14%  Similarity=0.072  Sum_probs=80.3

Q ss_pred             ceEEEEEEECCCC-----------CCeEEEEEEECCC----------hhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeC
Q psy2600          15 EIQLKVVLLGDPS-----------CGKIVIFMYDITS----------GQSFHSIPTWVDLFHLNR-KSSTPTYVALVANK   72 (158)
Q Consensus        15 ~~~~ki~~~G~~~-----------vgk~~i~v~d~~~----------~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK   72 (158)
                      .+.+.+|.+|...           -++++|||||+++          ..+|+....|+..+.... ..+  +|++||+||
T Consensus       216 ~v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~--~piiLvgNK  293 (402)
T 1azs_C          216 KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRT--ISVILFLNK  293 (402)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSS--CCEEEEEEC
T ss_pred             CccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCC--CeEEEEEEC
Confidence            4778899998764           3577999999999          899999999999987542 233  899999999


Q ss_pred             CCCCCCcc---c---------------------------cHHHHHHHH-----HH--------hCCeEEEEeCCCCCCHH
Q psy2600          73 GDMEHQRV---V---------------------------TLERHAKLA-----QS--------LHLHSFAVSARTGDNCW  109 (158)
Q Consensus        73 ~Dl~~~~~---~---------------------------~~~~~~~~~-----~~--------~~~~~~~~Sa~~~~~i~  109 (158)
                      +|+...+.   +                           +.+++..++     +.        .++.+++|||+++.||.
T Consensus       294 ~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~d~~nV~  373 (402)
T 1azs_C          294 QDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIR  373 (402)
T ss_dssp             HHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTTCHHHHH
T ss_pred             hhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEeecCcCHH
Confidence            99853221   1                           134455553     22        13457899999999999


Q ss_pred             HHHHHHHHHHHHhH
Q psy2600         110 VNTRTPEINPLKYL  123 (158)
Q Consensus       110 ~lf~~l~~~~~~~~  123 (158)
                      ++|..+.+.+....
T Consensus       374 ~vF~~v~~~I~~~~  387 (402)
T 1azs_C          374 RVFNDCRDIIQRMH  387 (402)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999988876653

>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=99.22  E-value=4.7e-11  Score=95.21  Aligned_cols=85  Identities=18%  Similarity=0.097  Sum_probs=56.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHH-HHHHH----hCCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA-KLAQS----LHLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~-~~~~~----~~~~~~~~Sa~~~~  106 (158)
                      +++|+|+++..++++. .+...+....     +|+++|+||+|+...+....++.. .+.+.    .+.+++++||++|.
T Consensus       267 vllv~d~~~~~~~~~~-~i~~~l~~~~-----~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~  340 (439)
T 1mky_A          267 VVIVLDATQGITRQDQ-RMAGLMERRG-----RASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGW  340 (439)
T ss_dssp             EEEEEETTTCCCHHHH-HHHHHHHHTT-----CEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTB
T ss_pred             EEEEEeCCCCCCHHHH-HHHHHHHHcC-----CCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEEEEECCCCC
Confidence            6777887765554432 2333333322     899999999998754433333332 22232    24689999999999


Q ss_pred             CHHHHHHHHHHHHHHh
Q psy2600         107 NCWVNTRTPEINPLKY  122 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~~  122 (158)
                      ||+++|+.+.+.+...
T Consensus       341 gv~~l~~~i~~~~~~~  356 (439)
T 1mky_A          341 NIDRMIDAMNLAYASY  356 (439)
T ss_dssp             SHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhh
Confidence            9999999998876553

>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=99.21  E-value=2.9e-11  Score=97.57  Aligned_cols=79  Identities=18%  Similarity=0.125  Sum_probs=58.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|+|++++.++++.. +++.+    . .  +|+++|+||+|+...  +..++...+.. .+.+++++||++|.||+++
T Consensus       327 vl~VvD~s~~~s~~~~~-il~~l----~-~--~piivV~NK~DL~~~--~~~~~~~~~~~-~~~~~i~iSAktg~Gi~eL  395 (482)
T 1xzp_A          327 VLFVLDASSPLDEEDRK-ILERI----K-N--KRYLVVINKVDVVEK--INEEEIKNKLG-TDRHMVKISALKGEGLEKL  395 (482)
T ss_dssp             EEEEEETTSCCCHHHHH-HHHHH----T-T--SSEEEEEEECSSCCC--CCHHHHHHHHT-CSTTEEEEEGGGTCCHHHH
T ss_pred             EEEEecCCCCCCHHHHH-HHHHh----c-C--CCEEEEEECcccccc--cCHHHHHHHhc-CCCcEEEEECCCCCCHHHH
Confidence            89999999887776543 33333    1 1  899999999999643  23334443322 3468999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |+.|.+.+..
T Consensus       396 ~~~l~~~~~~  405 (482)
T 1xzp_A          396 EESIYRETQE  405 (482)
T ss_dssp             HHHHHHHTHH
T ss_pred             HHHHHHHHhh
Confidence            9999997764

>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=99.21  E-value=4e-11  Score=94.64  Aligned_cols=88  Identities=14%  Similarity=-0.039  Sum_probs=63.9

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh------CCeEEEEeCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL------HLHSFAVSAR  103 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~------~~~~~~~Sa~  103 (158)
                      |.+|+|+|+++..++.+...|+..+.....    .|+++|+||+|+...... .+..+.+.+..      +.+++++||+
T Consensus       100 D~~ilVvda~~~~~~~qt~~~~~~~~~~~~----~~iivviNK~Dl~~~~~~-~~~~~~i~~~l~~~~~~~~~ii~vSA~  174 (403)
T 3sjy_A          100 DGAILVVAANEPFPQPQTREHFVALGIIGV----KNLIIVQNKVDVVSKEEA-LSQYRQIKQFTKGTWAENVPIIPVSAL  174 (403)
T ss_dssp             SEEEEEEETTSCSSCHHHHHHHHHHHHHTC----CCEEEEEECGGGSCHHHH-HHHHHHHHHHHTTSTTTTCCEEECBTT
T ss_pred             CEEEEEEECCCCCCcHHHHHHHHHHHHcCC----CCEEEEEECccccchHHH-HHHHHHHHHHHHhhCCCCCEEEEEECC
Confidence            449999999987777788888877775542    589999999998643221 11122222222      4679999999


Q ss_pred             CCCCHHHHHHHHHHHHHHh
Q psy2600         104 TGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       104 ~~~~i~~lf~~l~~~~~~~  122 (158)
                      +|.||+++++.|.+.+...
T Consensus       175 ~g~gi~~L~~~l~~~l~~~  193 (403)
T 3sjy_A          175 HKINIDSLIEGIEEYIKTP  193 (403)
T ss_dssp             TTBSHHHHHHHHHHHSCCC
T ss_pred             CCcChHHHHHHHHHhCCCC
Confidence            9999999999999876543

>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=99.18  E-value=3.1e-11  Score=96.93  Aligned_cols=79  Identities=13%  Similarity=-0.015  Sum_probs=56.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|+|.+++.++.. ..|+..+..       .|+++|+||+|+.......  ....+.  .+.+++++||++|.|++++
T Consensus       307 vl~VvD~s~~~~~~~-~~i~~~l~~-------~piivV~NK~Dl~~~~~~~--~~~~~~--~~~~~i~iSAktg~Gi~eL  374 (462)
T 3geh_A          307 VLLTIDAATGWTTGD-QEIYEQVKH-------RPLILVMNKIDLVEKQLIT--SLEYPE--NITQIVHTAAAQKQGIDSL  374 (462)
T ss_dssp             EEEEEETTTCSCHHH-HHHHHHHTT-------SCEEEEEECTTSSCGGGST--TCCCCT--TCCCEEEEBTTTTBSHHHH
T ss_pred             EEEEeccCCCCCHHH-HHHHHhccC-------CcEEEEEECCCCCcchhhH--HHHHhc--cCCcEEEEECCCCCCHHHH
Confidence            899999988655543 445555431       7999999999997544332  111111  3467999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+.+.+.+...
T Consensus       375 ~~~i~~~~~~~  385 (462)
T 3geh_A          375 ETAILEIVQTG  385 (462)
T ss_dssp             HHHHHHHHTTS
T ss_pred             HHHHHHHHhcc
Confidence            99999987653

>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=99.18  E-value=5.5e-11  Score=94.82  Aligned_cols=79  Identities=22%  Similarity=0.150  Sum_probs=54.8

Q ss_pred             EEEEEECCChhHHhh--HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHH-HHHHHHhCC-eEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHS--IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERH-AKLAQSLHL-HSFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~-~~~~~~~~~-~~~~~Sa~~~~~  107 (158)
                      +|+|+|.++..++.+  +..|+.   ...     +|+++|+||+|+...  . .... ..+. .+++ +++++||++|.|
T Consensus        85 il~V~D~~~~~~~~d~~i~~~l~---~~~-----~p~ilv~NK~D~~~~--~-~~~~~~~~~-~lg~~~~~~iSA~~g~g  152 (439)
T 1mky_A           85 VLFVVDGKRGITKEDESLADFLR---KST-----VDTILVANKAENLRE--F-EREVKPELY-SLGFGEPIPVSAEHNIN  152 (439)
T ss_dssp             EEEEEETTTCCCHHHHHHHHHHH---HHT-----CCEEEEEESCCSHHH--H-HHHTHHHHG-GGSSCSCEECBTTTTBS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH---HcC-----CCEEEEEeCCCCccc--c-HHHHHHHHH-hcCCCCEEEEeccCCCC
Confidence            999999887544332  223333   222     899999999997421  1 1122 3333 4566 689999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy2600         108 CWVNTRTPEINPLKY  122 (158)
Q Consensus       108 i~~lf~~l~~~~~~~  122 (158)
                      +.++|+.+.+.+.+.
T Consensus       153 v~~L~~~i~~~l~~~  167 (439)
T 1mky_A          153 LDTMLETIIKKLEEK  167 (439)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccc
Confidence            999999999988753

>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=99.17  E-value=3.4e-11  Score=91.70  Aligned_cols=80  Identities=15%  Similarity=0.000  Sum_probs=56.0

Q ss_pred             EEEEEECCChhHHhhHHHHH-HHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh-C-CeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQSFHSIPTWV-DLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL-H-LHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~-~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~-~~~~~~Sa~~~~~i  108 (158)
                      +++|+|+++..+..  ..|+ +.+.... ..  +|+++|+||+|+.....    ......+.+ + .+++++||++|.|+
T Consensus        90 il~VvD~~~~~~~~--~~~i~~~l~~~~-~~--~p~ilV~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~iSA~~g~gv  160 (301)
T 1wf3_A           90 VVWVVDLRHPPTPE--DELVARALKPLV-GK--VPILLVGNKLDAAKYPE----EAMKAYHELLPEAEPRMLSALDERQV  160 (301)
T ss_dssp             EEEEEETTSCCCHH--HHHHHHHHGGGT-TT--SCEEEEEECGGGCSSHH----HHHHHHHHTSTTSEEEECCTTCHHHH
T ss_pred             EEEEEECCCCCChH--HHHHHHHHHhhc-CC--CCEEEEEECcccCCchH----HHHHHHHHhcCcCcEEEEeCCCCCCH
Confidence            99999998764433  3454 4555442 12  89999999999865332    022333332 3 46899999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         109 WVNTRTPEINPL  120 (158)
Q Consensus       109 ~~lf~~l~~~~~  120 (158)
                      +++|+.+.+.+.
T Consensus       161 ~~l~~~l~~~l~  172 (301)
T 1wf3_A          161 AELKADLLALMP  172 (301)
T ss_dssp             HHHHHHHHTTCC
T ss_pred             HHHHHHHHHhcc
Confidence            999999988764

>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=99.17  E-value=3e-11  Score=92.91  Aligned_cols=106  Identities=11%  Similarity=0.100  Sum_probs=80.6

Q ss_pred             ceEEEEEEECCCC-----------CCeEEEEEEECC----------ChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeC
Q psy2600          15 EIQLKVVLLGDPS-----------CGKIVIFMYDIT----------SGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANK   72 (158)
Q Consensus        15 ~~~~ki~~~G~~~-----------vgk~~i~v~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK   72 (158)
                      .+.+.+|.+|...           -++++|+|||++          +.++|.+...|+..+.... ..+  +|++|++||
T Consensus       166 ~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~--~~iiL~~NK  243 (327)
T 3ohm_A          166 SVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQN--SSVILFLNK  243 (327)
T ss_dssp             TEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTT--CEEEEEEEC
T ss_pred             ceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCC--ceEEEEEEC
Confidence            4678899998754           447899999665          6677888878888876432 123  999999999


Q ss_pred             CCCCCCc----------------cccHHHHHHHHH----------HhCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          73 GDMEHQR----------------VVTLERHAKLAQ----------SLHLHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        73 ~Dl~~~~----------------~~~~~~~~~~~~----------~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      +|+...+                ..+.+++..+..          ..++.+++|||+++.||+++|..+.+.+.+.
T Consensus       244 ~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~  319 (327)
T 3ohm_A          244 KDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  319 (327)
T ss_dssp             HHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHT
T ss_pred             chhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHHHHHHH
Confidence            9985432                356677777743          3456678999999999999999999998764

>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=99.14  E-value=3.3e-10  Score=88.37  Aligned_cols=89  Identities=16%  Similarity=0.119  Sum_probs=63.2

Q ss_pred             EEEEEECCChh--HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc-cHHHHHHHHHHh-C--CeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQ--SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV-TLERHAKLAQSL-H--LHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~-~~~~~~~~~~~~-~--~~~~~~Sa~~~  105 (158)
                      +++|+|++++.  +++.+..|...+.......  .|+++|+||+|+...... ....+..+++.+ .  ..++++||+++
T Consensus       261 il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~--~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~SA~~g  338 (364)
T 2qtf_A          261 LILVIDSTFSENLLIETLQSSFEILREIGVSG--KPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKR  338 (364)
T ss_dssp             EEEEEETTSCHHHHHHHHHHHHHHHHHHTCCS--CCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEECBTTTT
T ss_pred             EEEEEECCCCcchHHHHHHHHHHHHHHhCcCC--CCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEEECCCC
Confidence            88999998876  5666666766666544333  899999999998653210 011233344555 2  36899999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy2600         106 DNCWVNTRTPEINPLKY  122 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~  122 (158)
                      .|++++++.|.+.+...
T Consensus       339 ~gi~~L~~~I~~~l~~~  355 (364)
T 2qtf_A          339 TNLELLRDKIYQLATQL  355 (364)
T ss_dssp             BSHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHhccc
Confidence            99999999999887654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.10  E-value=6.6e-11  Score=94.27  Aligned_cols=79  Identities=19%  Similarity=0.117  Sum_probs=53.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~  110 (158)
                      +|+|+|.++..++.+  .|+..+...  .+  +|+++|+||+|+.....    ....+. .+++ .++++||++|.|+.+
T Consensus        86 il~vvD~~~~~~~~d--~~~~~~l~~--~~--~pvilv~NK~D~~~~~~----~~~~~~-~lg~~~~~~iSA~~g~gv~~  154 (436)
T 2hjg_A           86 IIFMVNGREGVTAAD--EEVAKILYR--TK--KPVVLAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLGLGD  154 (436)
T ss_dssp             EEEEEETTTCSCHHH--HHHHHHHTT--CC--SCEEEEEECCCC---------CCCSSG-GGSSCCCEECBTTTTBTHHH
T ss_pred             EEEEEeCCCCCCHHH--HHHHHHHHH--cC--CCEEEEEECccCccchh----hHHHHH-HcCCCCeEEEeCcCCCChHH
Confidence            889999987655443  344333321  12  89999999999864221    111122 3454 689999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +++.+.+.+.+
T Consensus       155 L~~~i~~~l~~  165 (436)
T 2hjg_A          155 LLDAVAEHFKN  165 (436)
T ss_dssp             HHHHHHHTGGG
T ss_pred             HHHHHHHhcCc
Confidence            99999988864

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.05  E-value=1.6e-09  Score=89.48  Aligned_cols=87  Identities=13%  Similarity=0.063  Sum_probs=67.7

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCe---EEEEeCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLH---SFAVSART  104 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~Sa~~  104 (158)
                      ..|++|+|+|+++..+++....|...... +     +|+++|+||+|+....  .......+.+.+++.   ++++||++
T Consensus        94 ~aD~aILVVDa~~gv~~qt~~~~~~~~~~-~-----ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~~vi~vSAkt  165 (599)
T 3cb4_D           94 ACEGALLVVDAGQGVEAQTLANCYTAMEM-D-----LEVVPVLNKIDLPAAD--PERVAEEIEDIVGIDATDAVRCSAKT  165 (599)
T ss_dssp             HCSEEEEEEETTTCCCTHHHHHHHHHHHT-T-----CEEEEEEECTTSTTCC--HHHHHHHHHHHTCCCCTTCEEECTTT
T ss_pred             HCCEEEEEEECCCCCCHHHHHHHHHHHHC-C-----CCEEEeeeccCccccc--HHHHHHHHHHHhCCCcceEEEeeccc
Confidence            34679999999988777777777765542 2     8999999999997533  233455666666763   89999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy2600         105 GDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~~~  122 (158)
                      |.||+++|+.+.+.+...
T Consensus       166 g~GI~~Ll~~I~~~lp~p  183 (599)
T 3cb4_D          166 GVGVQDVLERLVRDIPPP  183 (599)
T ss_dssp             CTTHHHHHHHHHHHSCCC
T ss_pred             CCCchhHHHHHhhcCCCc
Confidence            999999999999887654

>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=99.04  E-value=8.3e-10  Score=83.95  Aligned_cols=83  Identities=22%  Similarity=0.118  Sum_probs=57.7

Q ss_pred             EEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCCHH
Q psy2600          31 IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDNCW  109 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~  109 (158)
                      .+++|+|.++   +.....|+.+....  ..  .|+++|+||+|+...+....+....+.+.++. .++.+||+++.|+.
T Consensus        91 ~vl~Vvd~~~---~~~~~~~i~~~l~~--~~--~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g~~v~  163 (301)
T 1ega_A           91 LVIFVVEGTR---WTPDDEMVLNKLRE--GK--APVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVD  163 (301)
T ss_dssp             EEEEEEETTC---CCHHHHHHHHHHHS--SS--SCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHH
T ss_pred             EEEEEEeCCC---CCHHHHHHHHHHHh--cC--CCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCCCCHH
Confidence            3889999876   44444455443321  11  89999999999875222223344555555665 68999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         110 VNTRTPEINPL  120 (158)
Q Consensus       110 ~lf~~l~~~~~  120 (158)
                      ++++.+.+.+.
T Consensus       164 ~l~~~i~~~l~  174 (301)
T 1ega_A          164 TIAAIVRKHLP  174 (301)
T ss_dssp             HHHHHHHTTCC
T ss_pred             HHHHHHHHhCC
Confidence            99999987664

>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=99.03  E-value=3.2e-10  Score=87.63  Aligned_cols=105  Identities=13%  Similarity=0.065  Sum_probs=78.9

Q ss_pred             ceEEEEEEECCCC-----------CCeEEEEEEECC----------ChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeC
Q psy2600          15 EIQLKVVLLGDPS-----------CGKIVIFMYDIT----------SGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANK   72 (158)
Q Consensus        15 ~~~~ki~~~G~~~-----------vgk~~i~v~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK   72 (158)
                      .+.+.+|.+|...           -++++|||||++          +..+|.+...|+..+.... ..+  +|++|++||
T Consensus       160 ~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~--~piiLv~NK  237 (340)
T 4fid_A          160 DIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKG--AVKLIFLNK  237 (340)
T ss_dssp             SCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTT--SEEEEEEEC
T ss_pred             eeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCC--CeEEEEEEC
Confidence            4678899988764           457899999998          7788998888888887432 233  999999999


Q ss_pred             CCCCCCc---------------cccHHHHHHHHHH-h--------------------------CCeEEEEeCCCCCCHHH
Q psy2600          73 GDMEHQR---------------VVTLERHAKLAQS-L--------------------------HLHSFAVSARTGDNCWV  110 (158)
Q Consensus        73 ~Dl~~~~---------------~~~~~~~~~~~~~-~--------------------------~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+...+               ..+.+++..++.. +                          ++-+++|||++..||..
T Consensus       238 ~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~  317 (340)
T 4fid_A          238 MDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNIKR  317 (340)
T ss_dssp             HHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHHHH
T ss_pred             chhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHHHH
Confidence            9984311               0134455444432 2                          25578999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +|..+.+.+.+
T Consensus       318 vF~~v~~~Il~  328 (340)
T 4fid_A          318 VFMLAVDVIMK  328 (340)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998887

>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=99.00  E-value=2.4e-09  Score=88.36  Aligned_cols=87  Identities=13%  Similarity=0.076  Sum_probs=67.6

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC---eEEEEeCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL---HSFAVSART  104 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~~~Sa~~  104 (158)
                      ..+++|+|+|+++..+++....|..... ..     +|+++|+||+|+....  ......++.+.+++   +++++||++
T Consensus        96 ~aD~aILVVDa~~gv~~qt~~~~~~a~~-~~-----ipiIvviNKiDl~~a~--~~~v~~el~~~lg~~~~~vi~vSAkt  167 (600)
T 2ywe_A           96 ACEGALLLIDASQGIEAQTVANFWKAVE-QD-----LVIIPVINKIDLPSAD--VDRVKKQIEEVLGLDPEEAILASAKE  167 (600)
T ss_dssp             TCSEEEEEEETTTBCCHHHHHHHHHHHH-TT-----CEEEEEEECTTSTTCC--HHHHHHHHHHTSCCCGGGCEECBTTT
T ss_pred             hCCEEEEEEECCCCccHHHHHHHHHHHH-CC-----CCEEEEEeccCccccC--HHHHHHHHHHhhCCCcccEEEEEeec
Confidence            4577999999999877877777776553 22     8999999999997533  22334556666675   489999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy2600         105 GDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~~~  122 (158)
                      |.||+++|+.+++.+...
T Consensus       168 g~GI~~Lle~I~~~lp~p  185 (600)
T 2ywe_A          168 GIGIEEILEAIVNRIPPP  185 (600)
T ss_dssp             TBSHHHHHHHHHHHSCCC
T ss_pred             CCCchHHHHHHHHhcccc
Confidence            999999999999887654

>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=98.93  E-value=4e-09  Score=85.09  Aligned_cols=81  Identities=15%  Similarity=0.032  Sum_probs=57.0

Q ss_pred             EEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc--cHHHHHHHHHHh----CCeEEEEeC
Q psy2600          32 VIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV--TLERHAKLAQSL----HLHSFAVSA  102 (158)
Q Consensus        32 ~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~----~~~~~~~Sa  102 (158)
                      +|+|+|+++   +++++.+    ..+....     +|+++|+||+|+......  ..++...+.+..    +.+++++||
T Consensus       100 ~ilVvda~~g~~~qt~e~l----~~~~~~~-----ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~vSA  170 (482)
T 1wb1_A          100 ALIVVDAKEGPKTQTGEHM----LILDHFN-----IPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISA  170 (482)
T ss_dssp             EEEEEETTTCSCHHHHHHH----HHHHHTT-----CCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCT
T ss_pred             EEEEEecCCCccHHHHHHH----HHHHHcC-----CCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceEEEEEC
Confidence            999999987   4454433    3333333     788999999999642211  123344455444    467999999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q psy2600         103 RTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~~~  121 (158)
                      ++|.|+.++++.|.+.+..
T Consensus       171 ~~g~gI~~L~~~L~~~i~~  189 (482)
T 1wb1_A          171 KTGFGVDELKNLIITTLNN  189 (482)
T ss_dssp             TTCTTHHHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHhhcC
Confidence            9999999999999998753

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.93  E-value=2.4e-10  Score=89.08  Aligned_cols=82  Identities=11%  Similarity=0.143  Sum_probs=47.6

Q ss_pred             EEEECCC-hhHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccH--HHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          34 FMYDITS-GQSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTL--ERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        34 ~v~d~~~-~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~--~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      ++|++++ ..++..+. .|+..+.    ..  +|+|+|+||+|+...+.+..  ..+..+++.+++.++++||+++.+ .
T Consensus       149 ~vy~I~~~~~~l~~~d~~~~~~l~----~~--~piIlV~NK~Dl~~~~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~  221 (361)
T 2qag_A          149 CFYFISPFGHGLKPLDVAFMKAIH----NK--VNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLPDAESDE-D  221 (361)
T ss_dssp             EEEEECSSSSSCCHHHHHHHHHTC----S---SCEEEEEECCSSSCHHHHHHHHHHHHHHTTCC-CCSCCCC--------
T ss_pred             EEEEEecCCCCcchhHHHHHHHhc----cC--CCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-c
Confidence            5555554 34455443 3444332    22  89999999999976554433  455666667788999999999999 8


Q ss_pred             HHHHHHHHHHHHh
Q psy2600         110 VNTRTPEINPLKY  122 (158)
Q Consensus       110 ~lf~~l~~~~~~~  122 (158)
                      +.|..+.+.+...
T Consensus       222 e~~~~l~~~i~~~  234 (361)
T 2qag_A          222 EDFKEQTRLLKAS  234 (361)
T ss_dssp             --CHHHHHHHHHT
T ss_pred             hhHHHHHHHHHhc
Confidence            8888888887654

>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=98.90  E-value=8.9e-09  Score=75.34  Aligned_cols=88  Identities=6%  Similarity=-0.070  Sum_probs=52.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc------HHHHHHHHHHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT------LERHAKLAQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~------~~~~~~~~~~~~~~~~~~Sa~~~  105 (158)
                      +|+|+|+++...  ....|+..+..........|+++|+||+|+.....+.      .+....+.+..+..|+.+++..+
T Consensus       116 ~l~v~d~~~~~~--~~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~~~~~~~~~~~~~~~  193 (239)
T 3lxx_A          116 LLLVVPLGRYTE--EEHKATEKILKMFGERARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMDIFGDRYCALNNKAT  193 (239)
T ss_dssp             EEEEEETTCCSS--HHHHHHHHHHHHHHHHHGGGEEEEEECGGGC------------CHHHHHHHHHHSSSEEECCTTCC
T ss_pred             EEEEeeCCCCCH--HHHHHHHHHHHHhhhhccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHHHcCCEEEEEECCCC
Confidence            889999875332  1123333333110000006899999999986543332      23567777888877877777654


Q ss_pred             -----CCHHHHHHHHHHHHHH
Q psy2600         106 -----DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 -----~~i~~lf~~l~~~~~~  121 (158)
                           .++.++|..+.+.+.+
T Consensus       194 ~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          194 GAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHHHHH
Confidence                 5888999888877754

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=98.89  E-value=3e-09  Score=83.16  Aligned_cols=83  Identities=4%  Similarity=-0.100  Sum_probs=58.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEE-EEEEe-CCCCCCCccccH--HHHHHHHHHhC---CeEEE--EeC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYV-ALVAN-KGDMEHQRVVTL--ERHAKLAQSLH---LHSFA--VSA  102 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~pi-ilv~n-K~Dl~~~~~~~~--~~~~~~~~~~~---~~~~~--~Sa  102 (158)
                      +|+|+| + ...+.+...|+..+....     +|. ++++| |+|+ ....+..  ++...+.+..+   +++++  +||
T Consensus        87 ailVvd-~-~g~~~qt~e~~~~~~~~~-----i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA  158 (370)
T 2elf_A           87 AVLCIP-P-QGLDAHTGECIIALDLLG-----FKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNK  158 (370)
T ss_dssp             EEEEEC-T-TCCCHHHHHHHHHHHHTT-----CCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCT
T ss_pred             EEEEEc-C-CCCcHHHHHHHHHHHHcC-----CCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEeccccc
Confidence            899999 4 445666667777666554     665 88898 9998 4322211  23444444333   68999  999


Q ss_pred             CC---CCCHHHHHHHHHHHHHHh
Q psy2600         103 RT---GDNCWVNTRTPEINPLKY  122 (158)
Q Consensus       103 ~~---~~~i~~lf~~l~~~~~~~  122 (158)
                      ++   +.|++++++.|.+.+...
T Consensus       159 ~~~~~g~gi~~L~~~l~~~~~~~  181 (370)
T 2elf_A          159 SAKNPFEGVDELKARINEVAEKI  181 (370)
T ss_dssp             TSSSTTTTHHHHHHHHHHHHHHH
T ss_pred             ccCcCCCCHHHHHHHHHhhcccc
Confidence            99   999999999999887653

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=98.89  E-value=9.5e-09  Score=83.74  Aligned_cols=40  Identities=20%  Similarity=0.235  Sum_probs=30.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      +|+|+|+++..+......|. .+...+     +|+++|+||+|+..
T Consensus       109 allVvDa~~g~~~~t~~~~~-~~~~~~-----iPiivviNK~Dl~~  148 (528)
T 3tr5_A          109 ALMVIDAAKGVEPRTIKLME-VCRLRH-----TPIMTFINKMDRDT  148 (528)
T ss_dssp             EEEEEETTTCSCHHHHHHHH-HHHTTT-----CCEEEEEECTTSCC
T ss_pred             EEEEEeCCCCCCHHHHHHHH-HHHHcC-----CCEEEEEeCCCCcc
Confidence            99999999876666655553 344333     89999999999864

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=98.89  E-value=2.7e-09  Score=84.53  Aligned_cols=90  Identities=13%  Similarity=0.077  Sum_probs=66.1

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +.+++++|++ ..++.++..|..++..+.......|.++|+||+|+...  ..........+..+..++.+||+++.|++
T Consensus       237 ~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi~  313 (416)
T 1udx_A          237 RVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAGLP  313 (416)
T ss_dssp             SEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTTHH
T ss_pred             HhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccCHH
Confidence            3489999998 66787887787777654311001788999999998653  12233444455567889999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2600         110 VNTRTPEINPLKY  122 (158)
Q Consensus       110 ~lf~~l~~~~~~~  122 (158)
                      ++++.+.+.+.+.
T Consensus       314 eL~~~i~~~l~~~  326 (416)
T 1udx_A          314 ALKEALHALVRST  326 (416)
T ss_dssp             HHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999998764

