Psyllid ID: psy5781

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-
Protein Sequence
MSSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPRDELAGFRSEATEFS
Secondary Structure (PSIPRED)
cccccccccccccccccccEEEEEEEEccccccHHHHHHHccccccccccccEEEEEEEEEEEEEccEEEEEEEEEcccccHHHHHHHHHcccccEEEEEEcccHHHHHHHHHHHHHHHHHHcccccccccEEcccccccccccccccccccccccccccccccccHHHHHHHccccccHHHHHHHccccccccccccccccccccccccccccccccHHccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccEEEEEEEEccccccHHHHHHHHHcccccccccccccEEEEEEEEEccccEEEEEEEEEcccHHHHHHHHHHHccccEEEEEccHHHHHHHHHHHHHHHHHHHHHccccccccHcccEcccccHHHHHHHHHHccccEEEccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccHHccccccccccc
Coil and Loop (DISEMBL)
msssltndhpntfqddsyDFLFKVVLIgdcgvgktCVVHRFrsgdfvektgntigvdfsmktvnidgkkvKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDkykfghafstslampqvrpclfhkfghasssampfpqvwpclkfghafstslampqvrpclfhkfghasssampfpqvwpclkfghafstslamprdelagfrseatefs
Flexible Loop (DISEMBL)
msssltndhpntfqDDSYDFLFKVVLIGDCGVGKTCVVHRfrsgdfvektgntigvdfsmktvnidgkkvklqiwdtagQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPRDELAGFRSEATEFS
Low Complexity Region (SEG)
MSSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPRDELAGFRSEATEFS
Disordered region (IsUnstruct)
***************DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSL******************
Disordered Region (DISOPRED)
*******************FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPQVR****************************************************
Disordered Region (DISEMBL)
*********PNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPRDELA**********
Disordered Region (DISPRO)
***************DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPQVRPC**************************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFGHAFSTSLAMPRDELAGFRSEATEFS
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	231	2.2.26 [Sep-21-2011]
Q28IZ3	213	Ras-related protein Rab-1	yes	N/A	0.385	0.417	0.707	5e-34
Q32NQ0	213	Ras-related protein Rab-1	N/A	N/A	0.380	0.413	0.704	1e-33
Q53B90	210	Ras-related protein Rab-4	yes	N/A	0.372	0.409	0.744	2e-33
Q8CG50	210	Ras-related protein Rab-4	yes	N/A	0.372	0.409	0.744	2e-33
Q86YS6	212	Ras-related protein Rab-4	no	N/A	0.363	0.396	0.75	3e-33
A4D1S5	217	Ras-related protein Rab-1	no	N/A	0.367	0.391	0.670	1e-30
Q3ZC27	217	Ras-related protein Rab-1	yes	N/A	0.367	0.391	0.670	2e-30
P35294	217	Ras-related protein Rab-1	no	N/A	0.367	0.391	0.682	2e-30
Q5M7U5	217	Ras-related protein Rab-1	no	N/A	0.367	0.391	0.682	3e-30
Q923S9	203	Ras-related protein Rab-3	no	N/A	0.363	0.413	0.714	1e-29

>sp|Q28IZ3|RAB19_XENTR Ras-related protein Rab-19 OS=Xenopus tropicalis GN=rab19 PE=2 SV=1

 Score =  144 bits (363), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 63/89 (70%), Positives = 77/89 (86%)

Query: 11 NTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKV 70
          N+ +DD +DFLFK++LIGD  VGKTCVVHRF+SG F     NTIGVDF+++ +NI+GKKV
Sbjct: 5  NSLEDDPFDFLFKIILIGDSNVGKTCVVHRFQSGVFAHNQQNTIGVDFTVRNMNINGKKV 64

Query: 71 KLQIWDTAGQERFRTITQSYYRSANGVII 99
          K+Q+WDTAGQERFRTITQSYYRSA+G II
Sbjct: 65 KVQVWDTAGQERFRTITQSYYRSAHGAII 93

Xenopus tropicalis (taxid: 8364)

>sp|Q32NQ0|RAB19_XENLA Ras-related protein Rab-19 OS=Xenopus laevis GN=rab19 PE=2 SV=1

 Score =  143 bits (360), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 62/88 (70%), Positives = 79/88 (89%)

Query: 12 TFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVK 71
          + +DD +DFLFK++LIGD  VGKTCVVHRF+SG F++   NTIGVDF+++++NI+GKKVK
Sbjct: 6  SLEDDPFDFLFKIILIGDSNVGKTCVVHRFQSGIFMDNQQNTIGVDFTVRSLNINGKKVK 65

Query: 72 LQIWDTAGQERFRTITQSYYRSANGVII 99
          +Q+WDTAGQERFRTITQSYYRSA+G II
Sbjct: 66 VQVWDTAGQERFRTITQSYYRSAHGAII 93

Xenopus laevis (taxid: 8355)

>sp|Q53B90|RAB43_RAT Ras-related protein Rab-43 OS=Rattus norvegicus GN=Rab43 PE=2 SV=1

 Score =  142 bits (357), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 64/86 (74%), Positives = 75/86 (87%)

Query: 14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
          QD+ YDFLFK+VL+GD  VGKTCVV RF++G F  + G+TIGVDF+MKT+ I GK+VKLQ
Sbjct: 9  QDEHYDFLFKLVLVGDASVGKTCVVQRFKTGAFSARQGSTIGVDFTMKTLEIQGKRVKLQ 68

Query: 74 IWDTAGQERFRTITQSYYRSANGVII 99
          IWDTAGQERFRTITQSYYRSANG I+
Sbjct: 69 IWDTAGQERFRTITQSYYRSANGAIL 94

Rattus norvegicus (taxid: 10116)

>sp|Q8CG50|RAB43_MOUSE Ras-related protein Rab-43 OS=Mus musculus GN=Rab43 PE=1 SV=1

 Score =  142 bits (357), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 64/86 (74%), Positives = 75/86 (87%)

Query: 14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
          QD+ YDFLFK+VL+GD  VGKTCVV RF++G F  + G+TIGVDF+MKT+ I GK+VKLQ
Sbjct: 9  QDEHYDFLFKLVLVGDASVGKTCVVQRFKTGAFSARQGSTIGVDFTMKTLEIQGKRVKLQ 68

Query: 74 IWDTAGQERFRTITQSYYRSANGVII 99
          IWDTAGQERFRTITQSYYRSANG I+
Sbjct: 69 IWDTAGQERFRTITQSYYRSANGAIL 94

Mus musculus (taxid: 10090)

>sp|Q86YS6|RAB43_HUMAN Ras-related protein Rab-43 OS=Homo sapiens GN=RAB43 PE=1 SV=1

 Score =  141 bits (356), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 63/84 (75%), Positives = 74/84 (88%)

Query: 16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
          + YDFLFK+VL+GD  VGKTCVV RF++G F E+ G+TIGVDF+MKT+ I GK+VKLQIW
Sbjct: 13 EQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIW 72

Query: 76 DTAGQERFRTITQSYYRSANGVII 99
          DTAGQERFRTITQSYYRSANG I+
Sbjct: 73 DTAGQERFRTITQSYYRSANGAIL 96

Homo sapiens (taxid: 9606)

>sp|A4D1S5|RAB19_HUMAN Ras-related protein Rab-19 OS=Homo sapiens GN=RAB19 PE=2 SV=2

 Score =  133 bits (335), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 57/85 (67%), Positives = 74/85 (87%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
          D+++D+LFK++LIGD  VGKTCVV  F+SG + E   NTIGVDF++++++IDGKKVK+Q+
Sbjct: 11 DENFDYLFKIILIGDSNVGKTCVVQHFKSGVYTETQQNTIGVDFTVRSLDIDGKKVKMQV 70

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFRTITQSYYRSA+  II
Sbjct: 71 WDTAGQERFRTITQSYYRSAHAAII 95

Homo sapiens (taxid: 9606)

>sp|Q3ZC27|RAB19_BOVIN Ras-related protein Rab-19 OS=Bos taurus GN=RAB19 PE=2 SV=1

 Score =  132 bits (333), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 57/85 (67%), Positives = 73/85 (85%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
          D+++D+LFK++LIGD  VGKTCVV  F+SG ++E   NTIGVDF+++ + IDGKKVK+Q+
Sbjct: 11 DENFDYLFKIILIGDSNVGKTCVVQHFKSGVYMEAQQNTIGVDFTVRALEIDGKKVKMQV 70

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFRTITQSYYRSA+  II
Sbjct: 71 WDTAGQERFRTITQSYYRSAHAAII 95

Bos taurus (taxid: 9913)

>sp|P35294|RAB19_MOUSE Ras-related protein Rab-19 OS=Mus musculus GN=Rab19 PE=2 SV=3

 Score =  132 bits (331), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 58/85 (68%), Positives = 72/85 (84%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
          D++ D+LFKV+LIGD  VGKTCVV  F+SG + E   NTIGVDF+++++ IDGKKVK+Q+
Sbjct: 11 DENVDYLFKVILIGDSNVGKTCVVQHFKSGVYSESQQNTIGVDFTVRSLEIDGKKVKMQV 70

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFRTITQSYYRSA+  II
Sbjct: 71 WDTAGQERFRTITQSYYRSAHAAII 95

Mus musculus (taxid: 10090)

>sp|Q5M7U5|RAB19_RAT Ras-related protein Rab-19 OS=Rattus norvegicus GN=Rab19 PE=2 SV=1

 Score =  132 bits (331), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 58/85 (68%), Positives = 72/85 (84%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
          D++ D+LFKV+LIGD  VGKTCVV  F+SG + E   NTIGVDF+++++ IDGKKVK+Q+
Sbjct: 11 DENVDYLFKVILIGDSNVGKTCVVQHFKSGVYSESQQNTIGVDFTVRSLEIDGKKVKMQV 70

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFRTITQSYYRSA+  II
Sbjct: 71 WDTAGQERFRTITQSYYRSAHAAII 95

Rattus norvegicus (taxid: 10116)

>sp|Q923S9|RAB30_MOUSE Ras-related protein Rab-30 OS=Mus musculus GN=Rab30 PE=2 SV=1

 Score =  130 bits (326), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 60/84 (71%), Positives = 70/84 (83%)

Query: 16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
          + YDFLFK+VLIG+ GVGKTC+V RF  G F    G TIGVDF +KTV I+G+KVKLQIW
Sbjct: 4  EDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIW 63

Query: 76 DTAGQERFRTITQSYYRSANGVII 99
          DTAGQERFR+ITQSYYRSAN +I+
Sbjct: 64 DTAGQERFRSITQSYYRSANALIL 87

Mus musculus (taxid: 10090)

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	231
332018505	212	Ras-related protein Rab-43 [Acromyrmex e	0.385	0.419	0.831	1e-37
241124292	208	RAB-19, 41 and, putative [Ixodes scapula	0.367	0.408	0.847	5e-37
31199429	220	AGAP007096-PA [Anopheles gambiae str. PE	0.428	0.45	0.747	5e-37
91086487	221	PREDICTED: similar to rab 19, 41 and [Tr	0.411	0.429	0.737	7e-37
380025950	219	PREDICTED: ras-related protein Rab-43-li	0.398	0.420	0.793	7e-37
66508944	219	PREDICTED: ras-related protein Rab-43 [A	0.398	0.420	0.782	9e-37
340714578	219	PREDICTED: ras-related protein Rab-43-li	0.411	0.433	0.744	2e-36
307192561	215	Ras-related protein Rab-43 [Harpegnathos	0.372	0.4	0.825	2e-36
427787063	208	Putative rab subfamily protein of small	0.367	0.408	0.835	2e-36
170027760	219	rab 19 [Culex quinquefasciatus] gi|16786	0.393	0.415	0.765	2e-36

>gi|332018505|gb|EGI59095.1| Ras-related protein Rab-43 [Acromyrmex echinatior]

 Score =  162 bits (410), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 74/89 (83%), Positives = 82/89 (92%)

Query: 11 NTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKV 70
          NT  D+S+D+LFK+VLIGDCG GKTCVV RFRSG FVE+ GNTIGVDF+MKTV IDGK+V
Sbjct: 3  NTSDDESFDYLFKIVLIGDCGTGKTCVVQRFRSGTFVERHGNTIGVDFTMKTVLIDGKRV 62

Query: 71 KLQIWDTAGQERFRTITQSYYRSANGVII 99
          KLQIWDTAGQERFRTITQSYYRSANGVI+
Sbjct: 63 KLQIWDTAGQERFRTITQSYYRSANGVIV 91

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|241124292|ref|XP_002404123.1| RAB-19, 41 and, putative [Ixodes scapularis] gi|215493584|gb|EEC03225.1| RAB-19, 41 and, putative [Ixodes scapularis]

 Score =  160 bits (404), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 72/85 (84%), Positives = 81/85 (95%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
          DD +DFLFK+VLIGDCGVGKTCVVHRF+SG +VE+ GNTIGVDF+MKT+ ++GKKVKLQI
Sbjct: 4  DDHFDFLFKIVLIGDCGVGKTCVVHRFKSGMYVERHGNTIGVDFAMKTLTVEGKKVKLQI 63

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFRTITQSYYRSANGVII
Sbjct: 64 WDTAGQERFRTITQSYYRSANGVII 88

Source: Ixodes scapularis

Species: Ixodes scapularis

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|31199429|ref|XP_308662.1| AGAP007096-PA [Anopheles gambiae str. PEST] gi|21291806|gb|EAA03951.1| AGAP007096-PA [Anopheles gambiae str. PEST]

 Score =  160 bits (404), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 74/99 (74%), Positives = 86/99 (86%)

Query: 1  MSSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSM 60
          MS+S      +T  D+S+DFLFK+VLIGDCG GKTC+V RF+SG+F+E  GNTIGVDFSM
Sbjct: 1  MSASGPTSLISTGGDESFDFLFKIVLIGDCGTGKTCIVQRFKSGNFIESHGNTIGVDFSM 60

Query: 61 KTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
          K V++DGKKVKLQIWDTAGQERFRTITQSYYRSANGV+I
Sbjct: 61 KAVSVDGKKVKLQIWDTAGQERFRTITQSYYRSANGVLI 99

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91086487|ref|XP_970606.1| PREDICTED: similar to rab 19, 41 and [Tribolium castaneum] gi|270009806|gb|EFA06254.1| hypothetical protein TcasGA2_TC009113 [Tribolium castaneum]

 Score =  159 bits (403), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 73/99 (73%), Positives = 85/99 (85%), Gaps = 4/99 (4%)

Query: 5  LTNDHPNTFQ----DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSM 60
          +T  +P T      +D++DFLFK+VLIGDCG GKTC+V RF++G F+E+ GNTIGVDFSM
Sbjct: 1  MTARNPTTLMAIPAEDTFDFLFKIVLIGDCGTGKTCIVQRFKNGTFIERHGNTIGVDFSM 60

Query: 61 KTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
          KTV +DGKKVKLQIWDTAGQERFRTITQSYYRSANGVII
Sbjct: 61 KTVMVDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380025950|ref|XP_003696725.1| PREDICTED: ras-related protein Rab-43-like [Apis florea]

 Score =  159 bits (403), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 73/92 (79%), Positives = 82/92 (89%)

Query: 8  DHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDG 67
          D+  T  D+++D+LFK+VLIGDCG GKTCVV RFRSG F+E+ GNTIGVDFSMKTV ID 
Sbjct: 7  DNLITTNDENFDYLFKIVLIGDCGTGKTCVVQRFRSGTFIERHGNTIGVDFSMKTVLIDD 66

Query: 68 KKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
          KKVKLQIWDTAGQERFRTITQSYYRSANGVI+
Sbjct: 67 KKVKLQIWDTAGQERFRTITQSYYRSANGVIV 98

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66508944|ref|XP_624576.1| PREDICTED: ras-related protein Rab-43 [Apis mellifera]

 Score =  159 bits (402), Expect = 9e-37,   Method: Compositional matrix adjust.
 Identities = 72/92 (78%), Positives = 82/92 (89%)

Query: 8  DHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDG 67
          D+  T  D+++D+LFK+VLIGDCG GKTCVV RFRSG F+E+ GNTIGVDFSMKT+ ID 
Sbjct: 7  DNLITTNDENFDYLFKIVLIGDCGTGKTCVVQRFRSGTFIERHGNTIGVDFSMKTILIDD 66

Query: 68 KKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
          KKVKLQIWDTAGQERFRTITQSYYRSANGVI+
Sbjct: 67 KKVKLQIWDTAGQERFRTITQSYYRSANGVIV 98

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340714578|ref|XP_003395804.1| PREDICTED: ras-related protein Rab-43-like [Bombus terrestris] gi|350411163|ref|XP_003489259.1| PREDICTED: ras-related protein Rab-43-like [Bombus impatiens]

 Score =  158 bits (400), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 73/98 (74%), Positives = 84/98 (85%), Gaps = 3/98 (3%)

Query: 5  LTNDHPNTF---QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMK 61
          ++N  P+      D+++D+LFK+VLIGDCG GKTCVV RFRSG F+E+ GNTIGVDFSMK
Sbjct: 1  MSNRDPDNLMATNDENFDYLFKIVLIGDCGTGKTCVVQRFRSGTFIERHGNTIGVDFSMK 60

Query: 62 TVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
          TV ID KKVKLQIWDTAGQERFRTITQSYYRSANGVI+
Sbjct: 61 TVLIDDKKVKLQIWDTAGQERFRTITQSYYRSANGVIV 98

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307192561|gb|EFN75749.1| Ras-related protein Rab-43 [Harpegnathos saltator]

 Score =  158 bits (400), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 71/86 (82%), Positives = 80/86 (93%)

Query: 14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
           D+++D+LFK+VLIGDCG GKTCVV RF+SG +VE+ GNTIGVDFSMKTV IDGK+VKLQ
Sbjct: 14 NDENFDYLFKIVLIGDCGTGKTCVVQRFKSGTYVERQGNTIGVDFSMKTVLIDGKRVKLQ 73

Query: 74 IWDTAGQERFRTITQSYYRSANGVII 99
          IWDTAGQERFRTITQSYYRSANGVII
Sbjct: 74 IWDTAGQERFRTITQSYYRSANGVII 99

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427787063|gb|JAA58983.1| Putative rab subfamily protein of small gtpase [Rhipicephalus pulchellus]

 Score =  158 bits (399), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 71/85 (83%), Positives = 81/85 (95%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
          D+ +DFLFK+VLIGDCGVGKTCVVHRF+SG +VE+ GNTIGVDF+MKT+ ++GKKVKLQI
Sbjct: 4  DEHFDFLFKIVLIGDCGVGKTCVVHRFKSGMYVERHGNTIGVDFAMKTLTVEGKKVKLQI 63

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFRTITQSYYRSANGVII
Sbjct: 64 WDTAGQERFRTITQSYYRSANGVII 88

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170027760|ref|XP_001841765.1| rab 19 [Culex quinquefasciatus] gi|167862335|gb|EDS25718.1| rab 19 [Culex quinquefasciatus]

 Score =  158 bits (399), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 72/94 (76%), Positives = 82/94 (87%), Gaps = 3/94 (3%)

Query: 9  HPNTF---QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI 65
          +P T     ++S+DFLFK+VLIGDCG GKTC+V RF+SG+F+E  GNTIGVDFSMK V +
Sbjct: 6  NPTTLMISNEESFDFLFKIVLIGDCGTGKTCIVQRFKSGNFIESHGNTIGVDFSMKAVTV 65

Query: 66 DGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
          DGKKVKLQIWDTAGQERFRTITQSYYRSANGVII
Sbjct: 66 DGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	231
FB|FBgn0015793	219	Rab19 "Rab19" [Drosophila mela	0.411	0.433	0.666	4.6e-34
ZFIN|ZDB-GENE-060825-25	208	zgc:153788 "zgc:153788" [Danio	0.367	0.408	0.8	4.6e-34
WB|WBGene00004278	210	rab-19 [Caenorhabditis elegans	0.367	0.404	0.741	4.1e-33
UNIPROTKB|F1P278	212	RAB19 "Uncharacterized protein	0.367	0.400	0.717	3.7e-32
UNIPROTKB|E2RP90	212	RAB43 "Uncharacterized protein	0.367	0.400	0.752	4.7e-32
UNIPROTKB|E9PBQ0	155	RAB43 "Ras-related protein Rab	0.367	0.548	0.752	4.7e-32
UNIPROTKB|Q86YS6	212	RAB43 "Ras-related protein Rab	0.367	0.400	0.752	4.7e-32
UNIPROTKB|F1P1G4	212	RAB43 "Uncharacterized protein	0.389	0.424	0.711	7.7e-32
MGI|MGI:1917084	210	Rab43 "RAB43, member RAS oncog	0.372	0.409	0.744	7.7e-32
RGD|1565300	210	Rab43 "RAB43, member RAS oncog	0.372	0.409	0.744	7.7e-32

FB|FBgn0015793 Rab19 "Rab19" [Drosophila melanogaster (taxid:7227)]

 Score = 370 (135.3 bits), Expect = 4.6e-34, P = 4.6e-34
 Identities = 66/99 (66%), Positives = 85/99 (85%)

Query:     5 LTNDHPNTFQ----DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSM 60
             +T  +P T      ++ +DFLFK+VLIGDCG GKTC+V RF++G+++E+ GNTIGVDFSM
Sbjct:     1 MTARNPQTLMALPNEEHFDFLFKIVLIGDCGTGKTCIVDRFKTGNYIERHGNTIGVDFSM 60

Query:    61 KTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
             KT+ ++GK++KLQIWDTAGQERFRTITQSYYRSANGV+I
Sbjct:    61 KTIAVEGKQIKLQIWDTAGQERFRTITQSYYRSANGVLI 99

GO:0005525 "GTP binding" evidence=ISS

GO:0005097 "Rab GTPase activator activity" evidence=ISS

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

GO:0015031 "protein transport" evidence=IEA

GO:0031982 "vesicle" evidence=ISS

ZFIN|ZDB-GENE-060825-25 zgc:153788 "zgc:153788" [Danio rerio (taxid:7955)]

 Score = 370 (135.3 bits), Expect = 4.6e-34, P = 4.6e-34
 Identities = 68/85 (80%), Positives = 77/85 (90%)

Query:    15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
             DDSYD +FK+VL+GD GVGKTCVV RF++G F+EK GNTIGVDF+MKT+ I GK+VKLQI
Sbjct:     7 DDSYDLVFKIVLVGDVGVGKTCVVQRFKTGIFIEKQGNTIGVDFTMKTLEIHGKRVKLQI 66

Query:    75 WDTAGQERFRTITQSYYRSANGVII 99
             WDTAGQERFRTITQSYYRSANG II
Sbjct:    67 WDTAGQERFRTITQSYYRSANGAII 91

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

GO:0000166 "nucleotide binding" evidence=IEA

WB|WBGene00004278 rab-19 [Caenorhabditis elegans (taxid:6239)]

 Score = 361 (132.1 bits), Expect = 4.1e-33, P = 4.1e-33
 Identities = 63/85 (74%), Positives = 77/85 (90%)

Query:    15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
             DD +D+LFK+VL+GD GVGKTCVV RFR+G FV++ G TIGVDF+MKT+ +DGK+VKLQI
Sbjct:     4 DDGFDYLFKIVLVGDMGVGKTCVVQRFRNGTFVDRQGTTIGVDFTMKTLVVDGKRVKLQI 63

Query:    75 WDTAGQERFRTITQSYYRSANGVII 99
             WDT GQERFRTITQSYYRSANG+++
Sbjct:    64 WDTGGQERFRTITQSYYRSANGIVL 88

GO:0005525 "GTP binding" evidence=IEA

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

GO:0003924 "GTPase activity" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0016020 "membrane" evidence=IEA

UNIPROTKB|F1P278 RAB19 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 352 (129.0 bits), Expect = 3.7e-32, P = 3.7e-32
 Identities = 61/85 (71%), Positives = 78/85 (91%)

Query:    15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
             DD++D+LFK++LIGD  VGKTCVVHRF++G F EK  NTIGVDF++++++IDGKKVK+Q+
Sbjct:     7 DDAFDYLFKIILIGDSNVGKTCVVHRFKTGQFYEKQQNTIGVDFTVRSMDIDGKKVKIQV 66

Query:    75 WDTAGQERFRTITQSYYRSANGVII 99
             WDTAGQERFRTITQSYYRSA+G I+
Sbjct:    67 WDTAGQERFRTITQSYYRSAHGAIL 91

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|E2RP90 RAB43 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 351 (128.6 bits), Expect = 4.7e-32, P = 4.7e-32
 Identities = 64/85 (75%), Positives = 75/85 (88%)

Query:    15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
             D+ YDFLFK+VL+GD  VGKTCVV RF++G F E+ G+TIGVDF+MKT+ I GK+VKLQI
Sbjct:    12 DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQI 71

Query:    75 WDTAGQERFRTITQSYYRSANGVII 99
             WDTAGQERFRTITQSYYRSANG I+
Sbjct:    72 WDTAGQERFRTITQSYYRSANGAIL 96

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|E9PBQ0 RAB43 "Ras-related protein Rab-43" [Homo sapiens (taxid:9606)]

 Score = 351 (128.6 bits), Expect = 4.7e-32, P = 4.7e-32
 Identities = 64/85 (75%), Positives = 75/85 (88%)

Query:    15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
             D+ YDFLFK+VL+GD  VGKTCVV RF++G F E+ G+TIGVDF+MKT+ I GK+VKLQI
Sbjct:    12 DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQI 71

Query:    75 WDTAGQERFRTITQSYYRSANGVII 99
             WDTAGQERFRTITQSYYRSANG I+
Sbjct:    72 WDTAGQERFRTITQSYYRSANGAIL 96

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|Q86YS6 RAB43 "Ras-related protein Rab-43" [Homo sapiens (taxid:9606)]

 Score = 351 (128.6 bits), Expect = 4.7e-32, P = 4.7e-32
 Identities = 64/85 (75%), Positives = 75/85 (88%)

Query:    15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
             D+ YDFLFK+VL+GD  VGKTCVV RF++G F E+ G+TIGVDF+MKT+ I GK+VKLQI
Sbjct:    12 DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQI 71

Query:    75 WDTAGQERFRTITQSYYRSANGVII 99
             WDTAGQERFRTITQSYYRSANG I+
Sbjct:    72 WDTAGQERFRTITQSYYRSANGAIL 96

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0007030 "Golgi organization" evidence=IMP

GO:0035526 "retrograde transport, plasma membrane to Golgi" evidence=IMP

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0003924 "GTPase activity" evidence=IDA

GO:0045335 "phagocytic vesicle" evidence=IDA

GO:0090382 "phagosome maturation" evidence=IMP

GO:0006184 "GTP catabolic process" evidence=IDA

UNIPROTKB|F1P1G4 RAB43 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 349 (127.9 bits), Expect = 7.7e-32, P = 7.7e-32
 Identities = 64/90 (71%), Positives = 77/90 (85%)

Query:    10 PNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK 69
             P    ++SYDFLFK+VLIGD  VGKTC+V RF++G F E+ G+TIGVDF+MK++ I GK+
Sbjct:     6 PGPDPEESYDFLFKLVLIGDASVGKTCLVQRFKTGAFAERQGSTIGVDFTMKSLEIQGKR 65

Query:    70 VKLQIWDTAGQERFRTITQSYYRSANGVII 99
             VKLQIWDTAGQERFRTITQSYYRSANG I+
Sbjct:    66 VKLQIWDTAGQERFRTITQSYYRSANGAIL 95

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

MGI|MGI:1917084 Rab43 "RAB43, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 349 (127.9 bits), Expect = 7.7e-32, P = 7.7e-32
 Identities = 64/86 (74%), Positives = 75/86 (87%)

Query:    14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
             QD+ YDFLFK+VL+GD  VGKTCVV RF++G F  + G+TIGVDF+MKT+ I GK+VKLQ
Sbjct:     9 QDEHYDFLFKLVLVGDASVGKTCVVQRFKTGAFSARQGSTIGVDFTMKTLEIQGKRVKLQ 68

Query:    74 IWDTAGQERFRTITQSYYRSANGVII 99
             IWDTAGQERFRTITQSYYRSANG I+
Sbjct:    69 IWDTAGQERFRTITQSYYRSANGAIL 94

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=ISO

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISO

GO:0005886 "plasma membrane" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=ISO

GO:0007030 "Golgi organization" evidence=ISO

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0035526 "retrograde transport, plasma membrane to Golgi" evidence=ISO

GO:0045335 "phagocytic vesicle" evidence=ISO

GO:0090382 "phagosome maturation" evidence=ISO

RGD|1565300 Rab43 "RAB43, member RAS oncogene family" [Rattus norvegicus (taxid:10116)]

 Score = 349 (127.9 bits), Expect = 7.7e-32, P = 7.7e-32
 Identities = 64/86 (74%), Positives = 75/86 (87%)

Query:    14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
             QD+ YDFLFK+VL+GD  VGKTCVV RF++G F  + G+TIGVDF+MKT+ I GK+VKLQ
Sbjct:     9 QDEHYDFLFKLVLVGDASVGKTCVVQRFKTGAFSARQGSTIGVDFTMKTLEIQGKRVKLQ 68

Query:    74 IWDTAGQERFRTITQSYYRSANGVII 99
             IWDTAGQERFRTITQSYYRSANG I+
Sbjct:    69 IWDTAGQERFRTITQSYYRSANGAIL 94

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

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISO;ISS

GO:0006184 "GTP catabolic process" evidence=ISO;ISS

GO:0007030 "Golgi organization" evidence=ISO;ISS

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

GO:0015031 "protein transport" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0035526 "retrograde transport, plasma membrane to Golgi" evidence=ISO;ISS

GO:0045335 "phagocytic vesicle" evidence=ISO;ISS

GO:0090382 "phagosome maturation" evidence=ISO;ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P34140	RAB1B_DICDI	No assigned EC number	0.5544	0.4242	0.4757	yes	N/A
Q28IZ3	RAB19_XENTR	No assigned EC number	0.7078	0.3852	0.4178	yes	N/A
P40392	RIC1_ORYSJ	No assigned EC number	0.5555	0.4458	0.5099	yes	N/A
P28188	RAD2A_ARATH	No assigned EC number	0.5740	0.4458	0.5073	yes	N/A
Q53B90	RAB43_RAT	No assigned EC number	0.7441	0.3722	0.4095	yes	N/A
P11620	YPT1_SCHPO	No assigned EC number	0.6341	0.3549	0.4039	yes	N/A
P01123	YPT1_YEAST	No assigned EC number	0.6111	0.3809	0.4271	yes	N/A
Q8CG50	RAB43_MOUSE	No assigned EC number	0.7441	0.3722	0.4095	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	231
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	6e-58
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	7e-47
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	9e-47
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	4e-44
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	2e-43
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	3e-42
pfam00071	162	pfam00071, Ras, Ras family	3e-41
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	1e-39
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	3e-39
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	2e-35
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	1e-34
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	1e-33
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	4e-33
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	4e-33
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	6e-33
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	4e-32
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	9e-32
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	6e-31
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	1e-30
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	5e-30
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	3e-29
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	5e-29
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	5e-28
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	2e-27
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	3e-27
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	5e-25
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	7e-25
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	2e-24
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	3e-23
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	5e-23
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	9e-23
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	3e-22
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	7e-22
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	5e-21
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	2e-20
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	8e-20
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	1e-19
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	1e-18
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	9e-18
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	3e-17
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	3e-17
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	3e-15
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	2e-14
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	4e-14
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	5e-14
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	3e-13
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	4e-13
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	5e-13
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	3e-12
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	3e-12
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	3e-12
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	4e-12
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	6e-12
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	7e-12
pfam08477	116	pfam08477, Miro, Miro-like protein	8e-12
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	1e-11
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	2e-11
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	3e-11
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	3e-11
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	5e-11
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	8e-11
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	8e-11
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	4e-10
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	4e-10
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	1e-09
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	2e-09
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	2e-09
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	2e-09
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	3e-09
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	3e-09
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	4e-09
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	5e-09
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	7e-09
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	3e-08
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	4e-08
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	5e-08
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	6e-08
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	8e-08
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	1e-07
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	2e-07
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	2e-07
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	2e-07
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	3e-07
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	4e-07
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	4e-07
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	4e-07
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	7e-07
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	9e-07
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	2e-06
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	3e-06
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	3e-06
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	4e-06
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	4e-06
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	5e-06
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	8e-06
cd04154	173	cd04154, Arl2, Arf-like 2 (Arl2) GTPase	9e-06
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	5e-05
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	5e-05
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	6e-05
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	1e-04
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	2e-04
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	3e-04
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	7e-04

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

 Score =  180 bits (459), Expect = 6e-58
 Identities = 65/81 (80%), Positives = 72/81 (88%)

Query: 19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
          DFLFK++LIGD  VGKTCVV RF+SG F E+ GNTIGVDF+MKT+ I GK+VKLQIWDTA
Sbjct: 1  DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTA 60

Query: 79 GQERFRTITQSYYRSANGVII 99
          GQERFRTITQSYYRSANG II
Sbjct: 61 GQERFRTITQSYYRSANGAII 81

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

 Score =  152 bits (386), Expect = 7e-47
 Identities = 52/78 (66%), Positives = 61/78 (78%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          FK+VLIGD GVGKT ++ RF    F E   +TIGVDF  KT+ +DGKKVKLQIWDTAGQE
Sbjct: 1  FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQE 60

Query: 82 RFRTITQSYYRSANGVII 99
          RFR+IT SYYR A+G I+
Sbjct: 61 RFRSITSSYYRGAHGAIL 78

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score =  151 bits (385), Expect = 9e-47
 Identities = 49/78 (62%), Positives = 62/78 (79%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          FK++LIGD GVGK+ ++ RF  G F E+  +TIGVDF  KT+ +DGK+VKLQIWDTAGQE
Sbjct: 1  FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQE 60

Query: 82 RFRTITQSYYRSANGVII 99
          RFR+IT SYYR A G ++
Sbjct: 61 RFRSITSSYYRGAVGALL 78

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  145 bits (368), Expect = 4e-44
 Identities = 50/81 (61%), Positives = 65/81 (80%)

Query: 19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
          D+LFK++LIGD GVGK+C++ RF    F     +TIG+DF ++T+ +DGKK+KLQIWDTA
Sbjct: 1  DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTA 60

Query: 79 GQERFRTITQSYYRSANGVII 99
          GQERFRTIT SYYR A G+I+
Sbjct: 61 GQERFRTITTSYYRGAMGIIL 81

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

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

 Score =  143 bits (363), Expect = 2e-43
 Identities = 54/88 (61%), Positives = 69/88 (78%), Gaps = 2/88 (2%)

Query: 20  FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG 79
           +LFK++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK VKLQIWDTAG
Sbjct: 1   YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAG 60

Query: 80  QERFRTITQSYYRSANGVII--EVTSVE 105
           QERFRTIT SYYR A+G+II  +VT  E
Sbjct: 61  QERFRTITSSYYRGAHGIIIVYDVTDQE 88

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

 Score =  140 bits (355), Expect = 3e-42
 Identities = 59/84 (70%), Positives = 69/84 (82%)

Query: 16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
          + YDFLFK+VLIG+ GVGKTC+V RF  G F    G TIGVDF +KTV I G+K+KLQIW
Sbjct: 2  EDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIW 61

Query: 76 DTAGQERFRTITQSYYRSANGVII 99
          DTAGQERFR+ITQSYYRSAN +I+
Sbjct: 62 DTAGQERFRSITQSYYRSANALIL 85

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|215692 pfam00071, Ras, Ras family

 Score =  137 bits (348), Expect = 3e-41
 Identities = 49/105 (46%), Positives = 67/105 (63%), Gaps = 7/105 (6%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+VL+GD GVGK+ ++ RF    F E+   TIGVDF  KT+ +DGK VKLQIWDTAGQER
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQER 60

Query: 83  FRTITQSYYRSANGVII--EVT---SVEYCYQRNWHKQAVTLFDK 122
           FR +   YYR A G ++  ++T   S E    + W ++ +   D+
Sbjct: 61  FRALRPLYYRGAQGFLLVYDITSRDSFENV--KKWLEEILRHADE 103

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

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

 Score =  133 bits (338), Expect = 1e-39
 Identities = 45/81 (55%), Positives = 62/81 (76%)

Query: 19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
          D+LFK+VLIGD GVGK+ ++ RF   +F   + +TIGV+F+ +T+ IDGK +K QIWDTA
Sbjct: 1  DYLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTA 60

Query: 79 GQERFRTITQSYYRSANGVII 99
          GQER+R IT +YYR A G ++
Sbjct: 61 GQERYRAITSAYYRGAVGALL 81

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

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

 Score =  132 bits (334), Expect = 3e-39
 Identities = 52/86 (60%), Positives = 64/86 (74%), Gaps = 2/86 (2%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K++LIGD GVGK+ ++ RF    F E   +TIGVDF +KTV +DGKKVKL IWDTAGQE
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQE 60

Query: 82  RFRTITQSYYRSANGVII--EVTSVE 105
           RFRT+T SYYR A GVI+  +VT  +
Sbjct: 61  RFRTLTSSYYRGAQGVILVYDVTRRD 86

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

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

 Score =  124 bits (312), Expect = 2e-35
 Identities = 52/90 (57%), Positives = 68/90 (75%), Gaps = 2/90 (2%)

Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           YD LFK+++IGD GVGK+ ++ RF    F      TIGVDF ++TV I+G++VKLQIWDT
Sbjct: 3   YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDT 62

Query: 78  AGQERFRTITQSYYRSANGVII--EVTSVE 105
           AGQERFRTIT +YYR  +GVI+  +VT+ E
Sbjct: 63  AGQERFRTITSTYYRGTHGVIVVYDVTNGE 92

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

 Score =  121 bits (304), Expect = 1e-34
 Identities = 50/101 (49%), Positives = 70/101 (69%), Gaps = 3/101 (2%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK ++IG  G GK+C++H+F    F + + +TIGV+F  + VN+ GK VKLQIWDTAGQE
Sbjct: 1   FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQE 60

Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVTL 119
           RFR++T+SYYR A G ++  ++TS E +    NW   A TL
Sbjct: 61  RFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTL 101

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

 Score =  118 bits (298), Expect = 1e-33
 Identities = 44/78 (56%), Positives = 62/78 (79%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          FK+++IGD  VGKTC+ +RF +G F E+T  TIGVDF  +TV IDG+++K+Q+WDTAGQE
Sbjct: 3  FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQE 62

Query: 82 RFR-TITQSYYRSANGVI 98
          RFR ++ Q YYR+ + V+
Sbjct: 63 RFRKSMVQHYYRNVHAVV 80

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

 Score =  117 bits (295), Expect = 4e-33
 Identities = 44/97 (45%), Positives = 63/97 (64%), Gaps = 3/97 (3%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD  VGK+ +V RF   +F E   +TIG  F  +TVN+D   VK +IWDTAGQE
Sbjct: 2   FKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQE 61

Query: 82  RFRTITQSYYRSANGVII--EVTSVEYCYQ-RNWHKQ 115
           R+R++   YYR A   I+  ++TS E   + ++W K+
Sbjct: 62  RYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKE 98

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score =  118 bits (298), Expect = 4e-33
 Identities = 46/85 (54%), Positives = 65/85 (76%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
          D  YD+LFK+VLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ +T+ ++GK VK QI
Sbjct: 6  DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQER+R IT +YYR A G ++
Sbjct: 66 WDTAGQERYRAITSAYYRGAVGALL 90

Length = 216

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

 Score =  116 bits (293), Expect = 6e-33
 Identities = 41/80 (51%), Positives = 62/80 (77%)

Query: 20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG 79
          ++FK ++IGD GVGK+C++H+F    F+    +TIGV+F  + + ++G+K+KLQIWDTAG
Sbjct: 1  YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAG 60