>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=98.88  E-value=1.9e-09  Score=79.86  Aligned_cols=87  Identities=11%  Similarity=0.007  Sum_probs=51.6

Q ss_pred             EEEEEECCChhHH-hhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccH-------HHHHHHHHHhCCe---E--E
Q psy2600          32 VIFMYDITSGQSF-HSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTL-------ERHAKLAQSLHLH---S--F   98 (158)
Q Consensus        32 ~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~-------~~~~~~~~~~~~~---~--~   98 (158)
                      +|+|+|+++.... ..+..|+.++.......  .+++++.||+|+... .+..       .....+++..+..   +  +
T Consensus       109 il~V~d~~~~~~~~~~~~~~l~~~~~~~~~~--~~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~  185 (260)
T 2xtp_A          109 LLLVTQLGRYTSQDQQAAQRVKEIFGEDAMG--HTIVLFTHKEDLNGG-SLMDYMHDSDNKALSKLVAACGGRICAFNNR  185 (260)
T ss_dssp             EEEEEETTCCCHHHHHHHHHHHHHHCGGGGG--GEEEEEECGGGGTTC-CHHHHHHHCCCHHHHHHHHHTTTCEEECCTT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhCchhhc--cEEEEEEcccccCCc-cHHHHHHhcchHHHHHHHHHhCCeEEEecCc
Confidence            8899998862221 12223444332111010  444455559999743 2222       2244466665532   2  7


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          99 AVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      ++||+++.|++++|..+.+.+..
T Consensus       186 ~~SA~~~~gv~~l~~~i~~~~~~  208 (260)
T 2xtp_A          186 AEGSNQDDQVKELMDCIEDLLME  208 (260)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccHHHHHHHHHHHHHHHHh
Confidence            89999999999999999998865

>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=98.85  E-value=1.4e-08  Score=81.90  Aligned_cols=76  Identities=12%  Similarity=0.054  Sum_probs=43.4

Q ss_pred             EEEEEECCChhHHhh------HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHH----HHHHHHh-----CCe
Q psy2600          32 VIFMYDITSGQSFHS------IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERH----AKLAQSL-----HLH   96 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~------~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~----~~~~~~~-----~~~   96 (158)
                      +|+|+|+++..++..      ....+..+.... .   .|+++|+||+|+........++.    ..+.+..     +++
T Consensus       138 ~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~-~---~~iIvviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~  213 (483)
T 3p26_A          138 AILCVDCSTNAFESGFDLDGQTKEHMLLASSLG-I---HNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNIN  213 (483)
T ss_dssp             EEEEEECCC------CCCCHHHHHHHHHHHHTT-C---CCEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGEE
T ss_pred             EEEEEECCCCccccccchhhhHHHHHHHHHHcC-C---CcEEEEEECcCcccchHHHHHHHHHHHHHHHHHcCCCcccce
Confidence            999999998654322      122222222222 1   56999999999875322222222    2233333     357


Q ss_pred             EEEEeCCCCCCHHHH
Q psy2600          97 SFAVSARTGDNCWVN  111 (158)
Q Consensus        97 ~~~~Sa~~~~~i~~l  111 (158)
                      ++++||++|.||.++
T Consensus       214 ~i~iSA~~g~gi~el  228 (483)
T 3p26_A          214 WVPISGFSGEGVYKI  228 (483)
T ss_dssp             EEECCSSSCTTSSSS
T ss_pred             EEEEeeecCCCcccc
Confidence            899999999998753

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=98.85  E-value=1.3e-08  Score=71.52  Aligned_cols=47  Identities=17%  Similarity=0.236  Sum_probs=37.9

Q ss_pred             EEEEEECC-ChhHHhhHHHHHHHHhhhc----CCCCCcEEEEEEeCCCCCCCcc
Q psy2600          32 VIFMYDIT-SGQSFHSIPTWVDLFHLNR----KSSTPTYVALVANKGDMEHQRV   80 (158)
Q Consensus        32 ~i~v~d~~-~~~s~~~~~~~~~~~~~~~----~~~~~~piilv~nK~Dl~~~~~   80 (158)
                      +|+|||++ +..+|.....|+..+....    ...  +|+++|+||+|+.....
T Consensus       122 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~p~ilv~nK~Dl~~~~~  173 (193)
T 2ged_A          122 LIFMVDSTVDPKKLTTTAEFLVDILSITESSCENG--IDILIACNKSELFTARP  173 (193)
T ss_dssp             EEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTC--CCEEEEEECTTSTTCCC
T ss_pred             EEEEEECCCCchhHHHHHHHHHHHHhhhhhccccC--CCEEEEEEchHhcCCCC
Confidence            99999999 8999999988888876432    122  99999999999975443

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=98.84  E-value=1.5e-09  Score=81.36  Aligned_cols=57  Identities=7%  Similarity=-0.033  Sum_probs=31.7

Q ss_pred             cEEEEEEeCCCCCCCcccc--HHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVT--LERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      +|+++|+||+|+.......  ...........++.++.+||.++.|+.+++..|.+.++
T Consensus       145 ~pvi~V~nK~D~~~~~e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~p  203 (274)
T 3t5d_A          145 VNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRLP  203 (274)
T ss_dssp             SCEEEEESSGGGSCHHHHHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHTCS
T ss_pred             CCEEEEEeccCCCCHHHHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcCCC
Confidence            8999999999986432221  12233444566888999999999999999999887653

>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=98.83  E-value=3.4e-09  Score=84.80  Aligned_cols=79  Identities=19%  Similarity=0.125  Sum_probs=48.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCC-eEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHL-HSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~  110 (158)
                      +|+|+|..+.  +.....|+.++...  .+  +|+++|+||+|+....    .....+. ..+. .++++||++|.|+.+
T Consensus       106 il~VvD~~~~--~~~~d~~l~~~l~~--~~--~pvilV~NK~D~~~~~----~~~~e~~-~lg~~~~~~iSA~~g~gv~~  174 (456)
T 4dcu_A          106 IIFMVNGREG--VTAADEEVAKILYR--TK--KPVVLAVNKLDNTEMR----ANIYDFY-SLGFGEPYPISGTHGLGLGD  174 (456)
T ss_dssp             EEEEEESSSC--SCHHHHHHHHHHTT--CC--SCEEEEEECC-------------CCSG-GGSSSSEEECCTTTCTTHHH
T ss_pred             EEEEEeCCCC--CChHHHHHHHHHHH--cC--CCEEEEEECccchhhh----hhHHHHH-HcCCCceEEeecccccchHH
Confidence            8899997653  33334444444322  12  8999999999985321    1111111 2333 468999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +++.+.+.+..
T Consensus       175 L~~~i~~~l~~  185 (456)
T 4dcu_A          175 LLDAVAEHFKN  185 (456)
T ss_dssp             HHHHHHTTGGG
T ss_pred             HHHHHHhhccc
Confidence            99999987754

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=98.80  E-value=9.1e-10  Score=89.77  Aligned_cols=82  Identities=17%  Similarity=0.153  Sum_probs=53.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc--cccHHHHHHH---HHHh--CCeEEEEeCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQR--VVTLERHAKL---AQSL--HLHSFAVSART  104 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~---~~~~--~~~~~~~Sa~~  104 (158)
                      +|+|+|+++....+.... +..+....     +|+++|+||+|+....  .+.. +...+   ++.+  ..+++++||++
T Consensus        79 vILVVDa~dg~~~qt~e~-l~~~~~~~-----vPiIVViNKiDl~~~~~~~v~~-~l~~~~~~~e~~~~~~~iv~vSAkt  151 (537)
T 3izy_P           79 VILVVAADDGVMKQTVES-IQHAKDAH-----VPIVLAINKCDKAEADPEKVKK-ELLAYDVVCEDYGGDVQAVHVSALT  151 (537)
T ss_dssp             CEEECBSSSCCCHHHHHH-HHHHHTTT-----CCEEECCBSGGGTTTSCCSSSS-HHHHTTSCCCCSSSSEEECCCCSSS
T ss_pred             EEEEEECCCCccHHHHHH-HHHHHHcC-----CcEEEEEecccccccchHHHHH-HHHhhhhhHHhcCCCceEEEEECCC
Confidence            999999988544433332 33333332     8999999999986321  1111 11111   1122  24789999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q psy2600         105 GDNCWVNTRTPEINPL  120 (158)
Q Consensus       105 ~~~i~~lf~~l~~~~~  120 (158)
                      |.|+.++|+.+...+.
T Consensus       152 G~GI~eLle~I~~l~~  167 (537)
T 3izy_P          152 GENMMALAEATIALAE  167 (537)
T ss_dssp             SCSSHHHHHHHHHHHT
T ss_pred             CCCchhHHHHHHHhhh
Confidence            9999999999998764

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.78  E-value=1.7e-08  Score=78.83  Aligned_cols=81  Identities=25%  Similarity=0.270  Sum_probs=59.0

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH----HHHHhCC---eEEEEeC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK----LAQSLHL---HSFAVSA  102 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~----~~~~~~~---~~~~~Sa  102 (158)
                      +.+++|+|++++.     ..|...+.+....   .|+++|+||+|+.... ...+....    +++..|.   .++.+||
T Consensus        71 ~~il~VvD~~d~~-----~~~~~~l~~~~~~---~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~~~~~g~~~~~v~~iSA  141 (368)
T 3h2y_A           71 ALVVKIVDIFDFN-----GSWLPGLHRFVGN---NKVLLVGNKADLIPKS-VKHDKVKHWMRYSAKQLGLKPEDVFLISA  141 (368)
T ss_dssp             CEEEEEEETTSHH-----HHCCTTHHHHSSS---SCEEEEEECGGGSCTT-SCHHHHHHHHHHHHHHTTCCCSEEEECCT
T ss_pred             cEEEEEEECCCCc-----ccHHHHHHHHhCC---CcEEEEEEChhcCCcc-cCHHHHHHHHHHHHHHcCCCcccEEEEeC
Confidence            4599999998853     3566666654332   8999999999996432 22233333    3566676   7999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy2600         103 RTGDNCWVNTRTPEINP  119 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~  119 (158)
                      ++|.|++++++.+.+..
T Consensus       142 ~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          142 AKGQGIAELADAIEYYR  158 (368)
T ss_dssp             TTCTTHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHhhhhhhc
Confidence            99999999999987643

>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=98.77  E-value=1.4e-08  Score=79.98  Aligned_cols=88  Identities=11%  Similarity=-0.086  Sum_probs=59.0

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCccc---cHHHHHHHHHHhC-----CeEE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVV---TLERHAKLAQSLH-----LHSF   98 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~---~~~~~~~~~~~~~-----~~~~   98 (158)
                      ..|.+|+|+|+++....+.. .++..+....     +| +++|+||+|+......   ...+...+.+.++     .+++
T Consensus        89 ~aD~~ilVvda~~g~~~qt~-e~l~~~~~~~-----vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i  162 (397)
T 1d2e_A           89 PLDGCILVVAANDGPMPQTR-EHLLLARQIG-----VEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPII  162 (397)
T ss_dssp             CCSEEEEEEETTTCSCHHHH-HHHHHHHHTT-----CCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEE
T ss_pred             hCCEEEEEEECCCCCCHHHH-HHHHHHHHcC-----CCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcccCcEE
Confidence            35779999999885433323 3334444433     77 7899999998642211   1234556666665     5799


Q ss_pred             EEeCCCCCC----------HHHHHHHHHHHHHH
Q psy2600          99 AVSARTGDN----------CWVNTRTPEINPLK  121 (158)
Q Consensus        99 ~~Sa~~~~~----------i~~lf~~l~~~~~~  121 (158)
                      ++||++|.|          +.++++.+.+.+..
T Consensus       163 ~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p~  195 (397)
T 1d2e_A          163 VGSALCALEQRDPELGLKSVQKLLDAVDTYIPV  195 (397)
T ss_dssp             ECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSCC
T ss_pred             EeehhhcccccCCCccCCcHHHHHHHHHHhCCC
Confidence            999999765          88899888876653

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=98.75  E-value=4.9e-08  Score=77.86  Aligned_cols=77  Identities=16%  Similarity=0.165  Sum_probs=47.4

Q ss_pred             EEEEEECCChh---HHh---hHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCc---c---ccHHHHHHHHHHhC----
Q psy2600          32 VIFMYDITSGQ---SFH---SIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQR---V---VTLERHAKLAQSLH----   94 (158)
Q Consensus        32 ~i~v~d~~~~~---s~~---~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~---~---~~~~~~~~~~~~~~----   94 (158)
                      +|+|+|+++..   +|+   +....+..+....     +| +++|+||+|+....   .   ....+...+.+.++    
T Consensus       122 ~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~-----v~~iIvviNK~Dl~~~~~~~~~~~~i~~~~~~~l~~~g~~~~  196 (439)
T 3j2k_7          122 AVLVISARKGEFETGFEKGGQTREHAMLAKTAG-----VKHLIVLINKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPK  196 (439)
T ss_pred             EEEEEECCCCccccccCCCchHHHHHHHHHHcC-----CCeEEEEeecCCCcccchHHHHHHHHHHHHHHHHHHhccccc
Confidence            89999998742   222   2222233333322     55 99999999985311   0   11223344444444    


Q ss_pred             --CeEEEEeCCCCCCHHHHHH
Q psy2600          95 --LHSFAVSARTGDNCWVNTR  113 (158)
Q Consensus        95 --~~~~~~Sa~~~~~i~~lf~  113 (158)
                        ++++++||++|.|+.++++
T Consensus       197 ~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          197 KDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             CCeeEEEeeccCCcccccccc
Confidence              4699999999999999765

>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=98.75  E-value=4.2e-08  Score=77.46  Aligned_cols=86  Identities=13%  Similarity=0.045  Sum_probs=54.2

Q ss_pred             CCeEEEEEEECCC----hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc--ccHHHHHHHHHH---hCCeEE
Q psy2600          28 CGKIVIFMYDITS----GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV--VTLERHAKLAQS---LHLHSF   98 (158)
Q Consensus        28 vgk~~i~v~d~~~----~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~---~~~~~~   98 (158)
                      ..|.+|+|+|+++    +++++.+..    +.....    .|+++|+||+|+.....  ...++...+.+.   .+.+++
T Consensus       104 ~~D~~ilVvda~~g~~~~qt~e~l~~----~~~l~~----~~iivv~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~i  175 (408)
T 1s0u_A          104 LMDGAILVIAANEPCPQPQTKEHLMA----LEILGI----DKIIIVQNKIDLVDEKQAEENYEQIKEFVKGTIAENAPII  175 (408)
T ss_dssp             CCSEEEEEEETTSCSSCHHHHHHHHH----HHHTTC----CCEEEEEECTTSSCTTTTTTHHHHHHHHHTTSTTTTCCEE
T ss_pred             hCCEEEEEEECCCCCCCchhHHHHHH----HHHcCC----CeEEEEEEccCCCCHHHHHHHHHHHHHHHhhcCCCCCeEE
Confidence            4588999999985    345544432    222221    57999999999975332  223445555554   257899


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          99 AVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      ++||++|.||+++++.|.+.+..
T Consensus       176 ~vSA~~g~gi~~L~~~l~~~i~~  198 (408)
T 1s0u_A          176 PISAHHEANIDVLLKAIQDFIPT  198 (408)
T ss_dssp             EC------CHHHHHHHHHHHSCC
T ss_pred             EeeCCCCCCHHHHHHHHHHhCCC
Confidence            99999999999999999987654

>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=98.73  E-value=1.7e-08  Score=79.59  Aligned_cols=85  Identities=13%  Similarity=0.035  Sum_probs=58.0

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCccc---cHHHHHHHHHHhC-----CeEEEE
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVV---TLERHAKLAQSLH-----LHSFAV  100 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~---~~~~~~~~~~~~~-----~~~~~~  100 (158)
                      |.+|+|+|+++.. +.+...|+..+....     +| +++|+||+|+......   ...+...+.+.++     .+++++
T Consensus       100 D~~ilVvda~~g~-~~qt~~~l~~~~~~~-----ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~  173 (405)
T 2c78_A          100 DGAILVVSAADGP-MPQTREHILLARQVG-----VPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRG  173 (405)
T ss_dssp             SSEEEEEETTTCC-CHHHHHHHHHHHHTT-----CCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEEC
T ss_pred             CEEEEEEECCCCC-cHHHHHHHHHHHHcC-----CCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhcccccCCCEEEc
Confidence            4499999998754 334456666665543     77 8999999998742211   1224555666655     579999


Q ss_pred             eCCCCCC------------------HHHHHHHHHHHHH
Q psy2600         101 SARTGDN------------------CWVNTRTPEINPL  120 (158)
Q Consensus       101 Sa~~~~~------------------i~~lf~~l~~~~~  120 (158)
                      ||++|.|                  +.++++.+.+.+.
T Consensus       174 SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~lp  211 (405)
T 2c78_A          174 SALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIP  211 (405)
T ss_dssp             CHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHSC
T ss_pred             cHHHhhhhhccccccccCCCcccccHHHHHHHHHhhcC
Confidence            9999987                  6677777766554

>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=98.71  E-value=8.4e-09  Score=81.78  Aligned_cols=81  Identities=9%  Similarity=0.087  Sum_probs=42.8

Q ss_pred             EEEECCCh-hHHhhHH-HHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccH--HHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          34 FMYDITSG-QSFHSIP-TWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTL--ERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        34 ~v~d~~~~-~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~--~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      ++|+.+.. .+++... .|+..+..    .  +++|+|+||+|+...+.+..  ..+...+..+++.+|++|++++.++.
T Consensus       142 lL~ldePt~~~L~~~d~~~lk~L~~----~--v~iIlVinK~Dll~~~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~  215 (418)
T 2qag_C          142 CLYFIAPSGHGLKPLDIEFMKRLHE----K--VNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEEN  215 (418)
T ss_dssp             EEEECCC-CCSCCHHHHHHHHHHTT----T--SEEEEEEESTTSSCHHHHHHHHHHHHHHHHHHTCCCCCCC--------
T ss_pred             EEEEecCcccCCCHHHHHHHHHHhc----c--CcEEEEEEcccCccHHHHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHH
Confidence            34443332 3555554 57766642    2  89999999999876544443  56677778889999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         110 VNTRTPEINPL  120 (158)
Q Consensus       110 ~lf~~l~~~~~  120 (158)
                      ++|..+...++
T Consensus       216 ~~~~~l~~~iP  226 (418)
T 2qag_C          216 KLVKKIKDRLP  226 (418)
T ss_dssp             ---------CC
T ss_pred             HHHHHHHhhCC
Confidence            98888876554

>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=98.71  E-value=2.8e-08  Score=79.04  Aligned_cols=79  Identities=18%  Similarity=0.154  Sum_probs=51.9

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc-c-c--cHHHHHHHHHHhC-----CeEEEE
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQR-V-V--TLERHAKLAQSLH-----LHSFAV  100 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~-~--~~~~~~~~~~~~~-----~~~~~~  100 (158)
                      +.+|+|+|+++.. +.+...|+..+.....    .|+++|+||+|+.... . +  ...+...+++.++     .+++++
T Consensus       129 D~~ilVvDa~~g~-~~qt~~~l~~~~~~~~----~~iIvviNK~Dl~~~~~~~~~~i~~~~~~~~~~~g~~~~~~~~i~v  203 (434)
T 1zun_B          129 DLAIILVDARYGV-QTQTRRHSYIASLLGI----KHIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPM  203 (434)
T ss_dssp             SEEEEEEETTTCS-CHHHHHHHHHHHHTTC----CEEEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEEC
T ss_pred             CEEEEEEECCCCC-cHHHHHHHHHHHHcCC----CeEEEEEEcCcCCcccHHHHHHHHHHHHHHHHHhCCCccCceEEEE
Confidence            3489999988743 2333445554444331    4699999999996421 1 1  1234555666676     679999


Q ss_pred             eCCCCCCHHHHHH
Q psy2600         101 SARTGDNCWVNTR  113 (158)
Q Consensus       101 Sa~~~~~i~~lf~  113 (158)
                      ||++|.|+.++|.
T Consensus       204 SA~~g~gi~~~~~  216 (434)
T 1zun_B          204 SALKGDNVVNKSE  216 (434)
T ss_dssp             CTTTCTTTSSCCT
T ss_pred             eccCCCCcccccc
Confidence            9999999988544

>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=98.69  E-value=2.4e-08  Score=79.52  Aligned_cols=81  Identities=15%  Similarity=0.117  Sum_probs=53.6

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHH-------HHHhhhcCCCCCcEEEEEEeCCCCCCCc------cccHHHHHHHHHHhC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWV-------DLFHLNRKSSTPTYVALVANKGDMEHQR------VVTLERHAKLAQSLH   94 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~-------~~~~~~~~~~~~~piilv~nK~Dl~~~~------~~~~~~~~~~~~~~~   94 (158)
                      ..|++|+|+|+++ .+|+....|.       ..+.....    .++++|+||+|+....      ....++...+++.++
T Consensus       107 ~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~----~~iivviNK~Dl~~~~~~~~~~~~~~~~i~~~~~~~~  181 (435)
T 1jny_A          107 QADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGL----DQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYG  181 (435)
T ss_dssp             CCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTC----TTCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             hcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCC----CeEEEEEEcccCCCccccHHHHHHHHHHHHHHHHHcC
Confidence            3467999999998 7777543332       22222221    4689999999986521      111344556666665


Q ss_pred             -----CeEEEEeCCCCCCHHHHHH
Q psy2600          95 -----LHSFAVSARTGDNCWVNTR  113 (158)
Q Consensus        95 -----~~~~~~Sa~~~~~i~~lf~  113 (158)
                           +.++++||++|.|+.+++.
T Consensus       182 ~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          182 FNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             CCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             CCcCCceEEEeecccCcccccccc
Confidence                 5799999999999986554

>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=98.68  E-value=5.8e-08  Score=69.10  Aligned_cols=58  Identities=9%  Similarity=-0.055  Sum_probs=41.6

Q ss_pred             cEEEEEEeCCCCCCCc--cccHHHHHHHHHHhC--CeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQR--VVTLERHAKLAQSLH--LHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +|+++|+||+|+.+..  ......+..++...+  +.++++||+++.|++++++.+.+.+.+
T Consensus       138 ~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~Sal~~~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          138 IAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             CCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHHC-
T ss_pred             CCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCCceEEEeecCCCCHHHHHHHHHHHHhh
Confidence            8899999999986421  111234445555544  467899999999999999999887543

>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=98.66  E-value=8.9e-08  Score=83.83  Aligned_cols=86  Identities=13%  Similarity=-0.021  Sum_probs=59.8

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCccc---cHHHHHHHHHHhC-----CeEEEE
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVV---TLERHAKLAQSLH-----LHSFAV  100 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~---~~~~~~~~~~~~~-----~~~~~~  100 (158)
                      |.+|+|+|+++.. +.+...|+..+....     +| +|+|+||+|+......   ...+...+.+.++     ++++++
T Consensus       384 D~aILVVDAtdGv-~~QTrEhL~ll~~lg-----IP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~~~~vp~Ipv  457 (1289)
T 3avx_A          384 DGAILVVAATDGP-MPQTREHILLGRQVG-----VPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRG  457 (1289)
T ss_dssp             SEEEEEEETTTCS-CTTHHHHHHHHHHHT-----CSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSCTTTCCEEEC
T ss_pred             CEEEEEEcCCccC-cHHHHHHHHHHHHcC-----CCeEEEEEeecccccchhhHHHHHHHHHHHHHhccccccceeEEEE
Confidence            3399999998753 334455666665544     77 8999999999753221   1234556666665     579999


Q ss_pred             eCCCC--------CCHHHHHHHHHHHHHH
Q psy2600         101 SARTG--------DNCWVNTRTPEINPLK  121 (158)
Q Consensus       101 Sa~~~--------~~i~~lf~~l~~~~~~  121 (158)
                      ||++|        .||.++++.+.+.+..
T Consensus       458 SAktG~ng~~~w~eGI~eLleaL~~~Ip~  486 (1289)
T 3avx_A          458 SALKALEGDAEWEAKILELAGFLDSYIPE  486 (1289)
T ss_dssp             CSTTTTTCCHHHHHHHHHHHHHHHHTSCC
T ss_pred             EeccCCCCCccccccchhhHhHHhhhcCC
Confidence            99999        4688899888876643

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=98.64  E-value=2e-08  Score=83.14  Aligned_cols=76  Identities=12%  Similarity=0.030  Sum_probs=45.3

Q ss_pred             EEEEEECCChh---HHhhHHHHH---HHHhhhcCCCCCcEEEEEEeCCCCCCCcccc----HHHHHHHHHHhC-----Ce
Q psy2600          32 VIFMYDITSGQ---SFHSIPTWV---DLFHLNRKSSTPTYVALVANKGDMEHQRVVT----LERHAKLAQSLH-----LH   96 (158)
Q Consensus        32 ~i~v~d~~~~~---s~~~~~~~~---~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~----~~~~~~~~~~~~-----~~   96 (158)
                      +|+|+|+++..   +|.....+.   ..+....  .  .++++|+||+|+.......    ..+...+....+     ++
T Consensus       272 ~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lg--i--~~iIVVvNKiDl~~~~~~~~~ei~~~l~~~l~~~g~~~~~~~  347 (611)
T 3izq_1          272 AILCVDCSTNAFESGFDLDGQTKEHMLLASSLG--I--HNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNIN  347 (611)
T ss_dssp             EEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTT--C--CEEEEEEECTTTTTTCHHHHHHHHHHHHHHHHHHTCCGGGCE
T ss_pred             eEEEEECCCCcccccchhhhHHHHHHHHHHHcC--C--CeEEEEEecccccchhHHHHHHHHHHHHHHHHhhcccccCcc
Confidence            99999998632   221111222   2222222  1  5699999999987522211    122333444444     57


Q ss_pred             EEEEeCCCCCCHHHH
Q psy2600          97 SFAVSARTGDNCWVN  111 (158)
Q Consensus        97 ~~~~Sa~~~~~i~~l  111 (158)
                      ++++||++|.||.++
T Consensus       348 ~i~vSA~tG~gI~el  362 (611)
T 3izq_1          348 WVPISGFSGEGVYKI  362 (611)
T ss_dssp             EEECCTTTCTTTSSC
T ss_pred             EEeeecccCCCcccc
Confidence            999999999999876

>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=98.64  E-value=7.1e-08  Score=76.16  Aligned_cols=86  Identities=12%  Similarity=0.050  Sum_probs=58.2

Q ss_pred             CCeEEEEEEECCC----hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc--ccHHHHHHHHHH---hCCeEE
Q psy2600          28 CGKIVIFMYDITS----GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV--VTLERHAKLAQS---LHLHSF   98 (158)
Q Consensus        28 vgk~~i~v~d~~~----~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~---~~~~~~   98 (158)
                      ..|.+|+|+|+++    +++++.+..    +.....    .|+++|+||+|+.....  ...++...+.+.   .+.+++
T Consensus       106 ~~D~~ilVvda~~g~~~~qt~e~l~~----~~~~~~----~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~i  177 (410)
T 1kk1_A          106 LMDGAILVIAANEPCPRPQTREHLMA----LQIIGQ----KNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPII  177 (410)
T ss_dssp             GCSEEEEEEETTSCSSCHHHHHHHHH----HHHHTC----CCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEE
T ss_pred             hCCEEEEEEECCCCCCChhHHHHHHH----HHHcCC----CcEEEEEECccCCCHHHHHHHHHHHHHHHHhcCcCCCeEE
Confidence            3478999999985    344444432    232221    57999999999865321  112233344443   357899


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          99 AVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      ++||++|.|+.++++.|.+.+..
T Consensus       178 ~vSA~~g~gi~~L~~~l~~~~~~  200 (410)
T 1kk1_A          178 PISALHGANIDVLVKAIEDFIPT  200 (410)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             EeeCCCCCCHHHHHHHHHHhCCC
Confidence            99999999999999999987654

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.63  E-value=3.5e-08  Score=77.01  Aligned_cols=81  Identities=20%  Similarity=0.169  Sum_probs=57.0

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH----HHHHhCC---eEEEEeC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK----LAQSLHL---HSFAVSA  102 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~----~~~~~~~---~~~~~Sa  102 (158)
                      +.+++|+|++++.+     .|..++.+....   .|+++|+||+|+.... ...+....    +++..|.   .++.+||
T Consensus        73 ~lil~VvD~~d~~~-----s~~~~l~~~l~~---~piilV~NK~DLl~~~-~~~~~~~~~l~~~~~~~g~~~~~v~~iSA  143 (369)
T 3ec1_A           73 ALVVNIVDIFDFNG-----SFIPGLPRFAAD---NPILLVGNKADLLPRS-VKYPKLLRWMRRMAEELGLCPVDVCLVSA  143 (369)
T ss_dssp             CEEEEEEETTCSGG-----GCCSSHHHHCTT---SCEEEEEECGGGSCTT-CCHHHHHHHHHHHHHTTTCCCSEEEECBT
T ss_pred             cEEEEEEECCCCCC-----chhhHHHHHhCC---CCEEEEEEChhcCCCc-cCHHHHHHHHHHHHHHcCCCcccEEEEEC
Confidence            34899999998763     344444443322   8999999999986432 22233333    3555676   6899999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy2600         103 RTGDNCWVNTRTPEINP  119 (158)
Q Consensus       103 ~~~~~i~~lf~~l~~~~  119 (158)
                      ++|.|++++++.+.+..
T Consensus       144 ~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          144 AKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             TTTBTHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHhhc
Confidence            99999999999987654

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=98.61  E-value=3.2e-08  Score=76.79  Aligned_cols=57  Identities=21%  Similarity=0.077  Sum_probs=40.6

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHH----------hCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQS----------LHLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~----------~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      .|.++|+||+|+...... ......+.+.          ++.+++.+||++|.||+++++.+.+.+..
T Consensus       218 ~p~ivVlNK~Dl~~~~~~-~~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          218 LADIVVVNKADGEHHKEA-RLAARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             GCSEEEEECCCGGGHHHH-HHHHHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCcChhHH-HHHHHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            688999999998542221 1112222222          14679999999999999999999988765