Query: 80 QERFRTITQSYYRSANGVII 99
          QERFR +T+SYYR A G ++
Sbjct: 61 QERFRAVTRSYYRGAAGALM 80

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

 Score =  114 bits (288), Expect = 4e-32
 Identities = 44/82 (53%), Positives = 60/82 (73%)

Query: 18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
          Y +LFK ++IGD GVGK+C++ +F    F      TIGV+F  + + IDGK++KLQIWDT
Sbjct: 1  YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDT 60

Query: 78 AGQERFRTITQSYYRSANGVII 99
          AGQE FR+IT+SYYR A G ++
Sbjct: 61 AGQESFRSITRSYYRGAAGALL 82

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

 Score =  113 bits (284), Expect = 9e-32
 Identities = 49/90 (54%), Positives = 68/90 (75%), Gaps = 3/90 (3%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           F+++LIGD GVGKTC++ RF   +F     +TIGVDF MKT+ +DG KV++QIWDTAGQE
Sbjct: 1   FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQE 60

Query: 82  RFRTITQSYYRSANGVII--EVTSVEYCYQ 109
           R++TIT+ YYR A G+ +  +++S E  YQ
Sbjct: 61  RYQTITKQYYRRAQGIFLVYDISS-ERSYQ 89

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

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

 Score =  112 bits (283), Expect = 6e-31
 Identities = 44/99 (44%), Positives = 72/99 (72%), Gaps = 4/99 (4%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI-DGKKVKLQIWDTAGQ 80
           F++++IGD  VGK+ ++ RF  G F E +  T+GVDF  + + I  G ++KLQ+WDTAGQ
Sbjct: 3   FRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQ 62

Query: 81  ERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQA 116
           ERFR+IT+SYYR++ GV++  ++T+ E + +  +W ++A
Sbjct: 63  ERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEA 101

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

 Score =  110 bits (277), Expect = 1e-30
 Identities = 36/78 (46%), Positives = 52/78 (66%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K+V +GD  VGKT ++ RF    F  +   TIG+DF  KT+ +D K V+LQ+WDTAGQE
Sbjct: 1  HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQE 60

Query: 82 RFRTITQSYYRSANGVII 99
          RFR++  SY R ++  ++
Sbjct: 61 RFRSLIPSYIRDSSVAVV 78

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

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

 Score =  110 bits (276), Expect = 5e-30
 Identities = 51/94 (54%), Positives = 66/94 (70%), Gaps = 3/94 (3%)

Query: 14  QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
           Q   YD  FK++LIGD GVGK+ ++  F S   VE    TIGVDF +K + + GK++KL 
Sbjct: 7   QSSGYDLSFKILLIGDSGVGKSSLLVSFISSS-VEDLAPTIGVDFKIKQLTVGGKRLKLT 65

Query: 74  IWDTAGQERFRTITQSYYRSANGVII--EVTSVE 105
           IWDTAGQERFRT+T SYYR+A G+I+  +VT  E
Sbjct: 66  IWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRE 99

Length = 211

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

 Score =  108 bits (271), Expect = 3e-29
 Identities = 44/83 (53%), Positives = 59/83 (71%)

Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
          SY +LFK ++IGD GVGK+C++ +F    F      TIGV+F  + + ID K +KLQIWD
Sbjct: 2  SYAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWD 61

Query: 77 TAGQERFRTITQSYYRSANGVII 99
          TAGQE FR+IT+SYYR A G ++
Sbjct: 62 TAGQESFRSITRSYYRGAAGALL 84

Length = 210

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

 Score =  107 bits (269), Expect = 5e-29
 Identities = 40/79 (50%), Positives = 54/79 (68%), Gaps = 1/79 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-GKKVKLQIWDTAGQ 80
          FKV++IGD GVGKT ++ R+  G F +    TIGVDF++K +  D    V+LQ+WD AGQ
Sbjct: 1  FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ 60

Query: 81 ERFRTITQSYYRSANGVII 99
          ERF  +T+ YY+ A G II
Sbjct: 61 ERFGGMTRVYYKGAVGAII 79

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

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

 Score =  104 bits (261), Expect = 5e-28
 Identities = 45/81 (55%), Positives = 63/81 (77%), Gaps = 5/81 (6%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGN---TIGVDFSMKTVNIDGKKVKLQIWDTA 78
          FKV+L+GD GVGKTC++ RF+ G F+   G+   T+G+ F+ K V +DG KVKLQIWDTA
Sbjct: 1  FKVMLVGDSGVGKTCLLVRFKDGAFL--AGSFIATVGIQFTNKVVTVDGVKVKLQIWDTA 58

Query: 79 GQERFRTITQSYYRSANGVII 99
          GQERFR++T +YYR A+ +++
Sbjct: 59 GQERFRSVTHAYYRDAHALLL 79

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

 Score =  102 bits (256), Expect = 2e-27
 Identities = 40/78 (51%), Positives = 51/78 (65%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          FKVVL+G+  VGKT +V R+    F EK  +T    F  KTVNI GK++ L IWDTAGQE
Sbjct: 1  FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE 60

Query: 82 RFRTITQSYYRSANGVII 99
          R+  +   YYR A+G I+
Sbjct: 61 RYHALGPIYYRDADGAIL 78

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

 Score =  103 bits (258), Expect = 3e-27
 Identities = 37/82 (45%), Positives = 53/82 (64%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+V++GD GVGKT +++R    +F E    TIG     KT+    + +KLQ+WDTAGQE
Sbjct: 6   FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQE 65

Query: 82  RFRTITQSYYRSANGVIIEVTS 103
            +R++   YYR ANG++I   S
Sbjct: 66  EYRSLRPEYYRGANGILIVYDS 87

Length = 219

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

 Score = 97.4 bits (242), Expect = 5e-25
 Identities = 44/77 (57%), Positives = 59/77 (76%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          +V++IG  GVGKT ++ RF    F E   +T+GVDF +KTV + GKK++LQIWDTAGQER
Sbjct: 2  QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQER 61

Query: 83 FRTITQSYYRSANGVII 99
          F +IT +YYRSA G+I+
Sbjct: 62 FNSITSAYYRSAKGIIL 78

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

 Score = 95.8 bits (239), Expect = 7e-25
 Identities = 34/73 (46%), Positives = 51/73 (69%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           KV+++GD GVGKT +++++ +  F  +   TIG DF  K V +D + V LQIWDTAGQE
Sbjct: 1  LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQE 60

Query: 82 RFRTITQSYYRSA 94
          RF+++  ++YR A
Sbjct: 61 RFQSLGVAFYRGA 73

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

 Score = 94.6 bits (235), Expect = 2e-24
 Identities = 45/101 (44%), Positives = 68/101 (67%), Gaps = 3/101 (2%)

Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           +FK+++IG+  VGKT  + R+    F     +T+G+DF +KTV  + K++KLQIWDTAGQ
Sbjct: 1   MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQ 60

Query: 81  ERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVT 118
           ER+RTIT +YYR A G I+  ++T+ E +   ++W  Q  T
Sbjct: 61  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKT 101

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

 Score = 91.8 bits (228), Expect = 3e-23
 Identities = 46/112 (41%), Positives = 67/112 (59%), Gaps = 15/112 (13%)

Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTV--------NIDGK- 68
           YD+L K++ +GD GVGKT  ++R+    F  K   T+G+DF  K V           GK 
Sbjct: 1   YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKA 60

Query: 69  -KVKLQIWDTAGQERFRTITQSYYRSANG--VIIEVTSVEYCYQ--RNWHKQ 115
            +V LQ+WDTAGQERFR++T +++R A G  ++ ++TS E  +   RNW  Q
Sbjct: 61  FRVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTS-EQSFLNVRNWMSQ 111

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

 Score = 91.0 bits (226), Expect = 5e-23
 Identities = 34/79 (43%), Positives = 50/79 (63%), Gaps = 2/79 (2%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID--GKKVKLQIWDTAGQ 80
          KV+++G+  VGK+ ++ RF  G F +    TIGVDF  K + +    + V+L +WDTAGQ
Sbjct: 2  KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ 61

Query: 81 ERFRTITQSYYRSANGVII 99
          E F  IT++YYR A   I+
Sbjct: 62 EEFDAITKAYYRGAQACIL 80

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

 Score = 90.3 bits (225), Expect = 9e-23
 Identities = 35/82 (42%), Positives = 50/82 (60%), Gaps = 2/82 (2%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+V++G  GVGK+ +  RF SG+FVE+   TI  D   K + +DG+   L I DTAGQE 
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDILDTAGQEE 59

Query: 83  FRTITQSYYRSANGVIIEVTSV 104
           F  +   Y R+ +G I+ V S+
Sbjct: 60  FSAMRDQYIRNGDGFIL-VYSI 80

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

 Score = 89.2 bits (221), Expect = 3e-22
 Identities = 44/100 (44%), Positives = 62/100 (62%), Gaps = 7/100 (7%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           KV+++GD  VGKTC+++RF    F +    TIGVDF M+   + G    LQ+WDTAGQER
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQER 61

Query: 83  FRTITQSYYRSANGVII-----EVTSVEYCYQRNWHKQAV 117
           F+ I  +YYR A  +II     +V S+E  + R W + A+
Sbjct: 62  FKCIASTYYRGAQAIIIVFDLTDVASLE--HTRQWLEDAL 99

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

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

 Score = 88.0 bits (218), Expect = 7e-22
 Identities = 36/75 (48%), Positives = 54/75 (72%)

Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+L+GD GVGK+ +++R+ +  F  +  +TIGV+F  K + +DG  V LQIWDTAGQ
Sbjct: 5  LLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQ 64

Query: 81 ERFRTITQSYYRSAN 95
          ERFR++   +YR ++
Sbjct: 65 ERFRSLRTPFYRGSD 79

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

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

 Score = 86.5 bits (214), Expect = 5e-21
 Identities = 35/87 (40%), Positives = 47/87 (54%), Gaps = 8/87 (9%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           KVV++G   VGKT +V R+    F V    NTIG  F  K + +  + V L IWDTAG E
Sbjct: 2   KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSE 61

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCY 108
           R+  +++ YYR A   I+       CY
Sbjct: 62  RYEAMSRIYYRGAKAAIV-------CY 81

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

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

 Score = 84.6 bits (209), Expect = 2e-20
 Identities = 36/83 (43%), Positives = 55/83 (66%)

Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
          +YD+L K +L+GD  VGK  ++   + G      G  +G+D+   T+ +DG++VKLQ+WD
Sbjct: 2  AYDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWD 61

Query: 77 TAGQERFRTITQSYYRSANGVII 99
          T+GQ RF TI +SY R A G+I+
Sbjct: 62 TSGQGRFCTIFRSYSRGAQGIIL 84

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

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

 Score = 82.7 bits (205), Expect = 8e-20
 Identities = 40/99 (40%), Positives = 56/99 (56%), Gaps = 3/99 (3%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +  K++  +WDTAGQE
Sbjct: 1   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQE 60

Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAV 117
           +F  +   YY      II  +VTS V Y    NWH+  V
Sbjct: 61  KFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLV 99

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

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

 Score = 83.2 bits (206), Expect = 1e-19
 Identities = 38/99 (38%), Positives = 54/99 (54%), Gaps = 3/99 (3%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK++L+GD GVGKT  V R  +G+F +K   T+GV+        +   +   +WDTAGQE
Sbjct: 10  FKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQE 69

Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAV 117
           +F  +   YY      II  +VTS + Y    NWH+  V
Sbjct: 70  KFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIV 108

Length = 215

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

 Score = 79.3 bits (196), Expect = 1e-18
 Identities = 23/84 (27%), Positives = 40/84 (47%), Gaps = 1/84 (1%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGD-FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
            K+V++GD  VGK+ +++R       + +       ++    +  DGK  K  + DTAGQ
Sbjct: 2   IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ 61

Query: 81  ERFRTITQSYYRSANGVIIEVTSV 104
           E +  I + YYR+    +     V
Sbjct: 62  EDYDAIRRLYYRAVESSLRVFDIV 85

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

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

 Score = 77.0 bits (190), Expect = 9e-18
 Identities = 26/77 (33%), Positives = 49/77 (63%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          KV+ +G+ GVGK+C++ R+  G FV K   TIG+D+ +K V++  K+V++  +D +G   
Sbjct: 2  KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPE 61

Query: 83 FRTITQSYYRSANGVII 99
          +  +   +Y+   GV++
Sbjct: 62 YLEVRNEFYKDTQGVLL 78

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

 Score = 75.7 bits (187), Expect = 3e-17
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 2/83 (2%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +K+V++G  GVGK+ +  +F  G FV+    TI  D   K + IDG+   L I DTAGQE
Sbjct: 1   YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 59

Query: 82  RFRTITQSYYRSANGVIIEVTSV 104
            F  +   Y R+  G ++ V S+
Sbjct: 60  EFSAMRDQYMRTGEGFLL-VYSI 81

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

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

 Score = 75.7 bits (187), Expect = 3e-17
 Identities = 32/83 (38%), Positives = 48/83 (57%), Gaps = 2/83 (2%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +K+V++G  GVGK+ +  +F  G FV++   TI  D   K + IDG+   L I DTAGQE
Sbjct: 3   YKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 61

Query: 82  RFRTITQSYYRSANGVIIEVTSV 104
            F  +   Y R+  G ++ V S+
Sbjct: 62  EFSAMRDQYMRTGEGFLL-VYSI 83

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

 Score = 70.3 bits (172), Expect = 3e-15
 Identities = 28/77 (36%), Positives = 44/77 (57%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K++L+GD  VGK+ +V RF    +  +  +T  +         +GK + +  WDTAGQER
Sbjct: 2  KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQER 61

Query: 83 FRTITQSYYRSANGVII 99
          F+T+  SYY  A+  I+
Sbjct: 62 FQTMHASYYHKAHACIL 78

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

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

 Score = 69.4 bits (170), Expect = 2e-14
 Identities = 39/108 (36%), Positives = 55/108 (50%), Gaps = 5/108 (4%)

Query: 10  PNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK 69
           PN    D     FK+V++GD G GKT  V R  +G+F +K   TIGV+        +  K
Sbjct: 4   PNQQTVDY--PSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGK 61

Query: 70  VKLQIWDTAGQERFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHK 114
           ++   WDTAGQE+F  +   YY      II  +VT+ + Y     WH+
Sbjct: 62  IRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHR 109

Length = 219

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

 Score = 67.6 bits (166), Expect = 4e-14
 Identities = 26/77 (33%), Positives = 43/77 (55%), Gaps = 1/77 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD  VGKTC++  + +  F  +   T+  D     V +DGK+V L +WDTAGQE 
Sbjct: 2  KIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV-FDNYSANVTVDGKQVNLGLWDTAGQEE 60

Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   +  ++
Sbjct: 61 YDRLRPLSYPQTDVFLL 77

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

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

 Score = 66.8 bits (164), Expect = 5e-14
 Identities = 25/76 (32%), Positives = 49/76 (64%), Gaps = 5/76 (6%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          +++++G  G GKT ++++ + G+ V  T  TIG  F+++T  ++ K VK  +WD  GQ++
Sbjct: 1  RILMLGLDGAGKTTILYKLKLGEVV-TTIPTIG--FNVET--VEYKNVKFTVWDVGGQDK 55

Query: 83 FRTITQSYYRSANGVI 98
           R + + YY + +G+I
Sbjct: 56 IRPLWKHYYENTDGLI 71

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

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

 Score = 65.2 bits (159), Expect = 3e-13
 Identities = 32/83 (38%), Positives = 49/83 (59%), Gaps = 2/83 (2%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +K+V++G  GVGK+ +  +F    F+E    TI  D   K V IDG++  L+I DTAG E
Sbjct: 2   YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIE-DSYRKQVEIDGRQCDLEILDTAGTE 60

Query: 82  RFRTITQSYYRSANGVIIEVTSV 104
           +F  + + Y +S  G ++ V SV
Sbjct: 61  QFTAMRELYIKSGQGFLL-VYSV 82

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

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

 Score = 64.5 bits (157), Expect = 4e-13
 Identities = 27/78 (34%), Positives = 45/78 (57%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +F  G FV+K   TI  D   K + +D ++  L+I DTAG E
Sbjct: 2  YKLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIE-DSYRKQIEVDCQQCMLEILDTAGTE 60

Query: 82 RFRTITQSYYRSANGVII 99
          +F  +   Y ++  G  +
Sbjct: 61 QFTAMRDLYIKNGQGFAL 78

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

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

 Score = 64.1 bits (156), Expect = 5e-13
 Identities = 31/78 (39%), Positives = 47/78 (60%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +KVV++G  GVGK+ +  +F SG F+EK   TI  DF  K + +D     L+I DTAG E
Sbjct: 2  YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 60

Query: 82 RFRTITQSYYRSANGVII 99
          +F ++   Y ++  G I+
Sbjct: 61 QFASMRDLYIKNGQGFIV 78

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

 Score = 62.1 bits (151), Expect = 3e-12
 Identities = 22/83 (26%), Positives = 38/83 (45%), Gaps = 10/83 (12%)

Query: 25 VLIGDCGVGKTCVVHRFRSGDFVE---KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          V++G  GVGK+ +++    G+  E     G T   D       +D  KVKL + DT G +
Sbjct: 1  VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDV--YVKELDKGKVKLVLVDTPGLD 58

Query: 82 RF-----RTITQSYYRSANGVII 99
           F       + +   R A+ +++
Sbjct: 59 EFGGLGREELARLLLRGADLILL 81

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

 Score = 62.1 bits (151), Expect = 3e-12
 Identities = 31/77 (40%), Positives = 46/77 (59%), Gaps = 1/77 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           KV+++G  GVGK+ +  +F   +FVE    T   D   K V +DG++V+L I DTAGQE
Sbjct: 1  HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQLNILDTAGQE 59

Query: 82 RFRTITQSYYRSANGVI 98
           +  I  +Y+RS  G +
Sbjct: 60 DYAAIRDNYFRSGEGFL 76

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

 Score = 62.7 bits (152), Expect = 3e-12
 Identities = 33/91 (36%), Positives = 49/91 (53%), Gaps = 3/91 (3%)

Query: 27  IGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI 86
           +GD G GKT  V R  +G+F +K   T+GV+      + +   ++  +WDTAGQE+F  +
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 87  TQSYYRSANGVII--EVTS-VEYCYQRNWHK 114
              YY      II  +VT+ V Y    NWH+
Sbjct: 61  RDGYYIQGQCAIIMFDVTARVTYKNVPNWHR 91

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

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

 Score = 61.9 bits (151), Expect = 4e-12
 Identities = 27/76 (35%), Positives = 44/76 (57%), Gaps = 1/76 (1%)

Query: 24 VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF 83
          +V++GD  VGKTC++  + +  F E    T+  ++S   V +DGK V+L +WDTAGQE +
Sbjct: 1  LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTVFENYSA-DVEVDGKPVELGLWDTAGQEDY 59

Query: 84 RTITQSYYRSANGVII 99
            +    Y   +  +I
Sbjct: 60 DRLRPLSYPDTDVFLI 75

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

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

 Score = 61.6 bits (150), Expect = 6e-12
 Identities = 24/63 (38%), Positives = 39/63 (61%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+ L+GD  +GKT ++ ++  G+F E+   T+GV+F  KT++I G ++   IWD  GQ  
Sbjct: 2  KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQRE 61

Query: 83 FRT 85
          F  
Sbjct: 62 FIN 64

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

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

 Score = 61.3 bits (149), Expect = 7e-12
 Identities = 32/83 (38%), Positives = 46/83 (55%), Gaps = 2/83 (2%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +K+V++G  GVGK+ +  +F    FV     TI  D   K   IDG+  +L I DTAGQE
Sbjct: 3   YKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCEIDGQWARLDILDTAGQE 61

Query: 82  RFRTITQSYYRSANGVIIEVTSV 104
            F  + + Y R+  G ++ V SV
Sbjct: 62  EFSAMREQYMRTGEGFLL-VFSV 83

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|219856 pfam08477, Miro, Miro-like protein

 Score = 59.7 bits (145), Expect = 8e-12
 Identities = 22/77 (28%), Positives = 41/77 (53%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          KVV+IGD G GK+ ++ +   G+F  +     G   ++ T+ +DG    L IWD  G+E 
Sbjct: 1  KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 83 FRTITQSYYRSANGVII 99
           +     + + A+ +++
Sbjct: 61 LKFEHIIFMKWADAILL 77

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

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

 Score = 60.9 bits (147), Expect = 1e-11
 Identities = 25/48 (52%), Positives = 35/48 (72%)

Query: 52 NTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
          +TIG+DF  KT+ +D   V+LQ+WDTAGQERFR++  SY R +   I+
Sbjct: 11 STIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIV 58

Length = 176

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

 Score = 60.3 bits (147), Expect = 2e-11
 Identities = 27/82 (32%), Positives = 48/82 (58%), Gaps = 5/82 (6%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G+ V  T  TIG  F+++TV    K VK  +WD  GQE
Sbjct: 15  MRILILGLDNAGKTTILYKLKLGEIVT-TIPTIG--FNVETVTY--KNVKFTVWDVGGQE 69

Query: 82  RFRTITQSYYRSANGVIIEVTS 103
             R + ++Y+ + + VI  V S
Sbjct: 70  SLRPLWRNYFPNTDAVIFVVDS 91

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

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

 Score = 60.7 bits (147), Expect = 3e-11
 Identities = 33/80 (41%), Positives = 45/80 (56%), Gaps = 11/80 (13%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMK---TVNIDGKKVKLQIWDTAG 79
          KVVL+GD  VGKT ++HR+    F + T +T+G  F +K     NI        IWDTAG
Sbjct: 2  KVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQWGPYNI-------SIWDTAG 53

Query: 80 QERFRTITQSYYRSANGVII 99
          +E+F  +   Y R A  VI+
Sbjct: 54 REQFHGLGSMYCRGAAAVIL 73

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

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

 Score = 59.5 bits (144), Expect = 3e-11
 Identities = 30/78 (38%), Positives = 47/78 (60%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +F  G FVEK   TI  D   K V +DG++  L+I DTAG E
Sbjct: 2  YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDGQQCMLEILDTAGTE 60

Query: 82 RFRTITQSYYRSANGVII 99
          +F  +   Y ++  G ++
Sbjct: 61 QFTAMRDLYMKNGQGFVL 78

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

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

 Score = 59.8 bits (145), Expect = 5e-11
 Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 1/79 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK-KVKLQIWDTAGQ 80
           K+V++GD   GKT ++ RF    F +    TIG+DF  + + + G   V LQ+WD  GQ
Sbjct: 1  IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 81 ERFRTITQSYYRSANGVII 99
          +    +   Y   A  V +
Sbjct: 61 QIGGKMLDKYIYGAQAVCL 79

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

 Score = 58.7 bits (142), Expect = 8e-11
 Identities = 29/88 (32%), Positives = 48/88 (54%), Gaps = 8/88 (9%)

Query: 22  FKVVLIG-DCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI---DGKKVKLQIWDT 77
             +V++G D   GKT V++R +  +FV  T  T G  F+ + + +   + K V    WD 
Sbjct: 4   LHIVMLGLDSA-GKTTVLYRLKFNEFVN-TVPTKG--FNTEKIKVSLGNAKGVTFHFWDV 59

Query: 78  AGQERFRTITQSYYRSANGVIIEVTSVE 105
            GQE+ R + +SY R  +G++  V SV+
Sbjct: 60  GGQEKLRPLWKSYTRCTDGIVFVVDSVD 87

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

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

 Score = 58.2 bits (141), Expect = 8e-11
 Identities = 28/78 (35%), Positives = 42/78 (53%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +     FV++   TI  D   K V IDG+   L I DTAGQE
Sbjct: 2  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQE 60

Query: 82 RFRTITQSYYRSANGVII 99
           +  +   Y R+  G + 
Sbjct: 61 EYSAMRDQYMRTGEGFLC 78

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

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

 Score = 56.2 bits (136), Expect = 4e-10
 Identities = 28/80 (35%), Positives = 44/80 (55%), Gaps = 4/80 (5%)

Query: 24  VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF 83
           + L+G    GKT +V+   SG F E T  T+G  F+M+ V      V +++WD  GQ RF
Sbjct: 2   ITLVGLQNSGKTTLVNVIASGQFSEDTIPTVG--FNMRKVTKGN--VTIKVWDLGGQPRF 57

Query: 84  RTITQSYYRSANGVIIEVTS 103
           R++ + Y R  N ++  V +
Sbjct: 58  RSMWERYCRGVNAIVYVVDA 77

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

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

 Score = 56.2 bits (136), Expect = 4e-10
 Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTV-NIDGKKVKLQIWDTAGQE 81
          K++L+G  GVGKT +  +     F     +T G++     +   + KK++L +WD  GQE
Sbjct: 3  KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQE 62

Query: 82 RF 83
           +
Sbjct: 63 IY 64

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

>gnl|CDD|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 = 55.6 bits (134), Expect = 1e-09
 Identities = 28/78 (35%), Positives = 39/78 (50%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ V  +F S  F +    TI   +  +   ID +   L I DTAGQ 
Sbjct: 3  YKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKTQAR-IDNEPALLDILDTAGQA 61

Query: 82 RFRTITQSYYRSANGVII 99
           F  +   Y R   G II
Sbjct: 62 EFTAMRDQYMRCGEGFII 79

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

 Score = 55.4 bits (134), Expect = 2e-09
 Identities = 28/84 (33%), Positives = 46/84 (54%), Gaps = 12/84 (14%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI---DGKKVKLQIWDTA 78
           K+V++GD G GKTC++  +  G F E+   T+   F      +   +GK ++L +WDTA
Sbjct: 4  VKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTV---FENYVTTLQVPNGKIIELALWDTA 60

Query: 79 GQE---RFRTITQSYYRSANGVII 99
          GQE   R R ++   Y   + ++I
Sbjct: 61 GQEDYDRLRPLS---YPDVDVILI 81

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

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

 Score = 54.5 bits (131), Expect = 2e-09
 Identities = 27/87 (31%), Positives = 45/87 (51%), Gaps = 6/87 (6%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGD--FVEKTGNTIGVDFSMKTVNI--DGKKVKLQIWDTA 78
           +  ++GD  VGK+ +V  F S    F +    T G D  +KTV +      V+L I+D+A
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 79  GQERFRTITQSYYRSANGVII--EVTS 103
           GQE F  + ++ +     V +  +VT+
Sbjct: 62  GQELFSDMVENVWEQPAVVCVVYDVTN 88

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

 Score = 54.9 bits (132), Expect = 2e-09
 Identities = 29/77 (37%), Positives = 42/77 (54%), Gaps = 1/77 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD GVGKT +  +     FVE    TI  D   K V +DG+   L++ DTAGQE 
Sbjct: 1  KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIE-DSYRKQVVVDGQPCMLEVLDTAGQEE 59

Query: 83 FRTITQSYYRSANGVII 99
          +  +   + R   G I+
Sbjct: 60 YTALRDQWIREGEGFIL 76

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

 Score = 54.6 bits (131), Expect = 3e-09
 Identities = 31/80 (38%), Positives = 48/80 (60%), Gaps = 7/80 (8%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE- 81
          K V++GD  VGKTC++  + +  F ++   T+  ++S +T  +DG+ V L +WDTAGQE 
Sbjct: 5  KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTA-VDGRTVSLNLWDTAGQEE 63

Query: 82 --RFRTITQSYYRSANGVII 99
            R RT++   Y   N  II
Sbjct: 64 YDRLRTLS---YPQTNVFII 80

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

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

 Score = 54.0 bits (130), Expect = 3e-09
 Identities = 28/71 (39%), Positives = 43/71 (60%), Gaps = 6/71 (8%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE- 81
          K+V++GD   GKTC++  F    F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 3  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 61

Query: 82 --RFRTITQSY 90
            R R +  SY
Sbjct: 62 YDRLRPL--SY 70

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

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

 Score = 54.2 bits (130), Expect = 4e-09
 Identities = 25/81 (30%), Positives = 47/81 (58%), Gaps = 5/81 (6%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +++++G    GKT ++++ + G+ V  T  TIG  F+++TV    K +   +WD  GQ++
Sbjct: 15  RILMVGLDAAGKTTILYKLKLGESV-TTIPTIG--FNVETVTY--KNISFTVWDVGGQDK 69

Query: 83  FRTITQSYYRSANGVIIEVTS 103
            R + + YY +  G+I  V S
Sbjct: 70  IRPLWRHYYTNTQGLIFVVDS 90

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

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

 Score = 53.7 bits (129), Expect = 5e-09
 Identities = 27/77 (35%), Positives = 47/77 (61%), Gaps = 1/77 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKT +++ F  G+F E+   T+  ++ +    +DGK V+L +WDTAGQE 
Sbjct: 3  KLVIVGDGACGKTSLLYVFTLGEFPEEYHPTVFENY-VTDCRVDGKPVQLALWDTAGQEE 61

Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y  A+ ++I
Sbjct: 62 YERLRPLSYSKAHVILI 78

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

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

 Score = 53.0 bits (128), Expect = 7e-09
 Identities = 30/82 (36%), Positives = 45/82 (54%), Gaps = 2/82 (2%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+ ++G   VGK+ +  +F  G FVE    TI   FS K +   G++  L+I DTAGQ+ 
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFS-KIITYKGQEYHLEIVDTAGQDE 61

Query: 83  FRTITQSYYRSANGVIIEVTSV 104
           +  + Q Y    +G I+ V SV
Sbjct: 62  YSILPQKYSIGIHGYIL-VYSV 82

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|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional

 Score = 51.8 bits (124), Expect = 3e-08
 Identities = 27/81 (33%), Positives = 50/81 (61%), Gaps = 5/81 (6%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +++++G    GKT ++++ + G+ V  T  TIG  F+++TV    K +K  +WD  GQ++
Sbjct: 19  RILMVGLDAAGKTTILYKLKLGEVV-TTIPTIG--FNVETVEY--KNLKFTMWDVGGQDK 73

Query: 83  FRTITQSYYRSANGVIIEVTS 103
            R + + YY++ NG+I  V S
Sbjct: 74  LRPLWRHYYQNTNGLIFVVDS 94

Length = 182

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

 Score = 50.7 bits (122), Expect = 4e-08
 Identities = 24/83 (28%), Positives = 44/83 (53%), Gaps = 11/83 (13%)

Query: 23 KVVLIGDCGVGKTCVVHRFRS----GDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
          K+ ++G  GVGK+ +  RF +    G++     +     +S + V IDG++V L+I DT 
Sbjct: 1  KIAVLGASGVGKSALTVRFLTKRFIGEYEPNLESL----YS-RQVTIDGEQVSLEIQDTP 55

Query: 79 GQERFRT--ITQSYYRSANGVII 99
          GQ++       +   R A+G ++
Sbjct: 56 GQQQNEDPESLERSLRWADGFVL 78

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

 Score = 51.3 bits (123), Expect = 5e-08
 Identities = 26/83 (31%), Positives = 46/83 (55%), Gaps = 1/83 (1%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           ++VVL+GD GVGK+ + + F +G + +      G D   +TV++DG++  L ++D   QE
Sbjct: 1   YRVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQE 60

Query: 82  RFRTITQSYYRSANGVIIEVTSV 104
               +  S  +  +  +I V SV
Sbjct: 61  DGMWLEDSCMQVGDAYVI-VYSV 82

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

>gnl|CDD|206718 cd04151, Arl1, ADP ribosylation factor 1 (Arf1)

 Score = 50.1 bits (120), Expect = 6e-08
 Identities = 28/81 (34%), Positives = 47/81 (58%), Gaps = 5/81 (6%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +++++G  G GKT +++R + G+ V  T  TIG  F+++TV    K +K Q+WD  GQ  
Sbjct: 1   RILILGLDGAGKTTILYRLQVGEVVT-TIPTIG--FNVETV--TYKNLKFQVWDLGGQTS 55

Query: 83  FRTITQSYYRSANGVIIEVTS 103
            R   + YY + + +I  V S
Sbjct: 56  IRPYWRCYYSNTDAIIYVVDS 76

Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability. Length = 158

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

 Score = 50.2 bits (120), Expect = 8e-08
 Identities = 29/73 (39%), Positives = 40/73 (54%), Gaps = 1/73 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K V +GD  VGKTC++  + S  F      T+  +FS   V +DG  V L +WDTAGQE 
Sbjct: 3  KCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFS-ANVVVDGNTVNLGLWDTAGQED 61

Query: 83 FRTITQSYYRSAN 95
          +  +    YR A+
Sbjct: 62 YNRLRPLSYRGAD 74

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

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

 Score = 49.9 bits (119), Expect = 1e-07
 Identities = 32/109 (29%), Positives = 53/109 (48%), Gaps = 8/109 (7%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +K+V++G  GVGK+ +  +F    F+++   TI  D   K   ID +   L I DTAGQE
Sbjct: 6   YKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIE-DSYRKQCVIDEETCLLDILDTAGQE 64

Query: 82  RFRTITQSYYRSANGV-----IIEVTSVEYCYQRNWHKQAVTLFDKYKF 125
            +  +   Y R+  G      I   +S E     ++ +Q + + DK + 
Sbjct: 65  EYSAMRDQYMRTGQGFLCVYSITSRSSFEEI--ASFREQILRVKDKDRV 111

Length = 189

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

 Score = 49.3 bits (118), Expect = 2e-07
 Identities = 25/61 (40%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K VL+GD  VGKT ++  + +  +  +   T   +FS+  V +DGK V+LQ+ DTAGQ+ 
Sbjct: 2  KCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVV-VLVDGKPVRLQLCDTAGQDE 60

Query: 83 F 83
          F
Sbjct: 61 F 61

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

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

 Score = 49.0 bits (117), Expect = 2e-07
 Identities = 27/68 (39%), Positives = 41/68 (60%), Gaps = 4/68 (5%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE- 81
          K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE 
Sbjct: 3  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQED 61

Query: 82 --RFRTIT 87
            R R ++
Sbjct: 62 YDRLRPLS 69

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

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

 Score = 48.9 bits (117), Expect = 2e-07
 Identities = 24/81 (29%), Positives = 48/81 (59%), Gaps = 5/81 (6%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +++++G    GKT ++++ + G+ V  T  TIG  F+++TV    K +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEY--KNISFTVWDVGGQDK 56

Query: 83  FRTITQSYYRSANGVIIEVTS 103
            R + + Y+++  G+I  V S
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDS 77

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

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

 Score = 48.6 bits (116), Expect = 3e-07
 Identities = 26/81 (32%), Positives = 46/81 (56%), Gaps = 5/81 (6%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +++++G    GKT ++++ + G  V  T  T+G  F+++TV    K VK  +WD  GQ++
Sbjct: 11  RILMLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTY--KNVKFNVWDVGGQDK 65

Query: 83  FRTITQSYYRSANGVIIEVTS 103
            R + + YY    G+I  V S
Sbjct: 66  IRPLWRHYYTGTQGLIFVVDS 86

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

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

 Score = 48.3 bits (115), Expect = 4e-07
 Identities = 24/61 (39%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          KVV++GD   GKT +++ F  G F +    T+  ++ +  + +DG  V+L +WDTAGQE 
Sbjct: 2  KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENY-IHDIFVDGLAVELSLWDTAGQEE 60

Query: 83 F 83
          F
Sbjct: 61 F 61

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

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

 Score = 48.1 bits (115), Expect = 4e-07
 Identities = 26/82 (31%), Positives = 45/82 (54%), Gaps = 5/82 (6%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +KV+++G    GKT ++++F  G+ V  T  TIG +       I  K ++  +WD  GQE
Sbjct: 16  YKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSN----VEEIVYKNIRFLMWDIGGQE 70

Query: 82  RFRTITQSYYRSANGVIIEVTS 103
             R+   +YY + + VI+ + S
Sbjct: 71  SLRSSWNTYYTNTDAVILVIDS 92

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

>gnl|CDD|165788 PLN00223, PLN00223, ADP-ribosylation factor; Provisional

 Score = 48.0 bits (114), Expect = 4e-07
 Identities = 24/81 (29%), Positives = 49/81 (60%), Gaps = 5/81 (6%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +++++G    GKT ++++ + G+ V  T  TIG  F+++TV  + K +   +WD  GQ++
Sbjct: 19  RILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETV--EYKNISFTVWDVGGQDK 73

Query: 83  FRTITQSYYRSANGVIIEVTS 103
            R + + Y+++  G+I  V S
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDS 94

Length = 181

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

 Score = 47.4 bits (113), Expect = 7e-07
 Identities = 23/84 (27%), Positives = 46/84 (54%), Gaps = 4/84 (4%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +V+L+G    GK+ ++++ +  + V  T  T+G +  M  +    K + L +WD  GQE+
Sbjct: 1   QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNVEMLQLE---KHLSLTVWDVGGQEK 56

Query: 83  FRTITQSYYRSANGVIIEVTSVEY 106
            RT+ + Y  + +G++  V S + 
Sbjct: 57  MRTVWKCYLENTDGLVYVVDSSDE 80

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

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

 Score = 47.3 bits (112), Expect = 9e-07
 Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 1/62 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F E+   T+  D    +V + GK+  L ++DTAGQE
Sbjct: 1  LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQE 59

Query: 82 RF 83
           +
Sbjct: 60 DY 61

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

>gnl|CDD|206723 cd04158, ARD1, (ADP-ribosylation factor domain protein 1 (ARD1)

 Score = 46.6 bits (110), Expect = 2e-06
 Identities = 25/81 (30%), Positives = 46/81 (56%), Gaps = 5/81 (6%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +VV +G  G GKT ++ + +  +F++    TIG  F+++TV  + K +K  IWD  G+ +
Sbjct: 1   RVVTLGLDGAGKTTILFKLKQDEFMQPI-PTIG--FNVETV--EYKNLKFTIWDVGGKHK 55

Query: 83  FRTITQSYYRSANGVIIEVTS 103
            R + + YY +   V+  + S
Sbjct: 56  LRPLWKHYYLNTQAVVFVIDS 76

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membrane. Two Tyr-based motifs in the Arf domain are responsible for Golgi localization, while the GAP domain controls lysosomal localization. Length = 169

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

 Score = 46.8 bits (111), Expect = 3e-06
 Identities = 26/89 (29%), Positives = 45/89 (50%), Gaps = 13/89 (14%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTV----------NIDGKKVK- 71
           +V+++GD GVGK+ +VH    G  + +   TIG    +K +          +I G   + 
Sbjct: 23  RVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERD 82

Query: 72  --LQIWDTAGQERFRTITQSYYRSANGVI 98
             +++WD +G ER++     +Y   NGVI
Sbjct: 83  FFVELWDVSGHERYKDCRSLFYSQINGVI 111

Length = 334

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

 Score = 45.8 bits (108), Expect = 3e-06
 Identities = 22/83 (26%), Positives = 45/83 (54%), Gaps = 1/83 (1%)

Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
          + +   K+V++GD   GKT ++H F    F E    T+  +++  +  ID ++++L +WD
Sbjct: 1  NQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWD 59

Query: 77 TAGQERFRTITQSYYRSANGVII 99
          T+G   +  +    Y  ++ V+I
Sbjct: 60 TSGSPYYDNVRPLSYPDSDAVLI 82

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

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

 Score = 45.9 bits (109), Expect = 4e-06
 Identities = 25/62 (40%), Positives = 36/62 (58%), Gaps = 1/62 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +++V++G   VGKT +V RF  G F E+   TI  DF  K  +I G+  +L I DT+G  
Sbjct: 1  YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNH 59

Query: 82 RF 83
           F
Sbjct: 60 PF 61

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

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

 Score = 45.2 bits (107), Expect = 4e-06
 Identities = 23/65 (35%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          ++VV+ G  GVGK+ +V RF  G F E    TI  D   + ++       LQI DT G  
Sbjct: 2  YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIE-DTYRQVISCSKSICTLQITDTTGSH 60

Query: 82 RFRTI 86
          +F  +
Sbjct: 61 QFPAM 65

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

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

 Score = 45.0 bits (107), Expect = 5e-06
 Identities = 24/87 (27%), Positives = 41/87 (47%), Gaps = 11/87 (12%)

Query: 24  VVLIGDCGVGKTCVVHRFRS-------GDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
           V+++G    GKT  + + ++       G    K   T+G++       I+  K +L  WD
Sbjct: 2   VLILGLDNAGKTTFLEQTKTKFSKNYKGLNPSKITPTVGLN----IGTIEVGKARLMFWD 57

Query: 77  TAGQERFRTITQSYYRSANGVIIEVTS 103
             GQE  R++   YY  ++GVI  + S
Sbjct: 58  LGGQEELRSLWDKYYAESHGVIYVIDS 84

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

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

 Score = 44.3 bits (105), Expect = 8e-06
 Identities = 21/77 (27%), Positives = 40/77 (51%), Gaps = 1/77 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+VL+GD   GKT ++  F    F E    T+  +    +  +D ++++L +WDT+G   
Sbjct: 3  KIVLVGDSQCGKTALLQVFAKDSFPENYVPTV-FENYTASFEVDKQRIELSLWDTSGSPY 61

Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y  ++ V+I
Sbjct: 62 YDNVRPLSYPDSDAVLI 78

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

>gnl|CDD|206720 cd04154, Arl2, Arf-like 2 (Arl2) GTPase

 Score = 44.2 bits (105), Expect = 9e-06
 Identities = 25/84 (29%), Positives = 47/84 (55%), Gaps = 5/84 (5%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++ +F   D +     T+G  F++KT+  +G   KL IWD  GQ+
Sbjct: 15  MRILMLGLDNAGKTTILKKFNGED-ISTISPTLG--FNIKTLEYNG--YKLNIWDVGGQK 69

Query: 82  RFRTITQSYYRSANGVIIEVTSVE 105
             R+  ++Y+ S + +I  V S +
Sbjct: 70  SLRSYWRNYFESTDALIWVVDSSD 93

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis. Length = 173

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

 Score = 42.6 bits (100), Expect = 5e-05
 Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 9/86 (10%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIG--VDFSMKTVNIDGKKVK---LQIWDT 77
          KV+++GD GVGK+ +VH       +     T+G  VD    T      + K   +++WD 
Sbjct: 2  KVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYGEGTPEEKTFYVELWDV 61

Query: 78 AGQ----ERFRTITQSYYRSANGVII 99
           G     E  ++    +Y   NG+I 
Sbjct: 62 GGSVGSAESVKSTRAVFYNQINGIIF 87

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

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

 Score = 42.7 bits (100), Expect = 5e-05
 Identities = 21/77 (27%), Positives = 43/77 (55%), Gaps = 1/77 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKT ++H F   ++ E    T+  +++  +  ID  +++L +WDT+G   
Sbjct: 3  KIVVVGDTQCGKTALLHVFAKDNYPESYVPTVFENYT-ASFEIDKHRIELNMWDTSGSSY 61

Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y  ++ V+I
Sbjct: 62 YDNVRPLAYPDSDAVLI 78

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

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

 Score = 42.0 bits (99), Expect = 6e-05
 Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 5/81 (6%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +++L+G    GKT ++ +  S D +     T G  F++K V  DG K  L +WD  GQ +
Sbjct: 17  RILLLGLDNAGKTTILKQLASED-ISHITPTQG--FNIKNVQADGFK--LNVWDIGGQRK 71

Query: 83  FRTITQSYYRSANGVIIEVTS 103
            R   ++Y+ + + +I  + S
Sbjct: 72  IRPYWRNYFENTDVLIYVIDS 92

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

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

 Score = 41.4 bits (97), Expect = 1e-04
 Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          ++V +G  GVGKT ++ RF    F  K   T+  +   K   + G KV + I DT+G   
Sbjct: 1  RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVE-ELHSKEYEVAGVKVTIDILDTSGSYS 59

Query: 83 F 83
          F
Sbjct: 60 F 60

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

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

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 28/93 (30%), Positives = 42/93 (45%), Gaps = 13/93 (13%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGN-----TIGVDFSMKTVNIDGKKVKLQIWDT 77
           ++VLIGD GVGK+ ++    S +F E         TI  D +        ++V   I DT
Sbjct: 4   RIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPEITIPADVT-------PERVPTTIVDT 56

Query: 78  AGQERFRTITQSYYRSANGVIIEVTSVEYCYQR 110
           + + + R    +  R AN VI  V SV+     
Sbjct: 57  SSRPQDRANLAAEIRKAN-VICLVYSVDRPSTL 88

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

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

 Score = 39.9 bits (93), Expect = 3e-04
 Identities = 22/61 (36%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE 
Sbjct: 3  KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 61

Query: 83 F 83
          +
Sbjct: 62 Y 62

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

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

 Score = 39.0 bits (91), Expect = 7e-04
 Identities = 27/95 (28%), Positives = 39/95 (41%), Gaps = 19/95 (20%)

Query: 23  KVVLIGDCGVGKTCVVHRFR--------------SGDFVEKTGNTIGVDFSMKTVNIDGK 68
           K+V+IG  G GKT  V                  SG     T  T+ +DF         +
Sbjct: 12  KIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPT--TVAMDFGS---IELDE 66

Query: 69  KVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTS 103
              + ++ T GQERF+ + +   R A G I+ V S
Sbjct: 67  DTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDS 101

Length = 187

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	231
KOG0084|consensus	205		100.0
KOG0078|consensus	207		100.0
KOG0094|consensus	221		100.0
KOG0092|consensus	200		100.0
KOG0087|consensus	222		100.0
KOG0098|consensus	216		100.0
KOG0080|consensus	209		99.98
KOG0095|consensus	213		99.97
KOG0079|consensus	198		99.97
KOG0394|consensus	210		99.97
KOG0086|consensus	214		99.97
KOG0093|consensus	193		99.96
KOG0091|consensus	213		99.96
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.96
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.96
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.96
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.95
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.95
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.95
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.95
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.95
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.95
KOG0088|consensus	218		99.94
KOG0097|consensus	215		99.94
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.94
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.94
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.94
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.94
KOG0081|consensus	219		99.94
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.94
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.94
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.94
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.94
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.94
KOG0083|consensus	192		99.94
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.93
PLN03110	216	Rab GTPase; Provisional	99.93
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.93
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.93
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.93
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.93
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.93
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.93
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.93
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.93
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.93
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.93
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.93
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.93
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.93
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.93
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.93
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.93
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.92
PLN03108	210	Rab family protein; Provisional	99.92
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.92
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.92
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.92
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.92
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.92
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.92
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.92
PTZ00369	189	Ras-like protein; Provisional	99.92
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.92
PLN00023	334	GTP-binding protein; Provisional	99.92
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.92
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.92
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.92
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.92
KOG0395|consensus	196		99.91
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.91
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.91
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.91
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.91
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.91
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.91
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.91
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.91
KOG0393|consensus	198		99.91
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.9
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.9
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.9
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.9
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.9
PLN03118	211	Rab family protein; Provisional	99.9
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.9
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.9
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.89
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.89
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.89
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.89
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.89
KOG4252|consensus	246		99.89
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.89
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.89
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.88
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.88
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.87
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.87
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.86
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.86
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.86
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.86
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.86
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.86
PLN00223	181	ADP-ribosylation factor; Provisional	99.86
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.85
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.85
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.85
COG1100	219	GTPase SAR1 and related small G proteins [General	99.85
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.84
PTZ00133	182	ADP-ribosylation factor; Provisional	99.84
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.84
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.83
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.83
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.83
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.83
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.81
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.81
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.81
KOG0070|consensus	181		99.79
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.79
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.78
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.78
KOG0073|consensus	185		99.78
KOG0096|consensus	216		99.77
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.77
KOG0071|consensus	180		99.77
KOG1673|consensus	205		99.77
PTZ00099	176	rab6; Provisional	99.75
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.75
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.75
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.74
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.73
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.72
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.7
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.69
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.68
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.68
KOG0074|consensus	185		99.68
KOG3883|consensus	198		99.67
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.67
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.66
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.66
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.66
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.65
KOG4423|consensus	229		99.62
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.62
PRK04213	201	GTP-binding protein; Provisional	99.61
KOG0075|consensus	186		99.61
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.59
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.59
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.58
PRK15494	339	era GTPase Era; Provisional	99.55
PRK03003	472	GTP-binding protein Der; Reviewed	99.53
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.51
PRK03003	472	GTP-binding protein Der; Reviewed	99.51
PRK12299	335	obgE GTPase CgtA; Reviewed	99.5
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.49
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.48
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.48
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.48
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.47
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.46
PRK00093	435	GTP-binding protein Der; Reviewed	99.46
cd00881	189	GTP_translation_factor GTP translation factor fami	99.45
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.44
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.44
KOG1707|consensus	625		99.44
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.42
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.42
PRK11058	426	GTPase HflX; Provisional	99.41
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.41
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.41
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.4
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.39
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.38
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.38
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.38
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.37
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.35
PRK12297	424	obgE GTPase CgtA; Reviewed	99.35
PRK10218	607	GTP-binding protein; Provisional	99.33
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.33
PRK05306	787	infB translation initiation factor IF-2; Validated	99.32
PRK12296	500	obgE GTPase CgtA; Reviewed	99.32
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.32
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.3
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.3
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.3
CHL00189	742	infB translation initiation factor 2; Provisional	99.3
PRK05433	600	GTP-binding protein LepA; Provisional	99.3
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.28
KOG0072|consensus	182		99.28
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.27
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.27
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.24
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.23
KOG0076|consensus	197		99.23
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.22
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.21
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.21
PRK00089	292	era GTPase Era; Reviewed	99.2
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.19
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.17
COG2229	187	Predicted GTPase [General function prediction only	99.17
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.16
PRK00093	435	GTP-binding protein Der; Reviewed	99.15
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.15
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.14
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.14
KOG0077|consensus	193		99.13
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.13
PRK04004	586	translation initiation factor IF-2; Validated	99.13
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.13
PRK12298	390	obgE GTPase CgtA; Reviewed	99.13
COG0486	454	ThdF Predicted GTPase [General function prediction	99.13
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.13
PRK13351	687	elongation factor G; Reviewed	99.12
PRK12317	425	elongation factor 1-alpha; Reviewed	99.12
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.07
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.06
COG1160	444	Predicted GTPases [General function prediction onl	99.06
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.04
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.01
KOG1707|consensus	625		99.0
COG1159	298	Era GTPase [General function prediction only]	98.99
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	98.98
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.98
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.96
COG0218	200	Predicted GTPase [General function prediction only	98.94
KOG1423|consensus	379		98.94
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	98.94
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.94
TIGR00485	394	EF-Tu translation elongation factor TU. This align	98.93
PRK12735	396	elongation factor Tu; Reviewed	98.91
PLN03126	478	Elongation factor Tu; Provisional	98.9
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	98.9
COG1084	346	Predicted GTPase [General function prediction only	98.9
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.89
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	98.86
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.86
KOG1191|consensus	531		98.86
PRK12736	394	elongation factor Tu; Reviewed	98.85
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.82
PRK09602	396	translation-associated GTPase; Reviewed	98.8
PRK04000	411	translation initiation factor IF-2 subunit gamma;	98.79
CHL00071	409	tufA elongation factor Tu	98.77
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.77
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	98.77
PLN00043	447	elongation factor 1-alpha; Provisional	98.76
PRK00049	396	elongation factor Tu; Reviewed	98.73
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	98.72
KOG0090|consensus	238		98.72
PRK12739	691	elongation factor G; Reviewed	98.72
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	98.7
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	98.68
COG3596	296	Predicted GTPase [General function prediction only	98.67
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.66
PLN03127	447	Elongation factor Tu; Provisional	98.62
KOG0705|consensus	749		98.62
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.62
COG1160	444	Predicted GTPases [General function prediction onl	98.6
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.6
COG1163	365	DRG Predicted GTPase [General function prediction	98.58
PRK12740	668	elongation factor G; Reviewed	98.55
KOG3886|consensus	295		98.55
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.54
PRK00007	693	elongation factor G; Reviewed	98.53
PTZ00141	446	elongation factor 1- alpha; Provisional	98.53
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.47
PLN00116	843	translation elongation factor EF-2 subunit; Provis	98.47
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.46
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.44
PTZ00416	836	elongation factor 2; Provisional	98.43
PTZ00258	390	GTP-binding protein; Provisional	98.41
KOG1489|consensus	366		98.38
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	98.38
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.38
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.36
PRK09601	364	GTP-binding protein YchF; Reviewed	98.32
PRK07560	731	elongation factor EF-2; Reviewed	98.32
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.3
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	98.3
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.29
KOG0082|consensus	354		98.29
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	98.23
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.2
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.2
KOG0462|consensus	650		98.2
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.13
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.12
COG2262	411	HflX GTPases [General function prediction only]	98.1
KOG1547|consensus	336		98.08
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.06
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	98.05
COG1161	322	Predicted GTPases [General function prediction onl	98.02
KOG0468|consensus	971		98.02
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.01
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.0
KOG3905|consensus	473		97.96
COG0536	369	Obg Predicted GTPase [General function prediction	97.93
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	97.87
KOG2655|consensus	366		97.85
PRK14845	1049	translation initiation factor IF-2; Provisional	97.83
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.81
KOG1486|consensus	364		97.8
PRK09866	741	hypothetical protein; Provisional	97.77
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.76
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	97.73
PRK13768	253	GTPase; Provisional	97.71
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	97.67
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	97.67
PRK12288	347	GTPase RsgA; Reviewed	97.66
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	97.66
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	97.64
KOG1954|consensus	532		97.62
PRK12289	352	GTPase RsgA; Reviewed	97.6
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.59
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	97.57
PRK13796	365	GTPase YqeH; Provisional	97.56
KOG0458|consensus	603		97.55
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	97.53
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.51
COG1217	603	TypA Predicted membrane GTPase involved in stress	97.5
KOG1491|consensus	391		97.5
COG0012	372	Predicted GTPase, probable translation factor [Tra	97.46
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.42
KOG1490|consensus	620		97.34
KOG1145|consensus	683		97.33
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.32
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.29
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	97.27
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	97.26
PRK00098	298	GTPase RsgA; Reviewed	97.25
KOG4273|consensus	418		97.22
KOG0099|consensus	379		97.22
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	97.12
COG1162	301	Predicted GTPases [General function prediction onl	97.1
KOG1424|consensus	562		97.07
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.06
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	97.01
KOG3859|consensus	406		97.0
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.99
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.83
cd03111	106	CpaE_like This protein family consists of proteins	96.83
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.79
KOG1144|consensus	1064		96.76
KOG0461|consensus	522		96.76
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.74
KOG3887|consensus	347		96.74
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.7
cd03112	158	CobW_like The function of this protein family is u	96.7
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.69
KOG2486|consensus	320		96.66
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.65
PRK08118	167	topology modulation protein; Reviewed	96.6
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	96.57
KOG0410|consensus	410		96.57
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	96.53
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.49
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.48
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.47
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.47
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.46
PRK07261	171	topology modulation protein; Provisional	96.45
PRK14738	206	gmk guanylate kinase; Provisional	96.43
KOG0447|consensus	980		96.42
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.42
KOG2484|consensus	435		96.37
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	96.27
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.24
PF00004	132	AAA: ATPase family associated with various cellula	96.15
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.14
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	96.09
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.08
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.08
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	96.07
PRK14737	186	gmk guanylate kinase; Provisional	96.05
smart00382	148	AAA ATPases associated with a variety of cellular	96.04
KOG0066|consensus	807		95.97
PRK06217	183	hypothetical protein; Validated	95.96
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	95.96
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.96
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.95
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.93
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.93
COG4525	259	TauB ABC-type taurine transport system, ATPase com	95.92
TIGR00101	199	ureG urease accessory protein UreG. This model rep	95.91
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.9
COG3638	258	ABC-type phosphate/phosphonate transport system, A	95.89
PF13555	62	AAA_29: P-loop containing region of AAA domain	95.89
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	95.88
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	95.88
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.87
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.83
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	95.81
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.81
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	95.81
KOG2485|consensus	335		95.77
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	95.75
KOG0780|consensus	483		95.73
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	95.72
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	95.72
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	95.69
COG4619	223	ABC-type uncharacterized transport system, ATPase	95.68
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.68
cd03110	179	Fer4_NifH_child This protein family's function is	95.66
PF13173	128	AAA_14: AAA domain	95.65
PRK14530	215	adenylate kinase; Provisional	95.63
TIGR00959	428	ffh signal recognition particle protein. This mode	95.63
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	95.62
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.62
PF05729	166	NACHT: NACHT domain	95.61
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	95.6
PRK03839	180	putative kinase; Provisional	95.6
COG0050	394	TufB GTPases - translation elongation factors [Tra	95.57
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.56
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.56
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	95.55
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.53
PRK13695	174	putative NTPase; Provisional	95.52
KOG0448|consensus	749		95.52
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	95.48
PRK10646	153	ADP-binding protein; Provisional	95.48
PRK13949	169	shikimate kinase; Provisional	95.44
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	95.43
PRK02496	184	adk adenylate kinase; Provisional	95.41
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	95.39
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	95.38
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	95.38
PRK00300	205	gmk guanylate kinase; Provisional	95.38
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	95.36
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	95.35
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	95.35
KOG0464|consensus	753		95.33
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	95.33
PRK14532	188	adenylate kinase; Provisional	95.31
KOG0467|consensus	887		95.31
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	95.3
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	95.3
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	95.3
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.3
PTZ00088	229	adenylate kinase 1; Provisional	95.29
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.28
PLN02200	234	adenylate kinase family protein	95.26
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.26
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	95.26
cd03269	210	ABC_putative_ATPase This subfamily is involved in	95.25
PRK08233	182	hypothetical protein; Provisional	95.25
PRK05480	209	uridine/cytidine kinase; Provisional	95.23
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	95.23
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	95.22
PRK10867	433	signal recognition particle protein; Provisional	95.21
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	95.21
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	95.21
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	95.21
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	95.21
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	95.21
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	95.2
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	95.2
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	95.19
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	95.19
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	95.19
KOG1487|consensus	358		95.18
PRK14531	183	adenylate kinase; Provisional	95.17
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	95.17
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	95.16
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	95.15
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	95.15
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	95.14
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	95.14
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	95.13
PHA00729	226	NTP-binding motif containing protein	95.13
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	95.13
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	95.12
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	95.12
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	95.12
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	95.11
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.11
COG0410	237	LivF ABC-type branched-chain amino acid transport	95.11
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	95.11
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	95.11
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	95.1
PF13479	213	AAA_24: AAA domain	95.1
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	95.1
COG1101	263	PhnK ABC-type uncharacterized transport system, AT	95.08
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	95.08
COG0802	149	Predicted ATPase or kinase [General function predi	95.08
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	95.07
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	95.07
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	95.06
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	95.06
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.06
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	95.03
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	95.02
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	95.02
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	95.02
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	95.02
PRK05541	176	adenylylsulfate kinase; Provisional	95.01

>KOG0084|consensus

Probab=100.00  E-value=1.5e-37  Score=245.42  Aligned_cols=160  Identities=39%  Similarity=0.647  Sum_probs=150.4

Q ss_pred             CCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccC
Q psy5781          14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRS   93 (231)
Q Consensus        14 ~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~   93 (231)
                      ++...++.|||+++||+|||||+|+.||.++.|.+.|..|+|+||..++++++|+.++|+||||+||++|+.+...|||+
T Consensus         2 ~~~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~   81 (205)
T KOG0084|consen    2 MNPEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRG   81 (205)
T ss_pred             CCcccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccC
Confidence            45678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCC-cccccc--ccchh
Q psy5781          94 ANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMP-FPQVWP--CLKFG  166 (231)
Q Consensus        94 ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~-~~ev~~--~~nv~  166 (231)
                      |+|+|+|||+|   ||+++..|+.++++......+.+++|||.|+...+.....+.. .+...+.+ +.|+++  ..||+
T Consensus        82 ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe  161 (205)
T KOG0084|consen   82 AHGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVE  161 (205)
T ss_pred             CCeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHH
Confidence            99999999999   9999999999999999999999999999999998887766664 78888888 889888  67999


Q ss_pred             hhhhhhc
Q psy5781         167 HAFSTSL  173 (231)
Q Consensus       167 e~f~~~~  173 (231)
                      ++|.+.+
T Consensus       162 ~~F~~la  168 (205)
T KOG0084|consen  162 DAFLTLA  168 (205)
T ss_pred             HHHHHHH
Confidence            9999987

>KOG0078|consensus

Probab=100.00  E-value=5.3e-34  Score=228.10  Aligned_cols=159  Identities=38%  Similarity=0.613  Sum_probs=150.2

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      .++++.+||+++||+|||||+|+.||..+.|...+..|+|+||..+++.+++..+.++||||+||++|+.+...||+.|+
T Consensus         7 ~~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~   86 (207)
T KOG0078|consen    7 EDYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAM   86 (207)
T ss_pred             CCcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcC
Confidence            37899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          96 GVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        96 ~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      +++||||++   ||+++..|++.|.++.++..+.+++|||.|+...+.+.....+ .+...|..|.|+++  +.|++|+|
T Consensus        87 gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~eaF  166 (207)
T KOG0078|consen   87 GILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIEEAF  166 (207)
T ss_pred             eeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHHHHH
Confidence            999999999   9999999999999999999999999999999997776555555 88899999999999  78999999


Q ss_pred             hhhcc
Q psy5781         170 STSLA  174 (231)
Q Consensus       170 ~~~~~  174 (231)
                      .+.+.
T Consensus       167 ~~La~  171 (207)
T KOG0078|consen  167 LSLAR  171 (207)
T ss_pred             HHHHH
Confidence            98873

>KOG0094|consensus

Probab=100.00  E-value=4e-34  Score=225.52  Aligned_cols=157  Identities=25%  Similarity=0.372  Sum_probs=144.5

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      ...+.+|+|+||+.+|||||||+||+.+.|...|.+|||+||..+++.+.+..++|++|||+|||+|+.+.+.|+|++.+
T Consensus        18 ~~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~v   97 (221)
T KOG0094|consen   18 APLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   97 (221)
T ss_pred             ccceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeE
Confidence            34566999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCc-ceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKY-KFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~-~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      +|+|||++   ||++..+|++++++..+.+ .++.++|||.||...+++...+.+ .+++.+..+.|+++  ..||.+.|
T Consensus        98 aviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lF  177 (221)
T KOG0094|consen   98 AVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLF  177 (221)
T ss_pred             EEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHH
Confidence            99999999   9999999999999998875 778899999999999888776666 67777777888877  78999999


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       178 rrIa  181 (221)
T KOG0094|consen  178 RRIA  181 (221)
T ss_pred             HHHH
Confidence            8866

>KOG0092|consensus

Probab=100.00  E-value=2.9e-33  Score=220.39  Aligned_cols=155  Identities=32%  Similarity=0.477  Sum_probs=146.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+|||+||+.+||||||+.||..++|.+...||+|.-|.++++.+++..+++.||||+||++|+.+.+.|||+|+++|
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAi   82 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAI   82 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEE
Confidence            46799999999999999999999999999988999999999999999999999999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      +|||+|   ||..++.|.++|++..+++.++.++|||.||.+.++....+.. .+.+.+..+-|.+.  ..|+++.|...
T Consensus        83 vvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~I  162 (200)
T KOG0092|consen   83 VVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQAI  162 (200)
T ss_pred             EEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHHH
Confidence            999999   9999999999999999988999999999999998888777766 78888888999888  78999999887


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       163 a  163 (200)
T KOG0092|consen  163 A  163 (200)
T ss_pred             H
Confidence            7

>KOG0087|consensus

Probab=100.00  E-value=5.9e-33  Score=221.51  Aligned_cols=161  Identities=35%  Similarity=0.565  Sum_probs=149.6

Q ss_pred             CCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhccc
Q psy5781          13 FQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYR   92 (231)
Q Consensus        13 ~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~   92 (231)
                      ....+.++.|||+++||++||||-|+.||..++|..+..+|+|++|.++++.++++.++.+||||+||++|+.+...||+
T Consensus         6 ~~~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYr   85 (222)
T KOG0087|consen    6 DKSEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYR   85 (222)
T ss_pred             CCccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhc
Confidence            34568899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchh
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFG  166 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~  166 (231)
                      .|.|++||||+|   +|+++.+|+++|+.+.+...++.++|||.||.+.+.+...+.. .+.+.++.|.|+++  ..||+
T Consensus        86 gAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe  165 (222)
T KOG0087|consen   86 GAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVE  165 (222)
T ss_pred             ccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHH
Confidence            999999999999   9999999999999999999999999999999997766555444 78888899999988  77999


Q ss_pred             hhhhhhc
Q psy5781         167 HAFSTSL  173 (231)
Q Consensus       167 e~f~~~~  173 (231)
                      ++|.+.+
T Consensus       166 ~aF~~~l  172 (222)
T KOG0087|consen  166 KAFERVL  172 (222)
T ss_pred             HHHHHHH
Confidence            9998876

>KOG0098|consensus

Probab=100.00  E-value=2.1e-32  Score=214.21  Aligned_cols=157  Identities=34%  Similarity=0.559  Sum_probs=145.6

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .+.+.+|++++||.|||||+|+.||++++|.+.++.|+|++|..+.+.+++++++|+||||+|++.|+++...||+.|.|
T Consensus         2 ~~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~G   81 (216)
T KOG0098|consen    2 SYAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAG   81 (216)
T ss_pred             CccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcc
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +|||||++   ||..+..|+.++++....+.++.++|||.|+...+.+...+.+ .+.+-++.+.|.++  ..|++|+|-
T Consensus        82 alLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~  161 (216)
T KOG0098|consen   82 ALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFI  161 (216)
T ss_pred             eEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHH
Confidence            99999999   9999999999999999999999999999999998866555555 77788888888888  678999997


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       162 nta  164 (216)
T KOG0098|consen  162 NTA  164 (216)
T ss_pred             HHH
Confidence            755

>KOG0080|consensus

Probab=99.98  E-value=1.2e-31  Score=205.40  Aligned_cols=158  Identities=34%  Similarity=0.510  Sum_probs=137.1

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      ......+||++||++|||||||+.+|+.+.|.+....|+|+||..+...++|..+++.||||+||++|+.+.+.||+.|.
T Consensus         6 s~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaq   85 (209)
T KOG0080|consen    6 SGYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQ   85 (209)
T ss_pred             cCcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCc
Confidence            45677899999999999999999999999999988888999999999999999999999999999999999999999999


Q ss_pred             EEEEEEecC---cHhhHHHHHHHHHHhcCCcce-eeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhh
Q psy5781          96 GVIIEVTSV---EYCYQRNWHKQAVTLFDKYKF-GHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        96 ~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~-~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      |+|+|||+|   +|.++..|++++..++.+..+ .++++||+|-...+.++-.+.. .+.+.+.-|.|.++  +.||...
T Consensus        86 GiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~~  165 (209)
T KOG0080|consen   86 GIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQCC  165 (209)
T ss_pred             eeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHHH
Confidence            999999999   999999999999999876544 7889999997765655433333 66777777777776  6677777


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |+..+
T Consensus       166 Feelv  170 (209)
T KOG0080|consen  166 FEELV  170 (209)
T ss_pred             HHHHH
Confidence            76544

>KOG0095|consensus

Probab=99.97  E-value=1e-31  Score=203.61  Aligned_cols=159  Identities=38%  Similarity=0.619  Sum_probs=135.6

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      ++++...|||+++|..|||||+|++||..+-|++-...|+|++|..++++++|++++|+||||+||++|+++.+.||+.|
T Consensus         1 medykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsa   80 (213)
T KOG0095|consen    1 MEDYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSA   80 (213)
T ss_pred             CcccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhc
Confidence            46889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhh
Q psy5781          95 NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      +++|||||++   ||+-+.+|+.+|.++.......+++|||+|+...++......+ .++.-..-+.|.++  ..||+..
T Consensus        81 halilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~l  160 (213)
T KOG0095|consen   81 HALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKL  160 (213)
T ss_pred             ceEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHH
Confidence            9999999999   9999999999999999999999999999999877664222211 23223333344433  4567777


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |...+
T Consensus       161 f~~~a  165 (213)
T KOG0095|consen  161 FLDLA  165 (213)
T ss_pred             HHHHH
Confidence            76655

>KOG0079|consensus

Probab=99.97  E-value=2.3e-31  Score=201.26  Aligned_cols=156  Identities=35%  Similarity=0.548  Sum_probs=133.3

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      .+.+..+|.+++||+|||||||+.+|..+.|...|.-|+|+|+..+++.++|..++|+|||++|++.|+.+...||+..+
T Consensus         3 r~~dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgth   82 (198)
T KOG0079|consen    3 RDYDHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTH   82 (198)
T ss_pred             ccHHHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCc
Confidence            45678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          96 GVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        96 ~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      ++|+|||+|   ||.++.+|+++++..++ .....++|||.|.+..+.++-.+.. .+...+..+-|.+.  ..||+..|
T Consensus        83 gv~vVYDVTn~ESF~Nv~rWLeei~~ncd-sv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF  161 (198)
T KOG0079|consen   83 GVIVVYDVTNGESFNNVKRWLEEIRNNCD-SVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMF  161 (198)
T ss_pred             eEEEEEECcchhhhHhHHHHHHHHHhcCc-cccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHH
Confidence            999999999   99999999999999998 5567799999999887765444433 44444555555544  45566655


Q ss_pred             hhh
Q psy5781         170 STS  172 (231)
Q Consensus       170 ~~~  172 (231)
                      -+.
T Consensus       162 ~ci  164 (198)
T KOG0079|consen  162 HCI  164 (198)
T ss_pred             HHH
Confidence            443

>KOG0394|consensus

Probab=99.97  E-value=1.2e-30  Score=204.04  Aligned_cols=157  Identities=27%  Similarity=0.448  Sum_probs=136.5

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .+...+||+++||+|||||||+++|++++|..+|..|||.+|-++.+.++++.+.|+||||+||++|.++.-.+||++|.
T Consensus         5 ~K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDc   84 (210)
T KOG0394|consen    5 RKRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADC   84 (210)
T ss_pred             CcccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCce
Confidence            35678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCc----ceeeecccccCCCCCccccccch--h--hhhhcCCCcccccc--cc
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKY----KFGHAFSTSLAMPQVRPCLFHKF--G--HASSSAMPFPQVWP--CL  163 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~----~~~~vv~~k~dl~~~~~~~~~~~--~--~s~~~~~~~~ev~~--~~  163 (231)
                      .+||||++   ||+++..|.+++.......    -+-+++|||+|+.....+.....  .  ...+...+..|+++  ..
T Consensus        85 Cvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~  164 (210)
T KOG0394|consen   85 CVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEAT  164 (210)
T ss_pred             EEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccc
Confidence            99999999   9999999999998776533    33568899999987543322222  2  56667778888887  67


Q ss_pred             chhhhhhhhc
Q psy5781         164 KFGHAFSTSL  173 (231)
Q Consensus       164 nv~e~f~~~~  173 (231)
                      ||+++|++.+
T Consensus       165 NV~~AFe~ia  174 (210)
T KOG0394|consen  165 NVDEAFEEIA  174 (210)
T ss_pred             cHHHHHHHHH
Confidence            8999998866

>KOG0086|consensus

Probab=99.97  E-value=1.5e-30  Score=197.86  Aligned_cols=160  Identities=35%  Similarity=0.611  Sum_probs=142.5

Q ss_pred             CCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccC
Q psy5781          14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRS   93 (231)
Q Consensus        14 ~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~   93 (231)
                      +++++++.+|++++|+.|.|||+|+++|+.++|.++...|+|++|..+.+++.++.++|+||||+||++|++..+.||+.
T Consensus         2 msEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRG   81 (214)
T KOG0086|consen    2 MSETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRG   81 (214)
T ss_pred             cchhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhcc
Confidence            56789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhh
Q psy5781          94 ANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGH  167 (231)
Q Consensus        94 ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e  167 (231)
                      |-+.+||||+|   ||+.+..|+.+++...+...++++.|+|.|+..++++.+.+.. .+...-..+.|.+.  ..||+|
T Consensus        82 AAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEE  161 (214)
T KOG0086|consen   82 AAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEE  161 (214)
T ss_pred             ccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHH
Confidence            99999999999   9999999999999999999999999999999999998776655 22222223444444  678999


Q ss_pred             hhhhhc
Q psy5781         168 AFSTSL  173 (231)
Q Consensus       168 ~f~~~~  173 (231)
                      +|-.++
T Consensus       162 aFl~c~  167 (214)
T KOG0086|consen  162 AFLKCA  167 (214)
T ss_pred             HHHHHH
Confidence            996654

>KOG0093|consensus

Probab=99.96  E-value=4.8e-29  Score=188.47  Aligned_cols=161  Identities=31%  Similarity=0.491  Sum_probs=144.1

Q ss_pred             CCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhccc
Q psy5781          13 FQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYR   92 (231)
Q Consensus        13 ~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~   92 (231)
                      +..+.-++.+|++++|++.||||||+.||+++.|...+..|.|++|..+++.-..+.++++||||+|++.|+.+...|++
T Consensus        13 s~dqnFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyR   92 (193)
T KOG0093|consen   13 SIDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYR   92 (193)
T ss_pred             cccccccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhh
Confidence            33455678889999999999999999999999999999999999999999988888999999999999999999999999


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchh
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFG  166 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~  166 (231)
                      .++|+|||||++   ||..++.|.-.|+.++..+..+++++||.|+...+........ .+...|..+-|.+.  ++||+
T Consensus        93 gamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk  172 (193)
T KOG0093|consen   93 GAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVK  172 (193)
T ss_pred             ccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHH
Confidence            999999999999   9999999999999999999999999999999988775444433 67777777778777  77888


Q ss_pred             hhhhhhc
Q psy5781         167 HAFSTSL  173 (231)
Q Consensus       167 e~f~~~~  173 (231)
                      .+|+..+
T Consensus       173 ~~Fe~lv  179 (193)
T KOG0093|consen  173 QVFERLV  179 (193)
T ss_pred             HHHHHHH
Confidence            8887755

>KOG0091|consensus

Probab=99.96  E-value=7.8e-30  Score=195.90  Aligned_cols=155  Identities=32%  Similarity=0.528  Sum_probs=142.9

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEE-CCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI-DGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      .++||++||||+-||||||++.|..++|.+-.+||+|+||+.+.+++ +|..++|++|||+||++|+++.+.||++.-|+
T Consensus         6 ~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgv   85 (213)
T KOG0091|consen    6 HYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGV   85 (213)
T ss_pred             EEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccce
Confidence            47899999999999999999999999999999999999999998888 68899999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcC-Cc-ceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFD-KY-KFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~-~~-~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      ++|||++   ||+.++.|.++...+.. +. .+-.++|.|.||...+++...+.+ .++..++.+.|.+.  ..||+|+|
T Consensus        86 llvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEAF  165 (213)
T KOG0091|consen   86 LLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEAF  165 (213)
T ss_pred             EEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHHH
Confidence            9999999   99999999999988776 44 446788999999999988887777 89999999999988  77999999


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       166 ~mla  169 (213)
T KOG0091|consen  166 DMLA  169 (213)
T ss_pred             HHHH
Confidence            8876

>cd04121 Rab40 Rab40 subfamily

Probab=99.96  E-value=1.3e-28  Score=199.46  Aligned_cols=155  Identities=30%  Similarity=0.482  Sum_probs=134.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      .++.+||+++|+.|||||||+.+|.++.|...+.++++.++....+.+++..+.++|||++|+++|..+++.|++++|++
T Consensus         3 ~~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~i   82 (189)
T cd04121           3 YDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGI   82 (189)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEE
Confidence            55779999999999999999999999999999999999999888889999999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      |||||++   ||+++..|++++.+..+ ..+++++|||.|+...+.....+.. .+...+..+.|+++  ..|++++|..
T Consensus        83 llVfD~t~~~Sf~~~~~w~~~i~~~~~-~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~  161 (189)
T cd04121          83 ILVYDITNRWSFDGIDRWIKEIDEHAP-GVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTE  161 (189)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHH
Confidence            9999999   99999999999987664 5667899999999876554433332 45556667778876  6788888887


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       162 l~  163 (189)
T cd04121         162 LA  163 (189)
T ss_pred             HH
Confidence            66

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

>cd04120 Rab12 Rab12 subfamily

Probab=99.96  E-value=1.4e-28  Score=201.20  Aligned_cols=152  Identities=34%  Similarity=0.523  Sum_probs=126.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +.|+++|+.|||||||++||..+.|.++|.+|++.++..+.+.++++.+.++|||++|+++|+.++..|++++|++|+||
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVf   80 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVY   80 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEE
Confidence            47999999999999999999999999999999999999899999999999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhh-cCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASS-SAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~-~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   ||+++..|+..+.+......++++++||.|+...+........ .+.. .+..+.|+++  ..|++++|...+
T Consensus        81 Dvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~  159 (202)
T cd04120          81 DITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLV  159 (202)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHH
Confidence            999   9999999999998877667778899999999765443222221 1222 1344556655  556777775544

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.96  E-value=8.3e-28  Score=193.68  Aligned_cols=154  Identities=17%  Similarity=0.293  Sum_probs=127.8

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      +...+||+++|++|||||||+++|+.+.|.++|.||++.++ .+.+.+++..+.++||||+|+++|..+++.+++++|++
T Consensus         2 ~~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~   80 (182)
T cd04172           2 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   80 (182)
T ss_pred             CcceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEE
Confidence            45679999999999999999999999999999999998655 46788899999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCC------------ccccccchh-hhhhcCC-Ccccc
Q psy5781          98 IIEVTSV---EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQV------------RPCLFHKFG-HASSSAM-PFPQV  159 (231)
Q Consensus        98 IlV~dit---Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~------------~~~~~~~~~-~s~~~~~-~~~ev  159 (231)
                      |||||++   ||+++ ..|++++++..+ ..+.+++|||.|+..+            ++....+.. .+...+. .+.|+
T Consensus        81 ilvyDit~~~Sf~~~~~~w~~~i~~~~~-~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~  159 (182)
T cd04172          81 LICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIEC  159 (182)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEEC
Confidence            9999999   99998 799999998765 4667799999998642            122222222 4555663 67788


Q ss_pred             cc--ccc-hhhhhhhhc
Q psy5781         160 WP--CLK-FGHAFSTSL  173 (231)
Q Consensus       160 ~~--~~n-v~e~f~~~~  173 (231)
                      ++  ..| ++++|....
T Consensus       160 SAk~~~n~v~~~F~~~~  176 (182)
T cd04172         160 SALQSENSVRDIFHVAT  176 (182)
T ss_pred             CcCCCCCCHHHHHHHHH
Confidence            77  566 888887654

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

>cd04133 Rop_like Rop subfamily

Probab=99.95  E-value=8.9e-28  Score=192.52  Aligned_cols=150  Identities=22%  Similarity=0.337  Sum_probs=125.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+.+|+.+.|..+|.||++..+ .+.+.+++..+.+.||||+|+++|+.++..+++++|++||||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvy   80 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   80 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEE
Confidence            7999999999999999999999999999999998665 466788999999999999999999999999999999999999


Q ss_pred             ecC---cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCCcc----------ccccch-hhhhhcCC-Ccccccc--cc
Q psy5781         102 TSV---EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP----------CLFHKF-GHASSSAM-PFPQVWP--CL  163 (231)
Q Consensus       102 dit---Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~----------~~~~~~-~~s~~~~~-~~~ev~~--~~  163 (231)
                      |++   ||+++ ..|++++.+..+ +.+++++|||.|+...+.          ....+. ..+.+.+. .+.|+++  ..
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~  159 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYAP-NVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQ  159 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCccc
Confidence            999   99998 689999987754 566789999999965431          211111 14555555 4778876  67


Q ss_pred             chhhhhhhhc
Q psy5781         164 KFGHAFSTSL  173 (231)
Q Consensus       164 nv~e~f~~~~  173 (231)
                      |++++|...+
T Consensus       160 nV~~~F~~~~  169 (176)
T cd04133         160 NVKAVFDAAI  169 (176)
T ss_pred             CHHHHHHHHH
Confidence            8999998876

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,

>cd04122 Rab14 Rab14 subfamily

Probab=99.95  E-value=6.2e-27  Score=184.86  Aligned_cols=153  Identities=33%  Similarity=0.614  Sum_probs=130.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|..+.|...+.+|++.++..+.+.+++..+.+.|||++|++++..++..+++++|++|+|
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   81 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV   81 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEE
Confidence            58999999999999999999999999999999999999888888999999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   ||+.+..|++++........+.++++||.|+...+.....+.. .+...+..+.+++.  ..|++++|...+
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~  160 (166)
T cd04122          82 YDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETA  160 (166)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            9999   9999999999998877667778899999999876554333322 34444556666665  677888886654

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT

>cd04131 Rnd Rnd subfamily

Probab=99.95  E-value=5.3e-27  Score=188.28  Aligned_cols=151  Identities=17%  Similarity=0.278  Sum_probs=124.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|+++.|..+|.||++.++ .+.+.+++..+.+.||||+|++.|..+++.+++++|++|+|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENY-TASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            37999999999999999999999999999999998665 46788899999999999999999999999999999999999


Q ss_pred             EecC---cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCC------------ccccccchh-hhhhcCC-Ccccccc-
Q psy5781         101 VTSV---EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQV------------RPCLFHKFG-HASSSAM-PFPQVWP-  161 (231)
Q Consensus       101 ~dit---Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~------------~~~~~~~~~-~s~~~~~-~~~ev~~-  161 (231)
                      ||++   ||+++ ..|++++++..+ ..+.+++|||.|+..+            ++....+.. .+...+. .+.|+++ 
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~~-~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~  158 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFCP-NTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAF  158 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHCC-CCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccC
Confidence            9999   99996 799999998775 4567799999998642            122222222 5555564 5777777 


Q ss_pred             -ccc-hhhhhhhhc
Q psy5781         162 -CLK-FGHAFSTSL  173 (231)
Q Consensus       162 -~~n-v~e~f~~~~  173 (231)
                       ..| ++++|...+
T Consensus       159 ~~~~~v~~~F~~~~  172 (178)
T cd04131         159 TSEKSVRDIFHVAT  172 (178)
T ss_pred             cCCcCHHHHHHHHH
Confidence             344 889887765

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.