>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=98.59  E-value=1.9e-07  Score=78.01  Aligned_cols=29  Identities=3%  Similarity=-0.362  Sum_probs=25.7

Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      ++++++||++|.||.++|+.+++.++...
T Consensus       248 ~pv~~~SA~~~~Gv~~Ll~~i~~~lp~p~  276 (665)
T 2dy1_A          248 YPVALASGEREIGVLPLLELILEALPSPT  276 (665)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHSCCHH
T ss_pred             eEEEEeecccCcCHHHHHHHHHHhCCCcc
Confidence            46899999999999999999999887654

>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=98.58  E-value=8.8e-09  Score=83.35  Aligned_cols=83  Identities=18%  Similarity=0.113  Sum_probs=51.6

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC--ccccHH--HHHHHHHHhC--CeEEEEeCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQ--RVVTLE--RHAKLAQSLH--LHSFAVSAR  103 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~--~~~~~~~~~~--~~~~~~Sa~  103 (158)
                      |.+++|+|+++....+.. .++..+....     +|+++++||+|+...  ..+..+  +...+++.++  .+++++||+
T Consensus        76 D~aILVVda~~g~~~qT~-e~l~~~~~~~-----vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAk  149 (501)
T 1zo1_I           76 DIVVLVVAADDGVMPQTI-EAIQHAKAAQ-----VPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAK  149 (501)
T ss_dssp             SSEEEEEETTTBSCTTTH-HHHHHHHHTT-----CCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTT
T ss_pred             CEEEEEeecccCccHHHH-HHHHHHHhcC-----ceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeee
Confidence            449999999874222222 2233333333     899999999998642  111100  0001122233  689999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy2600         104 TGDNCWVNTRTPEIN  118 (158)
Q Consensus       104 ~~~~i~~lf~~l~~~  118 (158)
                      +|.|+.++|+.+...
T Consensus       150 tG~gI~eLle~I~~~  164 (501)
T 1zo1_I          150 AGTGIDELLDAILLQ  164 (501)
T ss_dssp             TCTTCTTHHHHTTTT
T ss_pred             eccCcchhhhhhhhh
Confidence            999999999998754

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.55  E-value=9.2e-08  Score=68.72  Aligned_cols=84  Identities=13%  Similarity=0.049  Sum_probs=56.3

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh--CCeEEEEeCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL--HLHSFAVSARTGD  106 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~  106 (158)
                      ...+++|+|+++...  ....+..   ...     .|+++|+||+|+........++.....+..  +.+++++||++|.
T Consensus       130 ~~~~i~vvd~~~~~~--~~~~~~~---~~~-----~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~i~~~Sa~~g~  199 (221)
T 2wsm_A          130 ENYRVVMVSVTEGDD--VVEKHPE---IFR-----VADLIVINKVALAEAVGADVEKMKADAKLINPRAKIIEMDLKTGK  199 (221)
T ss_dssp             CSEEEEEEEGGGCTT--HHHHCHH---HHH-----TCSEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECBTTTTB
T ss_pred             cCcEEEEEeCCCcch--hhhhhhh---hhh-----cCCEEEEecccCCcchhhHHHHHHHHHHHhCCCCeEEEeecCCCC
Confidence            456889999876431  1111211   122     788999999998542222345555555554  4689999999999


Q ss_pred             CHHHHHHHHHHHHHHh
Q psy2600         107 NCWVNTRTPEINPLKY  122 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~~  122 (158)
                      |++++|+.+.+.+...
T Consensus       200 gi~~l~~~l~~~~~~~  215 (221)
T 2wsm_A          200 GFEEWIDFLRGILNVH  215 (221)
T ss_dssp             THHHHHHHHHHHHC--
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            9999999999877553

>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=98.48  E-value=1.1e-07  Score=76.12  Aligned_cols=79  Identities=13%  Similarity=0.096  Sum_probs=50.5

Q ss_pred             CCeEEEEEEECCCh---hHHh---hHHHHHHHHhhhcCCCCCc-EEEEEEeCCCCCC-Ccc---ccHHHHHHHHHHhC--
Q psy2600          28 CGKIVIFMYDITSG---QSFH---SIPTWVDLFHLNRKSSTPT-YVALVANKGDMEH-QRV---VTLERHAKLAQSLH--   94 (158)
Q Consensus        28 vgk~~i~v~d~~~~---~s~~---~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl~~-~~~---~~~~~~~~~~~~~~--   94 (158)
                      ..|.+|+|+|+++.   .+|+   +...++..+....     + ++++|+||+|+.. ...   ....+...+++.++  
T Consensus       108 ~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~~-----v~~iivviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~  182 (458)
T 1f60_A          108 QADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLG-----VRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYN  182 (458)
T ss_dssp             CCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTT-----CCEEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCC
T ss_pred             hCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHcC-----CCeEEEEEEccccccCCHHHHHHHHHHHHHHHHHcCCC
Confidence            45679999999875   3443   2333333333332     5 4999999999863 111   11233455556665  


Q ss_pred             ---CeEEEEeCCCCCCHHHH
Q psy2600          95 ---LHSFAVSARTGDNCWVN  111 (158)
Q Consensus        95 ---~~~~~~Sa~~~~~i~~l  111 (158)
                         ++++++||++|.|+.++
T Consensus       183 ~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          183 PKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             GGGCCEEECCTTTCBTTTBC
T ss_pred             ccCceEEEeecccCcCcccc
Confidence               57999999999998754

>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=98.47  E-value=1.4e-06  Score=71.89  Aligned_cols=86  Identities=21%  Similarity=0.188  Sum_probs=57.4

Q ss_pred             CCeEEEEEEECCC---hhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc-------------H---HHH--
Q psy2600          28 CGKIVIFMYDITS---GQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT-------------L---ERH--   86 (158)
Q Consensus        28 vgk~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~-------------~---~~~--   86 (158)
                      ..|.+|+|+|+++   +++++.+..    +....     +|+++++||+|+.......             .   ...  
T Consensus        93 ~aD~aILVvDa~~Gv~~qT~e~l~~----l~~~~-----vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~v~~~~~e  163 (594)
T 1g7s_A           93 LADLAILIVDINEGFKPQTQEALNI----LRMYR-----TPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDT  163 (594)
T ss_dssp             SCSEEEEEEETTTCCCHHHHHHHHH----HHHTT-----CCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHH
T ss_pred             hCCEEEEEEECCCCccHhHHHHHHH----HHHcC-----CeEEEEecccccccccccccCCchHHHHHHhHHHHHHHHHH
Confidence            4688999999998   667665432    33333     8999999999986321100             0   000  


Q ss_pred             --HHH---HHHhC---------------CeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          87 --AKL---AQSLH---------------LHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        87 --~~~---~~~~~---------------~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                        ..+   ....+               .+++.+||++|.||.++++++...+...
T Consensus       164 ~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~~  219 (594)
T 1g7s_A          164 KVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQY  219 (594)
T ss_dssp             HHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcccc
Confidence              011   11112               3689999999999999999999877643

>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=98.47  E-value=2e-07  Score=70.19  Aligned_cols=82  Identities=15%  Similarity=0.079  Sum_probs=59.1

Q ss_pred             CeEEEEEEECCChhHHhh--HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHS--IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  106 (158)
                      .|.+++|+|+.++.++..  +..|+       . +  +|.++|+||+|+.....  .+....+.+..+.+++.+||.++.
T Consensus        24 aDvVl~VvDAr~p~~~~~~~l~~~l-------~-~--kp~ilVlNK~DL~~~~~--~~~~~~~~~~~g~~~i~iSA~~~~   91 (282)
T 1puj_A           24 IDIVYELVDARIPMSSRNPMIEDIL-------K-N--KPRIMLLNKADKADAAV--TQQWKEHFENQGIRSLSINSVNGQ   91 (282)
T ss_dssp             CSEEEEEEETTSTTTTSCHHHHHHC-------S-S--SCEEEEEECGGGSCHHH--HHHHHHHHHTTTCCEEECCTTTCT
T ss_pred             CCEEEEEEeCCCCCccCCHHHHHHH-------C-C--CCEEEEEECcccCCHHH--HHHHHHHHHhcCCcEEEEECCCcc
Confidence            477999999999877653  33333       1 1  89999999999964211  112233334457889999999999


Q ss_pred             CHHHHHHHHHHHHHHh
Q psy2600         107 NCWVNTRTPEINPLKY  122 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~~  122 (158)
                      |+.++++.+.+.+...
T Consensus        92 gi~~L~~~i~~~l~~~  107 (282)
T 1puj_A           92 GLNQIVPASKEILQEK  107 (282)
T ss_dssp             TGGGHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHH
Confidence            9999999888877643

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.41  E-value=1.2e-07  Score=78.21  Aligned_cols=83  Identities=13%  Similarity=0.085  Sum_probs=49.1

Q ss_pred             EEEEEECCChh---HH---hhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCC-cccc---HHHHHHHH-HHhCC----
Q psy2600          32 VIFMYDITSGQ---SF---HSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQ-RVVT---LERHAKLA-QSLHL----   95 (158)
Q Consensus        32 ~i~v~d~~~~~---s~---~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~-~~~~---~~~~~~~~-~~~~~----   95 (158)
                      +|+|+|+++..   ++   ......+..+....     +| +|+|+||+|+... ....   ..+...+. +..++    
T Consensus       282 alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~lg-----ip~iIvviNKiDl~~~~~~~~~~i~~el~~~l~~~~g~~~~~  356 (592)
T 3mca_A          282 AVLVVDSSQNNFERGFLENGQTREHAYLLRALG-----ISEIVVSVNKLDLMSWSEDRFQEIKNIVSDFLIKMVGFKTSN  356 (592)
T ss_dssp             CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHSS-----CCCEEEEEECGGGGTTCHHHHHHHHHHHHHHHTTTSCCCGGG
T ss_pred             EEEEEECCCCccccccccchHHHHHHHHHHHcC-----CCeEEEEEeccccccccHHHHHHHHHHHHHHHHHhhCCCccc
Confidence            78899987532   22   12222333333333     55 9999999998641 1111   11222333 33344    


Q ss_pred             -eEEEEeCCCCCCHH--------------HHHHHHHHHH
Q psy2600          96 -HSFAVSARTGDNCW--------------VNTRTPEINP  119 (158)
Q Consensus        96 -~~~~~Sa~~~~~i~--------------~lf~~l~~~~  119 (158)
                       +++++||++|.||.              .|++.|...+
T Consensus       357 ~~ii~iSA~~G~gI~e~~~~~~~~w~~g~~Lle~l~~~~  395 (592)
T 3mca_A          357 VHFVPISAISGTNLIQKDSSDLYKWYKGPTLLSALDQLV  395 (592)
T ss_dssp             EEEEEECSSSCSSSCSCCCCGGGGTCCSCCHHHHHHTSC
T ss_pred             eEEEEEecccCcccccccccccccccchHHHHHHHHhhc
Confidence             69999999999998              6777776544

>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=98.41  E-value=6.9e-07  Score=64.52  Aligned_cols=89  Identities=6%  Similarity=-0.156  Sum_probs=57.6

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhh-cCC--CCCcEEEEEEeCC-CCCCCccccHHHHHHHHH----HhCCeEEEEe
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLN-RKS--STPTYVALVANKG-DMEHQRVVTLERHAKLAQ----SLHLHSFAVS  101 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~--~~~~piilv~nK~-Dl~~~~~~~~~~~~~~~~----~~~~~~~~~S  101 (158)
                      +++|||.|.+|.+.++ ....+.++... ..+  ....|++|.+||. |++.  ..+..+......    ...+.++.||
T Consensus       127 dglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~--Ams~~EI~e~L~L~~l~R~W~Iq~cs  203 (227)
T 3l82_B          127 DGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLAHELHLNLLNHPWLVQDTE  203 (227)
T ss_dssp             SEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSC--BCCHHHHHHHTTGGGGCSCEEEEEEE
T ss_pred             CEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccC--CCCHHHHHHHcCCcCCCCCEEEEEeE
Confidence            3499999999986654 43333333211 111  1238999999995 7753  333333332211    1345689999


Q ss_pred             CCCCCCHHHHHHHHHHHHHH
Q psy2600         102 ARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus       102 a~~~~~i~~lf~~l~~~~~~  121 (158)
                      |++|+|+.+.++||.+.+..
T Consensus       204 A~TGeGL~EGLdWL~~~l~~  223 (227)
T 3l82_B          204 AETLTGFLNGIEWILEEVES  223 (227)
T ss_dssp             TTTCTTHHHHHHHHTTTTTT
T ss_pred             CCCCcCHHHHHHHHHHHHHh
Confidence            99999999999999988754

>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=98.40  E-value=1.7e-06  Score=72.61  Aligned_cols=40  Identities=23%  Similarity=0.243  Sum_probs=31.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      +|+|+|+++..++.....|.. +...+     +|+++|+||+|+..
T Consensus       104 ~ilVvDa~~g~~~~t~~~~~~-~~~~~-----~p~ivviNKiD~~~  143 (691)
T 1dar_A          104 AIVVFDSSQGVEPQSETVWRQ-AEKYK-----VPRIAFANKMDKTG  143 (691)
T ss_dssp             EEEEEETTTCSCHHHHHHHHH-HHHTT-----CCEEEEEECTTSTT
T ss_pred             EEEEEECCCCcchhhHHHHHH-HHHcC-----CCEEEEEECCCccc
Confidence            999999998777777666654 33333     89999999999864

>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=98.37  E-value=1.6e-07  Score=75.46  Aligned_cols=84  Identities=19%  Similarity=0.177  Sum_probs=53.4

Q ss_pred             CCCeEEEEEEECCCh---hHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCc---c---ccHHHHHHHHHHh-C-
Q psy2600          27 SCGKIVIFMYDITSG---QSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQR---V---VTLERHAKLAQSL-H-   94 (158)
Q Consensus        27 ~vgk~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~---~---~~~~~~~~~~~~~-~-   94 (158)
                      ...|.+|+|+|+++.   .+|+...+|.+.+......+  +| +++|+||+|+....   .   ....+...+.+.. + 
T Consensus       143 ~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~--vp~iivviNK~Dl~~~~~~~~~~~~i~~e~~~~l~~~~g~  220 (467)
T 1r5b_A          143 SQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQG--INHLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGY  220 (467)
T ss_dssp             TSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTT--CSSEEEEEECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCC
T ss_pred             ccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcC--CCEEEEEEECccCCCccccHHHHHHHHHHHHHHHHHhcCC
Confidence            346889999999985   45553333333333111111  76 99999999995311   1   1122455566555 3 


Q ss_pred             -----CeEEEEeCCCCCCHHHHH
Q psy2600          95 -----LHSFAVSARTGDNCWVNT  112 (158)
Q Consensus        95 -----~~~~~~Sa~~~~~i~~lf  112 (158)
                           ++++++||++|.|+.++|
T Consensus       221 ~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          221 NSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             CHHHHEEEEECBTTTTBTTSSCC
T ss_pred             CccCCceEEeccccccccccccc
Confidence                 459999999999998766

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.35  E-value=3.7e-07  Score=65.73  Aligned_cols=55  Identities=15%  Similarity=0.045  Sum_probs=43.4

Q ss_pred             EEEEeCCCCCCCccccHHHHHHHHHHh--CCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          67 ALVANKGDMEHQRVVTLERHAKLAQSL--HLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        67 ilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      ++|+||+|+...+....++...+++.+  +..++++||++|.|++++|+.+.+.+..
T Consensus       168 iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          168 LIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             EEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             EEEEeccccCchhHHHHHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            999999998643323455666666654  5789999999999999999999887653

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=98.32  E-value=1.4e-07  Score=70.89  Aligned_cols=83  Identities=8%  Similarity=-0.111  Sum_probs=53.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH--hC-CeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS--LH-LHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~--~~-~~~~~~Sa~~~~~i  108 (158)
                      +++|+|.++..+..+...|+..+....     .|+++|+||+|+.................  .+ ..++++||++|.|+
T Consensus       166 il~v~d~~~~~~~~~~~~~~~~~~~~~-----~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi  240 (299)
T 2aka_B          166 ILAVSPANSDLANSDALKIAKEVDPQG-----QRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGK  240 (299)
T ss_dssp             EEEEEESSSCGGGCHHHHHHHHHCTTC-----SSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSC
T ss_pred             EEEEecCCcchhhhHHHHHHHHhCCCC-----CeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhcccc
Confidence            447999987555444445665554322     89999999999865433112221110001  12 35789999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         109 WVNTRTPEINP  119 (158)
Q Consensus       109 ~~lf~~l~~~~  119 (158)
                      .++|+.+.+..
T Consensus       241 ~~l~~~l~~~~  251 (299)
T 2aka_B          241 KDITAALAAER  251 (299)
T ss_dssp             BCHHHHHHHHH
T ss_pred             ccHHHHHHHHH
Confidence            99999998744

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=98.28  E-value=5e-07  Score=68.57  Aligned_cols=57  Identities=7%  Similarity=-0.040  Sum_probs=38.9

Q ss_pred             cEEEEEEeCCCCCCCccc--cHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVV--TLERHAKLAQSLHLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +++++|+||+|+...+++  ..+++..+++.+++.+|++||+++ |++++|..+.+.+..
T Consensus       156 ~~iilV~~K~Dl~~~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~  214 (301)
T 2qnr_A          156 VNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKA  214 (301)
T ss_dssp             SCEEEEECCGGGSCHHHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhc
Confidence            799999999998754332  235677788889999999999999 999999999988864

>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=98.20  E-value=1.2e-05  Score=65.57  Aligned_cols=27  Identities=7%  Similarity=-0.390  Sum_probs=23.8

Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      ++|..||.+|.||.+|++.+.+.++..
T Consensus       253 Pv~~gSA~~~~Gv~~LLd~i~~~~P~P  279 (529)
T 2h5e_A          253 PVFFGTALGNFGVDHMLDGLVEWAPAP  279 (529)
T ss_dssp             EEEECBTTTTBSHHHHHHHHHHHSCSS
T ss_pred             EEEeeecccCCCHHHHHHHHHHhCCCC
Confidence            578899999999999999999987654

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=98.18  E-value=2.5e-06  Score=71.65  Aligned_cols=88  Identities=11%  Similarity=0.073  Sum_probs=59.9

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHH----------HHHH-----HHHHh
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLE----------RHAK-----LAQSL   93 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~----------~~~~-----~~~~~   93 (158)
                      .|.+|+|+|+++..++.+...|...+....     .|+++|+||+|+.....++.+          ....     +....
T Consensus       201 aD~vL~Vvda~~~~s~~e~~~l~~~l~~~~-----~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~  275 (695)
T 2j69_A          201 CHAILFVMRASQPCTLGERRYLENYIKGRG-----LTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYC  275 (695)
T ss_dssp             SSEEEEEEETTSTTCHHHHHHHHHHTTTSC-----CCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGG
T ss_pred             CCEEEEEEeCCCccchhHHHHHHHHHHhhC-----CCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhh
Confidence            467999999998877777666665554332     789999999998643211110          1111     11111


Q ss_pred             --------CCeEEEEeCC--------------CCCCHHHHHHHHHHHHHH
Q psy2600          94 --------HLHSFAVSAR--------------TGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        94 --------~~~~~~~Sa~--------------~~~~i~~lf~~l~~~~~~  121 (158)
                              +..++.+||+              ++.|+.+++..+.+.+..
T Consensus       276 ~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~  325 (695)
T 2j69_A          276 TVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTR  325 (695)
T ss_dssp             BSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHH
T ss_pred             cccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHH
Confidence                    1358999999              999999999999887754

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=98.18  E-value=1.2e-05  Score=67.45  Aligned_cols=42  Identities=17%  Similarity=0.096  Sum_probs=31.8

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      |.+|+|+|+++..++.....|.. +....     +|+++|+||+|+..
T Consensus       100 D~~llVvDa~~g~~~~~~~~~~~-~~~~~-----~p~ilviNK~Dl~~  141 (693)
T 2xex_A          100 DGAVTVLDAQSGVEPQTETVWRQ-ATTYG-----VPRIVFVNKMDKLG  141 (693)
T ss_dssp             SEEEEEEETTTBSCHHHHHHHHH-HHHTT-----CCEEEEEECTTSTT
T ss_pred             CEEEEEECCCCCCcHHHHHHHHH-HHHcC-----CCEEEEEECCCccc
Confidence            45999999998777766655543 44433     89999999999864

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=98.12  E-value=6e-06  Score=61.14  Aligned_cols=45  Identities=7%  Similarity=0.003  Sum_probs=30.0

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      +++|++++... +... ..|+..+..........|+++|+||+|+..
T Consensus       120 il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~  165 (262)
T 3def_A          120 LLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSP  165 (262)
T ss_dssp             EEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCC
T ss_pred             EEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCC
Confidence            88888887654 5444 467777775432211148999999999853

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=98.11  E-value=6.4e-06  Score=61.22  Aligned_cols=47  Identities=0%  Similarity=-0.024  Sum_probs=30.6

Q ss_pred             EEEEEECCChhHHhhH-HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc
Q psy2600          32 VIFMYDITSGQSFHSI-PTWVDLFHLNRKSSTPTYVALVANKGDMEHQR   79 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~   79 (158)
                      +++|+|++.. ++... ..|+..+..........|+++|+||+|+....
T Consensus       123 il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~  170 (270)
T 1h65_A          123 LLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPD  170 (270)
T ss_dssp             EEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGG
T ss_pred             EEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcC
Confidence            8899888653 35443 47777776442211115899999999986433

>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=98.09  E-value=3.7e-06  Score=63.49  Aligned_cols=87  Identities=6%  Similarity=-0.169  Sum_probs=56.8

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHH---h-hhc-CCCCCcEEEEEEeC-CCCCCCccccHHHHHHHHH----HhCCeEEE
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLF---H-LNR-KSSTPTYVALVANK-GDMEHQRVVTLERHAKLAQ----SLHLHSFA   99 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~---~-~~~-~~~~~~piilv~nK-~Dl~~~~~~~~~~~~~~~~----~~~~~~~~   99 (158)
                      +++|||.|.+|.+.++ ....+.++   . +.. ..+  .|++|.+|| -|++.  ..+..+......    ...+.++.
T Consensus       212 dglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~--apLLVfANKkQDlp~--Ams~~EI~e~L~L~~l~r~W~Iq~  286 (312)
T 3l2o_B          212 DGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSG--RPLLVLSCISQGDVK--RMPCFYLAHELHLNLLNHPWLVQD  286 (312)
T ss_dssp             SEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTT--CCEEEEEEESSTTSC--BCCHHHHHHHTTGGGGCSCEEEEE
T ss_pred             CEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCC--CeEEEEeCCcccccC--CCCHHHHHHHcCCccCCCcEEEEe
Confidence            4599999999987665 33322222   1 111 122  899999997 58854  233333322111    12356899


Q ss_pred             EeCCCCCCHHHHHHHHHHHHHH
Q psy2600         100 VSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus       100 ~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      |||.+|+|+.+.++++.+.+..
T Consensus       287 csA~tGeGL~EGldWL~~~l~~  308 (312)
T 3l2o_B          287 TEAETLTGFLNGIEWILEEVES  308 (312)
T ss_dssp             EETTTCTTHHHHHHHHHHHSCC
T ss_pred             cccCCCcCHHHHHHHHHHHHHh
Confidence            9999999999999999988754

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=98.03  E-value=1.8e-05  Score=58.11  Aligned_cols=56  Identities=18%  Similarity=0.087  Sum_probs=39.9

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHH----------------------------HHHHhC--CeEEEEeCCCCCCHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAK----------------------------LAQSLH--LHSFAVSARTGDNCWVNTR  113 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~----------------------------~~~~~~--~~~~~~Sa~~~~~i~~lf~  113 (158)
                      .|+++|+||+|+.....+  .+...                            +++.++  ..++++||+++.|++++++
T Consensus       172 ~p~~iv~NK~D~~~~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~  249 (262)
T 1yrb_A          172 ATTIPALNKVDLLSEEEK--ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLET  249 (262)
T ss_dssp             SCEEEEECCGGGCCHHHH--HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHH
T ss_pred             CCeEEEEecccccccccH--HHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHH
Confidence            899999999998643211  11111                            123433  4789999999999999999


Q ss_pred             HHHHHHHH
Q psy2600         114 TPEINPLK  121 (158)
Q Consensus       114 ~l~~~~~~  121 (158)
                      .+.+.+..
T Consensus       250 ~i~~~~~~  257 (262)
T 1yrb_A          250 LAYEHYCT  257 (262)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHhcc
Confidence            99887653

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.98  E-value=4.3e-06  Score=63.66  Aligned_cols=80  Identities=11%  Similarity=0.110  Sum_probs=52.4

Q ss_pred             eEEEEEEECCChh-HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccc--cHHHHHHHHHHhCCeEEEEeCCCCC
Q psy2600          30 KIVIFMYDITSGQ-SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVV--TLERHAKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        30 k~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~Sa~~~~  106 (158)
                      |.+++|+|+.++. +...+..++.......     +|.++|.||+||......  .........+..|.+++.+||.++.
T Consensus        88 D~v~~V~~~~~p~~~~~~i~r~L~~~~~~~-----~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~sa~~~~  162 (307)
T 1t9h_A           88 DQAVLVFSAVQPSFSTALLDRFLVLVEAND-----IQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSSKDQD  162 (307)
T ss_dssp             CEEEEEEESTTTTCCHHHHHHHHHHHHTTT-----CEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCHHHHT
T ss_pred             CEEEEEEeCCCCCCCHHHHHHHHHHHHHCC-----CCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeEEEEecCCCC
Confidence            4499999998654 3334445554444333     888999999999754210  0122333444568899999999998


Q ss_pred             CHHHHHHH
Q psy2600         107 NCWVNTRT  114 (158)
Q Consensus       107 ~i~~lf~~  114 (158)
                      |+++|+..
T Consensus       163 g~~~L~~~  170 (307)
T 1t9h_A          163 SLADIIPH  170 (307)
T ss_dssp             TCTTTGGG
T ss_pred             CHHHHHhh
Confidence            88877653

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.95  E-value=2.3e-06  Score=63.72  Aligned_cols=75  Identities=7%  Similarity=0.035  Sum_probs=53.3

Q ss_pred             CeEEEEEEECCChhHHhh--HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCC
Q psy2600          29 GKIVIFMYDITSGQSFHS--IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGD  106 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  106 (158)
                      .|.+++|+|+.++.+...  +. |+         +  +|.++|.||+|+.....  .+....+.+..|.++ .+||.++.
T Consensus        22 ~D~vl~VvDar~P~~~~~~~l~-ll---------~--k~~iivlNK~DL~~~~~--~~~~~~~~~~~g~~v-~iSa~~~~   86 (262)
T 3cnl_A           22 VNTVVEVRDARAPFATSAYGVD-FS---------R--KETIILLNKVDIADEKT--TKKWVEFFKKQGKRV-ITTHKGEP   86 (262)
T ss_dssp             CSEEEEEEETTSTTTTSCTTSC-CT---------T--SEEEEEEECGGGSCHHH--HHHHHHHHHHTTCCE-EECCTTSC
T ss_pred             CCEEEEEeeCCCCCcCcChHHH-hc---------C--CCcEEEEECccCCCHHH--HHHHHHHHHHcCCeE-EEECCCCc
Confidence            477999999998876653  22 22         1  89999999999964211  122233444557788 99999999


Q ss_pred             CHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEIN  118 (158)
Q Consensus       107 ~i~~lf~~l~~~  118 (158)
                      |+++++..+...
T Consensus        87 gi~~L~~~l~~~   98 (262)
T 3cnl_A           87 RKVLLKKLSFDR   98 (262)
T ss_dssp             HHHHHHHHCCCT
T ss_pred             CHHHHHHHHHHh
Confidence            999998877554

>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=97.90  E-value=1.6e-05  Score=61.24  Aligned_cols=84  Identities=14%  Similarity=-0.018  Sum_probs=49.8

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccH--HHHHHHHHHh-------CCeEE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTL--ERHAKLAQSL-------HLHSF   98 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~--~~~~~~~~~~-------~~~~~   98 (158)
                      ..|.+++|+|++....+..+...     ...     .|.++|+||+|+........  .+........       ...++
T Consensus       169 ~aD~vl~Vvd~~~~~~~~~l~~~-----~~~-----~p~ivv~NK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~vi  238 (341)
T 2p67_A          169 MVDCFISLQIAGGGDDLQGIKKG-----LME-----VADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRVL  238 (341)
T ss_dssp             TCSEEEEEECC------CCCCHH-----HHH-----HCSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCEEE
T ss_pred             hCCEEEEEEeCCccHHHHHHHHh-----hhc-----ccCEEEEECCCCCChHHHHHHHHHHHHHHHhccccccCCCCcEE
Confidence            45779999998765443322111     111     77899999999864221110  0111111111       34689


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          99 AVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      .+||++|.|++++++.+.+.+..
T Consensus       239 ~iSA~~g~gi~~L~~~l~~~~~~  261 (341)
T 2p67_A          239 TCSALEKRGIDEIWHAIIDFKTA  261 (341)
T ss_dssp             ECBGGGTBSHHHHHHHHHHHHHH
T ss_pred             EeeCCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999987653

>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=97.86  E-value=3.6e-06  Score=65.18  Aligned_cols=87  Identities=11%  Similarity=-0.020  Sum_probs=55.7

Q ss_pred             EEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          31 IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      ++|+|+|.++.....  ..|+..+......+  .|+++|+||+|+.............+...++..|+.+|++.+.++++
T Consensus       175 ~iilvv~~~~~~~~~--~~~~~l~~~~~~~~--~~~i~V~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~  250 (360)
T 3t34_A          175 CIILAISPANQDLAT--SDAIKISREVDPSG--DRTFGVLTKIDLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINK  250 (360)
T ss_dssp             EEEEEEEETTSCGGG--CHHHHHHHHSCTTC--TTEEEEEECGGGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHT
T ss_pred             eEEEEeecccCCcCC--HHHHHHHHHhcccC--CCEEEEEeCCccCCCcccHHHHHcCccccccCCeEEEEECChHHhcc
Confidence            488888876544332  23444444444333  78999999999875443333333333444578899999999998887