>cd04128 Spg1 Spg1p

Probab=99.95  E-value=5.6e-27  Score=188.77  Aligned_cols=151  Identities=22%  Similarity=0.341  Sum_probs=124.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||++||+++.|.++|.||+|.++..+.+.+++..+.+.|||++|+++|..+++.+++++|++++||
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~   80 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMF   80 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEE
Confidence            59999999999999999999999999999999999998888999999999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC-----ccccccc-hhhhhhcCCCcccccc--ccchhhhhh
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV-----RPCLFHK-FGHASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~-----~~~~~~~-~~~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      |++   ||+++..|+.++.+......+ ++++||.|+...     ....... ...+...+..+.++++  ..|++++|.
T Consensus        81 D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~  159 (182)
T cd04128          81 DLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFK  159 (182)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999   999999999999887655444 578999998532     1111111 1134445555666665  678888887


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       160 ~l~  162 (182)
T cd04128         160 IVL  162 (182)
T ss_pred             HHH
Confidence            765

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.95  E-value=9.7e-27  Score=193.93  Aligned_cols=154  Identities=14%  Similarity=0.244  Sum_probs=127.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||++||+.|||||||+++|+.+.|.++|.||++.++. ..+.+++..+.+.||||+|++.|..+++.|++++|++
T Consensus        10 ~~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~v   88 (232)
T cd04174          10 LVMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAV   88 (232)
T ss_pred             ceeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEE
Confidence            356799999999999999999999999999999999997664 5688899999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCC------------ccccccchh-hhhhcCC-Ccccc
Q psy5781          98 IIEVTSV---EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQV------------RPCLFHKFG-HASSSAM-PFPQV  159 (231)
Q Consensus        98 IlV~dit---Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~------------~~~~~~~~~-~s~~~~~-~~~ev  159 (231)
                      |||||++   ||+++ ..|++++.+..+ ..+++++|||.|+..+            ++....+.. .+.+.+. .+.|+
T Consensus        89 IlVyDit~~~Sf~~~~~~w~~~i~~~~~-~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~Et  167 (232)
T cd04174          89 LLCFDISRPETVDSALKKWKAEIMDYCP-STRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLEC  167 (232)
T ss_pred             EEEEECCChHHHHHHHHHHHHHHHHhCC-CCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEc
Confidence            9999999   99985 899999998765 4456799999998642            222222222 5566666 47788


Q ss_pred             ccc--c-chhhhhhhhc
Q psy5781         160 WPC--L-KFGHAFSTSL  173 (231)
Q Consensus       160 ~~~--~-nv~e~f~~~~  173 (231)
                      ++.  . |++++|...+
T Consensus       168 SAktg~~~V~e~F~~~~  184 (232)
T cd04174         168 SAFTSEKSIHSIFRSAS  184 (232)
T ss_pred             cCCcCCcCHHHHHHHHH
Confidence            773  3 6899998765

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.

>cd01875 RhoG RhoG subfamily

Probab=99.95  E-value=1.1e-26  Score=188.39  Aligned_cols=151  Identities=22%  Similarity=0.317  Sum_probs=122.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+.||+.+.|.++|.||++.++ .+.+.++++.+.++||||+|+++|+.+++.|++++|++|+|
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilv   81 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIIC   81 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEE
Confidence            48999999999999999999999999999999999555 45677899999999999999999999999999999999999


Q ss_pred             EecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCcc------------ccccch-hhhhhcC-CCcccccc-
Q psy5781         101 VTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRP------------CLFHKF-GHASSSA-MPFPQVWP-  161 (231)
Q Consensus       101 ~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~------------~~~~~~-~~s~~~~-~~~~ev~~-  161 (231)
                      ||++   ||+++. .|.+++.+..+ ..+++++|||.|+.....            ....+. ..+...+ ..+.|+++ 
T Consensus        82 ydit~~~Sf~~~~~~w~~~i~~~~~-~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk  160 (191)
T cd01875          82 FSIASPSSYENVRHKWHPEVCHHCP-NVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSAL  160 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCC
Confidence            9999   999996 69998887654 566789999999975432            100111 1233344 35667765 


Q ss_pred             -ccchhhhhhhhc
Q psy5781         162 -CLKFGHAFSTSL  173 (231)
Q Consensus       162 -~~nv~e~f~~~~  173 (231)
                       ..|++++|...+
T Consensus       161 ~g~~v~e~f~~l~  173 (191)
T cd01875         161 NQDGVKEVFAEAV  173 (191)
T ss_pred             CCCCHHHHHHHHH
Confidence             568888887766

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

>KOG0088|consensus

Probab=99.94  E-value=1e-27  Score=183.36  Aligned_cols=155  Identities=27%  Similarity=0.432  Sum_probs=140.9

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      -+...||||++|..-||||||+.||+.++|..+...|+...|..+.+++.+....|.||||+||++|..+-+-||+..|+
T Consensus         9 g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnG   88 (218)
T KOG0088|consen    9 GKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNG   88 (218)
T ss_pred             CCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCc
Confidence            35678999999999999999999999999999999999888999999999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      ++||||||   ||+.++.|..+++..+.+..-.+++|||+|+...+.+.-.+.+ .+.+.|....+.++  +.++.|+|+
T Consensus        89 alLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe  168 (218)
T KOG0088|consen   89 ALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGISELFE  168 (218)
T ss_pred             eEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCHHHHHH
Confidence            99999999   9999999999999999999999999999999998887766665 66777777778777  556778886


Q ss_pred             h
Q psy5781         171 T  171 (231)
Q Consensus       171 ~  171 (231)
                      .
T Consensus       169 ~  169 (218)
T KOG0088|consen  169 S  169 (218)
T ss_pred             H
Confidence            4

>KOG0097|consensus

Probab=99.94  E-value=5.2e-27  Score=176.65  Aligned_cols=159  Identities=32%  Similarity=0.612  Sum_probs=145.1

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      .-.+.+.||.+++||-|||||+|+++|..++|..+-+.|+|++|..+.+++.|++++++||||.||++|+...+.||+.+
T Consensus         5 pynysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrga   84 (215)
T KOG0097|consen    5 PYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGA   84 (215)
T ss_pred             ccchhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccc
Confidence            34577899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhh
Q psy5781          95 NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      .+.++|||++   ++..+..|+.+.+....+.-++++++||.|+...+.+.+.+.. .+..-|+.|.|.+.  ..||+.+
T Consensus        85 agalmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nveda  164 (215)
T KOG0097|consen   85 AGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDA  164 (215)
T ss_pred             cceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHH
Confidence            9999999999   9999999999999998899999999999999999888877766 67777888888776  5688888


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |-..+
T Consensus       165 fle~a  169 (215)
T KOG0097|consen  165 FLETA  169 (215)
T ss_pred             HHHHH
Confidence            85543

>cd04117 Rab15 Rab15 subfamily

Probab=99.94  E-value=3.2e-26  Score=180.32  Aligned_cols=152  Identities=35%  Similarity=0.537  Sum_probs=129.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|+++.|.+.+.||++.++..+.+.+++..+.+.|||++|++++..++..+++++|++++||
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVY   80 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEE
Confidence            58999999999999999999999999999999998888888999998999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   ||+.+..|++++.+......+.++++||.|+...++....+.. .+...+..+.|++.  ..|++++|...+
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~  158 (161)
T cd04117          81 DISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLT  158 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            999   9999999999998877667778899999999765543222222 44445566777766  667888887654

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.94  E-value=4.3e-26  Score=180.36  Aligned_cols=155  Identities=38%  Similarity=0.604  Sum_probs=129.6

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ++.+||+++|++|||||||+++|.++.|...+.||++.++..+.+.+++..+.+.+||++|++.+..++..+++++|++|
T Consensus         1 ~~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i   80 (167)
T cd01867           1 DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGII   80 (167)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEE
Confidence            35799999999999999999999999999999999998888888889998899999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      +|||++   +|+.+..|+..+.+......+.++++||.|+...+.....+.. .+...+.++.+++.  ..|++++|...
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i  160 (167)
T cd01867          81 LVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTL  160 (167)
T ss_pred             EEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            999999   9999999999999877667778899999999865443322221 34444556666666  45677777654


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       161 ~  161 (167)
T cd01867         161 A  161 (167)
T ss_pred             H
Confidence            4

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.94  E-value=4.4e-26  Score=181.73  Aligned_cols=152  Identities=23%  Similarity=0.289  Sum_probs=127.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|+.+.|...+.||++..+ ...+.+++..+.+.|||++|++++..+++.+++.+|++|+|
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv   80 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIIC   80 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEE
Confidence            48999999999999999999999999999999998444 46678899999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   ||+++..|...+.+... ...+.++++||.|+...+.....+.. .+...+..+.|++.  ..|++++|...+
T Consensus        81 ~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~  160 (172)
T cd04141          81 YSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGLV  160 (172)
T ss_pred             EECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHHH
Confidence            9999   99999999999887653 45668899999999766544332222 44455667777766  778999998776

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

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

Probab=99.94  E-value=4.3e-26  Score=178.82  Aligned_cols=151  Identities=29%  Similarity=0.489  Sum_probs=134.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      ||+++|++|||||||+++|.++.|.+++.||++.+...+.+.+++..+.++|||++|++++..++..+++++|++|+|||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd   80 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFD   80 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         103 SV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ++   ||+++..|++.+.+..+...+.+++|+|.|+...+.....+.. .+...+.++.|++.  ..|+.++|...+
T Consensus        81 ~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i  157 (162)
T PF00071_consen   81 VTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELI  157 (162)
T ss_dssp             TTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHH
Confidence            99   9999999999999999977788899999999886665544433 56666788888887  567888887654

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 ....

>KOG0081|consensus

Probab=99.94  E-value=1.4e-28  Score=188.28  Aligned_cols=171  Identities=29%  Similarity=0.519  Sum_probs=148.1

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC---------CeEEEEEEeeCCCccccch
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID---------GKKVKLQIWDTAGQERFRT   85 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~---------~~~~~l~i~D~~G~~~~~~   85 (231)
                      +.++++.+|.+.+||+||||||++++|.+++|..+...|+|+||..+.+-++         ++.+.++||||+||++|++
T Consensus         3 ~GdydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRS   82 (219)
T KOG0081|consen    3 DGDYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRS   82 (219)
T ss_pred             CccHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHH
Confidence            4578899999999999999999999999999999999999999998888763         3678999999999999999


Q ss_pred             hhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCccccc
Q psy5781          86 ITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVW  160 (231)
Q Consensus        86 ~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~  160 (231)
                      +...++++|-+++|+||+|   ||.+++.|+..++-..- +++-+++.|||.|+.+.+.+.-.... .+.+.+.+..|.+
T Consensus        83 LTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETS  162 (219)
T KOG0081|consen   83 LTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETS  162 (219)
T ss_pred             HHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeec
Confidence            9999999999999999999   99999999999976543 44556788999999988775443333 8899999999999


Q ss_pred             cc--cchhhhhhhhc--cCCCcccccccc
Q psy5781         161 PC--LKFGHAFSTSL--AMPQVRPCLFHK  185 (231)
Q Consensus       161 ~~--~nv~e~f~~~~--~~~~~~~c~~~~  185 (231)
                      +|  .|++++.+..+  .|.|.+.|...+
T Consensus       163 A~tg~Nv~kave~LldlvM~Rie~~v~~s  191 (219)
T KOG0081|consen  163 ACTGTNVEKAVELLLDLVMKRIEQCVEKS  191 (219)
T ss_pred             cccCcCHHHHHHHHHHHHHHHHHHHHhhc
Confidence            95  58999998865  777777776554

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.94  E-value=5.3e-26  Score=180.97  Aligned_cols=152  Identities=31%  Similarity=0.459  Sum_probs=125.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      ||+++|++|||||||+++|+++.|.++|.||++.++..+.+.+++..+.++|||++|+++|..++..+++++|++++|||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   81 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFD   81 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEE
Confidence            89999999999999999999999999999999999988888999999999999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCCccccccc---hhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         103 SV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQVRPCLFHK---FGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~~~~~~~~---~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ++   +++.+..|++++.+.. ++..+.++++||.|+.........+   ...+...+..+.+++.  ..|++++|...+
T Consensus        82 ~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~  161 (170)
T cd04108          82 LTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVA  161 (170)
T ss_pred             CcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            98   8999999999987654 4455678999999986543311111   1133444455566665  678888887765


Q ss_pred             c
Q psy5781         174 A  174 (231)
Q Consensus       174 ~  174 (231)
                      .
T Consensus       162 ~  162 (170)
T cd04108         162 A  162 (170)
T ss_pred             H
Confidence            3

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.94  E-value=8.3e-26  Score=184.35  Aligned_cols=152  Identities=28%  Similarity=0.443  Sum_probs=123.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC-CeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-GKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      +||+++|++|||||||+++|+++.|...+.||++.++..+.+.++ +..+.+.|||++|++.+..+++.++++++++|+|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv   80 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIV   80 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEE
Confidence            699999999999999999999999999999999999988888887 8899999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCccccccchh-hhhhcC-CCcccccc--ccchhhhh
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSA-MPFPQVWP--CLKFGHAF  169 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~-~~~~ev~~--~~nv~e~f  169 (231)
                      ||++   ||+++..|+.++.+...    ...+.++++||.|+...+.....+.. .+...+ ..+.+++.  ..|++++|
T Consensus        81 ~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f  160 (201)
T cd04107          81 FDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAM  160 (201)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHH
Confidence            9999   99999999999876532    44567899999999743332222221 233333 35556555  56777777


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       161 ~~l~  164 (201)
T cd04107         161 RFLV  164 (201)
T ss_pred             HHHH
Confidence            7655

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.

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.94  E-value=7.9e-26  Score=180.84  Aligned_cols=151  Identities=19%  Similarity=0.275  Sum_probs=119.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|+++.|.+.|.||++.++. ..+.+++..+.+.|||++|+++|..++..+++++|++|||
T Consensus         1 ~~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv   79 (175)
T cd01874           1 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   79 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEE
Confidence            379999999999999999999999999999999986664 5677888899999999999999999999999999999999


Q ss_pred             EecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCcc------------ccccchh-hhhhcC-CCcccccc-
Q psy5781         101 VTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRP------------CLFHKFG-HASSSA-MPFPQVWP-  161 (231)
Q Consensus       101 ~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~------------~~~~~~~-~s~~~~-~~~~ev~~-  161 (231)
                      ||++   ||+++. .|+.++.+..+ ..+.++++||.|+.....            ....+.. .+...+ ..+.|+++ 
T Consensus        80 ~d~~~~~s~~~~~~~w~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~  158 (175)
T cd01874          80 FSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSAL  158 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCC
Confidence            9999   899996 69999987654 456779999999865421            1111111 222333 35666664 


Q ss_pred             -ccchhhhhhhhc
Q psy5781         162 -CLKFGHAFSTSL  173 (231)
Q Consensus       162 -~~nv~e~f~~~~  173 (231)
                       ..|++++|...+
T Consensus       159 tg~~v~~~f~~~~  171 (175)
T cd01874         159 TQKGLKNVFDEAI  171 (175)
T ss_pred             CCCCHHHHHHHHH
Confidence             678888887665

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.94  E-value=1.1e-25  Score=186.28  Aligned_cols=153  Identities=24%  Similarity=0.373  Sum_probs=126.5

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||+++|+.+.|...+.||++.++....+..++..+.+.|||++|++.|..++..|++++|++|
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   90 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAI   90 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEE
Confidence            67799999999999999999999999999999999999988888888888899999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      +|||++   ||+++..|++++.+... ..+.+++|||.|+.... ..........+.+..+.+++.  ..|++++|...+
T Consensus        91 lvfD~~~~~s~~~i~~w~~~i~~~~~-~~piilvgNK~Dl~~~~-v~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~l~  168 (219)
T PLN03071         91 IMFDVTARLTYKNVPTWHRDLCRVCE-NIPIVLCGNKVDVKNRQ-VKAKQVTFHRKKNLQYYEISAKSNYNFEKPFLYLA  168 (219)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhhhhcc-CCHHHHHHHHhcCCEEEEcCCCCCCCHHHHHHHHH
Confidence            999999   99999999999988764 45677999999986422 111111233444555666655  667888886655

>cd01865 Rab3 Rab3 subfamily

Probab=99.94  E-value=1.3e-25  Score=177.21  Aligned_cols=152  Identities=32%  Similarity=0.485  Sum_probs=126.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||++++.+++|...+.||++.++....+..++..+.+.+||++|++++..++..+++++|++++||
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~   81 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY   81 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEE
Confidence            79999999999999999999999999999999998888888888888899999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccc-hhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHK-FGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~-~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   +|+.+..|++++.+......+.++++||.|+...+...... ...+...+.++.+++.  ..|++++|...+
T Consensus        82 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  159 (165)
T cd01865          82 DITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLV  159 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            999   99999999999988776677788999999997654322111 1134444555666655  557777776654

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

>KOG0083|consensus

Probab=99.94  E-value=1.5e-27  Score=177.83  Aligned_cols=149  Identities=31%  Similarity=0.522  Sum_probs=135.7

Q ss_pred             EEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEec
Q psy5781          25 VLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTS  103 (231)
Q Consensus        25 vvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~di  103 (231)
                      +++||+++|||+|+-||..+.|. ....+|+|+||..+.+.+++.+++++||||.||++|++....||+++|+++|+||+
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydi   80 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDI   80 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeec
Confidence            37899999999999999999985 46789999999999999999999999999999999999999999999999999999


Q ss_pred             C---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         104 V---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       104 t---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      +   ||++++.|+.+|.++........++|||.|+.+.+.+.-.+.+ .++..+.+|.|.+.  .+||+.+|-..+
T Consensus        81 ankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia  156 (192)
T KOG0083|consen   81 ANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIA  156 (192)
T ss_pred             ccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHH
Confidence            9   9999999999999999998889999999999877665544444 88889999999988  788999997766

>cd04127 Rab27A Rab27a subfamily

Probab=99.93  E-value=2.1e-25  Score=178.08  Aligned_cols=155  Identities=29%  Similarity=0.470  Sum_probs=126.5

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC----------CeEEEEEEeeCCCccccchhhh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID----------GKKVKLQIWDTAGQERFRTITQ   88 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~----------~~~~~l~i~D~~G~~~~~~~~~   88 (231)
                      ++.+||+++|++|||||||+++|.++.|...+.+|++.++....+.++          +..+.+.|||++|++++..++.
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   81 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTT   81 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHH
Confidence            467999999999999999999999999999999999988887766654          4678999999999999999999


Q ss_pred             hcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccch-hhhhhcCCCcccccc--
Q psy5781          89 SYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWP--  161 (231)
Q Consensus        89 ~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~--  161 (231)
                      .+++++|++|+|||++   ||+++..|+.++..... ...+.++++||.|+...++....+. ..+...+.++.+++.  
T Consensus        82 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~  161 (180)
T cd04127          82 AFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAAT  161 (180)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCC
Confidence            9999999999999999   99999999999987653 3455778999999976544332222 244455566677766  


Q ss_pred             ccchhhhhhhhc
Q psy5781         162 CLKFGHAFSTSL  173 (231)
Q Consensus       162 ~~nv~e~f~~~~  173 (231)
                      ..|++++|...+
T Consensus       162 ~~~v~~l~~~l~  173 (180)
T cd04127         162 GTNVEKAVERLL  173 (180)
T ss_pred             CCCHHHHHHHHH
Confidence            567888877654

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

>PLN03110 Rab GTPase; Provisional

Probab=99.93  E-value=2.6e-25  Score=183.70  Aligned_cols=157  Identities=34%  Similarity=0.588  Sum_probs=132.1

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      +.++.+||+++|++|||||||+++|+++.|..++.||++.++..+.+.+++..+.+.|||++|++++..++..+++.+++
T Consensus         8 ~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~   87 (216)
T PLN03110          8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (216)
T ss_pred             ccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCE
Confidence            35578999999999999999999999999988899999999998999999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +|+|||++   +|+++..|+..+.+......+.++++||.|+...+........ .+...+.++.+++.  ..|++++|.
T Consensus        88 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~  167 (216)
T PLN03110         88 ALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQ  167 (216)
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999998   9999999999999887777788899999998665443221222 44455566666665  566777776


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       168 ~l~  170 (216)
T PLN03110        168 TIL  170 (216)
T ss_pred             HHH
Confidence            654

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.93  E-value=1.8e-25  Score=182.74  Aligned_cols=119  Identities=21%  Similarity=0.379  Sum_probs=106.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC-----CeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-----GKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~-----~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      +||+++|++|||||||+++|+++.|.+.+.||++.++..+.+.++     ++.+.++|||++|+++|..++..|++++|+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~   80 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNG   80 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCE
Confidence            699999999999999999999999999999999988887777774     578999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhc-------------------CCcceeeecccccCCCCCcc
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLF-------------------DKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~-------------------~~~~~~~vv~~k~dl~~~~~  140 (231)
                      +|+|||++   ||+++..|+.++.+..                   ....+++++|||.|+...+.
T Consensus        81 iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~  146 (202)
T cd04102          81 IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKE  146 (202)
T ss_pred             EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcc
Confidence            99999999   9999999999997642                   23466889999999976543

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.93  E-value=3.6e-25  Score=174.48  Aligned_cols=153  Identities=38%  Similarity=0.642  Sum_probs=128.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|+++.|...+.+|.+.++..+.+.+++..+.+.|||++|++++..++..+++++|++|+|
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v   81 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIV   81 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEE
Confidence            58999999999999999999999999888999999888888889999899999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   ||+++..|+.++.+......+.++++||.|+.........+.. .+...+.++.+++.  ..|+.+.|...+
T Consensus        82 ~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~  160 (166)
T cd01869          82 YDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMA  160 (166)
T ss_pred             EECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHH
Confidence            9999   9999999999998877666678899999998765543322222 34444556666665  567888876654

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.93  E-value=3.7e-25  Score=173.66  Aligned_cols=152  Identities=22%  Similarity=0.424  Sum_probs=125.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|++++|...+.||++.++..+.+.+++..+.++|||++|++.+..++..+++++|++|+||
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVY   80 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEE
Confidence            59999999999999999999999999999999999998888999999999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcC-----CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFD-----KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~-----~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      |++   +|+.+..|+.++.+...     ...+.++++||.|+............ .....+..+.+++.  ..|++++|.
T Consensus        81 D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  160 (168)
T cd04119          81 DVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQ  160 (168)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            999   89999999999998875     35668899999998743322222221 23334455566655  566777776


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       161 ~l~  163 (168)
T cd04119         161 TLF  163 (168)
T ss_pred             HHH
Confidence            543

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.

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

Probab=99.93  E-value=4.3e-25  Score=174.95  Aligned_cols=150  Identities=25%  Similarity=0.436  Sum_probs=124.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|+.+.|...+.||++.++....+..++..+.+.+||++|++++..++..+++.+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMF   80 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEE
Confidence            69999999999999999999999999999999998888888888888999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   ||+++..|+.++.+... ..+.++++||.|+.... ...............+.|++.  ..|++++|...+
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~  155 (166)
T cd00877          81 DVTSRVTYKNVPNWHRDLVRVCG-NIPIVLCGNKVDIKDRK-VKAKQITFHRKKNLQYYEISAKSNYNFEKPFLWLA  155 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhccccc-CCHHHHHHHHHcCCEEEEEeCCCCCChHHHHHHHH
Confidence            999   99999999999998876 56677999999997322 111111133334445666666  667888887765

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.93  E-value=3.1e-25  Score=183.89  Aligned_cols=150  Identities=16%  Similarity=0.290  Sum_probs=122.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+|||++|||||||+.+|..+.|.++|.||++.++. ..+.++++.+.|.||||+|++.|..+++.+++++|++|+||
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvf   80 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICF   80 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEE
Confidence            79999999999999999999999999999999986654 67888999999999999999999999999999999999999


Q ss_pred             ecC---cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCCcc------------ccccch-hhhhhcC-CCcccccc--
Q psy5781         102 TSV---EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP------------CLFHKF-GHASSSA-MPFPQVWP--  161 (231)
Q Consensus       102 dit---Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~------------~~~~~~-~~s~~~~-~~~~ev~~--  161 (231)
                      |++   ||+++ ..|..++....+ ..+.+++|||.|+..+..            ....+. ..+...+ ..+.|.++  
T Consensus        81 dis~~~Sf~~i~~~w~~~~~~~~~-~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~  159 (222)
T cd04173          81 DISRPETLDSVLKKWQGETQEFCP-NAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRS  159 (222)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCc
Confidence            999   99999 578888766554 456778999999965321            111111 1455555 37888877  


Q ss_pred             ccc-hhhhhhhhc
Q psy5781         162 CLK-FGHAFSTSL  173 (231)
Q Consensus       162 ~~n-v~e~f~~~~  173 (231)
                      ..| ++++|....
T Consensus       160 ~~~~V~~~F~~~~  172 (222)
T cd04173         160 SERSVRDVFHVAT  172 (222)
T ss_pred             CCcCHHHHHHHHH
Confidence            354 889997755

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

>cd04109 Rab28 Rab28 subfamily

Probab=99.93  E-value=3.9e-25  Score=182.37  Aligned_cols=152  Identities=24%  Similarity=0.350  Sum_probs=123.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECC-eEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDG-KKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~-~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      +||+++|++|||||||+++|+++.|...|.||++.+++.+.+.+++ ..+.+.|||++|++.+..++..|++++|++|+|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV   80 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLV   80 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEE
Confidence            6999999999999999999999999999999999999888888865 579999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCC---cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhh
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDK---YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~---~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      ||++   ||+++..|+..+.+....   ..+.++++||.|+...++....... .+...+..+.++++  ..|++++|..
T Consensus        81 ~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~  160 (215)
T cd04109          81 YDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQ  160 (215)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHH
Confidence            9999   999999999999987643   3457789999999755443222211 33334444555554  5667777766


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       161 l~  162 (215)
T cd04109         161 LA  162 (215)
T ss_pred             HH
Confidence            55

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.93  E-value=5.8e-25  Score=177.31  Aligned_cols=152  Identities=34%  Similarity=0.557  Sum_probs=127.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|.++.|...+.||++.++..+.+.+++..+.+.+||++|++.+..++..+++++|++|+||
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~   80 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVY   80 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEE
Confidence            58999999999999999999999998889999998888888899988999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   +|+++..|+.++.+......+.++++||.|+............ .+...+.++.+++.  ..|++++|...+
T Consensus        81 d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~  158 (188)
T cd04125          81 DVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLV  158 (188)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            999   9999999999999887777778899999999865443222211 33344556667765  567888777655

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.

>cd01868 Rab11_like Rab11-like

Probab=99.93  E-value=5.6e-25  Score=173.10  Aligned_cols=154  Identities=34%  Similarity=0.573  Sum_probs=128.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.+||+++|++|||||||++++.++.|...+.||++.++..+.+..++..+.+.+||++|++++..+++.++++++++|+
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~   81 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALL   81 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEE
Confidence            46899999999999999999999999998899999999988899999988999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |||++   +|+++..|+.++.+......+.++++||.|+...+.....+.. .+...+..+.+++.  ..|++++|...+
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  161 (165)
T cd01868          82 VYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLL  161 (165)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            99998   9999999999999988777788899999998765432222211 33334455666655  566777776543

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.93  E-value=4e-25  Score=181.96  Aligned_cols=178  Identities=28%  Similarity=0.464  Sum_probs=139.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEE-CCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI-DGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      +.+||+++|++|||||||+++|+++.|...+.||++.++..+.+.+ ++..+.++|||++|++.+..++..+++++|++|
T Consensus         1 ~~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (211)
T cd04111           1 YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVL   80 (211)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEE
Confidence            3699999999999999999999999999989999999998888887 567899999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccch-hhhhhcCCCcccccc--ccchhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      +|||++   ||+++..|+.++.+.... ..+.++++||.|+...+.....+. ..+...+..+.|++.  ..|++++|..
T Consensus        81 lv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~  160 (211)
T cd04111          81 LVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFEL  160 (211)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHH
Confidence            999999   999999999999877654 445678999999976544333222 245555566777665  6788888887


Q ss_pred             hccCCCcccccccccccCCCCCCCCCCcccccccc
Q psy5781         172 SLAMPQVRPCLFHKFGHASSSAMPFPQVWPCLKFG  206 (231)
Q Consensus       172 ~~~~~~~~~c~~~~~~~~~~~a~p~~~~~~~~~~~  206 (231)
                      .+..     +..+    ..-..++.+..|--.+.|
T Consensus       161 l~~~-----~~~~----~~~~~~~~~~~~~~~~~~  186 (211)
T cd04111         161 LTQE-----IYER----IKRGELCALDGWDGVKSG  186 (211)
T ss_pred             HHHH-----HHHH----hhcCCCCccccccccccC
Confidence            7621     1111    112236677777655544

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.

>cd01864 Rab19 Rab19 subfamily

Probab=99.93  E-value=8.8e-25  Score=172.24  Aligned_cols=155  Identities=47%  Similarity=0.724  Sum_probs=126.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ++.+||+++|++|||||||++++..+.|...+.+|.+.++..+.+.+++..+.+.|||++|++.+..++..+++++|+++
T Consensus         1 ~~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~l   80 (165)
T cd01864           1 DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAI   80 (165)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEE
Confidence            35799999999999999999999999999989999998888888899988899999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCC-Ccccccc--ccchhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAM-PFPQVWP--CLKFGHAFST  171 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~-~~~ev~~--~~nv~e~f~~  171 (231)
                      +|||++   ||+.+..|+..+........+.++++||.|+...++....... .+...+. .+.+++.  ..|++++|..
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~  160 (165)
T cd01864          81 IAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLL  160 (165)
T ss_pred             EEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHH
Confidence            999999   8999999999998876666778899999999765543332222 2333332 3455554  5567777765


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       161 l~  162 (165)
T cd01864         161 MA  162 (165)
T ss_pred             HH
Confidence            43

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.

>cd04110 Rab35 Rab35 subfamily

Probab=99.93  E-value=8.7e-25  Score=178.20  Aligned_cols=155  Identities=35%  Similarity=0.572  Sum_probs=126.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ++..+||+++|++|||||||+++|.++.|...+.||++.++..+.+.+++..+.+.|||++|++.+..++..++++++++
T Consensus         3 ~~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~i   82 (199)
T cd04110           3 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGV   82 (199)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEE
Confidence            34579999999999999999999999999988999999899888888889889999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      |+|||++   ||+.+..|++.+....+ ..+.++++||.|+.........+.. .+...+..+.+++.  ..|++++|..
T Consensus        83 ilv~D~~~~~s~~~~~~~~~~i~~~~~-~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~  161 (199)
T cd04110          83 IVVYDVTNGESFVNVKRWLQEIEQNCD-DVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNC  161 (199)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHH
Confidence            9999998   99999999999877654 4455688999998765443222221 33344555666655  6678888866


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       162 l~  163 (199)
T cd04110         162 IT  163 (199)
T ss_pred             HH
Confidence            44

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.93  E-value=6.1e-25  Score=172.12  Aligned_cols=152  Identities=24%  Similarity=0.359  Sum_probs=122.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|+.+.|...+.||++ +.+.+.+.+++..+.+.|||++|+++|..++..|++++|++++|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   79 (163)
T cd04136           1 EYKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEE
Confidence            37999999999999999999999999999999997 56667788899999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   +|+++..|+.++.+... ...+.++++||.|+...+........ .+...+.++.+++.  ..|++++|...+
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd04136          80 YSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLV  159 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Confidence            9999   89999999999987654 34567789999998764432222111 33333455666665  567888776654

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.

>cd04116 Rab9 Rab9 subfamily

Probab=99.93  E-value=1.4e-24  Score=171.71  Aligned_cols=155  Identities=29%  Similarity=0.510  Sum_probs=124.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||+++|+++.|...+.++++.++..+.+.+++..+.+.|||++|++++..++..+++++|++
T Consensus         2 ~~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~   81 (170)
T cd04116           2 KSSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCC   81 (170)
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEE
Confidence            34679999999999999999999999999998999999888888888999999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCccccccchh-hhhhcC-CCcccccc--ccchh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSA-MPFPQVWP--CLKFG  166 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~-~~~~ev~~--~~nv~  166 (231)
                      |+|||++   ||+.+..|+.++.+...    ...+.++++||.|+.. +.....+.. .+.+.+ ..+.+++.  ..|+.
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~  160 (170)
T cd04116          82 LLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPE-RQVSTEEAQAWCRENGDYPYFETSAKDATNVA  160 (170)
T ss_pred             EEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccc-cccCHHHHHHHHHHCCCCeEEEEECCCCCCHH
Confidence            9999999   89999999999987654    3346778999999863 222111111 233333 24555555  66778


Q ss_pred             hhhhhhc
Q psy5781         167 HAFSTSL  173 (231)
Q Consensus       167 e~f~~~~  173 (231)
                      ++|...+
T Consensus       161 ~~~~~~~  167 (170)
T cd04116         161 AAFEEAV  167 (170)
T ss_pred             HHHHHHH
Confidence            8777654

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.93  E-value=1.2e-24  Score=172.25  Aligned_cols=154  Identities=32%  Similarity=0.560  Sum_probs=128.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ++.+||+++|++|||||||+++++++.+...+.+|.+.++..+.+.+++..+.+.|||++|++++..++..+++++|++|
T Consensus         2 ~~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il   81 (168)
T cd01866           2 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGAL   81 (168)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEE
Confidence            56799999999999999999999999999989999998998888899998899999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      +|||++   ||+++..|+.++++......+.++++||.|+.........+.. .....+..+.+++.  ..|+++.|.-.
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~  161 (168)
T cd01866          82 LVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFINT  161 (168)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            999998   9999999999998877666778899999998754433222222 34445556666654  55677777543

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.93  E-value=8.5e-25  Score=174.71  Aligned_cols=150  Identities=23%  Similarity=0.326  Sum_probs=118.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+.+|+.+.|.++|.||++ +.+...+.+++..+.+.||||+|++.+..+++.+++++|++||||
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICF   80 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcce-eeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEE
Confidence            7999999999999999999999999999999997 455567788999999999999999999999999999999999999


Q ss_pred             ecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCcc------------ccccchh-hhhhcC-CCcccccc--
Q psy5781         102 TSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRP------------CLFHKFG-HASSSA-MPFPQVWP--  161 (231)
Q Consensus       102 dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~------------~~~~~~~-~s~~~~-~~~~ev~~--  161 (231)
                      |++   ||+++. .|+..+....+ ..+.++++||.|+.....            ....+.. .+...+ ..+.|+++  
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~  159 (174)
T cd01871          81 SLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALT  159 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccc
Confidence            999   999995 69998877654 567778999999964321            1111111 233333 24566664  


Q ss_pred             ccchhhhhhhhc
Q psy5781         162 CLKFGHAFSTSL  173 (231)
Q Consensus       162 ~~nv~e~f~~~~  173 (231)
                      ..|++++|...+
T Consensus       160 ~~~i~~~f~~l~  171 (174)
T cd01871         160 QKGLKTVFDEAI  171 (174)
T ss_pred             cCCHHHHHHHHH
Confidence            667888877654

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.93  E-value=7.2e-25  Score=172.14  Aligned_cols=152  Identities=26%  Similarity=0.352  Sum_probs=123.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|+.+.|.+.+.||++ +++...+.+++..+.++|||++|+++|..++..|++++|++|+|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   79 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEE
Confidence            47999999999999999999999999998999987 66677888899899999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   ||+++..|+..+.+... ...+.++++||.|+.........+.. .+...+.++.+++.  ..|++++|...+
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd04176          80 YSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIV  159 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHH
Confidence            9999   89999999999988654 45567789999998654433222211 33334445555554  567888887654

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

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

Probab=99.92  E-value=8e-25  Score=178.81  Aligned_cols=145  Identities=23%  Similarity=0.389  Sum_probs=122.7

Q ss_pred             EcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--
Q psy5781          27 IGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--  104 (231)
Q Consensus        27 lG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--  104 (231)
                      +|++|||||||+++|+.+.|.+.|.||+|.++..+.+.+++..+.+.|||++|+++|..++..|++++|++|+|||++  
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            699999999999999999999999999999999888889999999999999999999999999999999999999999  


Q ss_pred             -cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         105 -EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       105 -Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                       ||+++..|+.++.+... ..++++++||.|+... .........+...+..+.|+++  ..|++++|...+
T Consensus        81 ~S~~~i~~w~~~i~~~~~-~~piilvgNK~Dl~~~-~v~~~~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~  150 (200)
T smart00176       81 VTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKDR-KVKAKSITFHRKKNLQYYDISAKSNYNFEKPFLWLA  150 (200)
T ss_pred             HHHHHHHHHHHHHHHhCC-CCCEEEEEECcccccc-cCCHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence             99999999999998764 5667799999998642 2222222234455666777766  678888888776

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

>PLN03108 Rab family protein; Provisional

Probab=99.92  E-value=2e-24  Score=177.59  Aligned_cols=156  Identities=32%  Similarity=0.538  Sum_probs=129.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      .++.+||+++|++|||||||+++|+.+.|...+.||++.++....+.+++..+.+.+||++|++.+..++..+++.+|++
T Consensus         3 ~~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~   82 (210)
T PLN03108          3 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGA   82 (210)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEE
Confidence            45679999999999999999999999999988999999999888899999999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      |+|||++   +|+++..|+..+.+......+.++++||.|+...+.....+.. .+...+..+.+++.  ..|++++|..
T Consensus        83 vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~  162 (210)
T PLN03108         83 LLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIK  162 (210)
T ss_pred             EEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            9999999   9999999999988777667778899999999765543322222 33444555666655  5677777755


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       163 l~  164 (210)
T PLN03108        163 TA  164 (210)
T ss_pred             HH
Confidence            43

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

Probab=99.92  E-value=1.8e-24  Score=168.70  Aligned_cols=152  Identities=23%  Similarity=0.309  Sum_probs=122.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|+++.|...+.||.+..+ .+.+.+++..+.+.+||++|++++..++..|++++|++++|
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v   79 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   79 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEE
Confidence            37999999999999999999999999999999998544 56778888889999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   +|+++..|+..+.+... ...+.++++||.|+.................+.++.+++.  ..|++++|...+
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  158 (162)
T cd04138          80 FAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAARTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLV  158 (162)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHH
Confidence            9999   89999999999988764 3556778999999876322111111234445556666665  567888887654

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.