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      .+..+.....+
T Consensus       251 ~~~~~~~~~~e  261 (360)
T 3t34_A          251 NVDMIAARKRE  261 (360)
T ss_dssp             TCCHHHHHHHH
T ss_pred             CCCHHHHHHHH
Confidence            77665544433

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.81  E-value=9.6e-05  Score=57.38  Aligned_cols=77  Identities=14%  Similarity=0.094  Sum_probs=49.4

Q ss_pred             eEEEEEEECCChh-HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHH---HHHhCCeEEEEeCCCC
Q psy2600          30 KIVIFMYDITSGQ-SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKL---AQSLHLHSFAVSARTG  105 (158)
Q Consensus        30 k~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~---~~~~~~~~~~~Sa~~~  105 (158)
                      |.+++|... ++. +...+..|+.......     +|.++|.||+||.....  .+....+   .+..|++++.+||.++
T Consensus       132 D~v~iv~a~-~P~~~~~~i~r~L~~a~~~~-----~~~iivlNK~DL~~~~~--~~~~~~~~~~y~~~G~~v~~~Sa~~~  203 (358)
T 2rcn_A          132 DQIVIVSAI-LPELSLNIIDRYLVGCETLQ-----VEPLIVLNKIDLLDDEG--MDFVNEQMDIYRNIGYRVLMVSSHTQ  203 (358)
T ss_dssp             CEEEEEEES-TTTCCHHHHHHHHHHHHHHT-----CEEEEEEECGGGCCHHH--HHHHHHHHHHHHTTTCCEEECBTTTT
T ss_pred             CEEEEEEeC-CCCCCHHHHHHHHHHHHhcC-----CCEEEEEECccCCCchh--HHHHHHHHHHHHhCCCcEEEEecCCC
Confidence            556777554 443 3334455555544444     78899999999964321  1112233   3346788999999999


Q ss_pred             CCHHHHHHH
Q psy2600         106 DNCWVNTRT  114 (158)
Q Consensus       106 ~~i~~lf~~  114 (158)
                      .|++++...
T Consensus       204 ~gl~~L~~~  212 (358)
T 2rcn_A          204 DGLKPLEEA  212 (358)
T ss_dssp             BTHHHHHHH
T ss_pred             cCHHHHHHh
Confidence            999988764

>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=97.79  E-value=3.4e-05  Score=58.19  Aligned_cols=87  Identities=10%  Similarity=-0.012  Sum_probs=50.6

Q ss_pred             eEEEEEEECCChhHH-hhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCC----
Q psy2600          30 KIVIFMYDITSGQSF-HSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSART----  104 (158)
Q Consensus        30 k~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~----  104 (158)
                      +++++|+|.++.... .+...+...+...   +  .|+++|+||+|+........+........++..|+.+|+..    
T Consensus       169 d~iilvvd~~~~~~~~~~~~~i~~~~~~~---~--~~~i~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~  243 (315)
T 1jwy_B          169 NAIIVAVTPANTDLANSDALQLAKEVDPE---G--KRTIGVITKLDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDI  243 (315)
T ss_dssp             TEEEEEEEESSSCSTTCSHHHHHHHHCSS---C--SSEEEEEECTTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHH
T ss_pred             CeEEEEEEecCcchhhhHHHHHHHHhCCC---C--CcEEEEEcCcccCCcchHHHHHHhCCCccCCCCeEEEecCChhhh
Confidence            458999997543321 2222344444332   2  89999999999865333111111110011225677776665    


Q ss_pred             --CCCHHHHHHHHHHHHHH
Q psy2600         105 --GDNCWVNTRTPEINPLK  121 (158)
Q Consensus       105 --~~~i~~lf~~l~~~~~~  121 (158)
                        +.|+.+++..+.+.+..
T Consensus       244 ~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          244 IAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             SSSCCHHHHHHHHHHHHHT
T ss_pred             ccCCCHHHHHHHHHHHHhC
Confidence              67889999988877754

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.63  E-value=0.00011  Score=56.74  Aligned_cols=92  Identities=12%  Similarity=0.094  Sum_probs=52.1

Q ss_pred             EEEEECCCCCC----------eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH
Q psy2600          19 KVVLLGDPSCG----------KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK   88 (158)
Q Consensus        19 ki~~~G~~~vg----------k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~   88 (158)
                      .++++-.+|.+          +.+++|+|++.....+.+..   .+  .  .   .|.++|+||+|+...... ......
T Consensus       168 ~~iliDT~Gi~~~~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i--l--~---~~~ivVlNK~Dl~~~~~~-~~~~~~  236 (349)
T 2www_A          168 DIILIETVGVGQSEFAVADMVDMFVLLLPPAGGDELQGIKR---GI--I--E---MADLVAVTKSDGDLIVPA-RRIQAE  236 (349)
T ss_dssp             SEEEEECCCC--CHHHHHTTCSEEEEEECCC-----------------C--C---SCSEEEECCCSGGGHHHH-HHHHHH
T ss_pred             CEEEEECCCcchhhhhHHhhCCEEEEEEcCCcchhHHHhHH---HH--H--h---cCCEEEEeeecCCCchhH-HHHHHH
Confidence            44555555554          55999999876533221111   11  1  1   677999999998531110 011122


Q ss_pred             HHH----------HhCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          89 LAQ----------SLHLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        89 ~~~----------~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +..          .++.+++.+||+++.|++++++.|.+.+..
T Consensus       237 l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~~  279 (349)
T 2www_A          237 YVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQDL  279 (349)
T ss_dssp             HHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            221          123568999999999999999999887644

>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=97.62  E-value=0.00031  Score=59.06  Aligned_cols=29  Identities=7%  Similarity=-0.268  Sum_probs=25.3

Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHhH
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEINPLKYL  123 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  123 (158)
                      +++|..||++|.|+..|++.+++.++...
T Consensus       262 ~Pv~~gSa~~~~Gv~~LLd~i~~~lPsP~  290 (704)
T 2rdo_7          262 ILVTCGSAFKNKGVQAMLDAVIDYLPSPV  290 (704)
T ss_pred             eEEEEeecccCccHHHHHHHHHHHCCChh
Confidence            46889999999999999999999887654

>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=97.46  E-value=7.8e-05  Score=58.65  Aligned_cols=45  Identities=18%  Similarity=0.116  Sum_probs=32.4

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHH---hCCeEEEEeCCCCCCHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQS---LHLHSFAVSARTGDNCWVNTR  113 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~---~~~~~~~~Sa~~~~~i~~lf~  113 (158)
                      +|+++|+||+|+..     .+....+.+.   .+..++.+||+.+.++.++++
T Consensus       215 kP~i~v~NK~D~~~-----~~~l~~l~~~~~~~~~~vv~iSA~~e~~l~~L~~  262 (397)
T 1wxq_A          215 KPMVIAANKADAAS-----DEQIKRLVREEEKRGYIVIPTSAAAELTLRKAAK  262 (397)
T ss_dssp             SCEEEEEECGGGSC-----HHHHHHHHHHHHHTTCEEEEECHHHHHHHHSCSS
T ss_pred             CCEEEEEeCccccc-----hHHHHHHHHHHhhcCCcEEEEeccchhhHHHHHh
Confidence            89999999999862     2223333333   367899999999988877644

>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=97.42  E-value=8.4e-06  Score=63.01  Aligned_cols=55  Identities=13%  Similarity=-0.074  Sum_probs=35.8

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHH--HHHHhC-CeEEEEeCCCCCCHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAK--LAQSLH-LHSFAVSARTGDNCWVNTRTPEIN  118 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~--~~~~~~-~~~~~~Sa~~~~~i~~lf~~l~~~  118 (158)
                      .|+++|+||+|+.............  +...++ ..++.+||+++.|+.++++.+.+.
T Consensus       198 ~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~e  255 (353)
T 2x2e_A          198 QRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  255 (353)
T ss_dssp             TTEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHHH
T ss_pred             CceEEEeccccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHHH
Confidence            8999999999986433211111110  000123 246789999999999999998873

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.42  E-value=0.00036  Score=53.65  Aligned_cols=92  Identities=12%  Similarity=0.054  Sum_probs=52.5

Q ss_pred             EEEEECCCCCC----------eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH
Q psy2600          19 KVVLLGDPSCG----------KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK   88 (158)
Q Consensus        19 ki~~~G~~~vg----------k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~   88 (158)
                      .++++--+|.+          +.+++++|.+..+..+.+..++.     .     .+.+++.||+|+.............
T Consensus       149 ~~iliDT~Gi~~~~~~v~~~~d~vl~v~d~~~~~~~~~i~~~i~-----~-----~~~ivvlNK~Dl~~~~~~s~~~~~~  218 (337)
T 2qm8_A          149 DVILVETVGVGQSETAVADLTDFFLVLMLPGAGDELQGIKKGIF-----E-----LADMIAVNKADDGDGERRASAAASE  218 (337)
T ss_dssp             CEEEEEECSSSSCHHHHHTTSSEEEEEECSCC------CCTTHH-----H-----HCSEEEEECCSTTCCHHHHHHHHHH
T ss_pred             CEEEEECCCCCcchhhHHhhCCEEEEEEcCCCcccHHHHHHHHh-----c-----cccEEEEEchhccCchhHHHHHHHH
Confidence            45555555554          44888998764332211111111     1     4557777999974322222222233


Q ss_pred             HHHH----------hCCeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          89 LAQS----------LHLHSFAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        89 ~~~~----------~~~~~~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      +...          ++.+++.+||+++.|++++++.|.+...
T Consensus       219 l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          219 YRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            3321          1346889999999999999999988764

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=97.28  E-value=0.0014  Score=53.59  Aligned_cols=44  Identities=20%  Similarity=0.183  Sum_probs=31.7

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH   77 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~   77 (158)
                      +.|++|+|+|....---+....| ....+++     +|.+++.||+|...
T Consensus       123 ~~DgAvlVvda~~GV~~qT~~v~-~~a~~~~-----lp~i~fINK~Dr~~  166 (548)
T 3vqt_A          123 AVDSALVVIDAAKGVEAQTRKLM-DVCRMRA-----TPVMTFVNKMDREA  166 (548)
T ss_dssp             SCSEEEEEEETTTBSCHHHHHHH-HHHHHTT-----CCEEEEEECTTSCC
T ss_pred             hcCceEEEeecCCCcccccHHHH-HHHHHhC-----CceEEEEecccchh
Confidence            66889999999875444444455 3444444     99999999999753

>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=97.28  E-value=0.0038  Score=48.46  Aligned_cols=41  Identities=17%  Similarity=0.092  Sum_probs=29.8

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCC
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSART  104 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  104 (158)
                      +|+++++||.|..-...........++...+..++.+||+.
T Consensus       200 KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~~  240 (363)
T 1jal_A          200 KPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI  240 (363)
T ss_dssp             SCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             CcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechHH
Confidence            89999999999642112224456677777788999999764

>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=96.85  E-value=0.00046  Score=58.51  Aligned_cols=82  Identities=9%  Similarity=-0.102  Sum_probs=51.5

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH----hC-CeEEEEeCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS----LH-LHSFAVSART  104 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~----~~-~~~~~~Sa~~  104 (158)
                      +.+++|.|.+....-.+...++..+....     .|+++|.||+|+........ .... .+.    ++ .+++.+||++
T Consensus       189 DlIL~VVDAs~~~~~~d~l~ll~~L~~~g-----~pvIlVlNKiDlv~~~~~~~-~il~-~~~~~l~lg~~~VV~iSA~~  261 (772)
T 3zvr_A          189 CLILAVSPANSDLANSDALKIAKEVDPQG-----QRTIGVITKLDLMDEGTDAR-DVLE-NKLLPLRRGYIGVVNRSQKD  261 (772)
T ss_dssp             EEEEEEEETTSCSSSCHHHHHHHHHCTTC-----SSEEEEEECTTSSCTTCCSH-HHHT-TCSSCCSSCEEECCCCCCEE
T ss_pred             cEEEEEEcCCCCcchhHHHHHHHHHHhcC-----CCEEEEEeCcccCCcchhhH-HHHH-HHhhhhhccCCceEEecccc
Confidence            35889999876433333334455554332     89999999999864333221 1111 111    12 2457799999


Q ss_pred             CCCHHHHHHHHHHH
Q psy2600         105 GDNCWVNTRTPEIN  118 (158)
Q Consensus       105 ~~~i~~lf~~l~~~  118 (158)
                      |.|+++|++.+.+.
T Consensus       262 G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          262 IDGKKDITAALAAE  275 (772)
T ss_dssp             SSSSEEHHHHHHHH
T ss_pred             cccchhHHHHHHHH
Confidence            99999999998864

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=96.74  E-value=0.0016  Score=54.11  Aligned_cols=30  Identities=7%  Similarity=-0.180  Sum_probs=24.9

Q ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHhHh
Q psy2600          95 LHSFAVSARTGDNCWVNTRTPEINPLKYLQ  124 (158)
Q Consensus        95 ~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~~  124 (158)
                      .+++..||.++.||+.|++.+.+.++....
T Consensus       213 ~Pv~~gSa~~~~Gv~~LLd~i~~~~p~p~~  242 (638)
T 3j25_A          213 FPLYHGSAKSNIGIDNLIEVITNKFYSSTH  242 (638)
T ss_dssp             CCCCCCCSTTCCSHHHHHHHHHHSCCCSGG
T ss_pred             ccccccccccCCCchhHhhhhhccccCccc
Confidence            457889999999999999999988765543

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=96.62  E-value=0.0081  Score=46.86  Aligned_cols=80  Identities=8%  Similarity=-0.014  Sum_probs=42.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC--------CccccHHHHHHHHHHhCCeEEEEeCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH--------QRVVTLERHAKLAQSLHLHSFAVSAR  103 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~--------~~~~~~~~~~~~~~~~~~~~~~~Sa~  103 (158)
                      +++|.|.+++.  .+......++..........|.+++.||+|...        ....+.++...+...+.+.--.+-..
T Consensus       153 il~vvD~~~p~--~~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~kpv~~~  230 (376)
T 4a9a_A          153 LFIILDVNKPL--HHKQIIEKELEGVGIRLNKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINSAEIAFR  230 (376)
T ss_dssp             EEEEEETTSHH--HHHHHHHHHHHHTTEEETCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCSEEEEEC
T ss_pred             cccccccCccH--HHHHHHHHHHHHhhHhhccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccCCCeeec
Confidence            88999998763  334444444543322111167889999999631        12244556666655555432222223


Q ss_pred             CCCCHHHHHH
Q psy2600         104 TGDNCWVNTR  113 (158)
Q Consensus       104 ~~~~i~~lf~  113 (158)
                      .+...+++.+
T Consensus       231 ~nv~eddl~d  240 (376)
T 4a9a_A          231 CDATVDDLID  240 (376)
T ss_dssp             SCCCHHHHHH
T ss_pred             ccCCHHHHHH
Confidence            3445555544

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=96.32  E-value=0.002  Score=52.73  Aligned_cols=44  Identities=16%  Similarity=0.276  Sum_probs=34.3

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQ   78 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~   78 (158)
                      +.+|+|+|+++....+....|+..+....     .|+++|+||+|+...
T Consensus       190 D~il~VvDa~~~~~~~~~~~~l~~l~~~~-----~pvilVlNK~Dl~~~  233 (550)
T 2qpt_A          190 DLIILLFDAHKLEISDEFSEAIGALRGHE-----DKIRVVLNKADMVET  233 (550)
T ss_dssp             SEEEEEEETTSCCCCHHHHHHHHHTTTCG-----GGEEEEEECGGGSCH
T ss_pred             CEEEEEEeCCcCCCCHHHHHHHHHHHhcC-----CCEEEEEECCCccCH
Confidence            56999999987655666677877776543     889999999998653

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=95.96  E-value=0.035  Score=46.64  Aligned_cols=27  Identities=4%  Similarity=-0.310  Sum_probs=23.2

Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          96 HSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        96 ~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      +.+..||..+.|+..+++.+++.++..
T Consensus       266 pv~~gsa~~~~gv~~lLd~i~~~lPsP  292 (709)
T 4fn5_A          266 PAVCGSSFKNKGVPLVLDAVIDYLPAP  292 (709)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHSCCT
T ss_pred             eeeeeecccCCchHHHHHHHHhhCCCC
Confidence            467889999999999999999887654

>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=95.57  E-value=0.0091  Score=51.22  Aligned_cols=43  Identities=16%  Similarity=0.114  Sum_probs=33.8

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      ..+++|+|+|+++..+++....|.... ...     +|+++|+||+|+.
T Consensus       121 ~aD~ailVvDa~~g~~~qt~~~~~~~~-~~~-----~p~ilviNK~D~~  163 (842)
T 1n0u_A          121 VTDGALVVVDTIEGVCVQTETVLRQAL-GER-----IKPVVVINKVDRA  163 (842)
T ss_dssp             TCSEEEEEEETTTBSCHHHHHHHHHHH-HTT-----CEEEEEEECHHHH
T ss_pred             hCCEEEEEEeCCCCCCHHHHHHHHHHH-HcC-----CCeEEEEECCCcc
Confidence            457799999999988888776665443 222     8999999999975

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.88  E-value=0.032  Score=41.35  Aligned_cols=14  Identities=21%  Similarity=0.154  Sum_probs=12.2

Q ss_pred             cEEEEEEeCCCCCC
Q psy2600          64 TYVALVANKGDMEH   77 (158)
Q Consensus        64 ~piilv~nK~Dl~~   77 (158)
                      +++++|.+|+|...
T Consensus       141 ~~vI~Vi~K~D~lt  154 (270)
T 3sop_A          141 VNIIPVIAKADTMT  154 (270)
T ss_dssp             SEEEEEETTGGGSC
T ss_pred             CcEEEEEeccccCC
Confidence            78999999999764

>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=93.50  E-value=0.15  Score=40.49  Aligned_cols=39  Identities=8%  Similarity=-0.023  Sum_probs=25.3

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      .+..+|.||+|....    ...+.......+.++.+++.  |+++
T Consensus       240 ~i~gVIlTKlD~~~~----gG~~ls~~~~~g~PI~fig~--Ge~v  278 (443)
T 3dm5_A          240 PIGSIIVTKLDGSAK----GGGALSAVAATGAPIKFIGT--GEKI  278 (443)
T ss_dssp             TTEEEEEECCSSCSS----HHHHHHHHHTTCCCEEEEEC--SSST
T ss_pred             CCeEEEEECCCCccc----ccHHHHHHHHHCCCEEEEEc--CCCh
Confidence            345688999997532    23455556667888877775  5543

>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=92.83  E-value=0.048  Score=42.34  Aligned_cols=50  Identities=20%  Similarity=0.039  Sum_probs=35.7

Q ss_pred             cEEEEEEeCCCCC--CC-ccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHH
Q psy2600          64 TYVALVANKGDME--HQ-RVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNTR  113 (158)
Q Consensus        64 ~piilv~nK~Dl~--~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~  113 (158)
                      +|+++++||.|..  .. .....+....+++..+..++.+||+.+.++.+++.
T Consensus       202 KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~iSAk~E~el~eL~~  254 (368)
T 2dby_A          202 KPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVVSARLEAELAELSG  254 (368)
T ss_dssp             SCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEECHHHHHHHHTSCH
T ss_pred             CCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEeechhHHHHHHhch
Confidence            7999999999842  21 12234567778888889999999988666555543

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=89.97  E-value=0.29  Score=39.58  Aligned_cols=77  Identities=12%  Similarity=-0.005  Sum_probs=46.7

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEE-EEEEeCCCCCCCccccHHHHHHHHHHhCCeE----------
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYV-ALVANKGDMEHQRVVTLERHAKLAQSLHLHS----------   97 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~----------   97 (158)
                      .+.+++|.|.+....   .......+...      +|+ .+|.||+|......    .........+.++          
T Consensus       214 pd~vllVvDa~~g~~---~~~~a~~~~~~------~~i~gvVlNK~D~~~~~g----~~l~~~~~~g~PI~fig~ge~~~  280 (504)
T 2j37_W          214 PDNIVYVMDASIGQA---CEAQAKAFKDK------VDVASVIVTKLDGHAKGG----GALSAVAATKSPIIFIGTGEHID  280 (504)
T ss_dssp             CSEEEEEEETTCCTT---HHHHHHHHHHH------HCCCCEEEECTTSCCCCT----HHHHHHHHHCCCEEEEECSSSTT
T ss_pred             CceEEEEEecccccc---HHHHHHHHHhh------cCceEEEEeCCccccchH----HHHHHHHHhCCCeEEeccccchh
Confidence            356899999876432   12222333322      564 88999999863221    2223334444443          


Q ss_pred             --------EEEeCCCCCC-HHHHHHHHHHH
Q psy2600          98 --------FAVSARTGDN-CWVNTRTPEIN  118 (158)
Q Consensus        98 --------~~~Sa~~~~~-i~~lf~~l~~~  118 (158)
                              +.+|+..|.| +.+|++.+.+.
T Consensus       281 dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          281 DFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             hhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence                    3468888988 99998888765

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=84.22  E-value=2.3  Score=32.27  Aligned_cols=13  Identities=23%  Similarity=0.455  Sum_probs=10.6

Q ss_pred             EEEEECCCCCCeE
Q psy2600          19 KVVLLGDPSCGKI   31 (158)
Q Consensus        19 ki~~~G~~~vgk~   31 (158)
                      -+.++|..|+|||
T Consensus       131 vi~lvG~nGaGKT  143 (328)
T 3e70_C          131 VIMFVGFNGSGKT  143 (328)
T ss_dssp             EEEEECCTTSSHH
T ss_pred             EEEEECCCCCCHH
Confidence            4678888888887

>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=80.14  E-value=0.62  Score=33.71  Aligned_cols=22  Identities=14%  Similarity=0.252  Sum_probs=18.5

Q ss_pred             CCcceEEEEEEECCC---------CCCeEEE
Q psy2600          12 DNYEIQLKVVLLGDP---------SCGKIVI   33 (158)
Q Consensus        12 ~~~~~~~ki~~~G~~---------~vgk~~i   33 (158)
                      .....++||+++|.+         +||||.+
T Consensus        14 ~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsL   44 (255)
T 3c5h_A           14 LYFQGTYNISVVGLSGTEKEKGQCGIGKSCL   44 (255)
T ss_dssp             SSCCSCEEEEEEESCCCTTTTTTCCCSHHHH
T ss_pred             CCCCceeEEEEECCCccccccCCCCcCHHHH
Confidence            456678999999999         9999943

---

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	158
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	5e-06
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	7e-06
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	1e-05
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	1e-05
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	2e-05
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	4e-05
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	5e-05
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	2e-04
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	3e-04
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	5e-04
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	6e-04
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	7e-04
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	8e-04
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	0.001
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	0.001
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	0.002

>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 = 42.2 bits (98), Expect = 5e-06
 Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 2/78 (2%)

Query: 30  KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKL 89
             ++ +YD+T+  SF +I  W+    ++  +     + L+ NK D  H+RVV  E   KL
Sbjct: 81  HALLLLYDVTNKASFDNIQAWL--TEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKL 138

Query: 90  AQSLHLHSFAVSARTGDN 107
           A+   L     SA+TG N
Sbjct: 139 AKEYGLPFMETSAKTGLN 156

>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 = 41.4 bits (96), Expect = 7e-06
 Identities = 24/77 (31%), Positives = 40/77 (51%), Gaps = 2/77 (2%)

Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
             + +YDIT   +++ + +W  L      ++  T + L+ NK D+E QR VT E   + A
Sbjct: 79  GALMVYDITRRSTYNHLSSW--LTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFA 136

Query: 91  QSLHLHSFAVSARTGDN 107
           +   L     SA+TG+N
Sbjct: 137 EENGLLFLEASAKTGEN 153

>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 = 41.3 bits (96), Expect = 1e-05
 Identities = 22/77 (28%), Positives = 39/77 (50%), Gaps = 2/77 (2%)

Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
            ++ +YDIT+ +SF +I  W  + ++   +S      ++ NK D+  +R V+ ER  KLA
Sbjct: 81  GIMLVYDITNEKSFDNIRNW--IRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLA 138

Query: 91  QSLHLHSFAVSARTGDN 107
               +     SA+   N
Sbjct: 139 LDYGIKFMETSAKANIN 155

>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 = 40.7 bits (94), Expect = 1e-05
 Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            + +YDIT+  SF     W+D   +  +  +   + LV NK D+  +R V++E   + A+
Sbjct: 76  AVVVYDITNVNSFQQTTKWID--DVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAK 133

Query: 92  SLHLHSFAVSARTGDN 107
            L++     SA+ G N
Sbjct: 134 ELNVMFIETSAKAGYN 149

>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 = 40.6 bits (94), Expect = 2e-05
 Identities = 17/77 (22%), Positives = 27/77 (35%), Gaps = 2/77 (2%)

Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
            VI +YD+T   +F        L  L    +    V ++      +  R V      K A
Sbjct: 82  GVILVYDVTRRDTFV--KLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFA 139

Query: 91  QSLHLHSFAVSARTGDN 107
           +   +     SA+T D 
Sbjct: 140 RKHSMLFIEASAKTCDG 156

>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 = 39.5 bits (91), Expect = 4e-05
 Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 2/76 (2%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I +YDIT   SF  +  W  +  L +       + +V NK D+E +R V+++     A+
Sbjct: 79  AILVYDITDEDSFQKVKNW--VKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAE 136

Query: 92  SLHLHSFAVSARTGDN 107
           S+    +  SA+    
Sbjct: 137 SVGAKHYHTSAKQNKG 152

>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 = 39.5 bits (91), Expect = 5e-05
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 28  CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA 87
                + +YDI    ++ ++  W+     +  S+    + LV NK D+ H R V  +   
Sbjct: 76  GAVGALLVYDIAKHLTYENVERWLKELRDHADSNIV--IMLVGNKSDLRHLRAVPTDEAR 133

Query: 88  KLAQSLHLHSFAVSARTGDN 107
             A+  +L     SA    N
Sbjct: 134 AFAEKNNLSFIETSALDSTN 153

>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 = 37.7 bits (86), Expect = 2e-04
 Identities = 20/80 (25%), Positives = 28/80 (35%)

Query: 28  CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA 87
            G   I +Y ITS QS   +    +     +       + LV NK D    R V      
Sbjct: 73  KGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAE 132

Query: 88  KLAQSLHLHSFAVSARTGDN 107
            LA++        SA+   N
Sbjct: 133 ALARTWKCAFMETSAKLNHN 152

>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 = 37.2 bits (85), Expect = 3e-04
 Identities = 19/76 (25%), Positives = 31/76 (40%), Gaps = 1/76 (1%)

Query: 32  VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ 91
            I +Y + + QSF  I    D     ++      + LV NK D+E +R V+      LA+
Sbjct: 78  FILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVI-LVGNKVDLESEREVSSSEGRALAE 136

Query: 92  SLHLHSFAVSARTGDN 107
                    SA++   
Sbjct: 137 EWGCPFMETSAKSKTM 152

>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 = 36.5 bits (83), Expect = 5e-04
 Identities = 21/80 (26%), Positives = 37/80 (46%), Gaps = 1/80 (1%)

Query: 28  CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA 87
            G+  + ++ IT  +SF +   + +   L  K        LV NK D+E +R V++E   
Sbjct: 75  SGEGFLCVFSITEMESFAATADFREQI-LRVKEDENVPFLLVGNKSDLEDKRQVSVEEAK 133

Query: 88  KLAQSLHLHSFAVSARTGDN 107
             A   +++    SA+T  N
Sbjct: 134 NRADQWNVNYVETSAKTRAN 153

>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 = 36.1 bits (82), Expect = 6e-04
 Identities = 11/78 (14%), Positives = 24/78 (30%), Gaps = 4/78 (5%)

Query: 33  IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV---VTLERHAKL 89
           IF+ D             +     +R+      + + ANK D+        +  +     
Sbjct: 84  IFVVDCADRDRIDEARQELHRIINDREMRDA-IILIFANKQDLPDAMKPHEIQEKLGLTR 142

Query: 90  AQSLHLHSFAVSARTGDN 107
            +  + +     A +GD 
Sbjct: 143 IRDRNWYVQPSCATSGDG 160

>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 = 36.0 bits (82), Expect = 7e-04
 Identities = 22/80 (27%), Positives = 38/80 (47%), Gaps = 2/80 (2%)

Query: 28  CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA 87
                + +YDITS ++++++  W+        +S    + L  NK D++  R VT    +
Sbjct: 77  GAAGALLVYDITSRETYNALTNWL--TDARMLASQNIVIILCGNKKDLDADREVTFLEAS 134

Query: 88  KLAQSLHLHSFAVSARTGDN 107
           + AQ   L     SA TG+N
Sbjct: 135 RFAQENELMFLETSALTGEN 154

>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 = 35.9 bits (82), Expect = 8e-04
 Identities = 21/77 (27%), Positives = 34/77 (44%), Gaps = 3/77 (3%)

Query: 31  IVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA 90
            +I +YDIT  ++F +I  W   F    + +      L+         RVVT ++   LA
Sbjct: 77  GIILVYDITDERTFTNIKQW---FKTVNEHANDEAQLLLVGNKSDMETRVVTADQGEALA 133

Query: 91  QSLHLHSFAVSARTGDN 107
           + L +     SA+  DN
Sbjct: 134 KELGIPFIESSAKNDDN 150

>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 = 35.4 bits (80), Expect = 0.001
 Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 1/78 (1%)

Query: 30  KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKL 89
           +  + ++ +T   SF  I  +       +       + L+ NK D++HQR VT E   +L
Sbjct: 78  EGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMI-LIGNKADLDHQRQVTQEEGQQL 136

Query: 90  AQSLHLHSFAVSARTGDN 107
           A+ L +     SA+   N
Sbjct: 137 ARQLKVTYMEASAKIRMN 154

>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 = 35.3 bits (80), Expect = 0.001
 Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 2/80 (2%)

Query: 28  CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA 87
            G+  + ++ I + +SF  I  + +      K S    + LV NK D+  + V    +  
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYRE-QIKRVKDSDDVPMVLVGNKCDLAARTV-ESRQAQ 131

Query: 88  KLAQSLHLHSFAVSARTGDN 107
            LA+S  +     SA+T   
Sbjct: 132 DLARSYGIPYIETSAKTRQG 151

>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 = 34.9 bits (79), Expect = 0.002
 Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 2/80 (2%)