>cd04175 Rap1 Rap1 subgroup

Probab=99.92  E-value=1.4e-24  Score=170.78  Aligned_cols=152  Identities=23%  Similarity=0.335  Sum_probs=122.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|+.+.|.+.+.||++..+ .+.+.+++..+.+.||||+|++++..+++.+++++|++|+|
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLV   79 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEE
Confidence            37999999999999999999999999999999998554 46788888899999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccch-hhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   +|+.+..|+..+.+... ...+.++++||.|+........... ..+...+.++.+++.  ..|++++|...+
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  159 (164)
T cd04175          80 YSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLV  159 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHH
Confidence            9998   89999999999987643 4556789999999976443222211 133444555666665  567777776654

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.92  E-value=2.5e-24  Score=170.79  Aligned_cols=153  Identities=33%  Similarity=0.525  Sum_probs=126.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc-hhhhhcccCCcEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR-TITQSYYRSANGVII   99 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~-~~~~~~~~~ad~vIl   99 (231)
                      .+||+++|++|||||||+++|+.+.|...+.++++.++..+.+.+++..+.+.|||++|++++. .++..+++++|++++
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~   81 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVF   81 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEE
Confidence            5899999999999999999999999998899999999998899999999999999999999887 578999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCccccccc-----cchhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWPC-----LKFGHAF  169 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~~-----~nv~e~f  169 (231)
                      |||++   +|+.+..|+.++.+... ...+.++++||.|+...+........ .+...+..+.|++..     .|++++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f  161 (170)
T cd04115          82 VYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIF  161 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHHH
Confidence            99999   99999999999988754 45667899999999876554332222 344445666666653     3677777


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       162 ~~l~  165 (170)
T cd04115         162 MTLA  165 (170)
T ss_pred             HHHH
Confidence            6654

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.92  E-value=1.8e-24  Score=182.21  Aligned_cols=152  Identities=20%  Similarity=0.243  Sum_probs=123.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|+++.|...|.||++ +++.+.+.++++.+.++||||+|++.|..++..++.++|++|+||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVf   79 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVF   79 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEE
Confidence            6899999999999999999999999999999997 777788899999999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhc---------CCcceeeecccccCCCCCccccccchhhh--hhcCCCcccccc--ccch
Q psy5781         102 TSV---EYCYQRNWHKQAVTLF---------DKYKFGHAFSTSLAMPQVRPCLFHKFGHA--SSSAMPFPQVWP--CLKF  165 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~---------~~~~~~~vv~~k~dl~~~~~~~~~~~~~s--~~~~~~~~ev~~--~~nv  165 (231)
                      |++   ||+++..|++++.+..         ....+.++++||.|+...+.....+....  ...+..+.+++.  ..|+
T Consensus        80 dv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI  159 (247)
T cd04143          80 SLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNL  159 (247)
T ss_pred             eCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCH
Confidence            999   9999999999997652         23566789999999976444333332211  112344666665  6688


Q ss_pred             hhhhhhhcc
Q psy5781         166 GHAFSTSLA  174 (231)
Q Consensus       166 ~e~f~~~~~  174 (231)
                      +++|...+.
T Consensus       160 ~elf~~L~~  168 (247)
T cd04143         160 DEMFRALFS  168 (247)
T ss_pred             HHHHHHHHH
Confidence            888877663

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.92  E-value=2.5e-24  Score=168.58  Aligned_cols=151  Identities=26%  Similarity=0.415  Sum_probs=124.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC--CeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID--GKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~--~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +||+++|++|||||||+++|.++.|...+.||++.++..+.+.++  +..+.+.|||++|++++..++..+++++|++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            589999999999999999999999999999999988877777777  778999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |||++   +|+.+..|+..+.+... ..+.++++||.|+.........+.. .....+.++.+++.  ..|++++|...+
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~~-~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAECG-DIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLA  159 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            99998   99999999999987664 4556799999999765443322222 34455666666665  567888877654

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.92  E-value=2.8e-24  Score=168.50  Aligned_cols=152  Identities=34%  Similarity=0.591  Sum_probs=126.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++++++.+...+.++.+.++....+.+++..+.+.|||++|++.+..+++.+++++|++|+||
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEE
Confidence            69999999999999999999999999999999998888888899998999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   +|+++..|+.++........+.++++||.|+.........+.. .....+..+.+++.  ..|+++.|...+
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~  158 (161)
T cd04113          81 DITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCA  158 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            999   9999999999998877777788899999999764433222221 34444455566655  556777765543

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.92  E-value=1.1e-24  Score=176.17  Aligned_cols=150  Identities=24%  Similarity=0.299  Sum_probs=122.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      ||+++|++|||||||+++|+.+.|...+.||++..+ .+.+.+++..+.++||||+|+++|..++..|++.+|++|+|||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS   79 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEE
Confidence            699999999999999999999999999999998544 4667788888999999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhcC---CcceeeecccccCCCCCccccccch-hhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         103 SV---EYCYQRNWHKQAVTLFD---KYKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~~---~~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ++   ||+++..|+..+.+...   ...+.++++||.|+...+....... ..+...+..+.++++  ..|++++|...+
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~  159 (190)
T cd04144          80 ITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLV  159 (190)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHH
Confidence            99   99999999999987654   3556778999999975444322221 133444556677765  678888888876

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.

>PTZ00369 Ras-like protein; Provisional

Probab=99.92  E-value=2.5e-24  Score=173.98  Aligned_cols=153  Identities=23%  Similarity=0.323  Sum_probs=123.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+++|++|||||||+++|+++.|...+.||++..+ .+.+.+++..+.+.||||+|+++|..++..|++.+|++|+
T Consensus         4 ~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iil   82 (189)
T PTZ00369          4 TEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLC   82 (189)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEE
Confidence            359999999999999999999999999999999998555 5778889999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccch-hhhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |||++   +|+++..|+..+.+.... ..+.++++||.|+...++....+. ......+.++.++++  ..|++++|...
T Consensus        83 v~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~l  162 (189)
T PTZ00369         83 VYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYEL  162 (189)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHH
Confidence            99999   999999999999877543 445778999999865543222111 123334455566655  56777777665


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       163 ~  163 (189)
T PTZ00369        163 V  163 (189)
T ss_pred             H
Confidence            4

>cd04124 RabL2 RabL2 subfamily

Probab=99.92  E-value=2.7e-24  Score=169.24  Aligned_cols=149  Identities=24%  Similarity=0.411  Sum_probs=120.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|+.+.|.+.+.++.+.+++...+.+++..+.+++|||+|++.|..+++.+++++|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVF   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEE
Confidence            59999999999999999999999999988899888888778888999999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   +++++..|+.++.+..+ ..+.++++||.|+.....  ..........+.++.+++.  ..|++++|...+
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~-~~p~ivv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  154 (161)
T cd04124          81 DVTRKITYKNLSKWYEELREYRP-EIPCIVVANKIDLDPSVT--QKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAI  154 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEECccCchhHH--HHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            998   99999999999987654 456679999999853211  1111122333445555555  556777777654

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.92  E-value=3e-24  Score=184.97  Aligned_cols=124  Identities=20%  Similarity=0.356  Sum_probs=109.9

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC-------------CeEEEEEEeeCCCcc
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-------------GKKVKLQIWDTAGQE   81 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~-------------~~~~~l~i~D~~G~~   81 (231)
                      .......+||+|+|+.|||||||+++|+++.|...+.||+|.++..+.+.++             ++.+.++|||++|++
T Consensus        15 ~~~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqE   94 (334)
T PLN00023         15 GGPPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHE   94 (334)
T ss_pred             cCCCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCCh
Confidence            3445678999999999999999999999999999999999999888877774             257899999999999


Q ss_pred             ccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcC------------CcceeeecccccCCCCC
Q psy5781          82 RFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFD------------KYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        82 ~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~------------~~~~~~vv~~k~dl~~~  138 (231)
                      +|+.++..|+++++++|+|||++   ||+++..|++++.+...            ...++++++||.|+...
T Consensus        95 rfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~  166 (334)
T PLN00023         95 RYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPK  166 (334)
T ss_pred             hhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccccc
Confidence            99999999999999999999999   99999999999988742            23567899999999654

>cd04112 Rab26 Rab26 subfamily

Probab=99.92  E-value=3.8e-24  Score=173.23  Aligned_cols=152  Identities=36%  Similarity=0.584  Sum_probs=125.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      +||+++|++|||||||+++|.++.|. ..+.+|++.++....+.+++..+.+.|||++|++++..++..+++.+|++|+|
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   80 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLL   80 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEE
Confidence            69999999999999999999999986 47889999888877888899999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccch-hhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   +|+++..|+..+.+......+.++++||.|+...+.....+. ..+...+.++.+++.  ..|++++|...+
T Consensus        81 ~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~  159 (191)
T cd04112          81 YDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVA  159 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            9999   899999999999988777777889999999965433221111 234445556666666  567788777655

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.

>cd04134 Rho3 Rho3 subfamily

Probab=99.92  E-value=3.6e-24  Score=173.12  Aligned_cols=149  Identities=19%  Similarity=0.314  Sum_probs=119.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      ||+++|++|||||||+++|.++.|...+.||++.++ ...+.+++..+.+.|||++|+++|..++..+++++|++|+|||
T Consensus         2 kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~-~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~d   80 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENY-VHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFS   80 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeee-EEEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEE
Confidence            899999999999999999999999999999998655 4567788888999999999999999999999999999999999


Q ss_pred             cC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCcccc------------ccc-hhhhhhcC-CCcccccc--c
Q psy5781         103 SV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCL------------FHK-FGHASSSA-MPFPQVWP--C  162 (231)
Q Consensus       103 it---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~------------~~~-~~~s~~~~-~~~~ev~~--~  162 (231)
                      ++   ||+++. .|+.++..... ..+.++++||.|+...+...            ..+ ...+...+ ..+.|+++  .
T Consensus        81 v~~~~sf~~~~~~~~~~i~~~~~-~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~  159 (189)
T cd04134          81 VDSPDSLENVESKWLGEIREHCP-GVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLN  159 (189)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcC
Confidence            99   899986 69999987654 45678999999997654311            000 11222222 34666665  5


Q ss_pred             cchhhhhhhhc
Q psy5781         163 LKFGHAFSTSL  173 (231)
Q Consensus       163 ~nv~e~f~~~~  173 (231)
                      .|++++|...+
T Consensus       160 ~~v~e~f~~l~  170 (189)
T cd04134         160 RGVNEAFTEAA  170 (189)
T ss_pred             CCHHHHHHHHH
Confidence            68888887655

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.

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.92  E-value=3.9e-24  Score=174.13  Aligned_cols=150  Identities=17%  Similarity=0.192  Sum_probs=115.3

Q ss_pred             eeEEEEEcCCCCcHHHHHH-HHHcC-----CCCCCcccceee-EEEEEE--------EEECCeEEEEEEeeCCCccccch
Q psy5781          21 LFKVVLIGDCGVGKTCVVH-RFRSG-----DFVEKTGNTIGV-DFSMKT--------VNIDGKKVKLQIWDTAGQERFRT   85 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~-~~~~~-----~f~~~~~pt~~~-~~~~~~--------~~~~~~~~~l~i~D~~G~~~~~~   85 (231)
                      .+||+++|+.|||||||+. ++.++     .|..+|.||++. +.+...        +.++++.+.+.||||+|+++  .
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--K   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--h
Confidence            4899999999999999996 66544     356778999963 433322        25789999999999999976  3


Q ss_pred             hhhhcccCCcEEEEEEecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCC-------------------cccc
Q psy5781          86 ITQSYYRSANGVIIEVTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQV-------------------RPCL  142 (231)
Q Consensus        86 ~~~~~~~~ad~vIlV~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~-------------------~~~~  142 (231)
                      +...+++++|++|+|||++   ||+++. .|++++.+..+ ..++++++||.|+...                   ++..
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~-~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~  158 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCP-RVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILP  158 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhccccccchhhhcccccccccccCCccC
Confidence            5678999999999999999   999997 69999987764 4567799999998642                   2222


Q ss_pred             ccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         143 FHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       143 ~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ..+.. .+.+.+..+.|+++  ..|++++|...+
T Consensus       159 ~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~  192 (195)
T cd01873         159 PETGRAVAKELGIPYYETSVVTQFGVKDVFDNAI  192 (195)
T ss_pred             HHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHH
Confidence            22222 56667777888877  678999998765

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.

>cd01892 Miro2 Miro2 subfamily

Probab=99.92  E-value=6.8e-24  Score=168.57  Aligned_cols=154  Identities=12%  Similarity=0.104  Sum_probs=121.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      +++.+||+++|++|||||||+++|+++.|. .+|.||++.++..+.+.+++..+.+.+||++|++.+..++..|++++|+
T Consensus         1 ~~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~   80 (169)
T cd01892           1 QRNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDV   80 (169)
T ss_pred             CCeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCE
Confidence            357899999999999999999999999998 8899999988887888889988999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccc-hhhhhhcCC-Ccccccc--ccchhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHK-FGHASSSAM-PFPQVWP--CLKFGHAF  169 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~-~~~s~~~~~-~~~ev~~--~~nv~e~f  169 (231)
                      +++|||++   +|+.+..|+..+..  ....+.++++||.|+.......... ...+...+. .+.+++.  ..|++++|
T Consensus        81 ~llv~d~~~~~s~~~~~~~~~~~~~--~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf  158 (169)
T cd01892          81 ACLVYDSSDPKSFSYCAEVYKKYFM--LGEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELF  158 (169)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHhcc--CCCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHH
Confidence            99999998   88889899987643  2356788999999996543221111 112333333 2344544  55788888


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       159 ~~l~  162 (169)
T cd01892         159 TKLA  162 (169)
T ss_pred             HHHH
Confidence            7765

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.

>KOG0395|consensus

Probab=99.91  E-value=1.9e-24  Score=175.83  Aligned_cols=158  Identities=23%  Similarity=0.310  Sum_probs=139.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+|+|.+|||||+|+.+|+.+.|.++|.||++ +.+.+.+.++++.+.+.|+||+|++++..+...|+++++|+++
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~l   80 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLL   80 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEE
Confidence            468999999999999999999999999999999999 8888999999999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcc-eeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYK-FGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~-~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      ||+++   ||+.+..+++.|.+...... +.+++|||.|+...+.....+.. .+...+..+.|++.  ..|++++|...
T Consensus        81 Vysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L  160 (196)
T KOG0395|consen   81 VYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYEL  160 (196)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHH
Confidence            99999   99999999999977777655 58899999999987665555433 56667777888887  56799999888


Q ss_pred             ccCCCc
Q psy5781         173 LAMPQV  178 (231)
Q Consensus       173 ~~~~~~  178 (231)
                      .-+.+.
T Consensus       161 ~r~~~~  166 (196)
T KOG0395|consen  161 VREIRL  166 (196)
T ss_pred             HHHHHh
Confidence            755554

>cd04126 Rab20 Rab20 subfamily

Probab=99.91  E-value=7.6e-24  Score=175.37  Aligned_cols=111  Identities=29%  Similarity=0.444  Sum_probs=98.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|+.+.|.. +.||++.+++...+    ..+.+.|||++|++.|..++..|++++|++|+||
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~   75 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTY   75 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEE
Confidence            589999999999999999999999975 68999877764433    4688999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |++   ||+++..|+..+.+......+.++++||.|+..
T Consensus        76 Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~  114 (220)
T cd04126          76 DVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTE  114 (220)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccc
Confidence            999   999999998888876666677889999999875

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.91  E-value=1.3e-23  Score=165.82  Aligned_cols=152  Identities=18%  Similarity=0.187  Sum_probs=120.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|+++.|...+.||++..+ ...+..++..+.+.+||++|++++..++..+++.++++|+||
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVY   80 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEE
Confidence            7999999999999999999999999988999987444 455667778899999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcC---CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFD---KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~---~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |++   ||+++..|+..+.+...   ...+.++++||.|+...+........ .+...+..+.|+++  ..|++++|...
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~l  160 (165)
T cd04140          81 SVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQEL  160 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHHH
Confidence            999   99999999988877653   44567789999999764432221111 23333445666665  66788888776


Q ss_pred             cc
Q psy5781         173 LA  174 (231)
Q Consensus       173 ~~  174 (231)
                      +.
T Consensus       161 ~~  162 (165)
T cd04140         161 LN  162 (165)
T ss_pred             Hh
Confidence            53

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.91  E-value=1.1e-23  Score=171.85  Aligned_cols=152  Identities=18%  Similarity=0.182  Sum_probs=121.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch--------hhhhcccC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT--------ITQSYYRS   93 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~--------~~~~~~~~   93 (231)
                      +||+|+|++|||||||+++|+++.|...+.||.+.+++...+.++++.+.+.||||+|.+.+..        ....+++.
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~   80 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRN   80 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhcc
Confidence            6999999999999999999999999999999998787777788899999999999999754321        23456789


Q ss_pred             CcEEEEEEecC---cHhhHHHHHHHHHHhc---CCcceeeecccccCCCCCccccccchh-hhh-hcCCCcccccc--cc
Q psy5781          94 ANGVIIEVTSV---EYCYQRNWHKQAVTLF---DKYKFGHAFSTSLAMPQVRPCLFHKFG-HAS-SSAMPFPQVWP--CL  163 (231)
Q Consensus        94 ad~vIlV~dit---Sf~~l~~w~~~i~~~~---~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~-~~~~~~~ev~~--~~  163 (231)
                      +|++|+|||++   ||+.+..|++.+.+..   ....+.++++||.|+...+.....+.. ..+ ..+.++.+++.  ..
T Consensus        81 ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~  160 (198)
T cd04142          81 SRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNW  160 (198)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCC
Confidence            99999999999   9999999999998876   355678899999999765443322222 222 33566777776  77


Q ss_pred             chhhhhhhhc
Q psy5781         164 KFGHAFSTSL  173 (231)
Q Consensus       164 nv~e~f~~~~  173 (231)
                      |++++|...+
T Consensus       161 ~v~~lf~~i~  170 (198)
T cd04142         161 HILLLFKELL  170 (198)
T ss_pred             CHHHHHHHHH
Confidence            8899998877

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.91  E-value=1.6e-23  Score=164.50  Aligned_cols=151  Identities=23%  Similarity=0.351  Sum_probs=120.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC--CCCCCcccceeeEEEEEEEEEC-CeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG--DFVEKTGNTIGVDFSMKTVNID-GKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~--~f~~~~~pt~~~~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      +||+++|++|||||||++++..+  .|..++.||.+.++..+.+.++ +..+.+.+||++|++.+..++..+++++|+++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            59999999999999999999965  7889999999989887777775 67899999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccc-hhhhhhcCCCcccccc--ccchhhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHK-FGHASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~-~~~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      +|||++   +|+++..|++.+.... ...+.++++||.|+.......... .......+.++.+++.  ..+++++|...
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  159 (164)
T cd04101          81 LVYDVSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESL  159 (164)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHH
Confidence            999999   8999999999988765 446677899999986554322211 1133344555566665  55677777654


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       160 ~  160 (164)
T cd04101         160 A  160 (164)
T ss_pred             H
Confidence            4

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.91  E-value=1.4e-23  Score=164.90  Aligned_cols=151  Identities=25%  Similarity=0.374  Sum_probs=121.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|+++.+...+.||.+ +.+.+.+.+++..+.+.+||++|++++..++..+++++|++++||
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEE
Confidence            5999999999999999999999999998999987 455567778888999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   +|+++..|...+.+.... ..+.++++||.|+...+........ .....+.++.+++.  ..|++++|...+
T Consensus        80 d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  158 (164)
T smart00173       80 SITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLV  158 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHH
Confidence            999   899999999998876543 4566789999999765442222211 33444455666655  567788776654

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.91  E-value=2.4e-23  Score=162.82  Aligned_cols=151  Identities=26%  Similarity=0.392  Sum_probs=124.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++++++.+...+.|+.+.++..+.+.+++..+.+.+||++|++++..++..+++++|++|+||
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~   80 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEE
Confidence            58999999999999999999999998889999999999899999988899999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |++   +|+.+..|+..+........+.++++||.|+............ .....+..+.+++.  ..|+++.|...
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i  157 (161)
T cd01861          81 DITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKI  157 (161)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHH
Confidence            999   8999999999998776666778899999999654443333322 33344444555544  55677766544

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.91  E-value=1.8e-23  Score=164.58  Aligned_cols=145  Identities=19%  Similarity=0.224  Sum_probs=113.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+.+|+.+.|...+.|+.+ .+ .+.+.++++.+.+.|||++|++.     ..+++++|++++||
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~~~-~~-~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~   73 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPEGG-RF-KKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVF   73 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCCcc-ce-EEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEE
Confidence            5899999999999999999999999888777654 44 57788999999999999999975     35678999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCC--Cccccccchh-hhhhc-CCCcccccc--ccchhhhhhh
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQ--VRPCLFHKFG-HASSS-AMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~--~~~~~~~~~~-~s~~~-~~~~~ev~~--~~nv~e~f~~  171 (231)
                      |++   ||+++..|++++.+... ...++++++||.|+..  .++....+.. .+... +..+.|+++  ..|++++|..
T Consensus        74 d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~  153 (158)
T cd04103          74 SLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQE  153 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHH
Confidence            999   99999999999988764 4456779999988853  2332222211 23232 356777766  6789999877


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       154 ~~  155 (158)
T cd04103         154 AA  155 (158)
T ss_pred             HH
Confidence            65

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.

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

Probab=99.91  E-value=3.2e-23  Score=162.50  Aligned_cols=152  Identities=24%  Similarity=0.345  Sum_probs=122.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|+++.+...+.||.+.. +.....+++..+.+.+||++|++++..++..+++++|++++|
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   80 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDS-YTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLV   80 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccce-EEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEE
Confidence            4899999999999999999999999988899998844 456677888889999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccch-hhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   +|+.+..|+..+.+... ...+.++++||.|+........... ..+...+..+.+++.  ..|++++|...+
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  160 (164)
T cd04145          81 FSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLV  160 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHHH
Confidence            9999   99999999999987654 3456778999999976544322222 234444556667765  667888887654

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

>KOG0393|consensus

Probab=99.91  E-value=1.8e-24  Score=173.69  Aligned_cols=118  Identities=25%  Similarity=0.402  Sum_probs=107.9

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC-CeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-GKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ...+|++||||.+||||+|+..|..+.|+++|.||+. |.+...+.++ |+.+.+.+|||+||++|+.+++..|.++|+|
T Consensus         2 ~~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvf   80 (198)
T KOG0393|consen    2 SRRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVF   80 (198)
T ss_pred             ceeeEEEEECCCCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEE
Confidence            3568999999999999999999999999999999997 7777889995 9999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          98 IIEVTSV---EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        98 IlV~dit---Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ++||++.   ||+++ .+|+++++++++..+++ ++|+|.||..+
T Consensus        81 l~cfsv~~p~S~~nv~~kW~pEi~~~cp~vpii-LVGtk~DLr~d  124 (198)
T KOG0393|consen   81 LLCFSVVSPESFENVKSKWIPEIKHHCPNVPII-LVGTKADLRDD  124 (198)
T ss_pred             EEEEEcCChhhHHHHHhhhhHHHHhhCCCCCEE-EEeehHHhhhC
Confidence            9999999   99998 48999999999666554 88999999853

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.90  E-value=3.7e-23  Score=164.53  Aligned_cols=149  Identities=21%  Similarity=0.270  Sum_probs=117.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|.++.|..++.||.. +.+...+.+++..+.++|||++|++++..++..+++++|++|+||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~   79 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAF-DNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCF   79 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEE
Confidence            6999999999999999999999999999999985 566667888888899999999999999999999999999999999


Q ss_pred             ecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCC------------ccccccchh-hhhhcCC-Ccccccc--
Q psy5781         102 TSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQV------------RPCLFHKFG-HASSSAM-PFPQVWP--  161 (231)
Q Consensus       102 dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~------------~~~~~~~~~-~s~~~~~-~~~ev~~--  161 (231)
                      |++   ||+++. .|+..+.+... ..+.++++||.|+...            +++...+.. .+...+. .+.+++.  
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~  158 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKHNP-KAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALT  158 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCC
Confidence            999   899885 79988886543 4567899999998642            122111111 2333333 5666664  


Q ss_pred             ccchhhhhhhh
Q psy5781         162 CLKFGHAFSTS  172 (231)
Q Consensus       162 ~~nv~e~f~~~  172 (231)
                      ..|++++|...
T Consensus       159 ~~~v~~lf~~~  169 (173)
T cd04130         159 QKNLKEVFDTA  169 (173)
T ss_pred             CCCHHHHHHHH
Confidence            67778877654

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,

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.90  E-value=5.1e-23  Score=161.16  Aligned_cols=152  Identities=39%  Similarity=0.623  Sum_probs=125.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||++++.+..+...+.++++.++....+.+++..+.+.+||++|++.+..++..+++.+|++|+||
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEE
Confidence            69999999999999999999999998888999998888888899998899999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   +++.+..|+.++........+..+++||.|+...+........ .....+..+.+++.  ..+++++|....
T Consensus        81 d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~  158 (164)
T smart00175       81 DITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELA  158 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            999   9999999999999888777888899999998764432222221 33444555555555  446666665543

Rab GTPases are implicated in vesicle trafficking.

>cd04118 Rab24 Rab24 subfamily

Probab=99.90  E-value=5.1e-23  Score=166.40  Aligned_cols=151  Identities=26%  Similarity=0.378  Sum_probs=120.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCC-CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVE-KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~-~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      +||+++|++|||||||+++|+++.|.. .|.+|++.++..+.+.+++..+.+.|||++|++++..++..+++++|++|+|
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv   80 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVC   80 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEE
Confidence            589999999999999999999999974 7899999888888899999999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc----cccccch-hhhhhcCCCcccccc--ccchhhhhh
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR----PCLFHKF-GHASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~----~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      ||++   +|+++..|++.+..... ..+.++++||.|+....    .....+. ..+...+..+.+++.  ..|++++|.
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  159 (193)
T cd04118          81 YDLTDSSSFERAKFWVKELQNLEE-HCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQ  159 (193)
T ss_pred             EECCCHHHHHHHHHHHHHHHhcCC-CCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            9998   89999999999977543 45677999999985432    1111111 122333344555554  567888777


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       160 ~i~  162 (193)
T cd04118         160 KVA  162 (193)
T ss_pred             HHH
Confidence            765

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.90  E-value=5.5e-23  Score=161.13  Aligned_cols=153  Identities=29%  Similarity=0.464  Sum_probs=126.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++++++.+...+.++.+.++....+.+++..+.+.|||++|++++...+..+++++|++|+|
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   80 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVV   80 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEE
Confidence            48999999999999999999999999888899999888888999999999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||.+   +++.+..|+..+........+.++++||.|+.........+.. .....+..+.+++.  ..|++++|...+
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd01860          81 YDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIA  159 (163)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            9998   8999999999998887666677889999998754433222221 34444555666655  456777776544

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.90  E-value=3.9e-23  Score=166.17  Aligned_cols=150  Identities=19%  Similarity=0.300  Sum_probs=116.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC-CeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-GKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      +||+|+|++|||||||+++|+++.|...+.||++.++. ..+..+ +..+.+.||||+|++++..+++.+++++|++|+|
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v   79 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYV-TNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLIC   79 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeE-EEEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEE
Confidence            58999999999999999999999999999999987664 345554 7889999999999999999999999999999999


Q ss_pred             EecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCccc----cccc-hhhhhhcCC-Ccccccc--ccchhhh
Q psy5781         101 VTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRPC----LFHK-FGHASSSAM-PFPQVWP--CLKFGHA  168 (231)
Q Consensus       101 ~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~----~~~~-~~~s~~~~~-~~~ev~~--~~nv~e~  168 (231)
                      ||++   ||+++. .|+.++..... ..+.++++||.|+......    ...+ ...+...+. .+.+++.  ..|+.++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~  158 (187)
T cd04132          80 YAVDNPTSLDNVEDKWFPEVNHFCP-GTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEV  158 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHH
Confidence            9999   899996 69988876543 4566799999998654311    1111 112333333 4555554  5677777


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |...+
T Consensus       159 f~~l~  163 (187)
T cd04132         159 FDTAI  163 (187)
T ss_pred             HHHHH
Confidence            76654

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.

>PLN03118 Rab family protein; Provisional

Probab=99.90  E-value=9e-23  Score=167.70  Aligned_cols=158  Identities=33%  Similarity=0.519  Sum_probs=123.1

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      .......+||+++|++|||||||+++|+++.+ ..+.|+.+.++....+.+++..+.+.|||++|++++..++..+++++
T Consensus         8 ~~~~~~~~kv~ivG~~~vGKTsli~~l~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~   86 (211)
T PLN03118          8 SSGYDLSFKILLIGDSGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNA   86 (211)
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHHhCCC-CCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcC
Confidence            33445679999999999999999999999887 45889999888888888888889999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHHH-HHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchh
Q psy5781          95 NGVIIEVTSV---EYCYQRN-WHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFG  166 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~-w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~  166 (231)
                      |++|+|||++   +|+++.. |...+...... ..+.++++||.|+.........+.. .+...+..+.+++.  ..|++
T Consensus        87 d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~  166 (211)
T PLN03118         87 QGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVE  166 (211)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            9999999999   8999975 77777655433 3456788999998765443222221 33344455556655  56677


Q ss_pred             hhhhhhc
Q psy5781         167 HAFSTSL  173 (231)
Q Consensus       167 e~f~~~~  173 (231)
                      ++|...+
T Consensus       167 ~l~~~l~  173 (211)
T PLN03118        167 QCFEELA  173 (211)
T ss_pred             HHHHHHH
Confidence            7777655

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

Probab=99.90  E-value=5.5e-23  Score=163.06  Aligned_cols=148  Identities=21%  Similarity=0.361  Sum_probs=116.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEec
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTS  103 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~di  103 (231)
                      |+|+|++|||||||+++|.++.|...+.|+++..+ ...+.+++..+.+.+|||+|+++|..+++.+++++|++|+|||+
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~   79 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSV   79 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEEC
Confidence            68999999999999999999999999999997544 46778889899999999999999999999999999999999999


Q ss_pred             C---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCcc------------ccccc-hhhhhhcCC-Ccccccc--cc
Q psy5781         104 V---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRP------------CLFHK-FGHASSSAM-PFPQVWP--CL  163 (231)
Q Consensus       104 t---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~------------~~~~~-~~~s~~~~~-~~~ev~~--~~  163 (231)
                      +   ||+++. .|+..+.+..+ ..+.++++||.|+.....            ....+ ...+...+. .+.+++.  ..
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~  158 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFCP-NTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQE  158 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhCC-CCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCC
Confidence            9   899996 69999987654 566779999999875322            10000 113333433 5556654  56


Q ss_pred             chhhhhhhhc
Q psy5781         164 KFGHAFSTSL  173 (231)
Q Consensus       164 nv~e~f~~~~  173 (231)
                      |++++|...+
T Consensus       159 ~v~~lf~~l~  168 (174)
T smart00174      159 GVREVFEEAI  168 (174)
T ss_pred             CHHHHHHHHH
Confidence            7888877654

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.90  E-value=1.8e-22  Score=159.23  Aligned_cols=156  Identities=40%  Similarity=0.666  Sum_probs=124.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||++++..+.+...+.+|++.++..+.+.+++..+.+.+||++|++.+...+..+++.+|++
T Consensus         4 ~~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~   83 (169)
T cd04114           4 YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANAL   83 (169)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEE
Confidence            45679999999999999999999999998888889999888888899999889999999999999999989999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccch-hhhhhcCCCcccccc--ccchhhhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      ++|||++   +++.+..|+.++........+.++++||.|+...+....... .........+.+++.  ..|++++|..
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~  163 (169)
T cd04114          84 ILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLD  163 (169)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHH
Confidence            9999999   899999999999887766677789999999875443211111 112222233444443  5677777765


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       164 i~  165 (169)
T cd04114         164 LA  165 (169)
T ss_pred             HH
Confidence            44

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.

>cd01863 Rab18 Rab18 subfamily

Probab=99.89  E-value=2.9e-22  Score=156.86  Aligned_cols=151  Identities=36%  Similarity=0.545  Sum_probs=120.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|.++.+...+.|+++.++....+.+++..+.+.+||++|++.+..++..+++.+|++++||
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEE
Confidence            69999999999999999999999998889999998888888888888899999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |++   +|+.+..|+..+.+... ...+.++++||.|+.................+.++.+++.  ..|+++.+...
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~  157 (161)
T cd01863          81 DVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENREVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEEL  157 (161)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccccccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHH
Confidence            999   99999999999988865 3455788999999873221111111233444555555555  44566666543

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos

>cd04148 RGK RGK subfamily

Probab=99.89  E-value=1.9e-22  Score=167.22  Aligned_cols=154  Identities=16%  Similarity=0.169  Sum_probs=121.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhccc-CCcEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYR-SANGVII   99 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~-~ad~vIl   99 (231)
                      +||+++|++|||||||+++|+.+.|. ..+.++.+.+++.+.+.+++..+.+.|||++|++  ......+++ ++|++++
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~--~~~~~~~~~~~ad~iil   78 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQE--MWTEDSCMQYQGDAFVV   78 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcc--hHHHhHHhhcCCCEEEE
Confidence            69999999999999999999999987 7788888777888889999999999999999998  234456667 9999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccch-hhhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |||++   ||+++..|+.++.+... ...+.++++||.|+...+.....+. ..+...+..+.+++.  ..|++++|...
T Consensus        79 V~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l  158 (221)
T cd04148          79 VYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGI  158 (221)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Confidence            99999   99999999999987653 4566789999999876544322211 134444556667665  67888888887


Q ss_pred             ccCCC
Q psy5781         173 LAMPQ  177 (231)
Q Consensus       173 ~~~~~  177 (231)
                      +..-.
T Consensus       159 ~~~~~  163 (221)
T cd04148         159 VRQIR  163 (221)
T ss_pred             HHHHH
Confidence            74443

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

>cd04135 Tc10 TC10 subfamily

Probab=99.89  E-value=2.9e-22  Score=158.91  Aligned_cols=115  Identities=24%  Similarity=0.383  Sum_probs=101.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|..+.|...+.||++ +.+...+.+++..+.+.|||++|++.|..++..+++++|++|+||
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   79 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICF   79 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEE
Confidence            5999999999999999999999999988999987 444567788888999999999999999999999999999999999


Q ss_pred             ecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781         102 TSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       102 dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      |++   +|+++. .|++.+... ....+.++++||.|+..+
T Consensus        80 ~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~  119 (174)
T cd04135          80 SVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDD  119 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcC
Confidence            999   899885 798888766 455667799999998654

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.89  E-value=1.1e-22  Score=160.33  Aligned_cols=150  Identities=21%  Similarity=0.244  Sum_probs=119.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc-cchhhhhcccCCcEEEEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER-FRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~-~~~~~~~~~~~ad~vIlV~  101 (231)
                      ||+++|++|||||||+++|+.+.|..++.|+.+..+ .+.+.+++..+.++|||++|++. +......+++++|++|+||
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~   79 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVY   79 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEE
Confidence            699999999999999999999999888999886444 56678889899999999999985 3445678899999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhc--CCcceeeecccccCCCCCccccccch-hhhhhcCCCccccccc---cchhhhhhhh
Q psy5781         102 TSV---EYCYQRNWHKQAVTLF--DKYKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWPC---LKFGHAFSTS  172 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~--~~~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~~---~nv~e~f~~~  172 (231)
                      |++   ||+.+..|+..+.+..  ....+.++++||.|+...+.+...+. ..+...+.++.+++..   .|++++|...
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l  159 (165)
T cd04146          80 SITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHEL  159 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHH
Confidence            999   9999999999998865  34566788999999876555443332 2444455667777763   3789988776


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       160 ~  160 (165)
T cd04146         160 C  160 (165)
T ss_pred             H
Confidence            5

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.89  E-value=4.4e-22  Score=155.24  Aligned_cols=151  Identities=30%  Similarity=0.433  Sum_probs=121.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++++++.+...+.++.+.++....+.+.+..+.+.+||++|++.+..+++.+++++|++++||
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVY   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEE
Confidence            69999999999999999999999998888888877777777888888899999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |++   +++.+..|++++.+......+.++++||.|+....+....... .....+..+.+++.  ..+++++|...
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l  157 (162)
T cd04123          81 DITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSL  157 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            999   8899999999999888777778899999998854432221111 23334444445444  45666666553

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

>KOG4252|consensus

Probab=99.89  E-value=1.6e-24  Score=169.04  Aligned_cols=162  Identities=22%  Similarity=0.371  Sum_probs=140.5

Q ss_pred             CCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhc
Q psy5781          11 NTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSY   90 (231)
Q Consensus        11 ~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~   90 (231)
                      ++....+.+..+|++++|..+|||+|+|+||+.+-|.++|..|+|++|..+.+.++++.+++.+||++|+++++.+...|
T Consensus        10 ~am~e~d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAy   89 (246)
T KOG4252|consen   10 MAMDETDYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAY   89 (246)
T ss_pred             CCCCchhhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHH
Confidence            34456678899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccc
Q psy5781          91 YRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLK  164 (231)
Q Consensus        91 ~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~n  164 (231)
                      |+.|.+.+|||+-|   ||+.+.+|++++...+++.+. .++.||+|+..+-..+..+.+ .+.+....+..++.  .+|
T Consensus        90 yrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~~IPt-V~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~N  168 (246)
T KOG4252|consen   90 YRGAQASVLVFSTTDRYSFEATLEWYNKVQKETERIPT-VFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFN  168 (246)
T ss_pred             hccccceEEEEecccHHHHHHHHHHHHHHHHHhccCCe-EEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhh
Confidence            99999999999999   999999999999988766554 478999999987766555555 66666666666655  778


Q ss_pred             hhhhhhhhc
Q psy5781         165 FGHAFSTSL  173 (231)
Q Consensus       165 v~e~f~~~~  173 (231)
                      |-++|.-.+
T Consensus       169 V~~vF~YLa  177 (246)
T KOG4252|consen  169 VMHVFAYLA  177 (246)
T ss_pred             hHHHHHHHH
Confidence            888886544

>cd04177 RSR1 RSR1 subgroup

Probab=99.89  E-value=3.3e-22  Score=158.22  Aligned_cols=151  Identities=23%  Similarity=0.319  Sum_probs=118.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|.++.|...+.||++.. ..+.+.+++..+.++|||++|+++|..+++.+++.++++++||
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~   80 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDS-YRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVY   80 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchhe-EEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEE
Confidence            799999999999999999999999999899999844 4577788888899999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcC-CCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSA-MPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~-~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   +++.+..|.+.+.+... ...+.++++||.|+...+........ .....+ .++.++++  ..|++++|...+
T Consensus        81 ~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~  160 (168)
T cd04177          81 SVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLV  160 (168)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHH
Confidence            999   99999999999987654 34556689999998765433222111 222222 33445554  456777776654

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.89  E-value=5.1e-22  Score=163.62  Aligned_cols=156  Identities=24%  Similarity=0.366  Sum_probs=123.5

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      +++...+||+++|++|||||||+++++.+.|...|.||++.++....+..++..+.+.+||++|++++..++..++++++
T Consensus         4 ~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~   83 (215)
T PTZ00132          4 MDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQ   83 (215)
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCC
Confidence            45566799999999999999999999999999999999999998888888888999999999999999999999999999


Q ss_pred             EEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhh
Q psy5781          96 GVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        96 ~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      ++|+|||++   +|..+..|+..+.+.... .+..+++||.|+..... ...........+..+.+++.  ..++++.|.
T Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~i~lv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~  161 (215)
T PTZ00132         84 CAIIMFDVTSRITYKNVPNWHRDIVRVCEN-IPIVLVGNKVDVKDRQV-KARQITFHRKKNLQYYDISAKSNYNFEKPFL  161 (215)
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhCCC-CCEEEEEECccCccccC-CHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999   999999999999877643 44557899999864321 11111223334444555554  455677665


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       162 ~ia  164 (215)
T PTZ00132        162 WLA  164 (215)
T ss_pred             HHH
Confidence            544

>cd01862 Rab7 Rab7 subfamily

Probab=99.88  E-value=7.2e-22  Score=155.93  Aligned_cols=152  Identities=28%  Similarity=0.498  Sum_probs=119.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||++++.++.+...+.+|++.++..+.+.+++..+.+.+||++|++.+..++..+++++|++|+||
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVY   80 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEE
Confidence            59999999999999999999999998888999998888888899998999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCccccccchh-hhhhcC-CCcccccc--ccchhhhhh
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSA-MPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~-~~~~ev~~--~~nv~e~f~  170 (231)
                      |++   +++++..|.+++...+.    ...+..+++||.|+.....-...... .....+ ..+.+++.  ..|++++|.
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  160 (172)
T cd01862          81 DVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFE  160 (172)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHH
Confidence            999   88999999998877664    24567789999999743221111111 222222 34444444  566777776


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       161 ~i~  163 (172)
T cd01862         161 TIA  163 (172)
T ss_pred             HHH
Confidence            543

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-

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.88  E-value=3.4e-22  Score=158.04  Aligned_cols=113  Identities=20%  Similarity=0.292  Sum_probs=96.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      .|+++|++|||||||+++|.++.+...+.||++.++    +.+++..+.+.+||++|+++++.++..+++++|++|+|||
T Consensus         1 ~i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~----~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   76 (164)
T cd04162           1 QILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS----VAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVD   76 (164)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCcccccccCCcce----EEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEE
Confidence            389999999999999999999999999999998543    2345566899999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781         103 SV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      .+   +++.++.|+.++.+.. ...+.++++||.|+...+.
T Consensus        77 ~t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~  116 (164)
T cd04162          77 SADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAARS  116 (164)
T ss_pred             CCCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCC
Confidence            99   7788888888886544 4566779999999876543

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.