Query: 28  CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHA 87
                + +YDIT  ++F+ + +W  L    + SS+   + L+ NK D+E +R V  E   
Sbjct: 75  GAAGALLVYDITRRETFNHLTSW--LEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGE 132

Query: 88  KLAQSLHLHSFAVSARTGDN 107
             A+   L     SA+T  N
Sbjct: 133 AFAREHGLIFMETSAKTACN 152

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	158
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.91
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.91
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.91
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.91
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.91
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.91
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.91
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.9
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.9
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.9
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.9
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.9
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.9
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.9
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.9
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.9
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.9
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.89
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.89
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.89
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.89
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.89
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.89
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.89
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.88
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.88
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.88
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.87
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.87
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.87
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.87
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.86
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.85
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.85
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.84
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.84
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.82
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.81
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.8
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.77
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.76
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.75
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.74
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.72
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.71
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.66
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.63
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.52
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.52
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.49
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.48
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.42
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.41
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.4
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.38
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.36
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.34
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.32
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.28
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.26
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.19
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.19
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.12
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.1
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.05
d2fh5b1	207	Signal recognition particle receptor beta-subunit	98.97
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	98.81
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	98.77
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	98.75
d1nrjb_	209	Signal recognition particle receptor beta-subunit	98.36
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.25
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.25
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.13
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.99
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.98
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.98
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	97.87
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.87
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.86
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	97.45
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	97.4
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	97.09
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	97.03
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	96.77
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	96.68
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	96.49
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	93.89
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	93.49
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	91.91
d1vmaa2	213	GTPase domain of the signal recognition particle r	90.44
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	90.19
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	90.16
d1j8yf2	211	GTPase domain of the signal sequence recognition p	90.09
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	89.06
d1okkd2	207	GTPase domain of the signal recognition particle r	88.18
d2qy9a2	211	GTPase domain of the signal recognition particle r	86.12
d1ls1a2	207	GTPase domain of the signal sequence recognition p	85.45
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	84.04
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	80.44

>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=99.92  E-value=2.2e-24  Score=150.46  Aligned_cols=92  Identities=24%  Similarity=0.346  Sum_probs=83.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.||+.+..|+..+.+....+  +|+++|+||+|+...+.+..+++..+++.+++.|++|||++|.||+++
T Consensus        79 ~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~--~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~  156 (173)
T d2a5ja1          79 ALLVYDITRRETFNHLTSWLEDARQHSSSN--MVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEA  156 (173)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHH
T ss_pred             EEEEEeecChHHHHhHHHHHHHHHHhCCCC--CeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHH
Confidence            999999999999999999999998766555  999999999999877778888999999999999999999999999999


Q ss_pred             HHHHHHHHHHhHhh
Q psy2600         112 TRTPEINPLKYLQS  125 (158)
Q Consensus       112 f~~l~~~~~~~~~~  125 (158)
                      |..+++.+.+..++
T Consensus       157 f~~i~~~i~~~~~~  170 (173)
T d2a5ja1         157 FINTAKEIYRKIQQ  170 (173)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999998865543

>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=99.92  E-value=7.8e-25  Score=151.89  Aligned_cols=88  Identities=23%  Similarity=0.329  Sum_probs=80.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||+++++||+.+..|+..+.......  .|+++||||+|+...+.++.++++.+++.++++|++|||++|.||+++
T Consensus        79 ~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~--~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~  156 (167)
T d1z08a1          79 AILVYDITDEDSFQKVKNWVKELRKMLGNE--ICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEEL  156 (167)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHGGG--SEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHH
T ss_pred             eEEEEeCCchhHHHhhhhhhhhcccccccc--cceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHH
Confidence            999999999999999999998887544333  899999999999888888999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |..|++.+.+
T Consensus       157 F~~l~~~i~~  166 (167)
T d1z08a1         157 FLDLCKRMIE  166 (167)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhh
Confidence            9999998764

>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=99.91  E-value=1.4e-24  Score=150.19  Aligned_cols=86  Identities=22%  Similarity=0.272  Sum_probs=79.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.||+.+..|++++.+....   +|+++||||+|+...+.+..++++.+++.++++|++|||++|.||+++
T Consensus        78 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~---~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~  154 (164)
T d1z2aa1          78 CVLVFSTTDRESFEAISSWREKVVAEVGD---IPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEV  154 (164)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCS---CCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHH
T ss_pred             EEEEEeccchhhhhhcccccccccccCCC---ceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHH
Confidence            89999999999999999999999876554   899999999999887888889999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |+.|++.+.
T Consensus       155 f~~l~~~~l  163 (164)
T d1z2aa1         155 FKYLAEKHL  163 (164)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999998875

>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=99.91  E-value=5.9e-24  Score=147.26  Aligned_cols=104  Identities=28%  Similarity=0.426  Sum_probs=96.5

Q ss_pred             cceEEEEEEECCCCCCeE-------------------------------------------------------------E
Q psy2600          14 YEIQLKVVLLGDPSCGKI-------------------------------------------------------------V   32 (158)
Q Consensus        14 ~~~~~ki~~~G~~~vgk~-------------------------------------------------------------~   32 (158)
                      |||.+|++++|+++||||                                                             +
T Consensus         1 ~~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~   80 (166)
T d1z0fa1           1 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA   80 (166)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEE
T ss_pred             CcEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEE
Confidence            689999999999999998                                                             8


Q ss_pred             EEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHH
Q psy2600          33 IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNT  112 (158)
Q Consensus        33 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf  112 (158)
                      ++|||+++.+||+.+..|+..++......  .|+++++||+|+...+.+..++++.+++.+++.|++|||++|.||+++|
T Consensus        81 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f  158 (166)
T d1z0fa1          81 LMVYDITRRSTYNHLSSWLTDARNLTNPN--TVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAF  158 (166)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEeccCchHHHHHHHHHHHHHHhhcccc--ceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            99999999999999999999998766655  9999999999998777788889999999999999999999999999999


Q ss_pred             HHHHHHH
Q psy2600         113 RTPEINP  119 (158)
Q Consensus       113 ~~l~~~~  119 (158)
                      +.|++.+
T Consensus       159 ~~i~~~i  165 (166)
T d1z0fa1         159 LEAAKKI  165 (166)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9999875

>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=99.91  E-value=6.1e-24  Score=147.65  Aligned_cols=107  Identities=33%  Similarity=0.474  Sum_probs=98.5

Q ss_pred             CcceEEEEEEECCCCCCeE-------------------------------------------------------------
Q psy2600          13 NYEIQLKVVLLGDPSCGKI-------------------------------------------------------------   31 (158)
Q Consensus        13 ~~~~~~ki~~~G~~~vgk~-------------------------------------------------------------   31 (158)
                      +|+|.+|++++|.+++|||                                                             
T Consensus         1 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~   80 (169)
T d3raba_           1 NFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMG   80 (169)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCE
T ss_pred             CCCeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCE
Confidence            5899999999999999999                                                             


Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||+++++++..+..|+..+.......  .|+++|+||+|+...+.+..++++.+++.++++|++|||++|.||+++
T Consensus        81 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~  158 (169)
T d3raba_          81 FILMYDITNEESFNAVQDWSTQIKTYSWDN--AQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQT  158 (169)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHCCSC--CEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEECccchhhhhhhhhhhhhhcccCCc--ceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHH
Confidence            999999999999999999998887655554  999999999999887788888999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |+.|++.+.+
T Consensus       159 f~~l~~~i~e  168 (169)
T d3raba_         159 FERLVDVICE  168 (169)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhh
Confidence            9999998765

>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=99.91  E-value=7.6e-24  Score=147.32  Aligned_cols=88  Identities=23%  Similarity=0.246  Sum_probs=79.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCC-CHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGD-NCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~i~  109 (158)
                      +++|||++++.||+.+..|+.++.+.. ...  +|+++|+||+|+...+.++.+++..+++.+++.|+||||+++. ||+
T Consensus        79 ~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~--~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~  156 (169)
T d1x1ra1          79 FLIVYSVTDKASFEHVDRFHQLILRVKDRES--FPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVD  156 (169)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTSSC--CCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHH
T ss_pred             EEEecccccchhhhccchhhHHHHhhccccC--ccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHH
Confidence            999999999999999999999987543 333  8999999999999888889999999999999999999999875 999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      ++|+.|++.+.+
T Consensus       157 ~~F~~l~~~i~~  168 (169)
T d1x1ra1         157 KTFHDLVRVIRQ  168 (169)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998865

>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=99.91  E-value=5.2e-24  Score=147.94  Aligned_cols=90  Identities=18%  Similarity=0.136  Sum_probs=81.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|||++++.||+.+..|+.++..... ..  +|+++||||+|+...+.++..+++.+++.+++.|++|||++|.||++
T Consensus        75 ~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~--~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~  152 (168)
T d2gjsa1          75 YVIVYSVTDKGSFEKASELRVQLRRARQTDD--VPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQA  152 (168)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHCC--C--CCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHH
T ss_pred             hceeccccccccccccccccchhhccccccc--ceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHH
Confidence            8999999999999999999999885443 23  89999999999988778888999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      +|+.|++.+..+.
T Consensus       153 ~f~~l~~~i~~~~  165 (168)
T d2gjsa1         153 LFEGVVRQIRLRR  165 (168)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999887654

>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=99.91  E-value=2.4e-24  Score=149.75  Aligned_cols=90  Identities=21%  Similarity=0.153  Sum_probs=78.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||+++++||+.+..|+..+.+.......+|+++||||+|+...+.++.++++.+++.++++|++|||++|.||+++
T Consensus        77 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~  156 (171)
T d2erxa1          77 FILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKEL  156 (171)
T ss_dssp             EEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHH
T ss_pred             EEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHH
Confidence            99999999999999999999888754332223899999999999877788889999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |+.|++.+.+
T Consensus       157 f~~l~~~~~~  166 (171)
T d2erxa1         157 FQELLNLEKR  166 (171)
T ss_dssp             HHHHHHTCCS
T ss_pred             HHHHHHHHHH
Confidence            9999987654

>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=99.91  E-value=8.5e-24  Score=147.52  Aligned_cols=90  Identities=24%  Similarity=0.251  Sum_probs=80.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.||+.+..|+..+.+. ....  +|+++||||+|+...+.+..+++..+++.++++|++|||++|.||++
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e  158 (173)
T d2fn4a1          81 FLLVFAINDRQSFNEVGKLFTQILRVKDRDD--FPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDE  158 (173)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSC--CCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHH
T ss_pred             eeeecccccccccchhhhhhHHHHHHhccCC--CceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHH
Confidence            99999999999999999999998743 2333  89999999999987777888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHhH
Q psy2600         111 NTRTPEINPLKYL  123 (158)
Q Consensus       111 lf~~l~~~~~~~~  123 (158)
                      +|+.|++.+.+..
T Consensus       159 ~f~~l~~~i~k~~  171 (173)
T d2fn4a1         159 AFEQLVRAVRKYQ  171 (173)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999987653

>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=99.90  E-value=1.1e-23  Score=145.94  Aligned_cols=87  Identities=25%  Similarity=0.273  Sum_probs=80.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++++|+.+..|+..+.......  .|+++|+||+|+...+.+..++++.+++.+++.|++|||++|.||+++
T Consensus        80 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~  157 (167)
T d1z0ja1          80 AIIVYDITKEETFSTLKNWVRELRQHGPPS--IVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININEL  157 (167)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTT--SEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             eEEEeeechhhhhhhHHHhhhhhhhccCCc--ceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHH
Confidence            999999999999999999998888666655  999999999999887888899999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |..|++.++
T Consensus       158 f~~l~~~i~  166 (167)
T d1z0ja1         158 FIEISRRIP  166 (167)
T ss_dssp             HHHHHHHCC
T ss_pred             HHHHHHhCC
Confidence            999998863

>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=99.90  E-value=1.1e-23  Score=148.21  Aligned_cols=91  Identities=29%  Similarity=0.404  Sum_probs=81.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|||++++.+|+.+..|+.++.... ...  +|+++|+||+|+...+.+..+++..+++.++++|++|||++|.||++
T Consensus        91 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~i~e  168 (186)
T d2f7sa1          91 FLLMFDLTSQQSFLNVRNWMSQLQANAYCEN--PDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEK  168 (186)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHTCCCCCTTTC--CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBTHHH
T ss_pred             EEEEEeccccccceeeeeccchhhhhccCCC--ceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            999999999999999999998877433 233  89999999999988888999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhHh
Q psy2600         111 NTRTPEINPLKYLQ  124 (158)
Q Consensus       111 lf~~l~~~~~~~~~  124 (158)
                      +|+.+++.+.++.+
T Consensus       169 ~f~~l~~~i~~k~~  182 (186)
T d2f7sa1         169 AVETLLDLIMKRME  182 (186)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999887654

>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=99.90  E-value=1.5e-23  Score=145.80  Aligned_cols=108  Identities=26%  Similarity=0.444  Sum_probs=98.4

Q ss_pred             CcceEEEEEEECCCCCCeE-------------------------------------------------------------
Q psy2600          13 NYEIQLKVVLLGDPSCGKI-------------------------------------------------------------   31 (158)
Q Consensus        13 ~~~~~~ki~~~G~~~vgk~-------------------------------------------------------------   31 (158)
                      +|+|.+|++++|.+++|||                                                             
T Consensus         1 ~~~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~   80 (171)
T d2ew1a1           1 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANA   80 (171)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccce
Confidence            4889999999999999999                                                             


Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+..+.+.....  +|+++||||+|+...+.+..++++.+++.+++.|++|||++|.||+++
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~  158 (171)
T d2ew1a1          81 LILTYDITCEESFRCLPEWLREIEQYASNK--VITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKL  158 (171)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHH
T ss_pred             EEEeeecccchhhhhhhhhhhhhccccccc--ccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHH
Confidence            999999999999999999999988665554  999999999999877778888999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |..|++.+...
T Consensus       159 f~~l~~~l~~~  169 (171)
T d2ew1a1         159 FLDLACRLISE  169 (171)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999887653

>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=99.90  E-value=1.4e-23  Score=146.42  Aligned_cols=89  Identities=19%  Similarity=0.116  Sum_probs=80.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|||++++.||+.+..|+..+.... ...  +|+++|+||+|+...+.++.++++.+++.++++|++|||++|.||++
T Consensus        81 ~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~--~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~  158 (172)
T d2g3ya1          81 YLIVYSITDRASFEKASELRIQLRRARQTED--IPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKE  158 (172)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHTSGGGTT--SCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHH
T ss_pred             eeeeecccccchhhhhhhhhhhhhhccccCC--ceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHH
Confidence            999999999999999999999888432 233  99999999999988788889999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|+.|++.+..+
T Consensus       159 ~f~~l~~~i~~r  170 (172)
T d2g3ya1         159 LFEGIVRQVRLR  170 (172)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc
Confidence            999999988654

>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=99.90  E-value=1.2e-23  Score=146.13  Aligned_cols=88  Identities=20%  Similarity=0.201  Sum_probs=79.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.||+.+..|+.++.+.. ..+  +|+++||||+|+...+.++.++++.+++.+++.|++|||++|.||++
T Consensus        79 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e  156 (168)
T d1u8za_          79 FLCVFSITEMESFAATADFREQILRVKEDEN--VPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDK  156 (168)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHCCTT--SCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHH
T ss_pred             eEEEeeccchhhhhhHHHHHHHHHHhhCCCC--CcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHH
Confidence            999999999999999999999988543 233  89999999999988788889999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +|+.|++.+..
T Consensus       157 ~f~~l~~~i~~  167 (168)
T d1u8za_         157 VFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHC
Confidence            99999988754

>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=99.90  E-value=2.9e-23  Score=144.67  Aligned_cols=110  Identities=25%  Similarity=0.416  Sum_probs=100.7

Q ss_pred             CcceEEEEEEECCCCCCeE-------------------------------------------------------------
Q psy2600          13 NYEIQLKVVLLGDPSCGKI-------------------------------------------------------------   31 (158)
Q Consensus        13 ~~~~~~ki~~~G~~~vgk~-------------------------------------------------------------   31 (158)
                      .|||.+||+++|.++||||                                                             
T Consensus         1 ~~~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~   80 (174)
T d2bmea1           1 TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAG   80 (174)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSE
T ss_pred             CccEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCE
Confidence            4899999999999999999                                                             


Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||.+++++|..+..|+..+......+  +|+++|+||+|+..........+..+++.++++|++|||++|.||+++
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~  158 (174)
T d2bmea1          81 ALLVYDITSRETYNALTNWLTDARMLASQN--IVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEA  158 (174)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEecccchhHHHHhhhhcccccccCCc--eEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHH
Confidence            999999999999999999999988766555  999999999999877778888899999999999999999999999999


Q ss_pred             HHHHHHHHHHhHh
Q psy2600         112 TRTPEINPLKYLQ  124 (158)
Q Consensus       112 f~~l~~~~~~~~~  124 (158)
                      |.++++.+.++.+
T Consensus       159 f~~l~~~i~~~~~  171 (174)
T d2bmea1         159 FVQCARKILNKIE  171 (174)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999887654

>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=99.90  E-value=4.4e-23  Score=144.00  Aligned_cols=108  Identities=25%  Similarity=0.417  Sum_probs=97.7

Q ss_pred             cceEEEEEEECCCCCCeE-------------------------------------------------------------E
Q psy2600          14 YEIQLKVVLLGDPSCGKI-------------------------------------------------------------V   32 (158)
Q Consensus        14 ~~~~~ki~~~G~~~vgk~-------------------------------------------------------------~   32 (158)
                      +|+.+|++++|.++||||                                                             +
T Consensus         1 ~~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~   80 (175)
T d2f9la1           1 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGA   80 (175)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeE
Confidence            589999999999999998                                                             8


Q ss_pred             EEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHH
Q psy2600          33 IFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVNT  112 (158)
Q Consensus        33 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf  112 (158)
                      |+|||.+++.||..+..|+..+.+....+  +|+++||||+|+...+....+....+.+.++..|++|||++|.||+++|
T Consensus        81 i~v~d~~~~~S~~~~~~~~~~i~~~~~~~--~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f  158 (175)
T d2f9la1          81 LLVYDIAKHLTYENVERWLKELRDHADSN--IVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAF  158 (175)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEECCCcccchhHHHHHHHHHHhcCCC--CcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHH
Confidence            99999999999999999999998776655  9999999999998766677777888888899999999999999999999


Q ss_pred             HHHHHHHHHhH
Q psy2600         113 RTPEINPLKYL  123 (158)
Q Consensus       113 ~~l~~~~~~~~  123 (158)
                      +.+++.+.+..
T Consensus       159 ~~l~~~i~~~~  169 (175)
T d2f9la1         159 KNILTEIYRIV  169 (175)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999886544

>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=99.90  E-value=1.3e-23  Score=145.62  Aligned_cols=87  Identities=25%  Similarity=0.241  Sum_probs=79.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||+++++||+.+..|+..+.+.. ...  +|+++||||+|+...+.++.++++.+++.+++.|++|||++|.||++
T Consensus        79 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~  156 (167)
T d1xtqa1          79 YILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ--IPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVD  156 (167)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHCSSC--CCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHH
T ss_pred             hhhhcccchhhhhhhhhhhhhhhhhcccccc--cceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHH
Confidence            999999999999999999999987543 333  89999999999988778889999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         111 NTRTPEINPL  120 (158)
Q Consensus       111 lf~~l~~~~~  120 (158)
                      +|+.+++.+.
T Consensus       157 ~f~~li~~~~  166 (167)
T d1xtqa1         157 VFRRIILEAE  166 (167)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9999998775

>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=99.90  E-value=3.4e-23  Score=144.04  Aligned_cols=89  Identities=24%  Similarity=0.284  Sum_probs=80.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.||+.+..|+..+.... ...  .|+++|+||+|+...+.+..++++.+++.++++|++|||++|.||++
T Consensus        80 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~--~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e  157 (171)
T d2erya1          80 FLLVFSVTDRGSFEEIYKFQRQILRVKDRDE--FPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQ  157 (171)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTSSC--CSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHH
T ss_pred             EEEeeccccccchhhHHHHhHHHHhhcccCC--CCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHH
Confidence            999999999999999999998877433 333  89999999999988888889999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy2600         111 NTRTPEINPLKY  122 (158)
Q Consensus       111 lf~~l~~~~~~~  122 (158)
                      +|..|++.+.+.
T Consensus       158 ~f~~l~~~i~k~  169 (171)
T d2erya1         158 AFHELVRVIRKF  169 (171)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998653

>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=99.90  E-value=2.1e-23  Score=145.01  Aligned_cols=88  Identities=26%  Similarity=0.319  Sum_probs=80.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||.++..+|+.+..|+..+.+....+  +|+++|+||+|+...+.++.++++.+++.+++.|++|||++|.||+++
T Consensus        82 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~  159 (170)
T d1r2qa_          82 AIVVYDITNEESFARAKNWVKELQRQASPN--IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEI  159 (170)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEeccchhhHHHHHHHHhhhhhhccCCC--ceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHH
Confidence            999999999999999999999987655554  999999999999888888999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |+.|++.+.+
T Consensus       160 f~~l~~~i~~  169 (170)
T d1r2qa_         160 FMAIAKKLPK  169 (170)
T ss_dssp             HHHHHHTSCC
T ss_pred             HHHHHHHHhh
Confidence            9999987653

>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=99.89  E-value=2.6e-23  Score=143.49  Aligned_cols=87  Identities=29%  Similarity=0.408  Sum_probs=79.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.||+.+..|+..+.......  +|+++||||+|+...+.+..+++..+++.+++.|++|||++|.||+++
T Consensus        76 ~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~--~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~  153 (164)
T d1yzqa1          76 AVVVYDITNVNSFQQTTKWIDDVRTERGSD--VIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQL  153 (164)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTTS--SEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEeeccccccchhhhHhhHHHHHHhcCCC--ceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHH
Confidence            999999999999999999999988665544  999999999999877778888999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         112 TRTPEINPL  120 (158)
Q Consensus       112 f~~l~~~~~  120 (158)
                      |..|++.+.
T Consensus       154 f~~i~~~l~  162 (164)
T d1yzqa1         154 FRRVAAALP  162 (164)
T ss_dssp             HHHHHHHSC
T ss_pred             HHHHHHhhC
Confidence            999998764

>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=99.89  E-value=4.7e-23  Score=143.05  Aligned_cols=89  Identities=27%  Similarity=0.335  Sum_probs=78.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCC-CHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGD-NCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~i~  109 (158)
                      +++|||++++.||+.+..|+..... .....  .|+++||||+|+...+.++.++++.+++.+++.|++|||++|. ||+
T Consensus        76 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~  153 (168)
T d2atva1          76 FVLVYDITDRGSFEEVLPLKNILDEIKKPKN--VTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNIT  153 (168)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTTSC--CCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHH
T ss_pred             ceeecccCCccchhhhhhhcccccccccccC--cceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHH
Confidence            9999999999999999988776653 33333  8999999999998778889999999999999999999999998 699


Q ss_pred             HHHHHHHHHHHHh
Q psy2600         110 VNTRTPEINPLKY  122 (158)
Q Consensus       110 ~lf~~l~~~~~~~  122 (158)
                      ++|..|++.+.++
T Consensus       154 e~F~~l~~~i~~~  166 (168)
T d2atva1         154 EIFYELCREVRRR  166 (168)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988764

>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=99.89  E-value=2.5e-23  Score=144.13  Aligned_cols=88  Identities=23%  Similarity=0.171  Sum_probs=78.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC-CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK-SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.||..+..|+..+..... .+  +|+++||||+|+...+.+..+++..+++.+++.|++|||++|.||++
T Consensus        78 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~--~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e  155 (167)
T d1kaoa_          78 FILVYSLVNQQSFQDIKPMRDQIIRVKRYEK--VPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDE  155 (167)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTTSC--CCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHH
T ss_pred             eeeeeeecchhhhhhhhchhhhhhhhccCCC--CCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHH
Confidence            9999999999999999999998875432 33  89999999999987777888899999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +|..|++.+..
T Consensus       156 ~f~~i~~~i~~  166 (167)
T d1kaoa_         156 LFAEIVRQMNY  166 (167)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHcc
Confidence            99999987753

>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=99.89  E-value=7.3e-23  Score=141.80  Aligned_cols=87  Identities=22%  Similarity=0.202  Sum_probs=77.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh-CCeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL-HLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i~  109 (158)
                      +|+|||++++.||+.+..|+..+.+.. ...  +|+++||||+|+...+.+..+++..+++.+ ++.|++|||++|.||+
T Consensus        78 ~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~--~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~  155 (167)
T d1c1ya_          78 FALVYSITAQSTFNDLQDLREQILRVKDTED--VPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVN  155 (167)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSC--CCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHH
T ss_pred             eEEeeeccchhhhHhHHHHHHHHHHhcCCCC--CeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHH
Confidence            999999999999999999999887543 333  899999999999887788888889998885 6899999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         110 VNTRTPEINPL  120 (158)
Q Consensus       110 ~lf~~l~~~~~  120 (158)
                      ++|+.|++.+.
T Consensus       156 e~F~~l~~~i~  166 (167)
T d1c1ya_         156 EIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhc
Confidence            99999998774

>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=99.89  E-value=3.2e-22  Score=139.32  Aligned_cols=109  Identities=27%  Similarity=0.406  Sum_probs=91.5

Q ss_pred             CcceEEEEEEECCCCCCeE-------------------------------------------------------------
Q psy2600          13 NYEIQLKVVLLGDPSCGKI-------------------------------------------------------------   31 (158)
Q Consensus        13 ~~~~~~ki~~~G~~~vgk~-------------------------------------------------------------   31 (158)
                      .||+.+||+++|.+++|||                                                             
T Consensus         2 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~   81 (173)
T d2fu5c1           2 TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   81 (173)
T ss_dssp             CCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSE
T ss_pred             cccEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCE
Confidence            5899999999999999999                                                             


Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.||+.+..|+..+.......  .|+++|+||+|+...+....+++..++...++.|++|||++|.||.++
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~  159 (173)
T d2fu5c1          82 IMLVYDITNEKSFDNIRNWIRNIEEHASAD--VEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENA  159 (173)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHH
T ss_pred             EEEEEECCChhhHHHHHHHHHHhhhhccCC--ceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHH
Confidence            999999999999999999999988655554  999999999999877777778889999999999999999999999999


Q ss_pred             HHHHHHHHHHhH
Q psy2600         112 TRTPEINPLKYL  123 (158)
Q Consensus       112 f~~l~~~~~~~~  123 (158)
                      |++|++.+..+.
T Consensus       160 f~~l~~~i~~k~  171 (173)
T d2fu5c1         160 FFTLARDIKAKM  171 (173)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc
Confidence            999999987654

>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=99.89  E-value=1.1e-22  Score=143.29  Aligned_cols=105  Identities=19%  Similarity=0.216  Sum_probs=89.9

Q ss_pred             CcceEEEEEEECCCCCCeE------------------------------------------------------------E
Q psy2600          13 NYEIQLKVVLLGDPSCGKI------------------------------------------------------------V   32 (158)
Q Consensus        13 ~~~~~~ki~~~G~~~vgk~------------------------------------------------------------~   32 (158)
                      .....+|++++|+.+||||                                                            +
T Consensus         5 ~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~   84 (185)
T d2atxa1           5 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVF   84 (185)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEE
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceeeeeeEEEeeCCceEEeecccccccchhhhhhhhccccccee
Confidence            5678999999999999998                                                            9


Q ss_pred             EEEEECCChhHHhhHHHHHH-HHhhhcCCCCCcEEEEEEeCCCCCC------------CccccHHHHHHHHHHhC-CeEE
Q psy2600          33 IFMYDITSGQSFHSIPTWVD-LFHLNRKSSTPTYVALVANKGDMEH------------QRVVTLERHAKLAQSLH-LHSF   98 (158)
Q Consensus        33 i~v~d~~~~~s~~~~~~~~~-~~~~~~~~~~~~piilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~~   98 (158)
                      ++|||+++++||+++..|+. .++... .+  +|+++|+||+|+..            .+.++.+++..++++++ +.|+
T Consensus        85 ilv~d~t~~~Sf~~~~~~~~~~~~~~~-~~--~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~  161 (185)
T d2atxa1          85 LICFSVVNPASFQNVKEEWVPELKEYA-PN--VPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYV  161 (185)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHS-TT--CCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEE
T ss_pred             eeccccchHHHHHHHHHHHHHHHHhcC-CC--CCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEE
Confidence            99999999999998865444 444443 33  89999999999853            45678889999999987 7899


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHH
Q psy2600          99 AVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      ||||++|.||+++|+.+++.+.
T Consensus       162 E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         162 ECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EecCCCCcCHHHHHHHHHHHHc
Confidence            9999999999999999998875

>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=99.89  E-value=7.2e-23  Score=141.32  Aligned_cols=83  Identities=29%  Similarity=0.416  Sum_probs=74.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCC---CCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSART---GDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~~  107 (158)
                      +|+|||+++++||+.+..|+.++.++. ..+  +|+++||||+|+...+.++.++++.+++.+++.|++|||++   +.|
T Consensus        79 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~--~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~  156 (165)
T d1z06a1          79 VVFVYDMTNMASFHSLPAWIEECKQHLLAND--IPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDH  156 (165)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHCCCSC--CCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSC
T ss_pred             eEEEEEeehhhhhhhhhhhhHHHHhhccCCC--CeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcC
Confidence            999999999999999999999988643 233  89999999999988778899999999999999999999997   459


Q ss_pred             HHHHHHHHH
Q psy2600         108 CWVNTRTPE  116 (158)
Q Consensus       108 i~~lf~~l~  116 (158)
                      |+++|..|+
T Consensus       157 V~e~F~~lA  165 (165)
T d1z06a1         157 VEAIFMTLA  165 (165)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhC
Confidence            999999873

>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=99.88  E-value=2.3e-22  Score=139.12  Aligned_cols=87  Identities=21%  Similarity=0.226  Sum_probs=77.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhc-CCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNR-KSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                      +++|||++++.+|+.+..|+..+.+.. ...  +|+++|+||+|+.. +.+..++++.+++.+++.|++|||++|.||++
T Consensus        78 ~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~--~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e  154 (166)
T d1ctqa_          78 FLCVFAINNTKSFEDIHQYREQIKRVKDSDD--VPMVLVGNKCDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVED  154 (166)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTCSS--CCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHH
T ss_pred             cceeecccccccHHHHHHHHHHHHHhcCCCC--CeEEEEeccccccc-ccccHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Confidence            999999999999999999999998543 233  89999999999964 45677889999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2600         111 NTRTPEINPLK  121 (158)
Q Consensus       111 lf~~l~~~~~~  121 (158)
                      +|..|++.+.+
T Consensus       155 ~f~~i~~~i~~  165 (166)
T d1ctqa_         155 AFYTLVREIRQ  165 (166)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999988754

>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=99.88  E-value=5.4e-22  Score=137.72  Aligned_cols=106  Identities=32%  Similarity=0.479  Sum_probs=97.7

Q ss_pred             CcceEEEEEEECCCCCCeE-------------------------------------------------------------
Q psy2600          13 NYEIQLKVVLLGDPSCGKI-------------------------------------------------------------   31 (158)
Q Consensus        13 ~~~~~~ki~~~G~~~vgk~-------------------------------------------------------------   31 (158)
                      -||+.+|++++|+++||||                                                             
T Consensus         2 ~~d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d   81 (170)
T d2g6ba1           2 FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAH   81 (170)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCS
T ss_pred             CCceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCc
Confidence            5899999999999999999                                                             


Q ss_pred             -EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Q psy2600          32 -VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 -~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  110 (158)
                       +++|||++++.||..+..|+..+.......  .|+++|+||+|+.....+..+++..+++.+++.|++|||++|.||++
T Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e  159 (170)
T d2g6ba1          82 ALLLLYDVTNKASFDNIQAWLTEIHEYAQHD--VALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDL  159 (170)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHH
T ss_pred             eeEEEecCCcccchhhhhhhhhhhhhccCCC--ceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHH
Confidence             999999999999999999998887655544  89999999999988888888999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         111 NTRTPEINPL  120 (158)
Q Consensus       111 lf~~l~~~~~  120 (158)
                      +|+.|++.+.
T Consensus       160 ~f~~l~~~i~  169 (170)
T d2g6ba1         160 AFTAIAKELK  169 (170)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHcC
Confidence            9999998875

>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=99.88  E-value=7.1e-22  Score=137.45  Aligned_cols=92  Identities=26%  Similarity=0.373  Sum_probs=77.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC--CCCCcEEEEEEeCCCCCCC-ccccHHHHHHHHHHhC-CeEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK--SSTPTYVALVANKGDMEHQ-RVVTLERHAKLAQSLH-LHSFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~  107 (158)
                      +++|||++++.||+.+..|+.++..+..  ....+|+++|+||+|+... +.++.++++.+++.++ ++|++|||++|.|
T Consensus        79 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~g  158 (175)
T d1ky3a_          79 CVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAIN  158 (175)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBS
T ss_pred             EEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcC
Confidence            9999999999999999999999874322  1113899999999999754 3467788999999986 7899999999999


Q ss_pred             HHHHHHHHHHHHHHhH
Q psy2600         108 CWVNTRTPEINPLKYL  123 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~  123 (158)
                      |+++|++|++.+.++.
T Consensus       159 v~e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         159 VDTAFEEIARSALQQN  174 (175)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcc
Confidence            9999999999887653

>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=99.87  E-value=1.4e-22  Score=140.95  Aligned_cols=85  Identities=19%  Similarity=0.287  Sum_probs=74.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||+++++||+.+..|+..+.+....   +|+++||||+|+...+..  ++...+++.+++.|++|||++|.||+++
T Consensus        79 ~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~---~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~  153 (170)
T d1i2ma_          79 AIIMFDVTSRVTYKNVPNWHRDLVRVCEN---IPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKP  153 (170)
T ss_dssp             EEEEEETTSGGGGTTHHHHHHHHHHHHCS---CCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHH
T ss_pred             hhhccccccccccchhHHHHHHHhhccCC---Cceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999998865543   999999999999765433  3556778888999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         112 TRTPEINPLK  121 (158)
Q Consensus       112 f~~l~~~~~~  121 (158)
                      |++|++.+..
T Consensus       154 f~~l~~~l~~  163 (170)
T d1i2ma_         154 FLWLARKLIG  163 (170)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHcc
Confidence            9999998864

>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=99.87  E-value=4.7e-22  Score=138.88  Aligned_cols=86  Identities=22%  Similarity=0.217  Sum_probs=72.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCC------------CccccHHHHHHHHHHhC-CeE
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEH------------QRVVTLERHAKLAQSLH-LHS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~   97 (158)
                      +|+|||+++++||+.+..|+..+. .+.+ +  +|+++|+||+|+..            .+.++.+++..+++.++ ..|
T Consensus        77 ~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~-~--~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~  153 (177)
T d1kmqa_          77 ILMCFSIDSPDSLENIPEKWTPEVKHFCP-N--VPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGY  153 (177)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHST-T--SCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             hhhhcccchhHHHHHHHHHHHHHHHHhCC-C--CceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEE
Confidence            999999999999999876555544 4443 3  99999999999853            23467888999999988 589


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~  120 (158)
                      +||||++|.||+++|+.+++.+.
T Consensus       154 ~E~SAkt~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         154 MECSAKTKDGVREVFEMATRAAL  176 (177)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEecCCCCcCHHHHHHHHHHHHh
Confidence            99999999999999999998875

>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=99.87  E-value=1.6e-21  Score=135.80  Aligned_cols=89  Identities=18%  Similarity=0.268  Sum_probs=75.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcC--CCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC-CeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRK--SSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH-LHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i  108 (158)
                      ++++||.+++.||+.+..|+.++.....  ....+|+++||||+|+.+ +.+..++++.++++.+ ++|++|||++|.||
T Consensus        82 ~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI  160 (174)
T d1wmsa_          82 CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNV  160 (174)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTH
T ss_pred             EEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCH
Confidence            9999999999999999999998874321  112289999999999964 5678889999998865 88999999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2600         109 WVNTRTPEINPLK  121 (158)
Q Consensus       109 ~~lf~~l~~~~~~  121 (158)
                      +++|+.|++.+..
T Consensus       161 ~e~f~~l~~~il~  173 (174)
T d1wmsa_         161 AAAFEEAVRRVLA  173 (174)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988753

>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=99.87  E-value=2.4e-21  Score=137.25  Aligned_cols=108  Identities=25%  Similarity=0.385  Sum_probs=99.6

Q ss_pred             CcceEEEEEEECCCCCCeE-------------------------------------------------------------
Q psy2600          13 NYEIQLKVVLLGDPSCGKI-------------------------------------------------------------   31 (158)
Q Consensus        13 ~~~~~~ki~~~G~~~vgk~-------------------------------------------------------------   31 (158)
                      .|+|.+|++++|.+++|||                                                             
T Consensus         2 ~~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~   81 (194)
T d2bcgy1           2 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHG   81 (194)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCE
Confidence            5899999999999999999                                                             


Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +|+|||++++.+|..+..|+..+.+.....  +|+++|+||+|+.....+..++...+++..+..|+++||++|.||+++
T Consensus        82 ~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~--~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~  159 (194)
T d2bcgy1          82 IIIVYDVTDQESFNGVKMWLQEIDRYATST--VLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDA  159 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHH
T ss_pred             EEEEEeCcchhhhhhHhhhhhhhhhcccCC--ceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHH
Confidence            999999999999999999999888665554  999999999999988888889999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+.+++.+.+.
T Consensus       160 f~~l~~~i~~~  170 (194)
T d2bcgy1         160 FLTMARQIKES  170 (194)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988764

>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=99.86  E-value=1.6e-21  Score=135.19  Aligned_cols=87  Identities=33%  Similarity=0.362  Sum_probs=77.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC---CccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH---QRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      +++|||++++.||+.+..|+..+.......  .|+++|+||+|+..   .+.+..+++..+++.++++|++|||++|.||
T Consensus        79 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV  156 (170)
T d1ek0a_          79 ALVVYDVTKPQSFIKARHWVKELHEQASKD--IIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENV  156 (170)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTH
T ss_pred             EEEEEeCCcccchhhhhhhhhhhccccccc--cceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCH
Confidence            999999999999999999998887666555  89999999999853   4677888999999999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         109 WVNTRTPEINPL  120 (158)
Q Consensus       109 ~~lf~~l~~~~~  120 (158)
                      +++|..|++.++
T Consensus       157 ~e~F~~i~~~i~  168 (170)
T d1ek0a_         157 NDVFLGIGEKIP  168 (170)
T ss_dssp             HHHHHHHHTTSC
T ss_pred             HHHHHHHHHHhc
Confidence            999999988764

>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=99.85  E-value=8.4e-22  Score=138.33  Aligned_cols=87  Identities=17%  Similarity=0.196  Sum_probs=70.9

Q ss_pred             EEEEEECCChhHHhhHHH-HHHHHhhhcCCCCCcEEEEEEeCCCCCCC------------ccccHHHHHHHHHHhC-CeE
Q psy2600          32 VIFMYDITSGQSFHSIPT-WVDLFHLNRKSSTPTYVALVANKGDMEHQ------------RVVTLERHAKLAQSLH-LHS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~   97 (158)
                      +++|||+++++||+++.. |...++.+.. +  +|+++|+||+|+...            +.....++..+++.++ +.|
T Consensus        80 ~ilv~d~~~~~sf~~i~~~~~~~~~~~~~-~--~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  156 (183)
T d1mh1a_          80 SLICFSLVSPASFENVRAKWYPEVRHHCP-N--TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY  156 (183)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHST-T--SCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             eeeeeccchHHHHHHHHHHHHHHHHHhCC-C--CcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceE
Confidence            999999999999999976 5555444433 3  899999999997533            2345667888888887 789


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        98 ~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +||||++|.||+++|+.+++.+..
T Consensus       157 ~E~SAk~~~~V~e~F~~l~~~il~  180 (183)
T d1mh1a_         157 LECSALTQRGLKTVFDEAIRAVLC  180 (183)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHSC
T ss_pred             EEcCCCCCcCHHHHHHHHHHHHcC
Confidence            999999999999999999998753

>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=99.85  E-value=3.7e-21  Score=135.93  Aligned_cols=89  Identities=20%  Similarity=0.148  Sum_probs=73.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCC------------CccccHHHHHHHHHHhC-CeEE
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEH------------QRVVTLERHAKLAQSLH-LHSF   98 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~~   98 (158)
                      +++|||+++++||+++..|+.........+  +|+++|+||+|+..            ...+..+++..+++.++ ..|+
T Consensus        78 ~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~--~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  155 (191)
T d2ngra_          78 FLVCFSVVSPSSFENVKEKWVPEITHHCPK--TPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYV  155 (191)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCTT--CCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEE
T ss_pred             eecccccchHHHHHHHHHHHHHHHhhcCCC--CceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEE
Confidence            999999999999999986555544333333  99999999999853            33577889999999864 7899


Q ss_pred             EEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          99 AVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      ||||++|.||+++|+.+++.+.+.
T Consensus       156 e~SAk~~~~V~e~f~~l~~~~~~~  179 (191)
T d2ngra_         156 ECSALTQKGLKNVFDEAILAALEP  179 (191)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHTSC
T ss_pred             EEeCCCCcCHHHHHHHHHHHHhcC
Confidence            999999999999999999877553

>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=99.84  E-value=1.1e-20  Score=132.54  Aligned_cols=91  Identities=23%  Similarity=0.331  Sum_probs=74.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCC--CCCcEEEEEEeCCCCCCCccccHHHHHHHHHH-hCCeEEEEeCCCCCCH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKS--STPTYVALVANKGDMEHQRVVTLERHAKLAQS-LHLHSFAVSARTGDNC  108 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~i  108 (158)
                      +++|||.++..+|+.+..|++++......  ...+|+++|+||+|+.+. .+..++...++.. .++.|++|||++|.||
T Consensus        78 ~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI  156 (184)
T d1vg8a_          78 CVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR-QVATKRAQAWCYSKNNIPYFETSAKEAINV  156 (184)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCC-CSCHHHHHHHHHHTTSCCEEECBTTTTBSH
T ss_pred             EEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeeccccc-chhHHHHHHHHHHhcCCeEEEEcCCCCcCH
Confidence            99999999999999999999988744221  112899999999999754 4556677777655 5789999999999999


Q ss_pred             HHHHHHHHHHHHHhH
Q psy2600         109 WVNTRTPEINPLKYL  123 (158)
Q Consensus       109 ~~lf~~l~~~~~~~~  123 (158)
                      .++|+++++.+.+..
T Consensus       157 ~e~f~~l~~~i~~~~  171 (184)
T d1vg8a_         157 EQAFQTIARNALKQE  171 (184)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999887753

>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=99.84  E-value=5.8e-21  Score=133.77  Aligned_cols=87  Identities=18%  Similarity=0.166  Sum_probs=72.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCC------------CccccHHHHHHHHHHhC-CeE
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEH------------QRVVTLERHAKLAQSLH-LHS   97 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~   97 (158)
                      +++|||+++++||+.+..|+.... .... +  +|+++||||+|+..            .+.++.+++..++++++ ..|
T Consensus        77 ~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~-~--~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y  153 (179)
T d1m7ba_          77 VLICFDISRPETLDSVLKKWKGEIQEFCP-N--TKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATY  153 (179)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCT-T--CEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE
T ss_pred             hheeeecccCCCHHHHHHHHHHHHhccCC-c--ceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeE
Confidence            999999999999999987655544 4443 3  99999999999852            45578889999999987 579


Q ss_pred             EEEeCCCCCC-HHHHHHHHHHHHHH
Q psy2600          98 FAVSARTGDN-CWVNTRTPEINPLK  121 (158)
Q Consensus        98 ~~~Sa~~~~~-i~~lf~~l~~~~~~  121 (158)
                      +||||++|.| |+++|+.+++.+.+
T Consensus       154 ~E~SAk~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         154 IECSALQSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             EECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             EEEeCCCCCcCHHHHHHHHHHHHhc
Confidence            9999999985 99999999988764

>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=99.82  E-value=1e-19  Score=127.10  Aligned_cols=93  Identities=18%  Similarity=0.191  Sum_probs=76.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCC-CCCcEEEEEEeCCCCC--CCccccHHHHHHHHHH-hCCeEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKS-STPTYVALVANKGDME--HQRVVTLERHAKLAQS-LHLHSFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~--~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~  107 (158)
                      +|+|||++++.||+.+..|+..+...... ...+|+++|+||.|+.  ..+.+..+++..+++. +++.|++|||++|.|
T Consensus        74 ~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~  153 (175)
T d2bmja1          74 VIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLN  153 (175)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBT
T ss_pred             eEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcC
Confidence            99999999999999999999888644321 1128999999988874  4556778888888765 568899999999999


Q ss_pred             HHHHHHHHHHHHHHhHh
Q psy2600         108 CWVNTRTPEINPLKYLQ  124 (158)
Q Consensus       108 i~~lf~~l~~~~~~~~~  124 (158)
                      |+++|..+++.+.....
T Consensus       154 v~~~F~~l~~~i~~~~~  170 (175)
T d2bmja1         154 VDRVFQEVAQKVVTLRK  170 (175)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhh
Confidence            99999999998877643

>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=99.81  E-value=4.6e-19  Score=123.50  Aligned_cols=89  Identities=24%  Similarity=0.285  Sum_probs=78.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||++++.+|+.+..|+.++.+..... ..|+++++||.|... +.+...++..+++.+++.|++|||++|.||+++
T Consensus        83 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~-~~~i~~~~nk~d~~~-~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~  160 (177)
T d1x3sa1          83 VILVYDVTRRDTFVKLDNWLNELETYCTRN-DIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCA  160 (177)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHTTCCSCS-CCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEECCCccccccchhhhhhhccccccc-ceeeEEEeecccccc-ccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHH
Confidence            999999999999999999999987543321 289999999999754 567788899999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+++++.+.+.
T Consensus       161 f~~l~~~l~~~  171 (177)
T d1x3sa1         161 FEELVEKIIQT  171 (177)
T ss_dssp             HHHHHHHHHTS
T ss_pred             HHHHHHHHccC
Confidence            99999988764

>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=99.80  E-value=8.6e-19  Score=120.77  Aligned_cols=88  Identities=31%  Similarity=0.388  Sum_probs=78.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++|||.++++||+.+..|+..........  .|++++++|.|+.. +....+++..+++.++++|++|||++|.||+++
T Consensus        78 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~  154 (166)
T d1g16a_          78 IILVYDITDERTFTNIKQWFKTVNEHANDE--AQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEI  154 (166)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCTT-CCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHH
T ss_pred             EEEEEECCCccCHHHHHhhhhhhhccccCc--ceeeeecchhhhhh-hhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHH
Confidence            999999999999999999988888666554  89999999999864 445678899999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      |+.|++.+.++
T Consensus       155 f~~l~~~i~~k  165 (166)
T d1g16a_         155 FFTLAKLIQEK  165 (166)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhc
Confidence            99999988764

>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=99.77  E-value=1.3e-19  Score=126.76  Aligned_cols=87  Identities=17%  Similarity=0.052  Sum_probs=66.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHHHHH-----HHHHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLERHAK-----LAQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~  105 (158)
                      +++|||++++.++.....|+..+.. .....  +|+++|+||+|+....  +..+...     .+...++.+++|||++|
T Consensus        88 ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~--~piliv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~SA~~g  163 (182)
T d1moza_          88 VIFVVDSTDKDRMSTASKELHLMLQEEELQD--AALLVFANKQDQPGAL--SASEVSKELNLVELKDRSWSIVASSAIKG  163 (182)
T ss_dssp             EEEEEETTCTTTHHHHHHHHHHHTTSSTTSS--CEEEEEEECTTSTTCC--CHHHHHHHTTTTTCCSSCEEEEEEBGGGT
T ss_pred             EEEEeeecccccchhHHHHHHHHHHhhccCC--cceEEEEEeecccccc--CHHHHHHHHHHHHHhhCCCEEEEEECCCC
Confidence            9999999999999999888877653 22233  9999999999996432  2223222     12233567999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy2600         106 DNCWVNTRTPEINPLKY  122 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~~  122 (158)
                      .||+++|++|++.+.+.
T Consensus       164 ~gv~e~~~~l~~~i~~~  180 (182)
T d1moza_         164 EGITEGLDWLIDVIKEE  180 (182)
T ss_dssp             BTHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHc
Confidence            99999999999998764

>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=99.76  E-value=8.6e-19  Score=121.60  Aligned_cols=83  Identities=18%  Similarity=0.105  Sum_probs=63.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHHHHH-----HHHHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLERHAK-----LAQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~  105 (158)
                      +++|||+++..+|..+..|+..+.. .....  +|+++|+||+|+.....  .....+     .++..++.+++|||++|
T Consensus        87 ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~--~pillv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~tg  162 (176)
T d1fzqa_          87 LIYVIDSADRKRFEETGQELTELLEEEKLSC--VPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTG  162 (176)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHTTCGGGTT--CCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTC
T ss_pred             eEEeeccccccchhhhhhhhhhhhhhhccCC--CeEEEEEEecccccccc--HHHHHHHHHHHHHHhcCCEEEEEeCCCC
Confidence            9999999999999999888877763 33333  89999999999975332  222222     12223467999999999


Q ss_pred             CCHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEIN  118 (158)
Q Consensus       106 ~~i~~lf~~l~~~  118 (158)
                      .||+++|++|++.
T Consensus       163 ~gv~e~~~~l~~~  175 (176)
T d1fzqa_         163 EGVQDGMNWVCKN  175 (176)
T ss_dssp             TTHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHhc
Confidence            9999999999875

>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=99.75  E-value=4.2e-19  Score=123.18  Aligned_cols=84  Identities=13%  Similarity=0.089  Sum_probs=63.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHHHHH-----HHHHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLERHAK-----LAQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~  105 (158)
                      +++|||+++..++..+..|+....+ .....  +|+++|+||+|+.....  ..+...     .++..++.+++|||++|
T Consensus        83 ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~--~piiiv~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~SA~tg  158 (173)
T d1e0sa_          83 LIFVVDCADRDRIDEARQELHRIINDREMRD--AIILIFANKQDLPDAMK--PHEIQEKLGLTRIRDRNWYVQPSCATSG  158 (173)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTSGGGTT--CEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECBTTTT
T ss_pred             EEEEEecccchhHHHHHHHHHHHhhhccccc--ceeeeeeeccccccccc--HHHHHHHHHHHHHHhCCCEEEEeeCCCC
Confidence            9999999999999999888777653 33333  99999999999974322  222221     12223567899999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINP  119 (158)
Q Consensus       106 ~~i~~lf~~l~~~~  119 (158)
                      +||.++|++|.+.+
T Consensus       159 ~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         159 DGLYEGLTWLTSNY  172 (173)
T ss_dssp             BTHHHHHHHHHHHC
T ss_pred             cCHHHHHHHHHHhc
Confidence            99999999998764

>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=99.74  E-value=5.7e-18  Score=116.31  Aligned_cols=86  Identities=16%  Similarity=0.103  Sum_probs=64.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHH-----HHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA-----QSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~  105 (158)
                      +++|||+++..++.....|+.... .....+  +|+++|+||+|+.....+.  +.....     +..++.+++|||++|
T Consensus        73 ~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~--~p~iiv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~g  148 (165)
T d1ksha_          73 LIWVVDSADRQRMQDCQRELQSLLVEERLAG--ATLLIFANKQDLPGALSCN--AIQEALELDSIRSHHWRIQGCSAVTG  148 (165)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCGGGTT--CEEEEEEECTTSTTCCCHH--HHHHHTTGGGCCSSCEEEEECCTTTC
T ss_pred             ceeeeecccchhHHHHHHhhhhhhhhcccCC--CceEEEEeccccccccCHH--HHHHHHHhhhhhcCCCEEEEEECCCC
Confidence            999999999999999876666554 333333  9999999999997544332  222221     122457899999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~  121 (158)
                      .||.++|++|++.+..
T Consensus       149 ~gv~e~~~~l~~~i~~  164 (165)
T d1ksha_         149 EDLLPGIDWLLDDISS  164 (165)
T ss_dssp             TTHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHc
Confidence            9999999999988754

>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=99.72  E-value=1.8e-18  Score=118.93  Aligned_cols=84  Identities=13%  Similarity=0.144  Sum_probs=63.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHHH-HHH----HHHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLERH-AKL----AQSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~-~~~----~~~~~~~~~~~Sa~~~  105 (158)
                      +++|||+++..+|+....|+..+.+ ....+  +|+++|+||+|+.....  ..+. +.+    ++..+..++++||++|
T Consensus        74 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~--~pi~lv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~Sa~~g  149 (164)
T d1zd9a1          74 IVYMVDAADQEKIEASKNELHNLLDKPQLQG--IPVLVLGNKRDLPGALD--EKELIEKMNLSAIQDREICCYSISCKEK  149 (164)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCGGGTT--CCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTC
T ss_pred             hhcccccccccccchhhhhhhhhhhhhcccC--CcEEEEEeccccchhhh--HHHHHHHHHHHHHHhCCCEEEEEeCcCC
Confidence            9999999999999999988887763 33333  99999999999864322  2222 222    2233567899999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINP  119 (158)
Q Consensus       106 ~~i~~lf~~l~~~~  119 (158)
                      .||+++|++|++.+
T Consensus       150 ~gv~e~~~~l~~~~  163 (164)
T d1zd9a1         150 DNIDITLQWLIQHS  163 (164)
T ss_dssp             TTHHHHHHHHHHTC
T ss_pred             cCHHHHHHHHHHcc
Confidence            99999999998864

>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=99.71  E-value=4.4e-18  Score=115.52  Aligned_cols=86  Identities=14%  Similarity=0.065  Sum_probs=64.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccc---cHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVV---TLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      ++++||.+++.++.....|+.++.. .....  +|+++++||+|+......   .......+++..++.+++|||++|.|
T Consensus        71 ~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~--~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~g  148 (160)
T d1r8sa_          71 LIFVVDSNDRERVNEAREELMRMLAEDELRD--AVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDG  148 (160)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCGGGTT--CEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBT
T ss_pred             EEEEEEecChHHHHHHHHHHHHHHHhhcccC--ceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCC
Confidence            9999999999999999888877763 22233  899999999998743321   11111223334467799999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINP  119 (158)
Q Consensus       108 i~~lf~~l~~~~  119 (158)
                      |+++|++|++.+
T Consensus       149 i~e~~~~l~~~l  160 (160)
T d1r8sa_         149 LYEGLDWLSNQL  160 (160)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcC
Confidence            999999998763

>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=99.66  E-value=9e-17  Score=111.01  Aligned_cols=84  Identities=15%  Similarity=0.077  Sum_probs=61.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhh-hcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHH-----HHhCCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHL-NRKSSTPTYVALVANKGDMEHQRVVTLERHAKLA-----QSLHLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~  105 (158)
                      +++++|.++..+++....+...... .....  .|+++|+||+|+.....  ..+.....     ...+++++++||++|
T Consensus        86 ~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~--~p~iiv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~Sa~tg  161 (177)
T d1zj6a1          86 VIVVVDSTDRERISVTREELYKMLAHEDLRK--AGLLIFANKQDVKECMT--VAEISQFLKLTSIKDHQWHIQACCALTG  161 (177)
T ss_dssp             EEEEEETTCTTTHHHHHHHHHHHHTSGGGTT--CEEEEEEECTTSTTCCC--HHHHHHHHTGGGCCSSCEEEEECBTTTT
T ss_pred             eeeecccccccchhhhhhhhhhhhhcccccc--eEEEEEEEcccccccCc--HHHHHHHHHHHhhHhcCCEEEEEeCCCC
Confidence            8999999999999887766555542 22223  99999999999865332  22222222     223467999999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINP  119 (158)
Q Consensus       106 ~~i~~lf~~l~~~~  119 (158)
                      +||+++|++|++.+
T Consensus       162 ~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         162 EGLCQGLEWMMSRL  175 (177)
T ss_dssp             BTHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999999876

>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=99.63  E-value=4.4e-16  Score=106.07  Aligned_cols=88  Identities=15%  Similarity=0.036  Sum_probs=62.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCCccc---cHHHHHHHHHHhCCeEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVV---TLERHAKLAQSLHLHSFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~~  107 (158)
                      +++++|+++..++.....+..... ......  .|+++|+||+|+......   ....+..++...+++|++|||++|.|
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~g  153 (169)
T d1upta_          76 VIYVVDSCDRDRIGISKSELVAMLEEEELRK--AILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTG  153 (169)
T ss_dssp             EEEEEETTCCTTHHHHHHHHHHHHTCGGGTT--CEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTT
T ss_pred             hhhhhhhhhcchhhhccchhhhhhhhhcccc--ceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCC
Confidence            899999998888888766544443 333333  899999999999753321   11111223334457899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINPLK  121 (158)
Q Consensus       108 i~~lf~~l~~~~~~  121 (158)
                      |+++|++|++.+.+
T Consensus       154 v~e~~~~l~~~l~~  167 (169)
T d1upta_         154 LDEAMEWLVETLKS  167 (169)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999998754

>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=99.52  E-value=4.4e-14  Score=95.31  Aligned_cols=82  Identities=11%  Similarity=0.069  Sum_probs=59.8

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhh-cCCCCCcEEEEEEeCCCCCCCccccHHHHHHHH------------HHhCCeEE
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLN-RKSSTPTYVALVANKGDMEHQRVVTLERHAKLA------------QSLHLHSF   98 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~------------~~~~~~~~   98 (158)
                      +++++|.++..++.....|....... ....  .|+++++||.|+....  ...+.....            ...++.++
T Consensus        71 ~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~--~~i~i~~~k~d~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~  146 (166)
T d2qtvb1          71 IVFLVDAADPERFDEARVELDALFNIAELKD--VPFVILGNKIDAPNAV--SEAELRSALGLLNTTGSQRIEGQRPVEVF  146 (166)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCTTTTT--CCEEEEEECTTSSSCC--CHHHHHHHHTCSSCCC---CCSSCCEEEE
T ss_pred             eeeeccccchhhhhhhhHHHHhhhhhhccCC--ceEEEEeccccccccC--CHHHHHHHhhhhhhhHHHhhcccCCCEEE
Confidence            99999999999998888777776632 2233  8999999999986432  222222211            11234689


Q ss_pred             EEeCCCCCCHHHHHHHHHH
Q psy2600          99 AVSARTGDNCWVNTRTPEI  117 (158)
Q Consensus        99 ~~Sa~~~~~i~~lf~~l~~  117 (158)
                      +|||++|+||.|+|++|.+
T Consensus       147 ~~SA~tg~Gv~e~~~~l~~  165 (166)
T d2qtvb1         147 MCSVVMRNGYLEAFQWLSQ  165 (166)
T ss_dssp             EEBTTTTBSHHHHHHHHTT
T ss_pred             EeeCCCCCCHHHHHHHHhC
Confidence            9999999999999999875

>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=99.52  E-value=1.9e-15  Score=102.91  Aligned_cols=77  Identities=21%  Similarity=0.249  Sum_probs=58.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      +++++|.++..+++....|...+......   +|+++|+||+|+.......       .+..+.+++++||++|.||++|
T Consensus        84 ~i~~~d~~~~~~~~~~~~~~~~~~~~~~~---~~iilv~NK~Dl~~~~~~~-------~~~~~~~~~~iSAk~~~gi~~L  153 (161)
T d2gj8a1          84 VLFMVDGTTTDAVDPAEIWPEFIARLPAK---LPITVVRNKADITGETLGM-------SEVNGHALIRLSARTGEGVDVL  153 (161)
T ss_dssp             EEEEEETTTCCCCSHHHHCHHHHHHSCTT---CCEEEEEECHHHHCCCCEE-------EEETTEEEEECCTTTCTTHHHH
T ss_pred             cceeeccccccchhhhhhhhhhhhhcccc---cceeeccchhhhhhhHHHH-------HHhCCCcEEEEECCCCCCHHHH
Confidence            88999999888887777776666644332   8999999999985432211       1223578999999999999999