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.87  E-value=1.3e-21  Score=155.39  Aligned_cols=114  Identities=23%  Similarity=0.393  Sum_probs=100.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      .||+++|++|||||||+++|.++.|...|.||++..+. ..+.+++..+.+.||||+|++.|..++..+++++|++++||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCF   80 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceE-EEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEE
Confidence            68999999999999999999999999999999985553 56788888899999999999999999889999999999999


Q ss_pred             ecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCC
Q psy5781         102 TSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       102 dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |++   +|+++. .|...+.+... ..+.++++||.|+..
T Consensus        81 ~~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~  119 (175)
T cd01870          81 SIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRN  119 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEeeChhccc
Confidence            999   888885 69888876544 456779999999865

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl

>cd00154 Rab Rab family

Probab=99.87  E-value=4.6e-21  Score=148.09  Aligned_cols=151  Identities=39%  Similarity=0.576  Sum_probs=122.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|.+|||||||++++.++.+...+.+|.+.++....+..++..+.+.+||++|++.+...+..+++++|++|+||
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~   80 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVY   80 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999999888999999999888898888899999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |.+   +++.+..|+..+........+..+++||.|+.........+.. .....+..+.+++.  ..+++++|...
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  157 (159)
T cd00154          81 DITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSL  157 (159)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Confidence            998   8899999999999888667777899999999633222222221 23333445555544  34566666543

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.86  E-value=4.4e-21  Score=156.18  Aligned_cols=150  Identities=17%  Similarity=0.222  Sum_probs=116.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      ||+++|++|||||||+++|+++.+...+.+|.+ ++....+.+++..+.++|||++|+..+..++..++..+|++|+|||
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d   79 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYA   79 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEE
Confidence            799999999999999999999999988888886 5666778888888999999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCC-ccccccchh-hhh-hcCCCcccccc--ccchhhhhhhhc
Q psy5781         103 SV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQV-RPCLFHKFG-HAS-SSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~-~~~~~~~~~-~s~-~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ++   +|+.+..|+..+.+... ...+.++++||.|+... ......... ... ..+..+.+++.  ..|++++|...+
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~  159 (198)
T cd04147          80 VDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELL  159 (198)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHH
Confidence            99   99999999999988766 35667899999998653 221111110 111 11233444544  567777776654

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.

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

Probab=99.86  E-value=1.4e-21  Score=156.17  Aligned_cols=115  Identities=23%  Similarity=0.401  Sum_probs=95.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+++|++|||||||+++|..+.|. .+.||++.++.  .+..  ..+.+.|||++|++.+..++..|++++|++|+
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~--~~~~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~   86 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVE--TVTY--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIF   86 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceE--EEEE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEEE
Confidence            4699999999999999999999988885 47899986654  3344  35889999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCCc
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~~  139 (231)
                      |||++   +++++..|+..+.+.. ....+.++++||.|+....
T Consensus        87 v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~  130 (175)
T smart00177       87 VVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAM  130 (175)
T ss_pred             EEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCC
Confidence            99999   6888877777765432 2346678999999997643

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).

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.86  E-value=4e-21  Score=151.08  Aligned_cols=112  Identities=23%  Similarity=0.451  Sum_probs=92.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||++++..+.|.. +.||++.++.  .+..  ..+.+.+||++|++++..++..|++++|++|+||
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~~-~~pt~g~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~   75 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCcc-cCCCCCcceE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence            589999999999999999999888874 8899986553  3444  3588999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHh-cCCcceeeecccccCCCCC
Q psy5781         102 TSV---EYCYQRNWHKQAVTL-FDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~-~~~~~~~~vv~~k~dl~~~  138 (231)
                      |++   +++++..|+..+.+. .....+.++++||.|+...
T Consensus        76 D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  116 (159)
T cd04150          76 DSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNA  116 (159)
T ss_pred             eCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCC
Confidence            999   788887777666432 2234567789999999653

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.86  E-value=8.5e-21  Score=148.38  Aligned_cols=151  Identities=25%  Similarity=0.355  Sum_probs=119.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++++.+.|...+.++.+. .+.+....++..+.+.+||++|++.+..++..+++.++++++||
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKAD-SYRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVF   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchh-hEEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEE
Confidence            59999999999999999999999999999999874 44566778888999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccch-hhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   +|+++..|+..+.+... ...+.++++||.|+........... ......+.++.+++.  ..|+++.|...+
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  158 (164)
T cd04139          80 SITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLV  158 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHH
Confidence            998   89999999999988754 3566789999999876322111111 123334455666654  667777776543

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.86  E-value=1.1e-20  Score=152.40  Aligned_cols=150  Identities=21%  Similarity=0.306  Sum_probs=116.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      .||+++|++|||||||++++..+.|.+.+.+|+...+ ...+.+++..+.+.+||++|++.+....+.+++++|++++||
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~   80 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENY-VTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGF   80 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceE-EEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEE
Confidence            5999999999999999999999999888888887544 356677888899999999999998888888899999999999


Q ss_pred             ecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCcc----------cccc-chhhhhhcC-CCcccccc--cc
Q psy5781         102 TSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRP----------CLFH-KFGHASSSA-MPFPQVWP--CL  163 (231)
Q Consensus       102 dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~----------~~~~-~~~~s~~~~-~~~~ev~~--~~  163 (231)
                      |++   +|+.+. .|+..+.+..++ .++++++||.|+..+..          .... ....+...+ ..+.+++.  ..
T Consensus        81 ~i~~~~s~~~~~~~~~~~i~~~~~~-~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~  159 (187)
T cd04129          81 AVDTPDSLENVRTKWIEEVRRYCPN-VPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGE  159 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCCC-CCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCC
Confidence            999   899986 699999876654 66778999999854211          0000 111233333 24566654  67


Q ss_pred             chhhhhhhhc
Q psy5781         164 KFGHAFSTSL  173 (231)
Q Consensus       164 nv~e~f~~~~  173 (231)
                      |++++|...+
T Consensus       160 ~v~~~f~~l~  169 (187)
T cd04129         160 GVDDVFEAAT  169 (187)
T ss_pred             CHHHHHHHHH
Confidence            7888887765

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).

>cd04149 Arf6 Arf6 subfamily

Probab=99.86  E-value=2.2e-21  Score=153.99  Aligned_cols=113  Identities=25%  Similarity=0.432  Sum_probs=93.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+++|++|||||||++++..+.+.. +.||++.++.  .+..  ..+.+.|||++|+++++.+++.+++++|++|+
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~~-~~~t~g~~~~--~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~   82 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNVE--TVTY--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   82 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCcc-ccCCcccceE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            35899999999999999999999888864 7899986654  3333  45889999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCC
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~  137 (231)
                      |||++   +|+++..|+.++.+.. ....+.++++||.|+..
T Consensus        83 v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  124 (168)
T cd04149          83 VVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPD  124 (168)
T ss_pred             EEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCcc
Confidence            99999   6888877776665432 24566889999999864

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.86  E-value=3.7e-21  Score=154.70  Aligned_cols=116  Identities=22%  Similarity=0.420  Sum_probs=92.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||+++|..+.|.. +.||++.++.  .+..  ..+.++|||++|+++++.++..|++++|++|
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~~-~~pt~g~~~~--~~~~--~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI   89 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLI   89 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCcc-ccCCcceeEE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            456899999999999999999999888864 7899986553  3444  4588999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHh-cCCcceeeecccccCCCCCc
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTL-FDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~-~~~~~~~~vv~~k~dl~~~~  139 (231)
                      +|||++   +++.+..|+..+... .....+.++++||.|+....
T Consensus        90 ~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~  134 (181)
T PLN00223         90 FVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM  134 (181)
T ss_pred             EEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCC
Confidence            999999   555555555444321 12356678999999987643

>cd01893 Miro1 Miro1 subfamily

Probab=99.85  E-value=8.7e-21  Score=149.86  Aligned_cols=149  Identities=16%  Similarity=0.137  Sum_probs=110.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|.++.|...+.++.. ++ .....+++..+.+.|||++|++++...+..+++.+|++++||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLP-EI-TIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVY   78 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCccc-ce-EeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEE
Confidence            4899999999999999999999999876554433 33 344566778899999999999988888888899999999999


Q ss_pred             ecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCcccc-ccchh--hhhhcC--CCcccccc--ccchhhhhh
Q psy5781         102 TSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCL-FHKFG--HASSSA--MPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus       102 dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~-~~~~~--~s~~~~--~~~~ev~~--~~nv~e~f~  170 (231)
                      |++   +|+.+. .|++.+++... ..+.++++||.|+....... ..+..  ......  .++.+++.  ..|++++|.
T Consensus        79 d~~~~~s~~~~~~~~~~~i~~~~~-~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~  157 (166)
T cd01893          79 SVDRPSTLERIRTKWLPLIRRLGV-KVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFY  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHH
Confidence            998   899885 68888877654 56677899999997654321 11110  111111  24555554  667888887


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       158 ~~~  160 (166)
T cd01893         158 YAQ  160 (166)
T ss_pred             HHH
Confidence            654

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.

>cd00876 Ras Ras family

Probab=99.85  E-value=1.7e-20  Score=145.88  Aligned_cols=150  Identities=27%  Similarity=0.372  Sum_probs=120.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      ||+++|++|||||||+++++++.+...+.++.+ +...+.+..++..+.+++||++|++.+..++..+++.+|++++|||
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d   79 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYS   79 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEE
Confidence            799999999999999999999989999999988 5666777888888999999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         103 SV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ++   +++++..|...+.+... ...+.++++||.|+............ ...+.+.++.+++.  ..|+.++|...+
T Consensus        80 ~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~  157 (160)
T cd00876          80 ITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLV  157 (160)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHH
Confidence            98   88899999999988776 56677899999998874443332222 33444445555555  456777766543

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.85  E-value=1.6e-20  Score=151.00  Aligned_cols=117  Identities=23%  Similarity=0.402  Sum_probs=98.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEE-CCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI-DGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      .+||+++|++|||||||++++..+.|... .||.+.++....+.+ ++..+.+.+|||+|++.+..++..+++++|++|+
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~   81 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVF   81 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEE
Confidence            58999999999999999999999988764 688887666555554 4467899999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCC
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~  138 (231)
                      |||++   +++.+..|+.++.+... ...+.++++||.|+...
T Consensus        82 v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~  124 (183)
T cd04152          82 VVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNA  124 (183)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcccc
Confidence            99999   67778888888876543 34667889999998653

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.85  E-value=2e-20  Score=153.91  Aligned_cols=120  Identities=33%  Similarity=0.503  Sum_probs=110.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|..+.|.+.+.+|++..+.......++..+++.+|||+|+++|+.++..|++.++++++|
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~   84 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIV   84 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEE
Confidence            39999999999999999999999999999999999888877777776689999999999999999999999999999999


Q ss_pred             EecC----cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781         101 VTSV----EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus       101 ~dit----Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      ||++    +++....|.+++........+.+++++|.|+.....
T Consensus        85 ~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~  128 (219)
T COG1100          85 YDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQS  128 (219)
T ss_pred             EecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchh
Confidence            9999    677778999999998887788889999999998754

>cd00157 Rho Rho (Ras homology) family

Probab=99.84  E-value=3.2e-20  Score=146.33  Aligned_cols=117  Identities=26%  Similarity=0.434  Sum_probs=100.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|+++.+...+.|+.. +.....+..++..+.+++||++|++++...+..+++.+|++++||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVF-DNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICF   79 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEE
Confidence            6999999999999999999999999888888886 444566777888999999999999998888899999999999999


Q ss_pred             ecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781         102 TSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus       102 dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      |++   +|.... .|+..+..... ..+.++++||.|+.....
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ivv~nK~Dl~~~~~  121 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYCP-NVPIILVGTKIDLRDDEN  121 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEccHHhhhchh
Confidence            999   777664 68888877655 566779999999876553

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.84  E-value=1.5e-20  Score=151.20  Aligned_cols=114  Identities=25%  Similarity=0.443  Sum_probs=92.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+++|++|||||||++++..+.|.. +.||++.++.  .+..  ..+.+.+||++|++.++.++..|++++|++|+
T Consensus        16 ~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~   90 (182)
T PTZ00133         16 KEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVEY--KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIF   90 (182)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            45899999999999999999999888875 7899986554  3444  45889999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHh-cCCcceeeecccccCCCCC
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTL-FDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~-~~~~~~~~vv~~k~dl~~~  138 (231)
                      |||++   +++.+..|+..+.+. .....+.++++||.|+...
T Consensus        91 v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~  133 (182)
T PTZ00133         91 VVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNA  133 (182)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCC
Confidence            99998   677766666555332 1234567789999998753

>cd04158 ARD1 ARD1 subfamily

Probab=99.84  E-value=2.2e-20  Score=148.18  Aligned_cols=110  Identities=25%  Similarity=0.440  Sum_probs=93.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      ||+++|++|||||||+++|.++.+.. +.||++.++.  .+..  ..+.+.+||++|++++..++..+++++|++++|||
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~--~~~~--~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   75 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVE--TVEY--KNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVD   75 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEE--EEEE--CCEEEEEEECCCChhcchHHHHHhccCCEEEEEEe
Confidence            68999999999999999999988765 8899986654  3444  35889999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCC
Q psy5781         103 SV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~  137 (231)
                      ++   +++++..|+..+.+... ...+.++++||.|+..
T Consensus        76 ~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  114 (169)
T cd04158          76 SSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG  114 (169)
T ss_pred             CCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc
Confidence            98   78899899888875432 3456788999999864

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

>cd04157 Arl6 Arl6 subfamily

Probab=99.83  E-value=3.2e-20  Score=145.13  Aligned_cols=112  Identities=15%  Similarity=0.337  Sum_probs=92.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC-CCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD-FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~-f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +|+++|++|||||||+++|.++. +...+.||++....  .+..  ..+.+.+||++|++++..++..+++.+|++|+||
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~--~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVE--SFEK--GNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceE--EEEE--CCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            58999999999999999999876 46678899985433  3333  4588999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhc---CCcceeeecccccCCCCC
Q psy5781         102 TSV---EYCYQRNWHKQAVTLF---DKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~---~~~~~~~vv~~k~dl~~~  138 (231)
                      |++   +++.+..|+..+.+..   ....+.++++||.|+...
T Consensus        77 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~  119 (162)
T cd04157          77 DSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDA  119 (162)
T ss_pred             eCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCC
Confidence            999   7888888888876542   245668899999998754

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

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.83  E-value=4.3e-20  Score=146.36  Aligned_cols=112  Identities=21%  Similarity=0.274  Sum_probs=95.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      +|+++|++|||||||++++.++ +...+.||++..  ...+..+  .+.+++||++|+++++.++..|++++|++|+|||
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~--~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D   75 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFT--PTKLRLD--KYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVD   75 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccce--EEEEEEC--CEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEE
Confidence            4899999999999999999976 788899999854  4455554  4889999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCc
Q psy5781         103 SV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~  139 (231)
                      ++   +++.+..|+..+.+... ...+.++++||.|+...+
T Consensus        76 ~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~  116 (167)
T cd04161          76 SSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNAL  116 (167)
T ss_pred             CCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCC
Confidence            99   78888999998876532 456678999999998755

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>cd04154 Arl2 Arl2 subfamily

Probab=99.83  E-value=6.4e-20  Score=145.84  Aligned_cols=115  Identities=23%  Similarity=0.376  Sum_probs=95.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||++++.++.+ ..+.||++  +....+.+++  +.+.+||++|++.++.++..+++++|+++
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g--~~~~~~~~~~--~~l~l~D~~G~~~~~~~~~~~~~~~d~~i   86 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLG--FQIKTLEYEG--YKLNIWDVGGQKTLRPYWRNYFESTDALI   86 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccc--cceEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            4568999999999999999999998754 46788988  4444556653  78999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHh-cCCcceeeecccccCCCCC
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTL-FDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~-~~~~~~~~vv~~k~dl~~~  138 (231)
                      +|||++   +|+++..|+.++.+. .....+.++++||.|+...
T Consensus        87 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~  130 (173)
T cd04154          87 WVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGA  130 (173)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccC
Confidence            999999   788888888877543 2345667899999998754

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.

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

Probab=99.83  E-value=9.3e-20  Score=145.50  Aligned_cols=151  Identities=21%  Similarity=0.264  Sum_probs=117.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      .||+++|++|||||||++++.++.+...+.||.+..+ ...+.+++..+.+.+||++|++++..++..++..++++++||
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVY   80 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEE
Confidence            6999999999999999999999999888889887544 466778888899999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccc-hhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHK-FGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~-~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   +++.+..|+..+.+... ...+.++++||.|+...+...... ...+...+.++.+++.  ..++.++|...+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  159 (180)
T cd04137          81 SVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLI  159 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            999   89999998888877643 445677999999987543322111 1123333444555554  455777666554

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.81  E-value=2.5e-19  Score=140.05  Aligned_cols=111  Identities=23%  Similarity=0.401  Sum_probs=91.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      ||+++|++|||||||+++|.++.+.. +.||++.++  ..+..+ ..+.+.+||++|++.+...+..+++++|++|+|||
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~--~~~~~~-~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D   76 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNV--EMLQLE-KHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVD   76 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcce--EEEEeC-CceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEE
Confidence            68999999999999999999998875 568888544  344443 45899999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCC
Q psy5781         103 SV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~  137 (231)
                      ++   +++.+..|+.++.+... ...+.++++||.|+..
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  115 (160)
T cd04156          77 SSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPG  115 (160)
T ss_pred             CCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECccccc
Confidence            99   67888888887765432 4566889999999864

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.81  E-value=3.1e-19  Score=142.30  Aligned_cols=113  Identities=22%  Similarity=0.399  Sum_probs=92.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+++|++|||||||++++..+.+.. +.||++.++.  .+.++  .+.+.+||++|++.+...+..+++.+|++|+
T Consensus        14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~   88 (174)
T cd04153          14 KEYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVE--EIVYK--NIRFLMWDIGGQESLRSSWNTYYTNTDAVIL   88 (174)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceE--EEEEC--CeEEEEEECCCCHHHHHHHHHHhhcCCEEEE
Confidence            35899999999999999999999998876 6789885543  44444  4889999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCC
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~  137 (231)
                      |||++   ++..+..|+..+.+... ...+.++++||.|+..
T Consensus        89 V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~  130 (174)
T cd04153          89 VIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG  130 (174)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCC
Confidence            99999   67777776666644322 3466788999999875

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.

>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=99.81  E-value=2.9e-19  Score=133.25  Aligned_cols=111  Identities=27%  Similarity=0.457  Sum_probs=83.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCC--CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFV--EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      ||+|+|+.||||||||++|+++.+.  ..+.++.+.++......+......+.+||++|++.+...+..++.++|++|+|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv   80 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILV   80 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEE
Confidence            8999999999999999999998876  22333334345555667777777899999999998888878889999999999


Q ss_pred             EecC---cHhhHHH---HHHHHHHhcCCcceeeecccccC
Q psy5781         101 VTSV---EYCYQRN---WHKQAVTLFDKYKFGHAFSTSLA  134 (231)
Q Consensus       101 ~dit---Sf~~l~~---w~~~i~~~~~~~~~~~vv~~k~d  134 (231)
                      ||++   |++.+..   |+..+.....+ .+.++++||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~~~~-~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKRDKN-IPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHHSSC-SEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHccCCC-CCEEEEEeccC
Confidence            9999   7888754   55555554334 66778999876

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.

>KOG0070|consensus

Probab=99.79  E-value=2.3e-19  Score=141.22  Aligned_cols=117  Identities=21%  Similarity=0.425  Sum_probs=100.1

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      -.....+|+++|..++||||+++++..+++... .||+|  |.+.++.+.  .+.+++||.+||++++.+|++|+++.++
T Consensus        13 ~~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiG--fnVE~v~yk--n~~f~vWDvGGq~k~R~lW~~Y~~~t~~   87 (181)
T KOG0070|consen   13 FGKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIG--FNVETVEYK--NISFTVWDVGGQEKLRPLWKHYFQNTQG   87 (181)
T ss_pred             cCcceEEEEEEeccCCCceeeeEeeccCCcccC-CCccc--cceeEEEEc--ceEEEEEecCCCcccccchhhhccCCcE
Confidence            456789999999999999999999999998775 89999  666777776  4899999999999999999999999999


Q ss_pred             EEEEEecCcHhhHHHHHHHHHHhcCCcc----eeeecccccCCCCC
Q psy5781          97 VIIEVTSVEYCYQRNWHKQAVTLFDKYK----FGHAFSTSLAMPQV  138 (231)
Q Consensus        97 vIlV~ditSf~~l~~w~~~i~~~~~~~~----~~~vv~~k~dl~~~  138 (231)
                      +|+|.|.+.-+++.+-.+++.+......    +.++.+||-|++..
T Consensus        88 lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~a  133 (181)
T KOG0070|consen   88 LIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGA  133 (181)
T ss_pred             EEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhcccc
Confidence            9999999988888888888888876543    34556667666654

>cd04151 Arl1 Arl1 subfamily

Probab=99.79  E-value=1.3e-18  Score=136.12  Aligned_cols=111  Identities=27%  Similarity=0.411  Sum_probs=88.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      ||+++|+++||||||++++..+.+.. +.||++.++.  .+..  ..+.+++||++|++.++.++..+++.+|++|+|||
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d   75 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVT-TIPTIGFNVE--TVTY--KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVD   75 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcC-cCCccCcCeE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEE
Confidence            79999999999999999998888764 6788885543  3333  45789999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHH-hcCCcceeeecccccCCCCC
Q psy5781         103 SV---EYCYQRNWHKQAVT-LFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~-~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ++   ++.....|+..+.+ ......+.++++||.|+...
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~  115 (158)
T cd04151          76 STDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGA  115 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCC
Confidence            99   55555555554433 22345678899999998653

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.78  E-value=1.5e-18  Score=139.74  Aligned_cols=114  Identities=15%  Similarity=0.287  Sum_probs=94.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .+.+||+++|++|||||||++++.++.+. .+.||.+..  ...+.+++  +.+.+||++|++.+..++..+++.+|+++
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~--~~~i~~~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~ii   91 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPT--SEELTIGN--IKFKTFDLGGHEQARRLWKDYFPEVDGIV   91 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            45799999999999999999999988874 577888743  34566665  67899999999999889999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCC
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~  137 (231)
                      +|||++   +++....|+.++.+... ...+.++++||.|+..
T Consensus        92 lV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~  134 (190)
T cd00879          92 FLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG  134 (190)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC
Confidence            999998   77778888888765443 3466778899999864

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

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

Probab=99.78  E-value=2.6e-18  Score=134.07  Aligned_cols=112  Identities=25%  Similarity=0.418  Sum_probs=92.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      ||+++|++|||||||+++++++.+ ..+.+|.+...  ..+.++  .+.+.+||++|++.+...+..++..+|++++|||
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~--~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D   75 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNV--ETVEYK--NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVD   75 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcce--EEEEEC--CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEE
Confidence            799999999999999999999884 45778888544  344554  4789999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCCc
Q psy5781         103 SV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~~  139 (231)
                      ++   ++..+..|+..+.+.. ....+.++++||.|+....
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~  116 (158)
T cd00878          76 SSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL  116 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc
Confidence            99   7888888888776644 3455677889999987644

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

>KOG0073|consensus

Probab=99.78  E-value=1.1e-18  Score=134.53  Aligned_cols=117  Identities=23%  Similarity=0.421  Sum_probs=93.2

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      ..++.++|.++|..|+|||+++++|.+.. .+...||.|  |..+++.+++  +.++|||.+||...+.+|++||..+||
T Consensus        12 ~kerE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~g--f~Iktl~~~~--~~L~iwDvGGq~~lr~~W~nYfestdg   86 (185)
T KOG0073|consen   12 LKEREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLG--FQIKTLEYKG--YTLNIWDVGGQKTLRSYWKNYFESTDG   86 (185)
T ss_pred             hhhheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccc--eeeEEEEecc--eEEEEEEcCCcchhHHHHHHhhhccCe
Confidence            35669999999999999999999999776 666889999  7777888866  889999999999999999999999999


Q ss_pred             EEEEEecCcHhhHHHHHHHHHHhcCCc----ceeeecccccCCCCC
Q psy5781          97 VIIEVTSVEYCYQRNWHKQAVTLFDKY----KFGHAFSTSLAMPQV  138 (231)
Q Consensus        97 vIlV~ditSf~~l~~w~~~i~~~~~~~----~~~~vv~~k~dl~~~  138 (231)
                      +|+|+|.+...++++-..++.....+.    ...++++||.|+...
T Consensus        87 lIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~  132 (185)
T KOG0073|consen   87 LIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGA  132 (185)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccc
Confidence            999999994444444444444333322    345677888877743

>KOG0096|consensus

Probab=99.77  E-value=1.9e-18  Score=136.22  Aligned_cols=120  Identities=27%  Similarity=0.483  Sum_probs=109.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .-.+|++++|+.|.|||++++|.+.++|...|.+|+|.+.+...+..+...+++..|||.|++.+..+...||-++.+.|
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAi   87 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAI   87 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeE
Confidence            45799999999999999999999999999999999999888666666656799999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      ++||++   ++.++.+|.+++.+.+.+ .++.+-|||.|++...
T Consensus        88 imFdVtsr~t~~n~~rwhrd~~rv~~N-iPiv~cGNKvDi~~r~  130 (216)
T KOG0096|consen   88 IMFDVTSRFTYKNVPRWHRDLVRVREN-IPIVLCGNKVDIKARK  130 (216)
T ss_pred             EEeeeeehhhhhcchHHHHHHHHHhcC-CCeeeeccceeccccc
Confidence            999999   889999999999999988 5566889999988754

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.77  E-value=1.2e-17  Score=128.15  Aligned_cols=118  Identities=22%  Similarity=0.349  Sum_probs=102.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|.+|+|||||++++..+.+...+.++.+.++....+..++..+.+.+||++|+.++..++..+++++++++.+
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~   80 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRV   80 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEE
Confidence            37999999999999999999999998888888998888877788888778999999999999999999999999999999


Q ss_pred             EecC----cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781         101 VTSV----EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       101 ~dit----Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +|+.    ++.... .|...+.+......+.++++||.|+...
T Consensus        81 ~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~  123 (161)
T TIGR00231        81 FDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDA  123 (161)
T ss_pred             EEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcc
Confidence            9998    556554 8888888777655567789999999764

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.

>KOG0071|consensus

Probab=99.77  E-value=2.5e-18  Score=129.49  Aligned_cols=116  Identities=25%  Similarity=0.436  Sum_probs=96.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.++|+++|..++||||++..+..+.. ....||+|  |.++++.+.  .+++++||.+|+++.+.+|++||....++||
T Consensus        16 KE~~ilmlGLd~aGKTtiLyKLkl~~~-~~~ipTvG--FnvetVtyk--N~kfNvwdvGGqd~iRplWrhYy~gtqglIF   90 (180)
T KOG0071|consen   16 KEMRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVG--FNVETVTYK--NVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   90 (180)
T ss_pred             ccceEEEEecccCCceehhhHHhcCCC-cccccccc--eeEEEEEee--eeEEeeeeccCchhhhHHHHhhccCCceEEE
Confidence            478999999999999999999998874 45789999  777777774  4899999999999999999999999999999


Q ss_pred             EEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781         100 EVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus       100 V~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      |.|..+-+++++-.+++.++..+.....++....+++++.+
T Consensus        91 V~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp  131 (180)
T KOG0071|consen   91 VVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLP  131 (180)
T ss_pred             EEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccc
Confidence            99999559999999999999886655434333344444444

>KOG1673|consensus

Probab=99.77  E-value=1.2e-18  Score=133.23  Aligned_cols=157  Identities=23%  Similarity=0.333  Sum_probs=129.0

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      ++.-.+||-++||+.+|||||+-.|+++.+.+++..+.|+++..+++.+.|..+.+.|||.+|++++..+.+....++-+
T Consensus        16 ~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsva   95 (205)
T KOG1673|consen   16 SNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVA   95 (205)
T ss_pred             ccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEE
Confidence            56678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh--------hhhhcCCCccccccccch
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG--------HASSSAMPFPQVWPCLKF  165 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~--------~s~~~~~~~~ev~~~~nv  165 (231)
                      ++++||++   ++..+..|++..+... +..+.+++|+|.|.--+.+-.+.+.-        .+-...+-|......+|+
T Consensus        96 IlFmFDLt~r~TLnSi~~WY~QAr~~N-ktAiPilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~Sts~sINv  174 (205)
T KOG1673|consen   96 ILFMFDLTRRSTLNSIKEWYRQARGLN-KTAIPILVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCSTSHSINV  174 (205)
T ss_pred             EEEEEecCchHHHHHHHHHHHHHhccC-CccceEEeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeeccccccH
Confidence            99999999   8889999999876644 44556699999887666654333221        111122223444558899


Q ss_pred             hhhhhhhcc
Q psy5781         166 GHAFSTSLA  174 (231)
Q Consensus       166 ~e~f~~~~~  174 (231)
                      ...|...++
T Consensus       175 ~KIFK~vlA  183 (205)
T KOG1673|consen  175 QKIFKIVLA  183 (205)
T ss_pred             HHHHHHHHH
Confidence            999987764

>PTZ00099 rab6; Provisional

Probab=99.75  E-value=9.5e-18  Score=134.39  Aligned_cols=131  Identities=24%  Similarity=0.351  Sum_probs=105.6

Q ss_pred             cCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHh
Q psy5781          43 SGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTL  119 (231)
Q Consensus        43 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~  119 (231)
                      .+.|.++|.||+|.++..+.+.+++..+.+.||||+|++++..++..|++++|++|+|||++   ||+.+..|+.++.+.
T Consensus         2 ~~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~   81 (176)
T PTZ00099          2 YDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNE   81 (176)
T ss_pred             CCCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            35788899999999999888999999999999999999999999999999999999999999   899999999999877


Q ss_pred             cCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         120 FDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       120 ~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      .....++++++||.|+...++....+.. .....+..+.|++.  ..|++++|...+
T Consensus        82 ~~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~  138 (176)
T PTZ00099         82 RGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIA  138 (176)
T ss_pred             cCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            6555667899999999754432222221 23334445666665  677888888766

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

Probab=99.75  E-value=1.5e-17  Score=133.80  Aligned_cols=114  Identities=15%  Similarity=0.236  Sum_probs=91.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|.+|||||||++++.++.+.. +.||.+...  ..+.+++  +.+.+||++|+..++.++..|+.++|++|
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~-~~~t~~~~~--~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~ad~ii   89 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQ-HQPTQHPTS--EELAIGN--IKFTTFDLGGHQQARRLWKDYFPEVNGIV   89 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCcc-cCCccccce--EEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            456999999999999999999999887753 567776433  3444544  78999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCC
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~  137 (231)
                      +|+|++   +++....|+.++.+.. ....+.++++||.|++.
T Consensus        90 ~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~  132 (184)
T smart00178       90 YLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPY  132 (184)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC
Confidence            999999   5777777777665432 23456889999999864

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

>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=99.75  E-value=2.8e-17  Score=131.44  Aligned_cols=118  Identities=29%  Similarity=0.491  Sum_probs=94.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ..+.+||+++|..|+|||||++++..+.+.. +.||.|  +....+..++  +.+.+||.+|+..++.+|+.|+.++|++
T Consensus        11 ~~~~~~ililGl~~sGKTtll~~l~~~~~~~-~~pT~g--~~~~~i~~~~--~~~~~~d~gG~~~~~~~w~~y~~~~~~i   85 (175)
T PF00025_consen   11 KKKEIKILILGLDGSGKTTLLNRLKNGEISE-TIPTIG--FNIEEIKYKG--YSLTIWDLGGQESFRPLWKSYFQNADGI   85 (175)
T ss_dssp             TTSEEEEEEEESTTSSHHHHHHHHHSSSEEE-EEEESS--EEEEEEEETT--EEEEEEEESSSGGGGGGGGGGHTTESEE
T ss_pred             cCcEEEEEEECCCccchHHHHHHhhhccccc-cCcccc--cccceeeeCc--EEEEEEeccccccccccceeecccccee
Confidence            4788999999999999999999999876554 889999  5555677766  7789999999999999999999999999


Q ss_pred             EEEEecCcHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCcc
Q psy5781          98 IIEVTSVEYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        98 IlV~ditSf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~~  140 (231)
                      |+|+|.+..+++.+-.+++.+...    ...+.++++||.|++....
T Consensus        86 IfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~  132 (175)
T PF00025_consen   86 IFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMS  132 (175)
T ss_dssp             EEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSST
T ss_pred             EEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCcch
Confidence            999999944455544444444333    3456778889999876433

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 ....

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.74  E-value=2.1e-17  Score=127.70  Aligned_cols=112  Identities=25%  Similarity=0.372  Sum_probs=92.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      .|+++|++|||||||++++.+..|..++.||++.++.  .+..++  +.+.+||++|++.++.++..+++.+|++++|+|
T Consensus         1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d   76 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMR--KVTKGN--VTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVD   76 (159)
T ss_pred             CEEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceE--EEEECC--EEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEE
Confidence            3899999999999999999999999999999986654  344443  789999999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCC
Q psy5781         103 SV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~  138 (231)
                      ++   ++.....|+..+.+.. ....+.++++||.|+...
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  116 (159)
T cd04159          77 AADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGA  116 (159)
T ss_pred             CCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCC
Confidence            99   6666667776665432 234556789999998654

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.73  E-value=2.6e-17  Score=129.42  Aligned_cols=112  Identities=19%  Similarity=0.346  Sum_probs=89.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC------CCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD------FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~------f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      +|+++|++|||||||++++....      +...+.||++.++.  .+.++  ...+.+||++|++.+..++..+++.+|+
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   76 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIG--TIEVG--NARLKFWDLGGQESLRSLWDKYYAECHA   76 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceE--EEEEC--CEEEEEEECCCChhhHHHHHHHhCCCCE
Confidence            58999999999999999997532      24456788876554  45555  4789999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCC
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~  138 (231)
                      +++|||.+   +++.+..|+..+.+... ...+.++++||.|+...
T Consensus        77 ~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~  122 (167)
T cd04160          77 IIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA  122 (167)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC
Confidence            99999999   67777778777765432 34567789999998653

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.

>cd01890 LepA LepA subfamily

Probab=99.72  E-value=6.1e-17  Score=128.84  Aligned_cols=111  Identities=18%  Similarity=0.278  Sum_probs=84.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC-------CCCCCcccce------eeEEEEEEEEE-----CCeEEEEEEeeCCCccccc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG-------DFVEKTGNTI------GVDFSMKTVNI-----DGKKVKLQIWDTAGQERFR   84 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~-------~f~~~~~pt~------~~~~~~~~~~~-----~~~~~~l~i~D~~G~~~~~   84 (231)
                      +|+++|+.+||||||+++|++.       .+...+.++.      |.++....+.+     ++..+.+.||||+|++++.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            6899999999999999999873       2333344433      44454444333     6678899999999999999


Q ss_pred             hhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          85 TITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        85 ~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ..+..+++.+|++|+|||++   +++.+..|....    ....+.++++||.|+..
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~----~~~~~iiiv~NK~Dl~~  133 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL----ENNLEIIPVINKIDLPS  133 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH----HcCCCEEEEEECCCCCc
Confidence            99999999999999999998   566777675433    23345678999999864

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.70  E-value=3e-16  Score=124.15  Aligned_cols=115  Identities=21%  Similarity=0.283  Sum_probs=91.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||++++.+..+. .+.||.|.+  ...+..++  ..+.+||++|+..+...+..+++.+|+++
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~--~~~i~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~ii   86 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFN--IKTVQSDG--FKLNVWDIGGQRAIRPYWRNYFENTDCLI   86 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhcCCCEEE
Confidence            44799999999999999999999987664 467888843  34555655  67899999999998888899999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCC
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~  138 (231)
                      +|||++   ++.....|+..+.+.. ....+..+++||.|+...
T Consensus        87 ~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~  130 (173)
T cd04155          87 YVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATA  130 (173)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccC
Confidence            999999   6777776766664432 334567788999998653

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.