Q ss_pred             HHHHHHH
Q psy2600         112 TRTPEIN  118 (158)
Q Consensus       112 f~~l~~~  118 (158)
                      ++.|.+.
T Consensus       154 ~~~l~~~  160 (161)
T d2gj8a1         154 RNHLKQS  160 (161)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhh
Confidence            9999875

>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=99.49  E-value=3.7e-14  Score=98.18  Aligned_cols=82  Identities=13%  Similarity=-0.034  Sum_probs=58.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC-CeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH-LHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~  110 (158)
                      +|+|+|+++.....+ ..|.+.++.....   .|+++|+||+|+....   .+....+.+.++ ..++++||++|.||++
T Consensus        88 il~v~D~~~~~~~~~-~~i~~~l~~~~~~---~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~~~gi~~  160 (178)
T d1wf3a1          88 VVWVVDLRHPPTPED-ELVARALKPLVGK---VPILLVGNKLDAAKYP---EEAMKAYHELLPEAEPRMLSALDERQVAE  160 (178)
T ss_dssp             EEEEEETTSCCCHHH-HHHHHHHGGGTTT---SCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEEEECCTTCHHHHHH
T ss_pred             eeeeechhhhhcccc-cchhhheeccccc---hhhhhhhcccccccCH---HHHHHHHHhhcccCceEEEecCCCCCHHH
Confidence            789999987533222 3455555544332   8999999999986532   233444555555 5789999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         111 NTRTPEINPL  120 (158)
Q Consensus       111 lf~~l~~~~~  120 (158)
                      |++.|++.++
T Consensus       161 L~~~i~~~lp  170 (178)
T d1wf3a1         161 LKADLLALMP  170 (178)
T ss_dssp             HHHHHHTTCC
T ss_pred             HHHHHHHhCC
Confidence            9999998764

>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=99.48  E-value=9.4e-14  Score=95.63  Aligned_cols=84  Identities=14%  Similarity=0.080  Sum_probs=59.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHH-----------------Hh
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQ-----------------SL   93 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----------------~~   93 (158)
                      +++++|.++...+.....++.... ......  .|+++++||.|+....  ...+......                 ..
T Consensus        84 ~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~--~~~li~~~K~D~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~  159 (186)
T d1f6ba_          84 IVFLVDCADHERLLESKEELDSLMTDETIAN--VPILILGNKIDRPEAI--SEERLREMFGLYGQTTGKGSVSLKELNAR  159 (186)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCGGGTT--SCEEEEEECTTSTTCC--CHHHHHHHHTCTTTCCCSSCCCTTTCCSC
T ss_pred             eeeeeeccCccchHHHHHHHHHhhcccccCC--CceEEEEeccCccccC--CHHHHHHHHhhcccchhhhhhhHHHhhcC
Confidence            999999999988888765554444 222233  9999999999986432  2333332221                 11


Q ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHH
Q psy2600          94 HLHSFAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        94 ~~~~~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      ++.+++|||++|+||+|+|++|++.+
T Consensus       160 ~~~~~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         160 PLEVFMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             CEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHhh
Confidence            34689999999999999999998764

>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=99.42  E-value=2.1e-13  Score=94.78  Aligned_cols=88  Identities=15%  Similarity=0.095  Sum_probs=56.4

Q ss_pred             EEEEEECCChhHHhh-----------HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCC---------------ccccHHH
Q psy2600          32 VIFMYDITSGQSFHS-----------IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQ---------------RVVTLER   85 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~-----------~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~---------------~~~~~~~   85 (158)
                      +++|||+++..+|..           ...|...+.......  .|+++++||+|+...               ......+
T Consensus        69 ~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~--~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (195)
T d1svsa1          69 IIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTD--TSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEE  146 (195)
T ss_dssp             EEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTT--SEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHH
T ss_pred             eeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCC--CCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHH
Confidence            999999999887743           234544444333333  899999999996210               0111122


Q ss_pred             HHH-----HHHH------hCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          86 HAK-----LAQS------LHLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        86 ~~~-----~~~~------~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +..     +.+.      .++.+++|||+++.||+++|+.+.+.+.+
T Consensus       147 ~~~~~~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~  193 (195)
T d1svsa1         147 AAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIK  193 (195)
T ss_dssp             HHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHh
Confidence            211     1111      12456799999999999999999887765

>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=99.41  E-value=3.6e-13  Score=93.19  Aligned_cols=85  Identities=14%  Similarity=0.100  Sum_probs=57.7

Q ss_pred             EEEEEECCCh--hHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSG--QSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~--~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  109 (158)
                      +++++|....  .++.....|+.........   +|+++|+||+|+.....  ...........+.+++.+||++|.||+
T Consensus        83 ~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~---~p~iiv~NK~D~~~~~~--~~~~~~~~~~~~~~~~~iSA~tg~gid  157 (180)
T d1udxa2          83 LLYVLDAADEPLKTLETLRKEVGAYDPALLR---RPSLVALNKVDLLEEEA--VKALADALAREGLAVLPVSALTGAGLP  157 (180)
T ss_dssp             EEEEEETTSCHHHHHHHHHHHHHHHCHHHHH---SCEEEEEECCTTSCHHH--HHHHHHHHHTTTSCEEECCTTTCTTHH
T ss_pred             hhhhcccccccccchhhhhhhhhccccccch---hhhhhhhhhhhhhhHHH--HHHHHHHHHhcCCeEEEEEcCCCCCHH
Confidence            7788887543  2333344455443321111   89999999999865332  223344445567899999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2600         110 VNTRTPEINPLK  121 (158)
Q Consensus       110 ~lf~~l~~~~~~  121 (158)
                      +|++.|.+.+..
T Consensus       158 ~L~~~i~~~l~~  169 (180)
T d1udxa2         158 ALKEALHALVRS  169 (180)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhh
Confidence            999999888754

>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=99.40  E-value=3.3e-14  Score=99.33  Aligned_cols=89  Identities=12%  Similarity=0.085  Sum_probs=59.8

Q ss_pred             EEEEEECCChh-----------HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc----------------cccHH
Q psy2600          32 VIFMYDITSGQ-----------SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQR----------------VVTLE   84 (158)
Q Consensus        32 ~i~v~d~~~~~-----------s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----------------~~~~~   84 (158)
                      ++++||.++..           .++....|...+.......  .|+++++||+|+...+                ..+..
T Consensus        72 ~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~--~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  149 (200)
T d2bcjq2          72 IMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQN--SSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQ  149 (200)
T ss_dssp             EEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSS--SEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHH
T ss_pred             eeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccC--ccEEEecchhhhhhhcccchHHHHhcccccCCchhHH
Confidence            88999988753           3455667777776544444  9999999999973111                11222


Q ss_pred             HHHHHHHH----------hCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          85 RHAKLAQS----------LHLHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        85 ~~~~~~~~----------~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      ....+...          ..+.+++|||++|.||.++|+.+.+.+.+.
T Consensus       150 ~~~~~i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         150 AAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             HHHHHHHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence            22222221          123478999999999999999998888754

>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=99.38  E-value=5.7e-13  Score=91.40  Aligned_cols=83  Identities=20%  Similarity=0.063  Sum_probs=54.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNCWVN  111 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  111 (158)
                      ++++.|.+..... ....|+..++...     +|+++|+||+|+....  ..+....+.+.....++++||++|.||+++
T Consensus        84 i~~~~~~~~~~~~-~~~~~~~~l~~~~-----~pviiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~i~iSAk~g~gid~L  155 (171)
T d1mkya1          84 VLFVVDGKRGITK-EDESLADFLRKST-----VDTILVANKAENLREF--EREVKPELYSLGFGEPIPVSAEHNINLDTM  155 (171)
T ss_dssp             EEEEEETTTCCCH-HHHHHHHHHHHHT-----CCEEEEEESCCSHHHH--HHHTHHHHGGGSSCSCEECBTTTTBSHHHH
T ss_pred             EEEeecccccccc-ccccccccccccc-----ccccccchhhhhhhhh--hhHHHHHHHhcCCCCeEEEecCCCCCHHHH
Confidence            6666766543322 2245556666554     8999999999985321  111122222222346789999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2600         112 TRTPEINPLKY  122 (158)
Q Consensus       112 f~~l~~~~~~~  122 (158)
                      +++|.+.+.+.
T Consensus       156 ~~~i~~~l~e~  166 (171)
T d1mkya1         156 LETIIKKLEEK  166 (171)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHhCCCC
Confidence            99999988764

>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=99.36  E-value=1.9e-12  Score=90.55  Aligned_cols=82  Identities=13%  Similarity=0.000  Sum_probs=55.7

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHh----CCeEEEEeCCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSL----HLHSFAVSARTGDN  107 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~  107 (158)
                      ++++.|.+.... .....+++.+....     +|+++|+||+|+...... .+....+.+.+    +..++.+||++|.|
T Consensus       109 vi~viD~~~~~~-~~~~~~~~~l~~~~-----~piivv~NK~D~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~SA~~~~g  181 (195)
T d1svia_         109 VVQIVDLRHAPS-NDDVQMYEFLKYYG-----IPVIVIATKADKIPKGKW-DKHAKVVRQTLNIDPEDELILFSSETKKG  181 (195)
T ss_dssp             EEEEEETTSCCC-HHHHHHHHHHHHTT-----CCEEEEEECGGGSCGGGH-HHHHHHHHHHHTCCTTSEEEECCTTTCTT
T ss_pred             hhhhhhcccccc-cccccccccccccc-----CcceechhhccccCHHHH-HHHHHHHHHHhcccCCCCEEEEeCCCCCC
Confidence            788889865421 22235555555544     899999999998643332 22333333332    35689999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2600         108 CWVNTRTPEINPL  120 (158)
Q Consensus       108 i~~lf~~l~~~~~  120 (158)
                      ++++++.|.+.+.
T Consensus       182 i~el~~~i~~~l~  194 (195)
T d1svia_         182 KDEAWGAIKKMIN  194 (195)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999988763

>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=99.34  E-value=9.2e-12  Score=86.13  Aligned_cols=84  Identities=20%  Similarity=0.122  Sum_probs=55.9

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH-h----CCeEEEEeCCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS-L----HLHSFAVSARTGD  106 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-~----~~~~~~~Sa~~~~  106 (158)
                      +++|+|++.... .....+...+....     .|+++|+||+|+.........+.....+. .    ..+++.+||++|.
T Consensus        95 ii~v~d~~~~~~-~~~~~~~~~~~~~~-----~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~  168 (186)
T d1mkya2          95 VVIVLDATQGIT-RQDQRMAGLMERRG-----RASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGW  168 (186)
T ss_dssp             EEEEEETTTCCC-HHHHHHHHHHHHTT-----CEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTB
T ss_pred             EEEeecccccch-hhHHHHHHHHHHcC-----CceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEEEEeCCCCC
Confidence            789999865322 22334555555444     89999999999864443333333333332 1    2568999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2600         107 NCWVNTRTPEINPLK  121 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~  121 (158)
                      ||++|++.|.+.+..
T Consensus       169 gv~~L~~~i~~~~~~  183 (186)
T d1mkya2         169 NIDRMIDAMNLAYAS  183 (186)
T ss_dssp             SHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999766543

>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=99.32  E-value=4.7e-12  Score=87.66  Aligned_cols=84  Identities=13%  Similarity=0.022  Sum_probs=54.6

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc--HHHHHHHHHHh----CCeEEEEeCCCC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT--LERHAKLAQSL----HLHSFAVSARTG  105 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~----~~~~~~~Sa~~~  105 (158)
                      +++|+|.++....+....| ..+...+     +|+++|+||+|+.......  .+..+.+.+..    +.+++.+||++|
T Consensus        86 ~ilv~d~~~g~~~~~~~~~-~~~~~~~-----~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g  159 (179)
T d1wb1a4          86 ALIVVDAKEGPKTQTGEHM-LILDHFN-----IPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTG  159 (179)
T ss_dssp             EEEEEETTTCSCHHHHHHH-HHHHHTT-----CCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTC
T ss_pred             cccccccccccchhhhhhh-hhhhhcC-----CcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEccCC
Confidence            8899999875333322222 3333333     8999999999986532211  11122222221    357899999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2600         106 DNCWVNTRTPEINPLK  121 (158)
Q Consensus       106 ~~i~~lf~~l~~~~~~  121 (158)
                      .|+++|++.|.+.+.+
T Consensus       160 ~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         160 FGVDELKNLIITTLNN  175 (179)
T ss_dssp             TTHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHhcCCc
Confidence            9999999999988765

>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=99.28  E-value=9.6e-12  Score=86.75  Aligned_cols=89  Identities=15%  Similarity=0.066  Sum_probs=55.1

Q ss_pred             EEEEEECCChhH----------HhhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCC----------------ccccHH
Q psy2600          32 VIFMYDITSGQS----------FHSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQ----------------RVVTLE   84 (158)
Q Consensus        32 ~i~v~d~~~~~s----------~~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~----------------~~~~~~   84 (158)
                      ++++||.++..+          ++....|+..+. .....+  +|+++++||+|+...                .....+
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~--~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~  148 (200)
T d1zcba2          71 ILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSN--VSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLR  148 (200)
T ss_dssp             EEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTT--SEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHH
T ss_pred             eEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcC--ceEEEEeccchhhhhhccccHHHHhCccccCCcchHH
Confidence            889999987543          333444444443 222233  999999999997310                001122


Q ss_pred             HHHHHHHH-----------hCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          85 RHAKLAQS-----------LHLHSFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        85 ~~~~~~~~-----------~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      .+..+...           ..+-+++|||+++.||+++|+.+.+.+.+.
T Consensus       149 ~~~~~~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         149 DVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             HHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence            33332221           123457899999999999999988777654

>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=99.26  E-value=5.3e-12  Score=85.26  Aligned_cols=74  Identities=19%  Similarity=0.113  Sum_probs=51.0

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH--hCCeEEEEeCCCCCCHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS--LHLHSFAVSARTGDNCW  109 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~i~  109 (158)
                      +++|+|.+++.+.+...-+. .+    ..   .++++++||+|+.....  .++   ..+.  .+.+++++||++|.||+
T Consensus        84 ii~v~d~~~~~~~~~~~~~~-~~----~~---~~~i~~~~k~d~~~~~~--~~~---~~~~~~~~~~~~~vSA~~g~gi~  150 (160)
T d1xzpa2          84 VLFVLDASSPLDEEDRKILE-RI----KN---KRYLVVINKVDVVEKIN--EEE---IKNKLGTDRHMVKISALKGEGLE  150 (160)
T ss_dssp             EEEEEETTSCCCHHHHHHHH-HH----TT---SSEEEEEEECSSCCCCC--HHH---HHHHHTCSTTEEEEEGGGTCCHH
T ss_pred             EEEEEeCCCCcchhhhhhhh-hc----cc---ccceeeeeeccccchhh--hHH---HHHHhCCCCcEEEEECCCCCCHH
Confidence            88999998876544332221 11    11   78899999999875432  222   2233  34679999999999999


Q ss_pred             HHHHHHHHH
Q psy2600         110 VNTRTPEIN  118 (158)
Q Consensus       110 ~lf~~l~~~  118 (158)
                      +|++.|.++
T Consensus       151 ~L~~~I~ke  159 (160)
T d1xzpa2         151 KLEESIYRE  159 (160)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            999998764

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.19  E-value=2.6e-11  Score=83.15  Aligned_cols=82  Identities=22%  Similarity=0.124  Sum_probs=54.5

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC-CeEEEEeCCCCCCHHH
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH-LHSFAVSARTGDNCWV  110 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~  110 (158)
                      ++++.|.++.  ......+...+.+..     .|.++|.||+|+...........+.+.+.++ .+++++||++|.||++
T Consensus        89 ~l~~~d~~~~--~~~~~~~~~~l~~~~-----~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~  161 (179)
T d1egaa1          89 VIFVVEGTRW--TPDDEMVLNKLREGK-----APVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDT  161 (179)
T ss_dssp             EEEEEETTCC--CHHHHHHHHHHHSSS-----SCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHH
T ss_pred             eEEEEecCcc--chhHHHHHHHhhhcc-----CceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCCCCHHH
Confidence            5667766542  233333444444332     7889999999986543322334444555555 5799999999999999


Q ss_pred             HHHHHHHHHH
Q psy2600         111 NTRTPEINPL  120 (158)
Q Consensus       111 lf~~l~~~~~  120 (158)
                      |++.|.+.++
T Consensus       162 L~~~i~~~lp  171 (179)
T d1egaa1         162 IAAIVRKHLP  171 (179)
T ss_dssp             HHHHHHTTCC
T ss_pred             HHHHHHHhCC
Confidence            9999988764

>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=99.19  E-value=7.9e-11  Score=80.99  Aligned_cols=55  Identities=20%  Similarity=-0.013  Sum_probs=40.3

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHhC-------CeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSLH-------LHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-------~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +|+++|+||+|+.+...   .....+.+..+       ..++.+||++|.||++|++.|.+.+.+
T Consensus       122 ~p~iiv~NK~D~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         122 IPTIVAVNKLDKIKNVQ---EVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             CCEEEEEECGGGCSCHH---HHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeeeehhhhHH---HHHHHHHHHhcccccccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence            89999999999754322   12222333322       237899999999999999999998875

>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=99.12  E-value=3.7e-11  Score=83.06  Aligned_cols=54  Identities=22%  Similarity=0.114  Sum_probs=42.4

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHHh--CCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQSL--HLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +|+++|+||+|+...    .+..+.+.+.+  +.+++.+||++|.||++|++.+.+.+.+
T Consensus       118 kp~ivv~NK~Dl~~~----~~~~~~~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~L~~  173 (185)
T d1lnza2         118 RPQIIVANKMDMPEA----AENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLEN  173 (185)
T ss_dssp             SCBCBEEECTTSTTH----HHHHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTS
T ss_pred             CcchhhccccchHhH----HHHHHHHHHHhccCCcEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            899999999998642    22344455554  5778999999999999999999888743

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.10  E-value=2e-10  Score=78.69  Aligned_cols=66  Identities=6%  Similarity=-0.067  Sum_probs=42.7

Q ss_pred             HHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH---h--CCeEEEEeCCCCCCHHHHHHHHHHHH
Q psy2600          48 PTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS---L--HLHSFAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        48 ~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~---~--~~~~~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      ..++..+....     .++++++||+|+...... ......+.+.   +  ..+++.+||++|.||++|++.|.+.+
T Consensus       117 ~~~~~~~~~~~-----~~~~~v~~k~D~~~~~~~-~~~~~~~~~~l~~~~~~~~~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         117 QQMIEWAVDSN-----IAVLVLLTKADKLASGAR-KAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             HHHHHHHHHTT-----CCEEEEEECGGGSCHHHH-HHHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHHHHhhhcc-----ccccchhhhhhccCHHHH-HHHHHHHHHHHHhhCCCCcEEEEeCCCCCCHHHHHHHHHHHh
Confidence            34444544433     788999999998643222 1122222222   2  24689999999999999999886643

>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=99.05  E-value=5.7e-11  Score=84.79  Aligned_cols=26  Identities=8%  Similarity=-0.201  Sum_probs=21.8

Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHHh
Q psy2600          97 SFAVSARTGDNCWVNTRTPEINPLKY  122 (158)
Q Consensus        97 ~~~~Sa~~~~~i~~lf~~l~~~~~~~  122 (158)
                      .++|||.+..||..+|+.+.+.+.+.
T Consensus       191 ~h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         191 PHFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             EEECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             eeecceeccHHHHHHHHHHHHHHHHH
Confidence            46899999999999999987777654

>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=98.97  E-value=4.2e-09  Score=73.70  Aligned_cols=48  Identities=15%  Similarity=0.182  Sum_probs=30.8

Q ss_pred             EEEEEECCChhHH-hhHHHHHHHHh-hhcCCCCCcEEEEEEeCCCCCCCc
Q psy2600          32 VIFMYDITSGQSF-HSIPTWVDLFH-LNRKSSTPTYVALVANKGDMEHQR   79 (158)
Q Consensus        32 ~i~v~d~~~~~s~-~~~~~~~~~~~-~~~~~~~~~piilv~nK~Dl~~~~   79 (158)
                      +++|+|+++..++ .+...|+..+. ........+|+++|+||+|++...
T Consensus        75 ~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~  124 (207)
T d2fh5b1          75 VVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  124 (207)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             cceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCC
Confidence            8999999997764 44444444332 222111128999999999997533

>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=98.81  E-value=8e-09  Score=73.65  Aligned_cols=91  Identities=21%  Similarity=0.197  Sum_probs=55.6

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc-----------------HH---HHH
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT-----------------LE---RHA   87 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~-----------------~~---~~~   87 (158)
                      ..|.+|+|+|+.+.-.-.. ...+..+...+     +|+|+|.||+|+.......                 ..   ...
T Consensus        93 ~~D~~ilVvda~~g~~~~~-~~~~~~~~~~~-----~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~  166 (227)
T d1g7sa4          93 LADLAILIVDINEGFKPQT-QEALNILRMYR-----TPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDTKVY  166 (227)
T ss_dssp             SCSEEEEEEETTTCCCHHH-HHHHHHHHHTT-----CCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccceEEEEEecccCcccch-hHHHHHhhcCC-----CeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHHHHHHH
Confidence            3566999999976322222 23334444443     8999999999985322110                 00   000


Q ss_pred             H----HHHHh--------------CCeEEEEeCCCCCCHHHHHHHHHHHHHHhHh
Q psy2600          88 K----LAQSL--------------HLHSFAVSARTGDNCWVNTRTPEINPLKYLQ  124 (158)
Q Consensus        88 ~----~~~~~--------------~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~~  124 (158)
                      .    +.+..              ..+++.+||.+|.|+++|++.+.....+...
T Consensus       167 ~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~~  221 (227)
T d1g7sa4         167 ELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYLR  221 (227)
T ss_dssp             HHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            0    11100              1357899999999999999999887755443

>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=98.77  E-value=9.7e-09  Score=71.43  Aligned_cols=87  Identities=10%  Similarity=0.020  Sum_probs=53.4

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc--HHHHHHHHHHh---CCeEEEEeCC
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT--LERHAKLAQSL---HLHSFAVSAR  103 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~---~~~~~~~Sa~  103 (158)
                      .+.+++|.|+.+..........+..++....    .+++++.||+|+.......  ......+....   +++++.+||+
T Consensus       102 ~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~----~~iiv~inK~D~~d~~~~~~~~~~~~~~~~~~~~~~~~iIpiSA~  177 (195)
T d1kk1a3         102 MDGAILVIAANEPCPRPQTREHLMALQIIGQ----KNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPIIPISAL  177 (195)
T ss_dssp             CSEEEEEEETTSCSSCHHHHHHHHHHHHHTC----CCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTT
T ss_pred             ccccccccchhhhhhhhhhHHHHHHHHHhcC----ccceeeeecccchhhHHHHHHHHHHHHHhccccCCCCeEEEEECC
Confidence            3448899998764222223333444444331    5588899999986432211  11122222222   2578999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q psy2600         104 TGDNCWVNTRTPEINP  119 (158)
Q Consensus       104 ~~~~i~~lf~~l~~~~  119 (158)
                      +|.||++|++.+.+.+
T Consensus       178 ~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         178 HGANIDVLVKAIEDFI  193 (195)
T ss_dssp             TTBSHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHHHHC
Confidence            9999999999987765

>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=98.75  E-value=1.7e-08  Score=70.81  Aligned_cols=88  Identities=13%  Similarity=-0.039  Sum_probs=54.4

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH---HHHHh---CCeEEEEe
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK---LAQSL---HLHSFAVS  101 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~---~~~~~---~~~~~~~S  101 (158)
                      ..+.+|+|.|..+.-.-.+.+..+..+..+..    .|+|++.||+|+...... ......   +....   +++++.+|
T Consensus       109 ~ad~ailvVda~~gi~~~~t~e~~~~~~~~~i----~~iIV~vNK~Dl~~~~~~-~~~~~~~~~~l~~~~~~~~p~ipiS  183 (205)
T d2qn6a3         109 LMDGAILVVAANEPFPQPQTREHFVALGIIGV----KNLIIVQNKVDVVSKEEA-LSQYRQIKQFTKGTWAENVPIIPVS  183 (205)
T ss_dssp             CCSEEEEEEETTSCSSCHHHHHHHHHHHHTTC----CCEEEEEECGGGSCHHHH-HHHHHHHHHHHTTSTTTTCCEEECB
T ss_pred             ccccccccccccccccchhHHHHHHHHHHcCC----ceeeeccccCCCccchHH-HHHHHHHHHHhccccCCCCeEEEEe
Confidence            55779999998764211122222333333331    588999999999643221 111112   22221   36789999


Q ss_pred             CCCCCCHHHHHHHHHHHHH
Q psy2600         102 ARTGDNCWVNTRTPEINPL  120 (158)
Q Consensus       102 a~~~~~i~~lf~~l~~~~~  120 (158)
                      |++|.||.+|++.+...++
T Consensus       184 A~~g~nI~~L~e~i~~~ip  202 (205)
T d2qn6a3         184 ALHKINIDSLIEGIEEYIK  202 (205)
T ss_dssp             TTTTBSHHHHHHHHHHHSC
T ss_pred             CCCCCChHHHHHHHHhhCC
Confidence            9999999999998887654

>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=98.36  E-value=5.9e-07  Score=62.10  Aligned_cols=46  Identities=17%  Similarity=0.283  Sum_probs=30.5

Q ss_pred             EEEEEECC-ChhHHhhHHHHHHHH----hhhcCCCCCcEEEEEEeCCCCCCCc
Q psy2600          32 VIFMYDIT-SGQSFHSIPTWVDLF----HLNRKSSTPTYVALVANKGDMEHQR   79 (158)
Q Consensus        32 ~i~v~d~~-~~~s~~~~~~~~~~~----~~~~~~~~~~piilv~nK~Dl~~~~   79 (158)
                      +++++|.+ +..+++....|+..+    ......+  +|+++|+||+|+....
T Consensus        77 ~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~--~piiiv~NK~D~~~~~  127 (209)
T d1nrjb_          77 LIFMVDSTVDPKKLTTTAEFLVDILSITESSCENG--IDILIACNKSELFTAR  127 (209)
T ss_dssp             EEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTC--CCEEEEEECTTSTTCC
T ss_pred             cceEEEEecccccHHHHHHHHHHHHHHHHHHHhcc--CCeEEEEEeecccccC
Confidence            66777765 466677766665433    3333334  9999999999987533

>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=98.25  E-value=1.8e-06  Score=61.13  Aligned_cols=101  Identities=18%  Similarity=0.114  Sum_probs=65.8

Q ss_pred             eEEEEEEECCChh-HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHH--hCCeEEEEeCCCCC
Q psy2600          30 KIVIFMYDITSGQ-SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQS--LHLHSFAVSARTGD  106 (158)
Q Consensus        30 k~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~  106 (158)
                      |.+++|+.+.+|+ +...+.+|+-.....+     ++.++|.||+||.....  .+....+.+.  .+.+++.+|++++.
T Consensus        12 D~vliV~s~~~P~~~~~~ldR~Lv~a~~~~-----i~pvIvlnK~DL~~~~~--~~~~~~~~~~~~~~~~v~~vSa~~~~   84 (225)
T d1u0la2          12 DQVILVVTVKMPETSTYIIDKFLVLAEKNE-----LETVMVINKMDLYDEDD--LRKVRELEEIYSGLYPIVKTSAKTGM   84 (225)
T ss_dssp             CEEEEEECSSTTCCCHHHHHHHHHHHHHTT-----CEEEEEECCGGGCCHHH--HHHHHHHHHHHTTTSCEEECCTTTCT
T ss_pred             CEEEEEEeCCCCCCCHHHHHHHHHHHHHcC-----CCEEEEEeCcccCCHHH--HHHHHHhhcccccceeEEEeccccch
Confidence            6688888887654 4555677777766555     89999999999964321  1223333333  24678999999999


Q ss_pred             CHHHHHHHHHHHHHHhHhhccccccccccccccccccccc
Q psy2600         107 NCWVNTRTPEINPLKYLQSNNEYNFLSMVGFEAGTFYMAV  146 (158)
Q Consensus       107 ~i~~lf~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (158)
                      |++++...+..         ....+...+|..+.+.....
T Consensus        85 g~~~L~~~l~~---------kt~~~~G~SGVGKSTLiN~L  115 (225)
T d1u0la2          85 GIEELKEYLKG---------KISTMAGLSGVGKSSLLNAI  115 (225)
T ss_dssp             THHHHHHHHSS---------SEEEEECSTTSSHHHHHHHH
T ss_pred             hHhhHHHHhcC---------CeEEEECCCCCCHHHHHHhh
Confidence            99988776532         12234455555555544444

>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=98.25  E-value=6.9e-07  Score=62.13  Aligned_cols=87  Identities=11%  Similarity=-0.044  Sum_probs=52.3

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc---HHHHHHHHHHhC-----CeEEE
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT---LERHAKLAQSLH-----LHSFA   99 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~---~~~~~~~~~~~~-----~~~~~   99 (158)
                      ..|.+|+|.|.++.- +.+....+..+.....    .|+|++.||+|+.......   ..+...+....+     ++++.
T Consensus        89 ~aD~allVVda~~G~-~~QT~~~~~~a~~~~~----~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~pii~  163 (196)
T d1d2ea3          89 PLDGCILVVAANDGP-MPQTREHLLLARQIGV----EHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIV  163 (196)
T ss_dssp             CCSEEEEEEETTTCS-CHHHHHHHHHHHHTTC----CCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEE
T ss_pred             hcCeEEEEEEcCCCC-chhHHHHHHHHHHhcC----CcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCcccCEEEE
Confidence            334499999998632 2233344444444332    5789999999986432211   112233333333     56899


Q ss_pred             EeCCCC----------CCHHHHHHHHHHHH
Q psy2600         100 VSARTG----------DNCWVNTRTPEINP  119 (158)
Q Consensus       100 ~Sa~~~----------~~i~~lf~~l~~~~  119 (158)
                      +||++|          .++.+|++.+.+.+
T Consensus       164 iSa~~g~~~~~~~~~~~~~~~Lldai~~~i  193 (196)
T d1d2ea3         164 GSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (196)
T ss_dssp             CCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             EEccccccccCcccccCCHHHHHHHHHhhC
Confidence            999988          47888887775543