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

Probab=99.69  E-value=1.3e-16  Score=129.27  Aligned_cols=114  Identities=21%  Similarity=0.255  Sum_probs=88.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc--CCCCCCc------------ccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhh
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS--GDFVEKT------------GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTIT   87 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~--~~f~~~~------------~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~   87 (231)
                      -+|+++|+.+||||||+++|+.  +.|...+            .++.|.++......++.+.+.+.+|||+|+++|...+
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~   82 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEV   82 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHH
Confidence            4899999999999999999997  6665543            2445655665656666667899999999999999999


Q ss_pred             hhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          88 QSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ..+++.+|++++|||++  .+.....|+..+..   ...+.++++||.|+...
T Consensus        83 ~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~  132 (194)
T cd01891          83 ERVLSMVDGVLLLVDASEGPMPQTRFVLKKALE---LGLKPIVVINKIDRPDA  132 (194)
T ss_pred             HHHHHhcCEEEEEEECCCCccHHHHHHHHHHHH---cCCCEEEEEECCCCCCC
Confidence            99999999999999999  44444555554432   34456788999998653

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.68  E-value=1e-16  Score=123.11  Aligned_cols=127  Identities=12%  Similarity=0.153  Sum_probs=82.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc-----ccchhhhhcccCCcEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE-----RFRTITQSYYRSANGV   97 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~-----~~~~~~~~~~~~ad~v   97 (231)
                      ||+++|++|||||||+++|.++.+  .+.+|++.++.       +     .+|||+|+.     .+..+.. .++++|++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~--~~~~t~~~~~~-------~-----~~iDt~G~~~~~~~~~~~~~~-~~~~ad~v   66 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEI--LYKKTQAVEYN-------D-----GAIDTPGEYVENRRLYSALIV-TAADADVI   66 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCcc--ccccceeEEEc-------C-----eeecCchhhhhhHHHHHHHHH-HhhcCCEE
Confidence            899999999999999999998875  35566654442       1     589999973     3444434 58899999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccc-hhhhhhcCC-Ccccccc--ccchhhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHK-FGHASSSAM-PFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~-~~~s~~~~~-~~~ev~~--~~nv~e~f~  170 (231)
                      |+|||++   ++.. ..|...+    .  .+.++++||.|+..... .... .+.....+. ++.+++.  ..|+++.|.
T Consensus        67 ilv~d~~~~~s~~~-~~~~~~~----~--~p~ilv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  138 (142)
T TIGR02528        67 ALVQSATDPESRFP-PGFASIF----V--KPVIGLVTKIDLAEADV-DIERAKELLETAGAEPIFEISSVDEQGLEALVD  138 (142)
T ss_pred             EEEecCCCCCcCCC-hhHHHhc----c--CCeEEEEEeeccCCccc-CHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHH
Confidence            9999998   6655 3454432    1  25667889999864221 1111 111222222 4444444  556777776


Q ss_pred             hh
Q psy5781         171 TS  172 (231)
Q Consensus       171 ~~  172 (231)
                      ..
T Consensus       139 ~l  140 (142)
T TIGR02528       139 YL  140 (142)
T ss_pred             HH
Confidence            54

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.

>cd04171 SelB SelB subfamily

Probab=99.68  E-value=4.8e-16  Score=121.35  Aligned_cols=113  Identities=18%  Similarity=0.192  Sum_probs=77.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc---CCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS---GDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~---~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      .|+++|++|||||||+++|++   +.+..++.++...+.....+.+++ ...+.+|||+|++++......+++.+|++++
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~   80 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLL   80 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEE
Confidence            589999999999999999996   344444434333333334445542 3579999999999987766778899999999


Q ss_pred             EEecCc--HhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781         100 EVTSVE--YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       100 V~ditS--f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      |||++.  ......++..+...  +.++.++++||.|+...
T Consensus        81 V~d~~~~~~~~~~~~~~~~~~~--~~~~~ilv~NK~Dl~~~  119 (164)
T cd04171          81 VVAADEGIMPQTREHLEILELL--GIKRGLVVLTKADLVDE  119 (164)
T ss_pred             EEECCCCccHhHHHHHHHHHHh--CCCcEEEEEECccccCH
Confidence            999982  22222332222221  22356789999998653

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

>KOG0074|consensus

Probab=99.68  E-value=2.3e-16  Score=119.11  Aligned_cols=89  Identities=28%  Similarity=0.506  Sum_probs=79.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ++.+||.++|-.++|||+|++++.... +....||.|  |.++.+..+| .+.+++||.+||...+.+|.+||.+.|++|
T Consensus        15 ~rEirilllGldnAGKTT~LKqL~sED-~~hltpT~G--Fn~k~v~~~g-~f~LnvwDiGGqr~IRpyWsNYyenvd~lI   90 (185)
T KOG0074|consen   15 RREIRILLLGLDNAGKTTFLKQLKSED-PRHLTPTNG--FNTKKVEYDG-TFHLNVWDIGGQRGIRPYWSNYYENVDGLI   90 (185)
T ss_pred             cceEEEEEEecCCCcchhHHHHHccCC-hhhccccCC--cceEEEeecC-cEEEEEEecCCccccchhhhhhhhccceEE
Confidence            678999999999999999999998665 566889999  8888888886 589999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHH
Q psy5781          99 IEVTSV---EYCYQRN  111 (231)
Q Consensus        99 lV~dit---Sf~~l~~  111 (231)
                      +|.|.+   -|+.+..
T Consensus        91 yVIDS~D~krfeE~~~  106 (185)
T KOG0074|consen   91 YVIDSTDEKRFEEISE  106 (185)
T ss_pred             EEEeCCchHhHHHHHH
Confidence            999988   5565543

>KOG3883|consensus

Probab=99.67  E-value=3.9e-16  Score=119.29  Aligned_cols=142  Identities=19%  Similarity=0.238  Sum_probs=111.5

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEE-CCeEEEEEEeeCCCcccc-chhhhhcccCC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNI-DGKKVKLQIWDTAGQERF-RTITQSYYRSA   94 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~-~~~~~~~~~~a   94 (231)
                      .+..||+|+|..+||||++|.+++.+..  ..++.||++ |.|...++. .|..-.+.|+||.|-..+ ..+-++|+.-+
T Consensus         7 Gk~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiE-DiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~a   85 (198)
T KOG3883|consen    7 GKVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIE-DIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFA   85 (198)
T ss_pred             CcceEEEEECCccccHHHHHHHHHhccCCCCCccccchh-hheeEeeecCCChhheEEEeecccccCchhhhhHhHhccC
Confidence            3568999999999999999999997765  346779998 777777766 455678999999997766 55788999999


Q ss_pred             cEEEEEEecC---cHhhHHHHHHHHHHhcCCcce-eeecccccCCCCCccccccchh-hhhhcCCCcccccc
Q psy5781          95 NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKF-GHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP  161 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~-~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~  161 (231)
                      |+++||||..   ||+.+....++|.+..++..+ +.+++|+.|....+..++.-.. +++.....+-|+..
T Consensus        86 DafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta  157 (198)
T KOG3883|consen   86 DAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTA  157 (198)
T ss_pred             ceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEe
Confidence            9999999999   999999999999998887766 6677899999776665554443 44444444444433

>cd01878 HflX HflX subfamily

Probab=99.67  E-value=7.9e-16  Score=125.46  Aligned_cols=145  Identities=12%  Similarity=0.020  Sum_probs=96.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC--cccceeeEEEEEEEEECCeEEEEEEeeCCCccc---------cchhh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK--TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER---------FRTIT   87 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~--~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~---------~~~~~   87 (231)
                      ...++|+++|++|||||||++++++..+...  +.+|..  .....+..++. ..+.+|||+|...         +...+
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~--~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~  115 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLD--PTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRSTL  115 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceecc--ceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHHH
Confidence            4568999999999999999999998864322  334443  33344555442 3789999999732         22221


Q ss_pred             hhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--c
Q psy5781          88 QSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--C  162 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~  162 (231)
                       ..+..+|++++|+|.+   +++++..|.+.+........+.++++||.|+.......    ......+.++.+++.  .
T Consensus       116 -~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~~----~~~~~~~~~~~~~Sa~~~  190 (204)
T cd01878         116 -EEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEELE----ERLEAGRPDAVFISAKTG  190 (204)
T ss_pred             -HHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHHH----HHhhcCCCceEEEEcCCC
Confidence             2367899999999998   77778888888877665566788999999986643211    112223333444443  4


Q ss_pred             cchhhhhhh
Q psy5781         163 LKFGHAFST  171 (231)
Q Consensus       163 ~nv~e~f~~  171 (231)
                      .|++++|..
T Consensus       191 ~gi~~l~~~  199 (204)
T cd01878         191 EGLDELLEA  199 (204)
T ss_pred             CCHHHHHHH
Confidence            556665544

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.

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.66  E-value=8.1e-16  Score=125.90  Aligned_cols=117  Identities=16%  Similarity=0.257  Sum_probs=87.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC-cEEEEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA-NGVIIEV  101 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a-d~vIlV~  101 (231)
                      +|+++|++|||||+|+++|..+.+...+.++.. ..........++...+.|||++|+.+++..+..+++.+ +++|+|+
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~~~-~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~Vv   80 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSIEP-NVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVV   80 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcEee-cceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEE
Confidence            689999999999999999999988777655532 22222222224457899999999999999889999999 9999999


Q ss_pred             ecC----cHhhHHHHHHHHHHhc---CCcceeeecccccCCCCCcc
Q psy5781         102 TSV----EYCYQRNWHKQAVTLF---DKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus       102 dit----Sf~~l~~w~~~i~~~~---~~~~~~~vv~~k~dl~~~~~  140 (231)
                      |.+    ++..+..|+..+....   ....+.++++||.|+....+
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a~~  126 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTAKP  126 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcccCC
Confidence            999    3445556665554332   24566778999999876555

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

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

Probab=99.66  E-value=1.4e-15  Score=119.61  Aligned_cols=144  Identities=13%  Similarity=0.029  Sum_probs=87.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCC-ccc-ceeeEEEEEEEEECCeEEEEEEeeCCCccccch---------hhhhcc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEK-TGN-TIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT---------ITQSYY   91 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~-~~p-t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~---------~~~~~~   91 (231)
                      +|+++|++|||||||+++|.++.+... +.. |.+  .....+..  ..+.+.||||+|+.....         ......
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~--~~~~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   77 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKS--LFVGHFDY--KYLRWQVIDTPGLLDRPLEERNTIEMQAITALA   77 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccc--eeEEEEcc--CceEEEEEECCCcCCccccCCchHHHHHHHHHH
Confidence            799999999999999999999877432 211 222  22222222  347899999999842110         001111


Q ss_pred             cCCcEEEEEEecC---c--HhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccc
Q psy5781          92 RSANGVIIEVTSV---E--YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLK  164 (231)
Q Consensus        92 ~~ad~vIlV~dit---S--f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~n  164 (231)
                      ..+|++|+|+|++   +  ++....|++.+.+.. ...+.++++||.|+........ ..........++.+++.  ..|
T Consensus        78 ~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~~-~~~~~~~~~~~~~~~Sa~~~~g  155 (168)
T cd01897          78 HLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLSE-IEEEEELEGEEVLKISTLTEEG  155 (168)
T ss_pred             hccCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHHH-HHHhhhhccCceEEEEecccCC
Confidence            2368999999998   3  356667888887654 3556779999999976443221 11112222334444443  556


Q ss_pred             hhhhhhhh
Q psy5781         165 FGHAFSTS  172 (231)
Q Consensus       165 v~e~f~~~  172 (231)
                      ++++|...
T Consensus       156 i~~l~~~l  163 (168)
T cd01897         156 VDEVKNKA  163 (168)
T ss_pred             HHHHHHHH
Confidence            66666543

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.

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

Probab=99.66  E-value=9.6e-16  Score=119.05  Aligned_cols=142  Identities=11%  Similarity=0.039  Sum_probs=96.9

Q ss_pred             EEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch------hhhhccc--CCcEE
Q psy5781          26 LIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT------ITQSYYR--SANGV   97 (231)
Q Consensus        26 vlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~------~~~~~~~--~ad~v   97 (231)
                      ++|.+|||||||++++.+..+...+.+....+.....+.+++  ..+.+|||+|+..+..      ++..++.  .+|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            589999999999999998865544445555556666777776  5789999999987654      3556665  99999


Q ss_pred             EEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhh
Q psy5781          98 IIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        98 IlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |+|+|.++.+....|...+.+   ...+.++++||.|+.................+.++.+++.  ..|+.+.|...
T Consensus        79 i~v~d~~~~~~~~~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~iSa~~~~~~~~l~~~l  152 (158)
T cd01879          79 VNVVDATNLERNLYLTLQLLE---LGLPVVVALNMIDEAEKRGIKIDLDKLSELLGVPVVPTSARKGEGIDELKDAI  152 (158)
T ss_pred             EEEeeCCcchhHHHHHHHHHH---cCCCEEEEEehhhhcccccchhhHHHHHHhhCCCeEEEEccCCCCHHHHHHHH
Confidence            999999965555566655544   3456779999999976543222222233344555666555  45666666544

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.

>cd01898 Obg Obg subfamily

Probab=99.65  E-value=1.4e-15  Score=119.82  Aligned_cols=114  Identities=10%  Similarity=0.034  Sum_probs=77.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCC-Ccc-cceeeEEEEEEEEECCeEEEEEEeeCCCcc----ccchhhhhcc---cC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVE-KTG-NTIGVDFSMKTVNIDGKKVKLQIWDTAGQE----RFRTITQSYY---RS   93 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~-~~~-pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~----~~~~~~~~~~---~~   93 (231)
                      +|+++|++|||||||++++.+..... .+. .|..  .....+.+++ ...+.+|||+|..    ....+...++   ..
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~--~~~~~~~~~~-~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~   78 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLV--PNLGVVRVDD-GRSFVVADIPGLIEGASEGKGLGHRFLRHIER   78 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccC--CcceEEEcCC-CCeEEEEecCcccCcccccCCchHHHHHHHHh
Confidence            58999999999999999999765321 111 1211  1112233333 2479999999963    2223333443   35


Q ss_pred             CcEEEEEEecC----cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCCc
Q psy5781          94 ANGVIIEVTSV----EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        94 ad~vIlV~dit----Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~  139 (231)
                      +|++++|+|++    +++++..|.+++.+...  ...+.++++||.|+....
T Consensus        79 ~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~  130 (170)
T cd01898          79 TRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEE  130 (170)
T ss_pred             CCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCch
Confidence            99999999998    47888999999987754  245667899999986543

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.

>KOG4423|consensus

Probab=99.62  E-value=1.2e-18  Score=136.88  Aligned_cols=128  Identities=31%  Similarity=0.542  Sum_probs=108.3

Q ss_pred             CCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECC-eEEEEEEeeCCCccccchhhhh
Q psy5781          11 NTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDG-KKVKLQIWDTAGQERFRTITQS   89 (231)
Q Consensus        11 ~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~-~~~~l~i~D~~G~~~~~~~~~~   89 (231)
                      ..+...+....+|+.|+|+-|||||++++||+...|...|..|+|++|..+....+. ..+++++||..||+++..+..-
T Consensus        15 ~a~ap~kr~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrV   94 (229)
T KOG4423|consen   15 RASAPKKREHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRV   94 (229)
T ss_pred             hcCCCchhhhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEE
Confidence            334445578899999999999999999999999999999999999999888777755 4578999999999999999999


Q ss_pred             cccCCcEEEEEEecC---cHhhHHHHHHHHHHhc--C-Ccce-eeecccccCCCCC
Q psy5781          90 YYRSANGVIIEVTSV---EYCYQRNWHKQAVTLF--D-KYKF-GHAFSTSLAMPQV  138 (231)
Q Consensus        90 ~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~--~-~~~~-~~vv~~k~dl~~~  138 (231)
                      ||+.+.+.++|||++   +|+.+..|.+++....  + +.++ .+++.||.|....
T Consensus        95 yykea~~~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~  150 (229)
T KOG4423|consen   95 YYKEAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKS  150 (229)
T ss_pred             EecCCcceEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChH
Confidence            999999999999999   9999999999996543  2 2333 4566777776553

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.62  E-value=6.6e-15  Score=111.49  Aligned_cols=114  Identities=39%  Similarity=0.691  Sum_probs=93.1

Q ss_pred             EEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC
Q psy5781          26 LIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        26 vlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit  104 (231)
                      ++|.+|+|||||++++.+... .....+|. .++........+....+.+||++|+..+......+++.+|++++|||.+
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            589999999999999998877 56666777 6777777777777899999999999988888888999999999999999


Q ss_pred             ---cHhhHHHH-HHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781         105 ---EYCYQRNW-HKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus       105 ---Sf~~l~~w-~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                         +++.+..| ...+........+.++++||.|+.....
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~  119 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERV  119 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccc
Confidence               77777777 3344444556667788999999876543

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

>PRK04213 GTP-binding protein; Provisional

Probab=99.61  E-value=1.6e-15  Score=123.36  Aligned_cols=114  Identities=12%  Similarity=0.151  Sum_probs=79.7

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC-----------ccccchhh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG-----------QERFRTIT   87 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G-----------~~~~~~~~   87 (231)
                      ...+||+++|++|||||||++++.++.+...+.|+.  ++....+.++    .+.+|||+|           ++.++..+
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~--t~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGV--TRKPNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEI   80 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCce--eeCceEEeec----ceEEEeCCccccccccCHHHHHHHHHHH
Confidence            356899999999999999999999988765555644  3444444443    589999999           56777766


Q ss_pred             hhccc----CCcEEEEEEecCcHhhH-HHHHH--------HHHHh-cCCcceeeecccccCCCCC
Q psy5781          88 QSYYR----SANGVIIEVTSVEYCYQ-RNWHK--------QAVTL-FDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        88 ~~~~~----~ad~vIlV~ditSf~~l-~~w~~--------~i~~~-~~~~~~~~vv~~k~dl~~~  138 (231)
                      ..|+.    .++++++|+|.+++.++ ..|..        ++.+. .....+.++++||.|+...
T Consensus        81 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~~  145 (201)
T PRK04213         81 VRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRELGIPPIVAVNKMDKIKN  145 (201)
T ss_pred             HHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHHcCCCeEEEEECccccCc
Confidence            66664    35788888888766554 44521        12222 2235567899999998654

>KOG0075|consensus

Probab=99.61  E-value=6.3e-16  Score=117.39  Aligned_cols=117  Identities=22%  Similarity=0.394  Sum_probs=97.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      ...+.++|..++|||||++....+.|.++..||.|  |..+  +++...+.+.+||.+||..|+.+|+.|++.++++++|
T Consensus        20 emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvG--fnmr--k~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~   95 (186)
T KOG0075|consen   20 EMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVG--FNMR--KVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYV   95 (186)
T ss_pred             eeeEEEEeeccCCcceEEEEEeeccchhhhccccc--ceeE--EeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEE
Confidence            46899999999999999999999999999999999  4434  4444568999999999999999999999999999999


Q ss_pred             EecCcHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCccc
Q psy5781         101 VTSVEYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVRPC  141 (231)
Q Consensus       101 ~ditSf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~~~  141 (231)
                      .|....+.+.--.+++...+.    ...+.+++|||.|++....|
T Consensus        96 VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~  140 (186)
T KOG0075|consen   96 VDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSK  140 (186)
T ss_pred             eecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccccH
Confidence            999966666555556555544    34556788999999887665

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

Probab=99.59  E-value=7.6e-15  Score=115.22  Aligned_cols=112  Identities=17%  Similarity=0.120  Sum_probs=80.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC-CeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-GKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      .|+++|++|||||||+++|..+.+...+.+++..+.....+..+ +....+.+|||+|++.+..++..++..+|++++|+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~   81 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVV   81 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEE
Confidence            48999999999999999999988876544444333333334433 23578999999999999888898999999999999


Q ss_pred             ecCcH--hhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781         102 TSVEY--CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       102 ditSf--~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |++..  ......+..+..   ...+.++++||.|+..
T Consensus        82 d~~~~~~~~~~~~~~~~~~---~~~p~ivv~NK~Dl~~  116 (168)
T cd01887          82 AADDGVMPQTIEAIKLAKA---ANVPFIVALNKIDKPN  116 (168)
T ss_pred             ECCCCccHHHHHHHHHHHH---cCCCEEEEEEceeccc
Confidence            99821  111122222322   3445778999999864

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.59  E-value=2.3e-14  Score=129.92  Aligned_cols=111  Identities=18%  Similarity=0.176  Sum_probs=83.8

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCC--CCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh--------hh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGD--FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI--------TQ   88 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~--f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~--------~~   88 (231)
                      ...+||+++|++|||||||++++++..  +...+..| ..++....+.+++  +.+.+|||+|+.++...        ..
T Consensus       201 ~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgt-Trd~~~~~i~~~g--~~v~l~DTaG~~~~~~~ie~~gi~~~~  277 (442)
T TIGR00450       201 DDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGT-TRDVVEGDFELNG--ILIKLLDTAGIREHADFVERLGIEKSF  277 (442)
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCc-EEEEEEEEEEECC--EEEEEeeCCCcccchhHHHHHHHHHHH
Confidence            456899999999999999999999865  34555444 3567777778877  55689999998654432        24


Q ss_pred             hcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          89 SYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        89 ~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+++++|++++|||++   +++..  |+..+..   ...+.++++||.|+..
T Consensus       278 ~~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~  324 (442)
T TIGR00450       278 KAIKQADLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKI  324 (442)
T ss_pred             HHHhhCCEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCC
Confidence            6789999999999998   56554  7666542   3456679999999864

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.58  E-value=5.6e-15  Score=130.32  Aligned_cols=115  Identities=16%  Similarity=0.113  Sum_probs=85.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCC-Cc-ccceeeEEEEEEEEECCeEEEEEEeeCCCc---------cccchhh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVE-KT-GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ---------ERFRTIT   87 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~-~~-~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~---------~~~~~~~   87 (231)
                      ...++|+++|.+|||||||++++++..+.. ++ -+|.  +...+.+.+++. ..+.||||+|.         +.|...+
T Consensus       187 ~~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~--d~~~~~i~~~~~-~~i~l~DT~G~~~~l~~~lie~f~~tl  263 (351)
T TIGR03156       187 ADVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATL--DPTTRRLDLPDG-GEVLLTDTVGFIRDLPHELVAAFRATL  263 (351)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCceeeccCCcccc--CCEEEEEEeCCC-ceEEEEecCcccccCCHHHHHHHHHHH
Confidence            345899999999999999999999876532 22 2343  455566777432 47899999997         2233322


Q ss_pred             hhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          88 QSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                       .++.++|++++|+|++   +++.+..|...+........+.++++||.|+..
T Consensus       264 -e~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~  315 (351)
T TIGR03156       264 -EEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLD  315 (351)
T ss_pred             -HHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCC
Confidence             2478999999999998   677777787777666555667789999999865

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).

>PRK15494 era GTPase Era; Provisional

Probab=99.55  E-value=4.7e-14  Score=124.05  Aligned_cols=146  Identities=12%  Similarity=0.112  Sum_probs=92.7

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCC---CcccceeeEEEEEEEEECCeEEEEEEeeCCCccc-cchhh------
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVE---KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER-FRTIT------   87 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~---~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~-~~~~~------   87 (231)
                      ..+.+||+++|++|||||||+++|++..+..   ....|.  +.....+..++  ..+.+|||+|+.+ +..+.      
T Consensus        49 ~~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr--~~~~~~~~~~~--~qi~~~DTpG~~~~~~~l~~~~~r~  124 (339)
T PRK15494         49 NQKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTR--SIITGIITLKD--TQVILYDTPGIFEPKGSLEKAMVRC  124 (339)
T ss_pred             ccceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCcc--CcEEEEEEeCC--eEEEEEECCCcCCCcccHHHHHHHH
Confidence            3566899999999999999999999887642   222232  23334555655  4679999999843 22221      


Q ss_pred             -hhcccCCcEEEEEEecC-cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcC--CCcccccc
Q psy5781          88 -QSYYRSANGVIIEVTSV-EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSA--MPFPQVWP  161 (231)
Q Consensus        88 -~~~~~~ad~vIlV~dit-Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~--~~~~ev~~  161 (231)
                       ..++.++|++++|+|.+ +++.+. .|+..+...   ..+.++++||.|+....   ..... ......  ..+..+++
T Consensus       125 ~~~~l~~aDvil~VvD~~~s~~~~~~~il~~l~~~---~~p~IlViNKiDl~~~~---~~~~~~~l~~~~~~~~i~~iSA  198 (339)
T PRK15494        125 AWSSLHSADLVLLIIDSLKSFDDITHNILDKLRSL---NIVPIFLLNKIDIESKY---LNDIKAFLTENHPDSLLFPISA  198 (339)
T ss_pred             HHHHhhhCCEEEEEEECCCCCCHHHHHHHHHHHhc---CCCEEEEEEhhcCcccc---HHHHHHHHHhcCCCcEEEEEec
Confidence             13477999999999988 888875 455555432   23345789999986431   11111 111111  22344444


Q ss_pred             --ccchhhhhhhhc
Q psy5781         162 --CLKFGHAFSTSL  173 (231)
Q Consensus       162 --~~nv~e~f~~~~  173 (231)
                        ..|+++.|...+
T Consensus       199 ktg~gv~eL~~~L~  212 (339)
T PRK15494        199 LSGKNIDGLLEYIT  212 (339)
T ss_pred             cCccCHHHHHHHHH
Confidence              667888887765

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.53  E-value=7.8e-14  Score=127.77  Aligned_cols=112  Identities=17%  Similarity=0.122  Sum_probs=79.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc--------cchhhhhc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER--------FRTITQSY   90 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~--------~~~~~~~~   90 (231)
                      ...+|+++|.+|||||||+++++++.+. ....|.+..+.....+.+++  ..+.||||+|.+.        +......+
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~  114 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNG--RRFTVVDTGGWEPDAKGLQASVAEQAEVA  114 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECC--cEEEEEeCCCcCCcchhHHHHHHHHHHHH
Confidence            3469999999999999999999987642 22334333344445555665  4578999999762        33445678


Q ss_pred             ccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          91 YRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        91 ~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ++.+|++|+|||++   ++. ...|...+++   ...+.++++||.|+..
T Consensus       115 ~~~aD~il~VvD~~~~~s~~-~~~i~~~l~~---~~~piilV~NK~Dl~~  160 (472)
T PRK03003        115 MRTADAVLFVVDATVGATAT-DEAVARVLRR---SGKPVILAANKVDDER  160 (472)
T ss_pred             HHhCCEEEEEEECCCCCCHH-HHHHHHHHHH---cCCCEEEEEECccCCc
Confidence            89999999999999   332 2344444442   3566779999999864

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.51  E-value=5.2e-14  Score=128.07  Aligned_cols=110  Identities=20%  Similarity=0.188  Sum_probs=81.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh--------hhh
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI--------TQS   89 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~--------~~~   89 (231)
                      ..+||+++|.+|||||||++++++...  ...+..|. .++....+.+++  ..+.+|||+|..++...        ...
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT-~d~~~~~i~~~g--~~i~l~DT~G~~~~~~~ie~~gi~~~~~  290 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTT-RDVIEEHINLDG--IPLRLIDTAGIRETDDEVEKIGIERSRE  290 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcc-cccEEEEEEECC--eEEEEEeCCCCCCCccHHHHHHHHHHHH
Confidence            348999999999999999999998763  34443333 356666777776  56899999998765432        234


Q ss_pred             cccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          90 YYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        90 ~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +++++|++++|||++   +++....|..      ....+.++++||.|+...
T Consensus       291 ~~~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~  336 (449)
T PRK05291        291 AIEEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGE  336 (449)
T ss_pred             HHHhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhcccc
Confidence            788999999999999   6666555543      334567799999998654

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.51  E-value=1.4e-13  Score=126.21  Aligned_cols=113  Identities=16%  Similarity=0.161  Sum_probs=81.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCc----------cccchhh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ----------ERFRTIT   87 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~----------~~~~~~~   87 (231)
                      ...+||+++|.+|||||||++++++..+. ....+....+.....+.+++..  +.||||+|.          +.|..+.
T Consensus       209 ~~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~--~~l~DTaG~~~~~~~~~~~e~~~~~~  286 (472)
T PRK03003        209 GGPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKT--WRFVDTAGLRRRVKQASGHEYYASLR  286 (472)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCEE--EEEEECCCccccccccchHHHHHHHH
Confidence            35699999999999999999999987652 2233444456666677777754  579999995          2333332


Q ss_pred             -hhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          88 -QSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        88 -~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                       ..+++++|++|+|||++   +++.+. |+..+.   ......++++||.|+..
T Consensus       287 ~~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~---~~~~piIiV~NK~Dl~~  336 (472)
T PRK03003        287 THAAIEAAEVAVVLIDASEPISEQDQR-VLSMVI---EAGRALVLAFNKWDLVD  336 (472)
T ss_pred             HHHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHH---HcCCCEEEEEECcccCC
Confidence             34678999999999999   666654 333333   34567789999999864

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.50  E-value=2.5e-13  Score=119.06  Aligned_cols=149  Identities=9%  Similarity=-0.018  Sum_probs=96.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC-CCCccc-ceeeEEEEEEEEECCeEEEEEEeeCCCccc----cchhhh---hccc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGN-TIGVDFSMKTVNIDGKKVKLQIWDTAGQER----FRTITQ---SYYR   92 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~p-t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----~~~~~~---~~~~   92 (231)
                      -.|.+||.++||||||++++...+. ...|.- |..  .....+.++ ....+.|||++|.-+    ...+..   .+++
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~--p~~G~v~~~-~~~~~~i~D~PGli~ga~~~~gLg~~flrhie  235 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLH--PNLGVVRVD-DYKSFVIADIPGLIEGASEGAGLGHRFLKHIE  235 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeC--ceEEEEEeC-CCcEEEEEeCCCccCCCCccccHHHHHHHHhh
Confidence            4789999999999999999997542 223332 222  222334442 224689999999632    222333   3456


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccc
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLK  164 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~n  164 (231)
                      +++++|+|+|++   +++++..|.+++..+.+  ..++.++++||.|+............ .....+..+..+++  ..|
T Consensus       236 ~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~G  315 (335)
T PRK12299        236 RTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEG  315 (335)
T ss_pred             hcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCC
Confidence            799999999999   68999999999988755  35677899999998754332111111 11222344555554  567


Q ss_pred             hhhhhhhhc
Q psy5781         165 FGHAFSTSL  173 (231)
Q Consensus       165 v~e~f~~~~  173 (231)
                      +++++....
T Consensus       316 I~eL~~~L~  324 (335)
T PRK12299        316 LDELLRALW  324 (335)
T ss_pred             HHHHHHHHH
Confidence            787776654

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.49  E-value=2.5e-13  Score=108.62  Aligned_cols=114  Identities=13%  Similarity=0.139  Sum_probs=77.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc----------cccchhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ----------ERFRTIT   87 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~----------~~~~~~~   87 (231)
                      ....++|+++|++|+|||||++++++..+...+.++.+.+.....+..++   .+.+||++|.          +.+..+.
T Consensus        15 ~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~~~~   91 (179)
T TIGR03598        15 PDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQKLI   91 (179)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHHHHH
Confidence            46778999999999999999999998876666666666444433344443   5899999994          3344445


Q ss_pred             hhcccC---CcEEEEEEecC-cHhhHHH-HHHHHHHhcCCcceeeecccccCCCC
Q psy5781          88 QSYYRS---ANGVIIEVTSV-EYCYQRN-WHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        88 ~~~~~~---ad~vIlV~dit-Sf~~l~~-w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ..|++.   ++++++|+|.+ .+..... +...+..   ...+.+++.||.|+..
T Consensus        92 ~~~l~~~~~~~~ii~vvd~~~~~~~~~~~~~~~~~~---~~~pviiv~nK~D~~~  143 (179)
T TIGR03598        92 EEYLEKRENLKGVVLLMDIRHPLKELDLEMLEWLRE---RGIPVLIVLTKADKLK  143 (179)
T ss_pred             HHHHHhChhhcEEEEEecCCCCCCHHHHHHHHHHHH---cCCCEEEEEECcccCC
Confidence            566654   57999999998 2322222 2233322   2455678899999864

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.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.48  E-value=7.6e-13  Score=102.18  Aligned_cols=108  Identities=17%  Similarity=0.169  Sum_probs=75.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC--CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch--------hhhhcc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV--EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT--------ITQSYY   91 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~--------~~~~~~   91 (231)
                      +||+++|++|+|||||++++.+..+.  ..+ +....++....+..++  ..+.+|||+|..++..        ....++
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~   78 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDI-AGTTRDVIEESIDIGG--IPVRLIDTAGIRETEDEIEKIGIERAREAI   78 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCC-CCCccceEEEEEEeCC--EEEEEEECCCcCCCcchHHHHHHHHHHHHH
Confidence            58999999999999999999987642  222 2332344444555554  6789999999765432        123467


Q ss_pred             cCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          92 RSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        92 ~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .++|++++|+|++   +..+.+.|..      ......++++||.|+...
T Consensus        79 ~~~~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~  122 (157)
T cd04164          79 EEADLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPD  122 (157)
T ss_pred             hhCCEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCc
Confidence            7999999999999   5555544433      344667799999998653

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.

>cd01894 EngA1 EngA1 subfamily

Probab=99.48  E-value=3.6e-13  Score=104.13  Aligned_cols=109  Identities=17%  Similarity=0.105  Sum_probs=73.2

Q ss_pred             EEEcCCCCcHHHHHHHHHcCC--CCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch--------hhhhcccCC
Q psy5781          25 VLIGDCGVGKTCVVHRFRSGD--FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT--------ITQSYYRSA   94 (231)
Q Consensus        25 vvlG~~~vGKTSLl~~~~~~~--f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~--------~~~~~~~~a   94 (231)
                      +++|.+|||||||++++++..  +...+.++. .+........++  ..+.+|||+|...+..        ....+++.+
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t-~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~   77 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVT-RDRIYGEAEWGG--REFILIDTGGIEPDDEGISKEIREQAELAIEEA   77 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCce-eCceeEEEEECC--eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhC
Confidence            479999999999999999765  333443333 234444555554  6789999999877543        334567899


Q ss_pred             cEEEEEEecC-cHhhHHHHH-HHHHHhcCCcceeeecccccCCCCCc
Q psy5781          95 NGVIIEVTSV-EYCYQRNWH-KQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        95 d~vIlV~dit-Sf~~l~~w~-~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      |++++|+|.+ .+.....++ +.+++   ...+.++++||.|+....
T Consensus        78 d~ii~v~d~~~~~~~~~~~~~~~~~~---~~~piiiv~nK~D~~~~~  121 (157)
T cd01894          78 DVILFVVDGREGLTPADEEIAKYLRK---SKKPVILVVNKVDNIKEE  121 (157)
T ss_pred             CEEEEEEeccccCCccHHHHHHHHHh---cCCCEEEEEECcccCChH
Confidence            9999999998 222222222 22222   236677899999987643

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.48  E-value=2.6e-13  Score=127.16  Aligned_cols=148  Identities=14%  Similarity=0.142  Sum_probs=100.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC-------CCCCCcccc------eeeEEEEEEEEE-----CCeEEEEEEeeCCCccc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG-------DFVEKTGNT------IGVDFSMKTVNI-----DGKKVKLQIWDTAGQER   82 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~-------~f~~~~~pt------~~~~~~~~~~~~-----~~~~~~l~i~D~~G~~~   82 (231)
                      .-+|+++|+.++|||||+.+|+..       .+...+..+      .|+++....+.+     +++.+.++||||+|+.+
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            458999999999999999999864       233333332      355555444333     56779999999999999


Q ss_pred             cchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCC---c
Q psy5781          83 FRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMP---F  156 (231)
Q Consensus        83 ~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~---~  156 (231)
                      |...+..+++.+|++|+|||.+   +++....|...+.    .....++++||.|+....... ...+.....+..   +
T Consensus        83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~~~~~~-~~~el~~~lg~~~~~v  157 (595)
T TIGR01393        83 FSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPSADPER-VKKEIEEVIGLDASEA  157 (595)
T ss_pred             HHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCccCHHH-HHHHHHHHhCCCcceE
Confidence            9999999999999999999999   6777777765543    234567889999986532210 001122222332   2


Q ss_pred             ccccc--ccchhhhhhhhc
Q psy5781         157 PQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       157 ~ev~~--~~nv~e~f~~~~  173 (231)
                      ..++.  ..|+++.|...+
T Consensus       158 i~vSAktG~GI~~Lle~I~  176 (595)
T TIGR01393       158 ILASAKTGIGIEEILEAIV  176 (595)
T ss_pred             EEeeccCCCCHHHHHHHHH
Confidence            23333  567777776643

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.47  E-value=4.3e-13  Score=117.44  Aligned_cols=150  Identities=9%  Similarity=-0.019  Sum_probs=93.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc----cchhhhhc---cc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER----FRTITQSY---YR   92 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----~~~~~~~~---~~   92 (231)
                      .-.|++||.++||||||++++...+. ...|.-|. .......+.+++ ...+.|||++|..+    ...+...|   +.
T Consensus       157 ~adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT-~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhie  234 (329)
T TIGR02729       157 LADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTT-LVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIE  234 (329)
T ss_pred             cccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCc-cCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHH
Confidence            35899999999999999999997653 22232111 112222334443 36789999999742    22343344   44


Q ss_pred             CCcEEEEEEecC------cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--c
Q psy5781          93 SANGVIIEVTSV------EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--C  162 (231)
Q Consensus        93 ~ad~vIlV~dit------Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~  162 (231)
                      +++++|+|+|++      +++++..|.+++..+..  ..++.++++||.|+.................+..+.+++.  .
T Consensus       235 rad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~~~~~~~~l~~~~~~~vi~iSAktg  314 (329)
T TIGR02729       235 RTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEELAELLKELKKALGKPVFPISALTG  314 (329)
T ss_pred             hhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHHHHHHHHHHHHHcCCcEEEEEccCC
Confidence            699999999998      45777889998877653  3566778999999875432111111122233444555554  4


Q ss_pred             cchhhhhhhh
Q psy5781         163 LKFGHAFSTS  172 (231)
Q Consensus       163 ~nv~e~f~~~  172 (231)
                      .++++++...
T Consensus       315 ~GI~eL~~~I  324 (329)
T TIGR02729       315 EGLDELLYAL  324 (329)
T ss_pred             cCHHHHHHHH
Confidence            5667666554

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.46  E-value=4.1e-13  Score=108.30  Aligned_cols=116  Identities=16%  Similarity=0.154  Sum_probs=78.8

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc----------cccchhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ----------ERFRTIT   87 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~----------~~~~~~~   87 (231)
                      .+...||+++|++|||||||+++++++++...+.++.+.+.....+..   ...+.||||+|.          +++..+.
T Consensus        21 ~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~~~~~   97 (196)
T PRK00454         21 PDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKWQKLI   97 (196)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHHHHHH
Confidence            447799999999999999999999998877777777774443333332   267999999994          4455555


Q ss_pred             hhcccCC---cEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          88 QSYYRSA---NGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        88 ~~~~~~a---d~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ..|++.+   +++++|+|.+ .+.....+..+..+.  ......+++||.|+...
T Consensus        98 ~~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l~~--~~~~~iiv~nK~Dl~~~  150 (196)
T PRK00454         98 EEYLRTRENLKGVVLLIDSRHPLKELDLQMIEWLKE--YGIPVLIVLTKADKLKK  150 (196)
T ss_pred             HHHHHhCccceEEEEEEecCCCCCHHHHHHHHHHHH--cCCcEEEEEECcccCCH
Confidence            6666654   6788889988 444433222222221  23345688999998653

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.46  E-value=7.9e-13  Score=119.88  Aligned_cols=144  Identities=15%  Similarity=0.077  Sum_probs=90.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc--------cchhhhhcc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER--------FRTITQSYY   91 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~--------~~~~~~~~~   91 (231)
                      .+|+++|.+|||||||++++++.+.  ..++ |.+..+.....+.+++  ..+.+|||+|.+.        +......++
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~-~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~   78 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADT-PGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAI   78 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCC-CCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHH
Confidence            5899999999999999999998764  3333 3233345555666666  7789999999876        223345678


Q ss_pred             cCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCC-Ccccccc--ccchhh
Q psy5781          92 RSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAM-PFPQVWP--CLKFGH  167 (231)
Q Consensus        92 ~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~-~~~ev~~--~~nv~e  167 (231)
                      ..+|++|+|+|.+ .+.....++....+.  ...+.++++||.|+..... ...+   ....+. .+.+++.  ..|+++
T Consensus        79 ~~ad~il~vvd~~~~~~~~~~~~~~~l~~--~~~piilv~NK~D~~~~~~-~~~~---~~~lg~~~~~~iSa~~g~gv~~  152 (435)
T PRK00093         79 EEADVILFVVDGRAGLTPADEEIAKILRK--SNKPVILVVNKVDGPDEEA-DAYE---FYSLGLGEPYPISAEHGRGIGD  152 (435)
T ss_pred             HhCCEEEEEEECCCCCCHHHHHHHHHHHH--cCCcEEEEEECccCccchh-hHHH---HHhcCCCCCEEEEeeCCCCHHH
Confidence            8999999999998 333332222222121  1456778999999654211 1111   111222 1333433  556777


Q ss_pred             hhhhhcc
Q psy5781         168 AFSTSLA  174 (231)
Q Consensus       168 ~f~~~~~  174 (231)
                      .|...+.
T Consensus       153 l~~~I~~  159 (435)
T PRK00093        153 LLDAILE  159 (435)
T ss_pred             HHHHHHh
Confidence            7776654

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.45  E-value=5e-13  Score=106.59  Aligned_cols=110  Identities=16%  Similarity=0.091  Sum_probs=79.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccce----------------eeEEEEEEEEECCeEEEEEEeeCCCccccchh
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTI----------------GVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI   86 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~----------------~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~   86 (231)
                      +|+++|++|+|||||++.+++......+.++.                ..+.....+...  ...+.+||++|...+...
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~   78 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWP--DRRVNFIDTPGHEDFSSE   78 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeC--CEEEEEEeCCCcHHHHHH
Confidence            48999999999999999999887665432211                112222223333  468999999999988888


Q ss_pred             hhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          87 TQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        87 ~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +..+++.+|++++|+|.+  .......++..+..   .....++++||.|+..
T Consensus        79 ~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~---~~~~i~iv~nK~D~~~  128 (189)
T cd00881          79 VIRGLSVSDGAILVVDANEGVQPQTREHLRIARE---GGLPIIVAINKIDRVG  128 (189)
T ss_pred             HHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHH---CCCCeEEEEECCCCcc
Confidence            899999999999999998  21223344444433   4566778999999875

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.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.44  E-value=6.4e-13  Score=104.87  Aligned_cols=112  Identities=14%  Similarity=0.114  Sum_probs=75.5

Q ss_pred             EEcCCCCcHHHHHHHHHcCCC-CCCcc-cceeeEEEEEEEEECCeEEEEEEeeCCCccc----cchhh---hhcccCCcE
Q psy5781          26 LIGDCGVGKTCVVHRFRSGDF-VEKTG-NTIGVDFSMKTVNIDGKKVKLQIWDTAGQER----FRTIT---QSYYRSANG   96 (231)
Q Consensus        26 vlG~~~vGKTSLl~~~~~~~f-~~~~~-pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----~~~~~---~~~~~~ad~   96 (231)
                      ++|++|||||||++++.+..+ ...+. .|..  .....+.+++ ...+.+||++|..+    .+.+.   ..+++.+|+
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~--~~~~~~~~~~-~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~   77 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLE--PNLGVVEVPD-GARIQVADIPGLIEGASEGRGLGNQFLAHIRRADA   77 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeec--CcceEEEcCC-CCeEEEEeccccchhhhcCCCccHHHHHHHhccCE
Confidence            589999999999999998864 23332 2222  2223344541 35689999999632    22222   235678999


Q ss_pred             EEEEEecC-c--------HhhHHHHHHHHHHhcC-------CcceeeecccccCCCCCcc
Q psy5781          97 VIIEVTSV-E--------YCYQRNWHKQAVTLFD-------KYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        97 vIlV~dit-S--------f~~l~~w~~~i~~~~~-------~~~~~~vv~~k~dl~~~~~  140 (231)
                      +++|+|.+ .        ++.+..|..++.....       ...+.++++||.|+.....
T Consensus        78 ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~  137 (176)
T cd01881          78 ILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEE  137 (176)
T ss_pred             EEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhH
Confidence            99999998 2        4456678888876543       2566778889999875433

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

>cd01850 CDC_Septin CDC/Septin

Probab=99.44  E-value=1.3e-12  Score=111.74  Aligned_cols=118  Identities=14%  Similarity=0.132  Sum_probs=78.8

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC----------cccceeeEEEEEEEEECCeEEEEEEeeCCCcccc-----
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK----------TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF-----   83 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~----------~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~-----   83 (231)
                      ...++|+|+|.+|+|||||++++++..+...          +.+|++.+.....+..+|..+.+.||||+|-.+.     
T Consensus         2 g~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~   81 (276)
T cd01850           2 GFQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSD   81 (276)
T ss_pred             CcEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchh
Confidence            4579999999999999999999998877543          4667776777777777888899999999993221     


Q ss_pred             ---------------------chhhhhcccCCcEEEEEEecC-cHhhHHHH-HHHHHHhcCCcceeeecccccCCCC
Q psy5781          84 ---------------------RTITQSYYRSANGVIIEVTSV-EYCYQRNW-HKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        84 ---------------------~~~~~~~~~~ad~vIlV~dit-Sf~~l~~w-~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                                           ...+..++.+..+.+++|.++ +-..+..| ++.++.... ....+++++|.|+..
T Consensus        82 ~~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~l~~~D~~~lk~l~~-~v~vi~VinK~D~l~  157 (276)
T cd01850          82 CWKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHGLKPLDIEFMKRLSK-RVNIIPVIAKADTLT  157 (276)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCCCCHHHHHHHHHHhc-cCCEEEEEECCCcCC
Confidence                                 111224555545555555554 22334444 333333333 445668899999854

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.