>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=98.13  E-value=4.1e-06  Score=62.38  Aligned_cols=58  Identities=12%  Similarity=-0.055  Sum_probs=39.0

Q ss_pred             cEEEEEEeCCCCCCCccccHHHHHHHHHH----------hCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          64 TYVALVANKGDMEHQRVVTLERHAKLAQS----------LHLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        64 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~----------~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +.=++|.||+|+.............+...          +..+++.+||.++.|++++++.+.+....
T Consensus       190 ~aDi~vvNKaD~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~  257 (323)
T d2qm8a1         190 LADMIAVNKADDGDGERRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSK  257 (323)
T ss_dssp             HCSEEEEECCSTTCCHHHHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHH
T ss_pred             hhheeeEeccccccchHHHHHHHHHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHH
Confidence            33489999999865333222222222222          33569999999999999999999776544

>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=97.99  E-value=1.8e-05  Score=55.45  Aligned_cols=26  Identities=12%  Similarity=-0.071  Sum_probs=22.6

Q ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHH
Q psy2600          94 HLHSFAVSARTGDNCWVNTRTPEINP  119 (158)
Q Consensus        94 ~~~~~~~Sa~~~~~i~~lf~~l~~~~  119 (158)
                      .++++.+||++|+|+++|+..|.+..
T Consensus       216 ~~~~v~vSa~~geGi~~L~~~l~e~~  241 (244)
T d1yrba1         216 PVRVLYLSAKTREGFEDLETLAYEHY  241 (244)
T ss_dssp             CCCCEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999999988764

>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=97.98  E-value=2.1e-06  Score=61.00  Aligned_cols=80  Identities=9%  Similarity=0.049  Sum_probs=56.6

Q ss_pred             eEEEEEEECCChh-HHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHH---HHHHhCCeEEEEeCCCC
Q psy2600          30 KIVIFMYDITSGQ-SFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAK---LAQSLHLHSFAVSARTG  105 (158)
Q Consensus        30 k~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~---~~~~~~~~~~~~Sa~~~  105 (158)
                      |.+++|+++.++. ++..+.+++-.....+     ++.+||.||+||...... ......   .....|.+++.+|+.++
T Consensus        12 D~~~iV~s~~~P~~~~~~idR~Lv~a~~~~-----i~pvIvlnK~DL~~~~~~-~~~~~~~~~~y~~~g~~v~~~Sa~~~   85 (231)
T d1t9ha2          12 DQAVLVFSAVQPSFSTALLDRFLVLVEAND-----IQPIICITKMDLIEDQDT-EDTIQAYAEDYRNIGYDVYLTSSKDQ   85 (231)
T ss_dssp             CEEEEEEESTTTTCCHHHHHHHHHHHHTTT-----CEEEEEEECGGGCCCHHH-HHHHHHHHHHHHHHTCCEEECCHHHH
T ss_pred             CEEEEEEECCCCCCCHHHHHHHHHHHHHcC-----CCEEEEEecccccccHHH-HHHHHHHHHHHhhccccceeeecCCh
Confidence            6688888887754 5666677777766554     888999999999754321 122222   33456899999999999


Q ss_pred             CCHHHHHHHH
Q psy2600         106 DNCWVNTRTP  115 (158)
Q Consensus       106 ~~i~~lf~~l  115 (158)
                      .|++++...+
T Consensus        86 ~gl~~L~~~l   95 (231)
T d1t9ha2          86 DSLADIIPHF   95 (231)
T ss_dssp             TTCTTTGGGG
T ss_pred             hHHHHHHHhh
Confidence            9988876654

>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=97.98  E-value=4.8e-06  Score=62.15  Aligned_cols=57  Identities=12%  Similarity=-0.106  Sum_probs=36.5

Q ss_pred             EEEEEEeCCCCCCCcccc--HHHHHHHHH-------HhCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy2600          65 YVALVANKGDMEHQRVVT--LERHAKLAQ-------SLHLHSFAVSARTGDNCWVNTRTPEINPLK  121 (158)
Q Consensus        65 piilv~nK~Dl~~~~~~~--~~~~~~~~~-------~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~  121 (158)
                      +-++|.||+|+.......  ..+......       .+..+++.|||.+|.||+++++.|.+....
T Consensus       194 aDi~VvNKaD~~~~~~~~~~~~~~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~~  259 (327)
T d2p67a1         194 ADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKTA  259 (327)
T ss_dssp             CSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHHH
T ss_pred             ccEEEEEeecccchHHHHHHHHHHHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHHH
Confidence            337889999986422111  111111111       123468999999999999999999875543

>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=97.87  E-value=8.3e-05  Score=52.22  Aligned_cols=73  Identities=21%  Similarity=0.173  Sum_probs=42.1

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc-ccH---HHHHHHHHHhC-----CeEEEEeC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV-VTL---ERHAKLAQSLH-----LHSFAVSA  102 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-~~~---~~~~~~~~~~~-----~~~~~~Sa  102 (158)
                      +++|.|+.+.-.-+. ...+..+....-    ..+|++.||+|+.+... ...   .+...+.+..+     ++|+.+||
T Consensus       116 ailVvda~~G~~~Qt-~e~~~~~~~~gv----~~iiv~vNK~D~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA  190 (222)
T d1zunb3         116 AIILVDARYGVQTQT-RRHSYIASLLGI----KHIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSA  190 (222)
T ss_dssp             EEEEEETTTCSCHHH-HHHHHHHHHTTC----CEEEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCT
T ss_pred             EEEEeccccCcccch-HHHHHHHHHcCC----CEEEEEEEccccccccceehhhhHHHHhhhhHhhccCCCceEEEEEEc
Confidence            999999876422222 222223333331    45899999999874222 111   12333444443     35789999


Q ss_pred             CCCCCHH
Q psy2600         103 RTGDNCW  109 (158)
Q Consensus       103 ~~~~~i~  109 (158)
                      .+|.||.
T Consensus       191 ~~G~ni~  197 (222)
T d1zunb3         191 LKGDNVV  197 (222)
T ss_dssp             TTCTTTS
T ss_pred             ccCccCC
Confidence            9999974

>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=97.87  E-value=1.4e-05  Score=57.88  Aligned_cols=84  Identities=13%  Similarity=0.057  Sum_probs=56.2

Q ss_pred             CeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCCCCCCH
Q psy2600          29 GKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSARTGDNC  108 (158)
Q Consensus        29 gk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  108 (158)
                      .|.+|+|.|+-++-+..+  ..+.++..    +  .|.++|.||+|+..... . .....+.+..+...+.+|+..+.++
T Consensus        16 ~DvIl~V~DaR~P~ss~~--~~l~~~~~----~--Kp~IlVlNK~DLv~~~~-~-~~w~~~f~~~~~~~i~isa~~~~~~   85 (273)
T d1puja_          16 IDIVYELVDARIPMSSRN--PMIEDILK----N--KPRIMLLNKADKADAAV-T-QQWKEHFENQGIRSLSINSVNGQGL   85 (273)
T ss_dssp             CSEEEEEEETTSTTTTSC--HHHHHHCS----S--SCEEEEEECGGGSCHHH-H-HHHHHHHHTTTCCEEECCTTTCTTG
T ss_pred             CCEEEEEEECCCCCCCCC--HHHHHHHc----C--CCeEEEEECccCCchHH-H-HHHHHHHHhcCCccceeecccCCCc
Confidence            477999999988766544  23333332    1  89999999999864321 1 1222233344677899999999998


Q ss_pred             HHHHHHHHHHHHHh
Q psy2600         109 WVNTRTPEINPLKY  122 (158)
Q Consensus       109 ~~lf~~l~~~~~~~  122 (158)
                      .++...+.+.+.+.
T Consensus        86 ~~~~~~~~~~l~~~   99 (273)
T d1puja_          86 NQIVPASKEILQEK   99 (273)
T ss_dssp             GGHHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhh
Confidence            88887777665543

>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=97.86  E-value=1e-05  Score=56.25  Aligned_cols=67  Identities=15%  Similarity=0.059  Sum_probs=37.4

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcE-EEEEEeCCCCCCCcccc---HHHHHHHHHHhC-----CeEEEEeC
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTY-VALVANKGDMEHQRVVT---LERHAKLAQSLH-----LHSFAVSA  102 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~~---~~~~~~~~~~~~-----~~~~~~Sa  102 (158)
                      +|+|.|+++.-..+..+. +..+...+     +| ++++.||+|+......-   ..+...+...++     ..++..|+
T Consensus        94 avlVvda~~Gv~~qt~~~-~~~~~~~g-----i~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~i~~i~~sa  167 (204)
T d2c78a3          94 AILVVSAADGPMPQTREH-ILLARQVG-----VPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSA  167 (204)
T ss_dssp             EEEEEETTTCCCHHHHHH-HHHHHHTT-----CCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCH
T ss_pred             EEEEEECCCCCcHHHHHH-HHHHHHcC-----CCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCCCcccceeeeeec
Confidence            999999987544433333 33444333     55 77889999985432211   112233333332     45788887


Q ss_pred             CC
Q psy2600         103 RT  104 (158)
Q Consensus       103 ~~  104 (158)
                      ..
T Consensus       168 ~~  169 (204)
T d2c78a3         168 LL  169 (204)
T ss_dssp             HH
T ss_pred             hh
Confidence            53

>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=97.45  E-value=0.00033  Score=53.25  Aligned_cols=68  Identities=10%  Similarity=-0.026  Sum_probs=39.9

Q ss_pred             HHHHHHhhhcCCCCCcEEEEEEeCCCCC-------CCccccHHHH----H----HHHHHhC---CeEEEEeCCC--CCCH
Q psy2600          49 TWVDLFHLNRKSSTPTYVALVANKGDME-------HQRVVTLERH----A----KLAQSLH---LHSFAVSART--GDNC  108 (158)
Q Consensus        49 ~~~~~~~~~~~~~~~~piilv~nK~Dl~-------~~~~~~~~~~----~----~~~~~~~---~~~~~~Sa~~--~~~i  108 (158)
                      .++..+....     +|+++|.||+|..       .......+..    +    ...+..+   -++|.+|..+  ..++
T Consensus       153 ~l~~~l~~~~-----k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~~~~~~~vflvS~~~~~~~d~  227 (400)
T d1tq4a_         153 DIAKAISMMK-----KEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDF  227 (400)
T ss_dssp             HHHHHHHHTT-----CEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTH
T ss_pred             HHHHHHHHcC-----CCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEecCCcccccCH
Confidence            4555555544     8999999999952       1111111111    1    1112223   2478888765  4589


Q ss_pred             HHHHHHHHHHHHH
Q psy2600         109 WVNTRTPEINPLK  121 (158)
Q Consensus       109 ~~lf~~l~~~~~~  121 (158)
                      .+|.+.+.+.+..
T Consensus       228 ~~L~~~l~~~L~~  240 (400)
T d1tq4a_         228 PVLMDKLISDLPI  240 (400)
T ss_dssp             HHHHHHHHHHSCG
T ss_pred             HHHHHHHHHHhHH
Confidence            9999998887654

>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=97.40  E-value=0.00046  Score=49.65  Aligned_cols=41  Identities=12%  Similarity=0.100  Sum_probs=28.0

Q ss_pred             eEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          30 KIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        30 k~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      |++|+|.|..+.-.-.....|. .+.++.     +|.+++.||+|..
T Consensus        92 D~avlvvda~~Gv~~~t~~~~~-~~~~~~-----~p~~i~iNk~D~~  132 (267)
T d2dy1a2          92 DAALVAVSAEAGVQVGTERAWT-VAERLG-----LPRMVVVTKLDKG  132 (267)
T ss_dssp             SEEEEEEETTTCSCHHHHHHHH-HHHHTT-----CCEEEEEECGGGC
T ss_pred             CceEEEeeccCCccchhHHHHH-hhhhcc-----ccccccccccccc
Confidence            4499999998754444444443 344444     8999999999963

>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=97.09  E-value=0.00049  Score=49.05  Aligned_cols=16  Identities=25%  Similarity=0.520  Sum_probs=14.5

Q ss_pred             eEEEEEEECCCCCCeE
Q psy2600          16 IQLKVVLLGDPSCGKI   31 (158)
Q Consensus        16 ~~~ki~~~G~~~vgk~   31 (158)
                      -.++|+++|.+|+|||
T Consensus        31 ~~l~I~LvG~tg~GKS   46 (257)
T d1h65a_          31 NSLTILVMGKGGVGKS   46 (257)
T ss_dssp             CEEEEEEEESTTSSHH
T ss_pred             CCcEEEEECCCCCcHH
Confidence            4589999999999998

>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=97.03  E-value=0.0012  Score=46.72  Aligned_cols=85  Identities=18%  Similarity=0.152  Sum_probs=48.2

Q ss_pred             CCCCCeEEEEEEECCCh---hHHh---hHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc---ccH---HHHHHHHHH
Q psy2600          25 DPSCGKIVIFMYDITSG---QSFH---SIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV---VTL---ERHAKLAQS   92 (158)
Q Consensus        25 ~~~vgk~~i~v~d~~~~---~s~~---~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~---~~~---~~~~~~~~~   92 (158)
                      ....++++++|.|+.+.   .+++   +....+..+....-    ..++++.||+|+.....   .-.   .+...+.+.
T Consensus       122 g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~~i----~~iiv~iNKmD~~~~~~~e~~~~ei~~~l~~~l~~  197 (245)
T d1r5ba3         122 GASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGI----NHLVVVINKMDEPSVQWSEERYKECVDKLSMFLRR  197 (245)
T ss_dssp             -TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTC----SSEEEEEECTTSTTCSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHcCC----CeEEEEEEcCCCCccchhHHHHHHHHHHHHHHHHH
Confidence            34677999999999763   1221   23333333333331    34889999999863211   001   111222222


Q ss_pred             h-C------CeEEEEeCCCCCCHHHHHH
Q psy2600          93 L-H------LHSFAVSARTGDNCWVNTR  113 (158)
Q Consensus        93 ~-~------~~~~~~Sa~~~~~i~~lf~  113 (158)
                      . +      ++++.+||++|.||.++++
T Consensus       198 i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         198 VAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             HHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             HhCcCcccCCEEEEeeccCCCCcccchh
Confidence            2 2      4689999999999976544

>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=96.77  E-value=0.0031  Score=43.70  Aligned_cols=79  Identities=18%  Similarity=0.182  Sum_probs=44.0

Q ss_pred             CCCeEEEEEEECCChh---HH---hhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcc--ccH----HHHHHHHHHhC
Q psy2600          27 SCGKIVIFMYDITSGQ---SF---HSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRV--VTL----ERHAKLAQSLH   94 (158)
Q Consensus        27 ~vgk~~i~v~d~~~~~---s~---~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~----~~~~~~~~~~~   94 (158)
                      .+.|++|+|.|+.+..   ++   .+....+...+....    .++|++.||.|+.....  ...    .....+...++
T Consensus       103 ~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~----~~iIv~iNK~D~~~~~~~~~~~~~v~~~i~~~~~~~~  178 (224)
T d1jnya3         103 SQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGL----DQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYG  178 (224)
T ss_dssp             SCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTC----TTCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HhhceEEEEEecccCcccccccccchhHHHHHHHHHhCC----CceEEEEEcccCCCccccHHHHHHHHHHHHhHHHhcC
Confidence            3567799999998732   11   122222222222221    56888999999863211  111    11222333333


Q ss_pred             -----CeEEEEeCCCCCCHH
Q psy2600          95 -----LHSFAVSARTGDNCW  109 (158)
Q Consensus        95 -----~~~~~~Sa~~~~~i~  109 (158)
                           ..++.+||..|.||.
T Consensus       179 ~~~~~i~~IPISA~~G~NV~  198 (224)
T d1jnya3         179 FNTNKVRFVPVVAPSGDNIT  198 (224)
T ss_dssp             CCCTTCEEEECBTTTTBTTT
T ss_pred             CCcccCeEEEEEccCCCCcc
Confidence                 457899999999874

>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=96.68  E-value=0.0045  Score=43.47  Aligned_cols=79  Identities=13%  Similarity=0.081  Sum_probs=44.5

Q ss_pred             CCeEEEEEEECCChh---HHh---hHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCcccc----HHHHHHHHHHhC---
Q psy2600          28 CGKIVIFMYDITSGQ---SFH---SIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVT----LERHAKLAQSLH---   94 (158)
Q Consensus        28 vgk~~i~v~d~~~~~---s~~---~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~----~~~~~~~~~~~~---   94 (158)
                      ..|++|+|.|++...   .+.   +....+...+...-    .++|++.||.|+.+.....    ..+...+....+   
T Consensus       107 ~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~gv----~~iiv~iNKmD~~~~d~~~~~~~~~el~~~l~~~~~~~  182 (239)
T d1f60a3         107 QADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGV----RQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNP  182 (239)
T ss_dssp             CCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTC----CEEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCG
T ss_pred             HhCEEEEEEECCCCccccccCchHhHHHHHHHHHHcCC----CeEEEEEECCCCCCCCHHHHHHHHHHHHHHHHhcCCCC
Confidence            556699999987521   111   22222223333331    4588999999986422111    112333444443   


Q ss_pred             --CeEEEEeCCCCCCHHH
Q psy2600          95 --LHSFAVSARTGDNCWV  110 (158)
Q Consensus        95 --~~~~~~Sa~~~~~i~~  110 (158)
                        +.++.+|+..|.|+.+
T Consensus       183 ~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         183 KTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             GGCCEEECCTTTCBTTTB
T ss_pred             CcEEEEEEEccCCCccee
Confidence              4589999999998654

>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=96.49  E-value=0.0067  Score=43.55  Aligned_cols=57  Identities=18%  Similarity=0.144  Sum_probs=36.3

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCe
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLHLH   96 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~   96 (158)
                      +|+|.|..+.-.-.....| +....++     +|.+++.||.|.....  ......++.+.++..
T Consensus        98 avlVvda~~Gv~~~T~~~w-~~a~~~~-----lP~i~fINKmDr~~ad--~~~~l~ei~~~l~~~  154 (276)
T d2bv3a2          98 AIVVFDSSQGVEPQSETVW-RQAEKYK-----VPRIAFANKMDKTGAD--LWLVIRTMQERLGAR  154 (276)
T ss_dssp             EEEEEETTTSSCHHHHHHH-HHHHTTT-----CCEEEEEECTTSTTCC--HHHHHHHHHHTTCCC
T ss_pred             eEEeccccCCcchhHHHHH-HHHHHcC-----CCEEEEEecccccccc--cchhHHHHHHHhCCC
Confidence            9999999875444444444 4444444     9999999999986432  233445555556643

>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=93.89  E-value=0.023  Score=40.47  Aligned_cols=43  Identities=9%  Similarity=-0.046  Sum_probs=26.2

Q ss_pred             EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCc
Q psy2600          32 VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDMEHQR   79 (158)
Q Consensus        32 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~   79 (158)
                      +++|.+.+..-+-+....|...+....     .++++|.||+|.....
T Consensus       166 il~v~~a~~~~~~~~~~~~~~~~~~~~-----~r~i~Vltk~D~~~~~  208 (299)
T d2akab1         166 ILAVSPANSDLANSDALKIAKEVDPQG-----QRTIGVITKLDLMDEG  208 (299)
T ss_dssp             EEEEEESSSCGGGCHHHHHHHHHCTTC-----SSEEEEEECGGGSCTT
T ss_pred             eeeecccccchhhhHHHHHHHHhCcCC-----CceeeEEeccccccch
Confidence            455665554444444455655554332     6789999999986543

>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=93.49  E-value=0.038  Score=40.67  Aligned_cols=43  Identities=16%  Similarity=0.137  Sum_probs=31.6

Q ss_pred             CCeEEEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCCC
Q psy2600          28 CGKIVIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDME   76 (158)
Q Consensus        28 vgk~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~   76 (158)
                      +.|++|+|.|+.+.-..+....|..... ..     +|++++.||+|..
T Consensus       119 ~~D~allVVda~eGv~~qT~~~~~~a~~-~~-----~p~i~viNKiDr~  161 (341)
T d1n0ua2         119 VTDGALVVVDTIEGVCVQTETVLRQALG-ER-----IKPVVVINKVDRA  161 (341)
T ss_dssp             TCSEEEEEEETTTBSCHHHHHHHHHHHH-TT-----CEEEEEEECHHHH
T ss_pred             hcCceEEEEecccCcchhHHHHHHHHHH-cC-----CCeEEEEECcccc
Confidence            5688999999988655555555555433 33     8999999999963

>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=91.91  E-value=0.17  Score=35.54  Aligned_cols=41  Identities=17%  Similarity=0.078  Sum_probs=26.5

Q ss_pred             CcEEEEEEeCCCCCCCccccHHHHHHHHHHhCCeEEEEeCC
Q psy2600          63 PTYVALVANKGDMEHQRVVTLERHAKLAQSLHLHSFAVSAR  103 (158)
Q Consensus        63 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  103 (158)
                      ..|+++++|..+......-..+....++...+..++.+||+
T Consensus       199 ~KP~i~v~Nv~E~~~~~~~~~~~l~~~~~~~~~~vI~isa~  239 (278)
T d1jala1         199 LKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAA  239 (278)
T ss_dssp             TSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHH
T ss_pred             cchhhhhhccccccccccHHHHHHHHHHHhcCCeEEEeEHH
Confidence            48889999965533211112345566677778889999984

>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=90.44  E-value=0.34  Score=32.93  Aligned_cols=50  Identities=16%  Similarity=0.260  Sum_probs=37.9

Q ss_pred             EEEEEECCCCCCeE-----------------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCCC
Q psy2600          18 LKVVLLGDPSCGKI-----------------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGDM   75 (158)
Q Consensus        18 ~ki~~~G~~~vgk~-----------------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl   75 (158)
                      .-++++|..|+|||                 .++..|.-.....+++..|.+.+.        +|+..+.+..|+
T Consensus        12 ~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~--------i~~~~~~~~~d~   78 (213)
T d1vmaa2          12 FVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVG--------ATVISHSEGADP   78 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHT--------CEEECCSTTCCH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccccchhHHHHHHhhhcC--------ccccccCCCCcH
Confidence            35788999999998                 778888777778888877777764        777765555553

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=90.19  E-value=0.96  Score=28.55  Aligned_cols=13  Identities=38%  Similarity=0.958  Sum_probs=12.3

Q ss_pred             EEEEECCCCCCeE
Q psy2600          19 KVVLLGDPSCGKI   31 (158)
Q Consensus        19 ki~~~G~~~vgk~   31 (158)
                      ||++.|.+|+|||
T Consensus         2 ki~I~G~~G~GKS   14 (178)
T d1ye8a1           2 KIIITGEPGVGKT   14 (178)
T ss_dssp             EEEEECCTTSSHH
T ss_pred             EEEEECCCCcHHH
Confidence            8999999999998

>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=90.16  E-value=0.16  Score=36.10  Aligned_cols=14  Identities=21%  Similarity=0.024  Sum_probs=11.9

Q ss_pred             cEEEEEEeCCCCCC
Q psy2600          64 TYVALVANKGDMEH   77 (158)
Q Consensus        64 ~piilv~nK~Dl~~   77 (158)
                      ..+++|.||+|...
T Consensus       199 ~r~i~Vitk~D~~~  212 (306)
T d1jwyb_         199 KRTIGVITKLDLMD  212 (306)
T ss_dssp             SSEEEEEECTTSSC
T ss_pred             CeEEEEEecccccc
Confidence            67899999999754

>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=90.09  E-value=0.34  Score=32.87  Aligned_cols=47  Identities=15%  Similarity=0.138  Sum_probs=30.8

Q ss_pred             EEEECCCCCCeE-----------------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCC
Q psy2600          20 VVLLGDPSCGKI-----------------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGD   74 (158)
Q Consensus        20 i~~~G~~~vgk~-----------------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~D   74 (158)
                      ++++|..|+|||                 .++..|.-.....+++..|-+.+.        +|+..+.+..|
T Consensus        15 i~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQL~~~a~~l~--------v~~~~~~~~~~   78 (211)
T d1j8yf2          15 IMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIG--------VPVYGEPGEKD   78 (211)
T ss_dssp             EEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHHHHHHHHHHT--------CCEECCTTCCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHHHHHhccccC--------cceeecccchh
Confidence            678999999999                 677777666677777777766664        56555444444

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=89.06  E-value=0.34  Score=31.74  Aligned_cols=12  Identities=42%  Similarity=0.816  Sum_probs=11.1

Q ss_pred             EEEECCCCCCeE
Q psy2600          20 VVLLGDPSCGKI   31 (158)
Q Consensus        20 i~~~G~~~vgk~   31 (158)
                      |+++|.+|+|||
T Consensus         5 i~l~GlpgsGKS   16 (213)
T d1bifa1           5 IVMVGLPARGKT   16 (213)
T ss_dssp             EEEECCTTSSHH
T ss_pred             EEEECCCCCCHH
Confidence            688999999999

>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=88.18  E-value=0.31  Score=32.99  Aligned_cols=47  Identities=17%  Similarity=0.195  Sum_probs=33.2

Q ss_pred             EEEECCCCCCeE-----------------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCC
Q psy2600          20 VVLLGDPSCGKI-----------------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGD   74 (158)
Q Consensus        20 i~~~G~~~vgk~-----------------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~D   74 (158)
                      ++++|..|+|||                 .++..|.-.....+++..|-+.+.        +|++.+.+..|
T Consensus         9 i~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~--------i~~~~~~~~~d   72 (207)
T d1okkd2           9 VLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLS--------IPVIQGPEGTD   72 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHHHHHHHHHT--------CCEECCCTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccccchhhHhhcccccC--------ceEEeccCCcc
Confidence            578999999998                 666666656667777777776664        66655555444

>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=86.12  E-value=0.39  Score=32.55  Aligned_cols=47  Identities=15%  Similarity=0.239  Sum_probs=32.4

Q ss_pred             EEEECCCCCCeE-----------------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCC
Q psy2600          20 VVLLGDPSCGKI-----------------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGD   74 (158)
Q Consensus        20 i~~~G~~~vgk~-----------------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~D   74 (158)
                      ++++|..|+|||                 .++..|.-.....+++..|-+.+.        +|+..+-+..|
T Consensus        12 i~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~--------v~~~~~~~~~d   75 (211)
T d2qy9a2          12 ILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNN--------IPVIAQHTGAD   75 (211)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTT--------CCEECCSTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcC--------CcccccccCCC
Confidence            678999999998                 666666655666777766666653        66665555444

>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=85.45  E-value=0.4  Score=32.35  Aligned_cols=47  Identities=15%  Similarity=0.098  Sum_probs=33.0

Q ss_pred             EEEECCCCCCeE-----------------EEEEEECCChhHHhhHHHHHHHHhhhcCCCCCcEEEEEEeCCC
Q psy2600          20 VVLLGDPSCGKI-----------------VIFMYDITSGQSFHSIPTWVDLFHLNRKSSTPTYVALVANKGD   74 (158)
Q Consensus        20 i~~~G~~~vgk~-----------------~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~D   74 (158)
                      ++++|..|+|||                 .++..|.-.....+++..|.+.+.        +|+..+.+..|
T Consensus        13 i~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~--------v~~~~~~~~~~   76 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVG--------VPVLEVMDGES   76 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHT--------CCEEECCTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccchHHHHHHHHHHhcC--------Cccccccccch
Confidence            467999999998                 666667666777777777777664        56555444433

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.04  E-value=0.9  Score=29.27  Aligned_cols=13  Identities=46%  Similarity=0.623  Sum_probs=11.6

Q ss_pred             EEEEECCCCCCeE
Q psy2600          19 KVVLLGDPSCGKI   31 (158)
Q Consensus        19 ki~~~G~~~vgk~   31 (158)
                      =|+++|-+|+|||
T Consensus        16 liil~G~pGsGKS   28 (172)
T d1yj5a2          16 VVVAVGFPGAGKS   28 (172)
T ss_dssp             EEEEECCTTSSHH
T ss_pred             EEEEECCCCCCHH
Confidence            4678999999999

>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=80.44  E-value=3.9  Score=27.21  Aligned_cols=69  Identities=10%  Similarity=0.034  Sum_probs=36.3

Q ss_pred             EEEEEEECCChhHHhh-HHHHHHHHhhhcCCCCCcEEEEEEeCCCCCCCccccHHHHHHHHHHhC--CeEEEEeCCCCCC
Q psy2600          31 IVIFMYDITSGQSFHS-IPTWVDLFHLNRKSSTPTYVALVANKGDMEHQRVVTLERHAKLAQSLH--LHSFAVSARTGDN  107 (158)
Q Consensus        31 ~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~  107 (158)
                      +++.|.|+......-. ...+...+...        =++|.||+|+...    .+..++..+.++  ..+++++ .-...
T Consensus       124 ~vi~vVDa~~~~~~~~~~~~~~~Qi~~A--------D~ivlNK~Dl~~~----~~~~~~~l~~lNP~a~Ii~~~-~g~v~  190 (222)
T d1nija1         124 GVIALVDAVHADEQMNQFTIAQSQVGYA--------DRILLTKTDVAGE----AEKLHERLARINARAPVYTVT-HGDID  190 (222)
T ss_dssp             EEEEEEETTTHHHHHHHCHHHHHHHHTC--------SEEEEECTTTCSC----THHHHHHHHHHCSSSCEEECC-SSCCC
T ss_pred             chhhhhhhhhhhhhhhhhHHHHHHHHhC--------CcccccccccccH----HHHHHHHHHHHhCCCeEEEee-CCccC
Confidence            3788888876432211 11222333221        2788999998643    234555556554  5566544 22345


Q ss_pred             HHHHH
Q psy2600         108 CWVNT  112 (158)
Q Consensus       108 i~~lf  112 (158)
                      +..+|
T Consensus       191 ~~~ll  195 (222)
T d1nija1         191 LGLLF  195 (222)
T ss_dssp             GGGGS
T ss_pred             HHHhh
Confidence            55554