>KOG1707|consensus

Probab=99.44  E-value=3e-13  Score=122.60  Aligned_cols=121  Identities=18%  Similarity=0.162  Sum_probs=96.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++||.||||||||..++.++|++..++... ... --..+.-..+...|.|++..++.+......+++||++
T Consensus         6 t~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~-~i~-IPadvtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi   83 (625)
T KOG1707|consen    6 TLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLP-RIL-IPADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVI   83 (625)
T ss_pred             CccceEEEEECCCCccHHHHHHHHHhhhccccccccCC-ccc-cCCccCcCcCceEEEecccccchhHHHHHHHhhcCEE
Confidence            45679999999999999999999999999987765543 111 1122333456789999987777677778889999999


Q ss_pred             EEEEecC---cHhhHH-HHHHHHHHhcCC--cceeeecccccCCCCCcc
Q psy5781          98 IIEVTSV---EYCYQR-NWHKQAVTLFDK--YKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        98 IlV~dit---Sf~~l~-~w~~~i~~~~~~--~~~~~vv~~k~dl~~~~~  140 (231)
                      ++||+++   +.+.+. .|++.+++..++  +.+++++|||.|+.....
T Consensus        84 ~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~  132 (625)
T KOG1707|consen   84 CLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNEN  132 (625)
T ss_pred             EEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccc
Confidence            9999999   899996 899999998743  455779999999887654

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.42  E-value=4.3e-13  Score=105.51  Aligned_cols=131  Identities=13%  Similarity=0.107  Sum_probs=80.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc-----ccchhhhhcccCCcEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE-----RFRTITQSYYRSANGV   97 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~-----~~~~~~~~~~~~ad~v   97 (231)
                      ||+++|.+|||||||++++.+. +.. ..++.+.       .+++.    .+||+||+.     .++.+ ...++.+|++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~-~~~-~~~~~~v-------~~~~~----~~iDtpG~~~~~~~~~~~~-~~~~~~ad~i   68 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGN-YTL-ARKTQAV-------EFNDK----GDIDTPGEYFSHPRWYHAL-ITTLQDVDML   68 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC-Ccc-CccceEE-------EECCC----CcccCCccccCCHHHHHHH-HHHHhcCCEE
Confidence            7999999999999999997644 321 1233332       22222    279999973     22222 2347899999


Q ss_pred             EEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcC--CCcccccc--ccchhhhhhhh
Q psy5781          98 IIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSA--MPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        98 IlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~--~~~~ev~~--~~nv~e~f~~~  172 (231)
                      ++|||.+ ....+..|+.++.    ...+..+++||.|+.....-...  ....+.+  .++.+++.  ..|+++.|...
T Consensus        69 l~v~d~~~~~s~~~~~~~~~~----~~~~ii~v~nK~Dl~~~~~~~~~--~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l  142 (158)
T PRK15467         69 IYVHGANDPESRLPAGLLDIG----VSKRQIAVISKTDMPDADVAATR--KLLLETGFEEPIFELNSHDPQSVQQLVDYL  142 (158)
T ss_pred             EEEEeCCCcccccCHHHHhcc----CCCCeEEEEEccccCcccHHHHH--HHHHHcCCCCCEEEEECCCccCHHHHHHHH
Confidence            9999999 2112345655541    23456689999998653321111  1222333  25655555  67888888775


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       143 ~  143 (158)
T PRK15467        143 A  143 (158)
T ss_pred             H
Confidence            5

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.42  E-value=9.7e-13  Score=123.32  Aligned_cols=142  Identities=11%  Similarity=0.035  Sum_probs=98.5

Q ss_pred             cCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh------hhhcc--cCCcEEEE
Q psy5781          28 GDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI------TQSYY--RSANGVII   99 (231)
Q Consensus        28 G~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~------~~~~~--~~ad~vIl   99 (231)
                      |++|||||||+|++.+..+.....|....+.....+.+++  ..+++|||+|+.++...      .+.|+  +.+|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~--~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG--EDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECC--eEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            8999999999999998876444445555566666667766  45799999999876543      34444  37899999


Q ss_pred             EEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhhcc
Q psy5781         100 EVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTSLA  174 (231)
Q Consensus       100 V~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~~~  174 (231)
                      |+|.+++++...+..++.   +...+..+++||.|+...+.........++..+.++.+++.  ..|+++.|+..+.
T Consensus        79 VvDat~ler~l~l~~ql~---~~~~PiIIVlNK~Dl~~~~~i~~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~~  152 (591)
T TIGR00437        79 VVDASNLERNLYLTLQLL---ELGIPMILALNLVDEAEKKGIRIDEEKLEERLGVPVVPTSATEGRGIERLKDAIRK  152 (591)
T ss_pred             EecCCcchhhHHHHHHHH---hcCCCEEEEEehhHHHHhCCChhhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHH
Confidence            999997655444444443   34566779999999865443222233356666777777665  6678888887663

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.

>PRK11058 GTPase HflX; Provisional

Probab=99.41  E-value=1.3e-12  Score=118.03  Aligned_cols=116  Identities=13%  Similarity=0.076  Sum_probs=80.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcccc--chhh------hhccc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF--RTIT------QSYYR   92 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~--~~~~------~~~~~   92 (231)
                      ..+|+++|.+|||||||+|++++..+.....+....+.....+.+.+. ..+.||||+|..+.  ..++      ...++
T Consensus       197 ~p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~  275 (426)
T PRK11058        197 VPTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETR  275 (426)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhh
Confidence            368999999999999999999986643212222223444455666542 25689999997321  2222      23468


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+|++|+|+|++   +++++..|...+........+.++++||.|+..
T Consensus       276 ~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~  323 (426)
T PRK11058        276 QATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLD  323 (426)
T ss_pred             cCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCC
Confidence            999999999999   667776666666655555667789999999864

>TIGR00436 era GTP-binding protein Era

Probab=99.41  E-value=2e-12  Score=110.29  Aligned_cols=107  Identities=13%  Similarity=0.102  Sum_probs=72.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCC--CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc-h-------hhhhccc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFV--EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR-T-------ITQSYYR   92 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~-~-------~~~~~~~   92 (231)
                      +|+++|.+|||||||+|++++..+.  ..+..|...  ....+...+. ..+.+|||||..... .       ....++.
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~--~i~~i~~~~~-~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~   78 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRN--RISGIHTTGA-SQIIFIDTPGFHEKKHSLNRLMMKEARSAIG   78 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccC--cEEEEEEcCC-cEEEEEECcCCCCCcchHHHHHHHHHHHHHh
Confidence            6899999999999999999988753  233344431  1223333332 468999999975321 1       1345678


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+|++++|+|.+   +.+  ..+...+.+   ...+.++++||.|+..
T Consensus        79 ~aDvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~  121 (270)
T TIGR00436        79 GVDLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKF  121 (270)
T ss_pred             hCCEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCC
Confidence            999999999999   332  344444433   2455678999999864

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

>cd04167 Snu114p Snu114p subfamily

Probab=99.41  E-value=1.2e-12  Score=107.75  Aligned_cols=110  Identities=17%  Similarity=0.197  Sum_probs=76.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCC-----------c------ccceeeEEEEEEEE--E---CCeEEEEEEeeCCCc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEK-----------T------GNTIGVDFSMKTVN--I---DGKKVKLQIWDTAGQ   80 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~-----------~------~pt~~~~~~~~~~~--~---~~~~~~l~i~D~~G~   80 (231)
                      +|+++|..++|||||+.+++...+...           +      ....+..+....+.  .   ++..+.+.+|||+|+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            689999999999999999987544321           0      11122222222222  2   356789999999999


Q ss_pred             cccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          81 ERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        81 ~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      .+|......++..+|++|+|+|.+   ++. ...|+..+..   .....++++||.|..
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~-~~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSN-TERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHH-HHHHHHHHHH---cCCCEEEEEECcccC
Confidence            999888888999999999999998   332 2344444332   235577899999975

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.40  E-value=4e-12  Score=115.00  Aligned_cols=112  Identities=21%  Similarity=0.163  Sum_probs=77.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh---------
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI---------   86 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~---------   86 (231)
                      ....+||+++|.++||||||++++++...  ...+..|. .+.....+..++.  .+.+|||+|..++...         
T Consensus       169 ~~~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt-~~~~~~~~~~~~~--~~~liDT~G~~~~~~~~~~~e~~~~  245 (429)
T TIGR03594       169 EDGPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTT-RDSIDIPFERNGK--KYLLIDTAGIRRKGKVTEGVEKYSV  245 (429)
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCce-ECcEeEEEEECCc--EEEEEECCCccccccchhhHHHHHH
Confidence            34569999999999999999999998653  23333333 2344445555653  6889999997544322         


Q ss_pred             --hhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          87 --TQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        87 --~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                        ...+++.+|++|+|+|.+   +.+... +...+.   ......++++||.|+.
T Consensus       246 ~~~~~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~---~~~~~iiiv~NK~Dl~  296 (429)
T TIGR03594       246 LRTLKAIERADVVLLVLDATEGITEQDLR-IAGLIL---EAGKALVIVVNKWDLV  296 (429)
T ss_pred             HHHHHHHHhCCEEEEEEECCCCccHHHHH-HHHHHH---HcCCcEEEEEECcccC
Confidence              134688999999999999   444432 333332   2345677899999987

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.

>cd01889 SelB_euk SelB subfamily

Probab=99.39  E-value=2.2e-12  Score=104.33  Aligned_cols=112  Identities=13%  Similarity=0.147  Sum_probs=71.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC----CCCCCc-----ccceeeEEEEEEEE----------ECCeEEEEEEeeCCCccc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG----DFVEKT-----GNTIGVDFSMKTVN----------IDGKKVKLQIWDTAGQER   82 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~----~f~~~~-----~pt~~~~~~~~~~~----------~~~~~~~l~i~D~~G~~~   82 (231)
                      ++|+++|+.++|||||+++|+..    .+...+     ..|++..+....+.          .+++.+.+.+|||+|+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            58999999999999999999972    222211     13444444433332          123467899999999876


Q ss_pred             cchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          83 FRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        83 ~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +..........+|++++|+|.+   .......|.  +....  ....++++||.|+..
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~~--~~~~iiv~NK~Dl~~  134 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV--IGEIL--CKKLIVVLNKIDLIP  134 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH--HHHHc--CCCEEEEEECcccCC
Confidence            4333233455679999999998   233333332  12222  335668999999863

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

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.38  E-value=3.5e-12  Score=119.25  Aligned_cols=117  Identities=14%  Similarity=0.116  Sum_probs=84.6

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ..+..+|+++|+.++|||||+++|.+.++...+.+.+..+.....+.+++. ..+.||||+|++.|..++..++..+|++
T Consensus        84 ~~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDia  162 (587)
T TIGR00487        84 VERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIV  162 (587)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEE
Confidence            346679999999999999999999998887655544433444445555432 2789999999999999999999999999


Q ss_pred             EEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          98 IIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        98 IlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |+|||.+ ..  .....+.+........+.++++||.|+..
T Consensus       163 ILVVda~dgv--~~qT~e~i~~~~~~~vPiIVviNKiDl~~  201 (587)
T TIGR00487       163 VLVVAADDGV--MPQTIEAISHAKAANVPIIVAINKIDKPE  201 (587)
T ss_pred             EEEEECCCCC--CHhHHHHHHHHHHcCCCEEEEEECccccc
Confidence            9999998 11  11112222222233455778999999864

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.38  E-value=2.1e-12  Score=123.80  Aligned_cols=114  Identities=18%  Similarity=0.114  Sum_probs=79.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceee--EEEEEEEEECCeEEEEEEeeCCCccc--------cchhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGV--DFSMKTVNIDGKKVKLQIWDTAGQER--------FRTIT   87 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~--~~~~~~~~~~~~~~~l~i~D~~G~~~--------~~~~~   87 (231)
                      .....+|+++|.++||||||++++++.+... ..++.|.  +........++  ..+.+|||+|.+.        +....
T Consensus       272 ~~~~~~V~IvG~~nvGKSSL~n~l~~~~~~i-v~~~pGvT~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~  348 (712)
T PRK09518        272 PKAVGVVAIVGRPNVGKSTLVNRILGRREAV-VEDTPGVTRDRVSYDAEWAG--TDFKLVDTGGWEADVEGIDSAIASQA  348 (712)
T ss_pred             cccCcEEEEECCCCCCHHHHHHHHhCCCcee-ecCCCCeeEEEEEEEEEECC--EEEEEEeCCCcCCCCccHHHHHHHHH
Confidence            3456789999999999999999999876421 2233333  33333333444  5688999999763        23344


Q ss_pred             hhcccCCcEEEEEEecC-cHhhHH-HHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          88 QSYYRSANGVIIEVTSV-EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit-Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ..+++.+|++|+|+|.+ .+.... .|...+++   ...+.++++||.|+..
T Consensus       349 ~~~~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~---~~~pvIlV~NK~D~~~  397 (712)
T PRK09518        349 QIAVSLADAVVFVVDGQVGLTSTDERIVRMLRR---AGKPVVLAVNKIDDQA  397 (712)
T ss_pred             HHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHh---cCCCEEEEEECccccc
Confidence            56788999999999998 555544 45555543   4567778999999864

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.38  E-value=4.4e-12  Score=121.84  Aligned_cols=147  Identities=15%  Similarity=0.079  Sum_probs=99.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh----------hhhc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI----------TQSY   90 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~----------~~~~   90 (231)
                      .++|+++|.+|||||||+|++++.+.  ...+..|.+...+...++....++++||++|...+...          ...+
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~--~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~   80 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQ--RVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCC--ccCCCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHH
Confidence            47999999999999999999997654  23344555555555455555678999999998765421          2234


Q ss_pred             c--cCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchh
Q psy5781          91 Y--RSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFG  166 (231)
Q Consensus        91 ~--~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~  166 (231)
                      +  ..+|++++|+|.++.++...|..++.+   ...+.+++.||.|+...+.........+...+.++..++.  ..|++
T Consensus        81 l~~~~aD~vI~VvDat~ler~l~l~~ql~e---~giPvIvVlNK~Dl~~~~~i~id~~~L~~~LG~pVvpiSA~~g~GId  157 (772)
T PRK09554         81 ILSGDADLLINVVDASNLERNLYLTLQLLE---LGIPCIVALNMLDIAEKQNIRIDIDALSARLGCPVIPLVSTRGRGIE  157 (772)
T ss_pred             HhccCCCEEEEEecCCcchhhHHHHHHHHH---cCCCEEEEEEchhhhhccCcHHHHHHHHHHhCCCEEEEEeecCCCHH
Confidence            3  479999999999966665556666544   3456779999999865433322333356667777666665  44566


Q ss_pred             hhhhhh
Q psy5781         167 HAFSTS  172 (231)
Q Consensus       167 e~f~~~  172 (231)
                      +.....
T Consensus       158 eL~~~I  163 (772)
T PRK09554        158 ALKLAI  163 (772)
T ss_pred             HHHHHH
Confidence            665554

>cd01895 EngA2 EngA2 subfamily

Probab=99.37  E-value=6.2e-12  Score=98.42  Aligned_cols=112  Identities=19%  Similarity=0.147  Sum_probs=72.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCC-CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc----------hh-hh
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVE-KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR----------TI-TQ   88 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~-~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~----------~~-~~   88 (231)
                      .+||+++|++|+|||||++++++..+.. ...+....+.....+..++.  .+.+||++|..+..          .. ..
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDGK--KYTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECCe--eEEEEECCCCccccchhccHHHHHHHHHH
Confidence            5799999999999999999999875421 11222222333344455553  47899999964321          11 12


Q ss_pred             hcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          89 SYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        89 ~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .++..+|++++|+|.+   +.... .+...+.   ......++++||.|+...
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~-~~~~~~~---~~~~~~iiv~nK~Dl~~~  128 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDL-RIAGLIL---EEGKALVIVVNKWDLVEK  128 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHH-HHHHHHH---hcCCCEEEEEeccccCCc
Confidence            3567899999999998   44333 2222222   234566789999998754

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=99.35  E-value=9.1e-12  Score=96.53  Aligned_cols=111  Identities=11%  Similarity=0.029  Sum_probs=72.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCC--cccceeeEEEEEEEEECCeEEEEEEeeCCCccccch--------hhhhc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEK--TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT--------ITQSY   90 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~--~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~--------~~~~~   90 (231)
                      ..+|+++|.+|+|||||++++++..+...  ...+..  ..... ........+.+||++|......        ....+
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~--~~~~~-~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   79 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTR--NRIRG-IYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSA   79 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCcee--ceEEE-EEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHH
Confidence            57899999999999999999998764321  112221  11111 2223347889999999754322        23456


Q ss_pred             ccCCcEEEEEEecC-cHhhHH-HHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          91 YRSANGVIIEVTSV-EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        91 ~~~ad~vIlV~dit-Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +..+|++++|+|.+ .+.... .+...+.+.   .....+++||.|+..
T Consensus        80 ~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~~---~~~~iiv~nK~Dl~~  125 (168)
T cd04163          80 LKDVDLVLFVVDASEPIGEGDEFILELLKKS---KTPVILVLNKIDLVK  125 (168)
T ss_pred             HHhCCEEEEEEECCCccCchHHHHHHHHHHh---CCCEEEEEEchhccc
Confidence            88999999999999 434433 333334332   345678899999874

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.35  E-value=2e-11  Score=109.90  Aligned_cols=146  Identities=9%  Similarity=0.015  Sum_probs=91.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC-CCCccc-ceeeEEEEEEEEECCeEEEEEEeeCCCcc----ccchhhhhc---cc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGN-TIGVDFSMKTVNIDGKKVKLQIWDTAGQE----RFRTITQSY---YR   92 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~p-t~~~~~~~~~~~~~~~~~~l~i~D~~G~~----~~~~~~~~~---~~   92 (231)
                      ..|+++|.++|||||||+++++.+. ...|.- |..  ...-.+.+++ ...+.|||++|..    +...+...|   +.
T Consensus       159 adVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~--PnlG~v~~~~-~~~~~laD~PGliega~~~~gLg~~fLrhie  235 (424)
T PRK12297        159 ADVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLV--PNLGVVETDD-GRSFVMADIPGLIEGASEGVGLGHQFLRHIE  235 (424)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHcCCCccccCCcceec--eEEEEEEEeC-CceEEEEECCCCcccccccchHHHHHHHHHh
Confidence            3899999999999999999997652 122322 222  1112333331 3568999999963    222343444   44


Q ss_pred             CCcEEEEEEecC------cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--c
Q psy5781          93 SANGVIIEVTSV------EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--C  162 (231)
Q Consensus        93 ~ad~vIlV~dit------Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~  162 (231)
                      +++++|+|+|++      +++++..|.+++..+.+  ..++.++++||.|+..... ..  .......+..+..++.  .
T Consensus       236 r~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~~e-~l--~~l~~~l~~~i~~iSA~tg  312 (424)
T PRK12297        236 RTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEAEE-NL--EEFKEKLGPKVFPISALTG  312 (424)
T ss_pred             hCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCCHH-HH--HHHHHHhCCcEEEEeCCCC
Confidence            699999999995      56777889999988754  3566779999999854211 01  1112222233444443  5


Q ss_pred             cchhhhhhhhc
Q psy5781         163 LKFGHAFSTSL  173 (231)
Q Consensus       163 ~nv~e~f~~~~  173 (231)
                      .++++.+...+
T Consensus       313 eGI~eL~~~L~  323 (424)
T PRK12297        313 QGLDELLYAVA  323 (424)
T ss_pred             CCHHHHHHHHH
Confidence            56777666544

>PRK10218 GTP-binding protein; Provisional

Probab=99.33  E-value=1.3e-11  Score=115.72  Aligned_cols=117  Identities=20%  Similarity=0.243  Sum_probs=87.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc--CCCCCCc------------ccceeeEEEEEEEEECCeEEEEEEeeCCCccccch
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS--GDFVEKT------------GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT   85 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~--~~f~~~~------------~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~   85 (231)
                      ...+|+++|..++|||||+.+|+.  +.|...+            ..+.|+++..+...++.+.++++||||+|+.+|..
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~   83 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGG   83 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHH
Confidence            467899999999999999999996  4443322            24556666666666666679999999999999999


Q ss_pred             hhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          86 ITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        86 ~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      .+..+++.+|++|+|+|.+  -......++..+..   .....+++.||.|....+
T Consensus        84 ~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~---~gip~IVviNKiD~~~a~  136 (607)
T PRK10218         84 EVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFA---YGLKPIVVINKVDRPGAR  136 (607)
T ss_pred             HHHHHHHhCCEEEEEEecccCccHHHHHHHHHHHH---cCCCEEEEEECcCCCCCc
Confidence            9999999999999999998  22223333333322   233446889999987543

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.33  E-value=5.1e-12  Score=114.34  Aligned_cols=110  Identities=16%  Similarity=0.147  Sum_probs=74.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc--------cccchhhhhccc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ--------ERFRTITQSYYR   92 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~--------~~~~~~~~~~~~   92 (231)
                      ||+++|.+|||||||++++++++.  ..++.. +..+.....+..++  ..+.||||+|.        +.+......+++
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g-~t~d~~~~~~~~~~--~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~   77 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPG-VTRDRKYGDAEWGG--REFILIDTGGIEEDDDGLDKQIREQAEIAIE   77 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCC-cccCceEEEEEECC--eEEEEEECCCCCCcchhHHHHHHHHHHHHHh
Confidence            589999999999999999998763  223322 22234444555665  46899999996        344455667889


Q ss_pred             CCcEEEEEEecC-cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          93 SANGVIIEVTSV-EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        93 ~ad~vIlV~dit-Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .+|++++|+|.+ .+.... .+.+.+++   ..++.++++||.|+...
T Consensus        78 ~ad~vl~vvD~~~~~~~~d~~i~~~l~~---~~~piilVvNK~D~~~~  122 (429)
T TIGR03594        78 EADVILFVVDGREGLTPEDEEIAKWLRK---SGKPVILVANKIDGKKE  122 (429)
T ss_pred             hCCEEEEEEeCCCCCCHHHHHHHHHHHH---hCCCEEEEEECccCCcc
Confidence            999999999998 222222 22222332   24557789999998654

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.32  E-value=1.5e-11  Score=117.88  Aligned_cols=117  Identities=15%  Similarity=0.115  Sum_probs=84.6

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ..+...|+++|..++|||||+++|....+.....+.+..+.....+.+++  ..++||||+|++.|..++..+++.+|++
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDia  364 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDIV  364 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCEE
Confidence            55778999999999999999999998777654444333233333455554  6789999999999999999999999999


Q ss_pred             EEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          98 IIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        98 IlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |||||.+.- ....+.+.+........+.++++||.|+..
T Consensus       365 ILVVdAddG-v~~qT~e~i~~a~~~~vPiIVviNKiDl~~  403 (787)
T PRK05306        365 VLVVAADDG-VMPQTIEAINHAKAAGVPIIVAINKIDKPG  403 (787)
T ss_pred             EEEEECCCC-CCHhHHHHHHHHHhcCCcEEEEEECccccc
Confidence            999999810 011222233333333455778999999865

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.32  E-value=1.2e-11  Score=112.94  Aligned_cols=150  Identities=9%  Similarity=0.018  Sum_probs=91.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc----ccchh---hhhccc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE----RFRTI---TQSYYR   92 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~----~~~~~---~~~~~~   92 (231)
                      ..+|++||.++||||||++++...+. ..+|.-|. .......+.+++  ..+.|||++|.-    +...+   .-.++.
T Consensus       159 ~adV~LVG~PNAGKSTLln~Ls~akpkIadypfTT-l~P~lGvv~~~~--~~f~laDtPGliegas~g~gLg~~fLrhie  235 (500)
T PRK12296        159 VADVGLVGFPSAGKSSLISALSAAKPKIADYPFTT-LVPNLGVVQAGD--TRFTVADVPGLIPGASEGKGLGLDFLRHIE  235 (500)
T ss_pred             cceEEEEEcCCCCHHHHHHHHhcCCccccccCccc-ccceEEEEEECC--eEEEEEECCCCccccchhhHHHHHHHHHHH
Confidence            45899999999999999999997643 22333222 122333445554  578999999952    11112   122467


Q ss_pred             CCcEEEEEEecC-------cHhhHHHHHHHHHHhcC-----------CcceeeecccccCCCCCccccccchhhhhhcCC
Q psy5781          93 SANGVIIEVTSV-------EYCYQRNWHKQAVTLFD-----------KYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAM  154 (231)
Q Consensus        93 ~ad~vIlV~dit-------Sf~~l~~w~~~i~~~~~-----------~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~  154 (231)
                      +++++|+|+|++       .++++..|..+|..+..           ..++.++++||.|+.................+.
T Consensus       236 radvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~e~l~~~l~~~g~  315 (500)
T PRK12296        236 RCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELAEFVRPELEARGW  315 (500)
T ss_pred             hcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHHHHHHHHHHHcCC
Confidence            899999999997       23456677778776653           346678999999997543211000001122244


Q ss_pred             Ccccccc--ccchhhhhhhhc
Q psy5781         155 PFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       155 ~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ++..++.  ..++++.+...+
T Consensus       316 ~Vf~ISA~tgeGLdEL~~~L~  336 (500)
T PRK12296        316 PVFEVSAASREGLRELSFALA  336 (500)
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            4555554  456666655543

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.32  E-value=8.1e-12  Score=104.64  Aligned_cols=112  Identities=14%  Similarity=0.158  Sum_probs=76.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCC-------------CCcc---cceeeEEEEEEEEECCeEEEEEEeeCCCccccchh
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFV-------------EKTG---NTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI   86 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~-------------~~~~---pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~   86 (231)
                      +|+++|..|+|||||+++++...-.             .++.   ...+.........++.+.+++++|||+|+.+|...
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~   80 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAE   80 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHH
Confidence            4899999999999999999853110             0111   11122222233333334578999999999999888


Q ss_pred             hhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          87 TQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        87 ~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ...+++.+|++++|+|.+  --.....|+..+.+.   ..+.+++.||.|+..
T Consensus        81 ~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~---~~P~iivvNK~D~~~  130 (237)
T cd04168          81 VERSLSVLDGAILVISAVEGVQAQTRILWRLLRKL---NIPTIIFVNKIDRAG  130 (237)
T ss_pred             HHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHc---CCCEEEEEECccccC
Confidence            889999999999999999  222334555554432   344568999999875

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.30  E-value=1.9e-11  Score=117.20  Aligned_cols=111  Identities=21%  Similarity=0.211  Sum_probs=79.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc----------cchhh
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER----------FRTIT   87 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----------~~~~~   87 (231)
                      ..+||+++|.+|||||||++++++.+.  ..++.+|. .+.....+.+++..  +.+|||+|..+          |..+.
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT-~d~~~~~~~~~~~~--~~liDTaG~~~~~~~~~~~e~~~~~r  525 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTT-RDPVDEIVEIDGED--WLFIDTAGIKRRQHKLTGAEYYSSLR  525 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCC-cCcceeEEEECCCE--EEEEECCCcccCcccchhHHHHHHHH
Confidence            458999999999999999999998864  34444444 35555666777754  56999999532          22221


Q ss_pred             -hhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          88 -QSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        88 -~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                       ..+++.+|++++|+|.+   +++.+..| ..+.   ....+.++++||.|+..
T Consensus       526 ~~~~i~~advvilViDat~~~s~~~~~i~-~~~~---~~~~piIiV~NK~DL~~  575 (712)
T PRK09518        526 TQAAIERSELALFLFDASQPISEQDLKVM-SMAV---DAGRALVLVFNKWDLMD  575 (712)
T ss_pred             HHHHhhcCCEEEEEEECCCCCCHHHHHHH-HHHH---HcCCCEEEEEEchhcCC
Confidence             34578999999999999   66665433 3332   23567789999999865

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.30  E-value=2.4e-11  Score=113.88  Aligned_cols=113  Identities=12%  Similarity=0.120  Sum_probs=83.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc---CCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS---GDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~---~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      +.|+++|..++|||||+++|.+   +.+.+++.+++..+.....+..++  ..+.|||++|+++|......++.++|+++
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aI   78 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAAL   78 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEE
Confidence            4689999999999999999996   455566666666666656666665  78999999999999888888899999999


Q ss_pred             EEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          99 IEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        99 lV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +|+|++  ......+.+..+.. . +.+..++++||.|+...
T Consensus        79 LVVDa~~G~~~qT~ehl~il~~-l-gi~~iIVVlNK~Dlv~~  118 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHLAVLDL-L-GIPHTIVVITKADRVNE  118 (581)
T ss_pred             EEEECCCCCcHHHHHHHHHHHH-c-CCCeEEEEEECCCCCCH
Confidence            999998  11222222222222 1 22336789999998653

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.

>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=1.4e-11  Score=96.42  Aligned_cols=142  Identities=10%  Similarity=0.070  Sum_probs=88.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc------cchhhhhcc--c
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER------FRTITQSYY--R   92 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~------~~~~~~~~~--~   92 (231)
                      ++|+++|.++||||||+|++++.+.. .++ |-...+.....+.+++  ..+.+.|+||.-.      -..+...|+  .
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~-pG~Tv~~~~g~~~~~~--~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~   77 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNW-PGTTVEKKEGIFKLGD--QQVELVDLPGIYSLSSKSEEERVARDYLLSE   77 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEES-TTSSSEEEEEEEEETT--EEEEEEE----SSSSSSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCC-CCCCeeeeeEEEEecC--ceEEEEECCCcccCCCCCcHHHHHHHHHhhc
Confidence            68999999999999999999987642 233 3222345555667766  6789999999432      123344454  5


Q ss_pred             CCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhh
Q psy5781          93 SANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        93 ~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      +.|++|.|.|.+.+++-.....++.   +-..+.+++.|+.|.-....-.......++..+.++.-+..  ..++++..
T Consensus        78 ~~D~ii~VvDa~~l~r~l~l~~ql~---e~g~P~vvvlN~~D~a~~~g~~id~~~Ls~~Lg~pvi~~sa~~~~g~~~L~  153 (156)
T PF02421_consen   78 KPDLIIVVVDATNLERNLYLTLQLL---ELGIPVVVVLNKMDEAERKGIEIDAEKLSERLGVPVIPVSARTGEGIDELK  153 (156)
T ss_dssp             SSSEEEEEEEGGGHHHHHHHHHHHH---HTTSSEEEEEETHHHHHHTTEEE-HHHHHHHHTS-EEEEBTTTTBTHHHHH
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHH---HcCCCEEEEEeCHHHHHHcCCEECHHHHHHHhCCCEEEEEeCCCcCHHHHH
Confidence            8999999999995443333333333   34466778899988766554444444467777766666555  44455543

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 ....

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.30  E-value=1.5e-11  Score=117.02  Aligned_cols=117  Identities=13%  Similarity=0.103  Sum_probs=85.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccce--eeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTI--GVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~--~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      ..+..+|+++|..++|||||++++....+.....+.+  ....+...+..++....+.||||+|++.|..++..+++.+|
T Consensus       241 ~~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aD  320 (742)
T CHL00189        241 INRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTD  320 (742)
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCC
Confidence            3466799999999999999999999887765433222  22233334444455689999999999999999999999999


Q ss_pred             EEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          96 GVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        96 ~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ++|||+|.+   ..+..+.|    ........+.++++||.|+...
T Consensus       321 iaILVVDA~dGv~~QT~E~I----~~~k~~~iPiIVViNKiDl~~~  362 (742)
T CHL00189        321 IAILIIAADDGVKPQTIEAI----NYIQAANVPIIVAINKIDKANA  362 (742)
T ss_pred             EEEEEEECcCCCChhhHHHH----HHHHhcCceEEEEEECCCcccc
Confidence            999999998   22222222    2222334567789999998753

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.30  E-value=1.8e-11  Score=115.00  Aligned_cols=116  Identities=16%  Similarity=0.182  Sum_probs=83.1

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC--CCC-----CCc------ccceeeEEEEEEEEE-----CCeEEEEEEeeCCCc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG--DFV-----EKT------GNTIGVDFSMKTVNI-----DGKKVKLQIWDTAGQ   80 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~-----~~~------~pt~~~~~~~~~~~~-----~~~~~~l~i~D~~G~   80 (231)
                      .+.-+|+++|..++|||||+.+|+..  .+.     ..+      ..+.|+++....+.+     +++.+.++||||+|+
T Consensus         5 ~~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh   84 (600)
T PRK05433          5 KNIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGH   84 (600)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCc
Confidence            45568999999999999999999863  111     111      122233333322222     566899999999999


Q ss_pred             cccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          81 ERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        81 ~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .+|...+..+++.+|++|+|+|.+   ..+....|.....    .....++++||.|+...
T Consensus        85 ~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~----~~lpiIvViNKiDl~~a  141 (600)
T PRK05433         85 VDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE----NDLEIIPVLNKIDLPAA  141 (600)
T ss_pred             HHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEEEECCCCCcc
Confidence            999998999999999999999998   5555556654332    23446789999998653

>cd04169 RF3 RF3 subfamily

Probab=99.28  E-value=3.1e-11  Score=102.85  Aligned_cols=114  Identities=12%  Similarity=0.123  Sum_probs=75.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCC-CC----------------CCccc---ceeeEEEEEEEEECCeEEEEEEeeCCCcc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGD-FV----------------EKTGN---TIGVDFSMKTVNIDGKKVKLQIWDTAGQE   81 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~-f~----------------~~~~p---t~~~~~~~~~~~~~~~~~~l~i~D~~G~~   81 (231)
                      -+|+++|..|+|||||+++++... ..                .++.+   .-+.........++.+.+++++|||+|+.
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~   82 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHE   82 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCch
Confidence            469999999999999999998421 00                11111   01122233333444456899999999999


Q ss_pred             ccchhhhhcccCCcEEEEEEecC-cH-hhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          82 RFRTITQSYYRSANGVIIEVTSV-EY-CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        82 ~~~~~~~~~~~~ad~vIlV~dit-Sf-~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +|......+++.+|++|+|+|.+ .. .....|++....   ...+.++++||.|....
T Consensus        83 df~~~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~---~~~P~iivvNK~D~~~a  138 (267)
T cd04169          83 DFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRL---RGIPIITFINKLDREGR  138 (267)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHh---cCCCEEEEEECCccCCC
Confidence            88877777889999999999998 22 222334333322   23456788999997654

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.

>KOG0072|consensus

Probab=99.28  E-value=1.8e-12  Score=98.31  Aligned_cols=115  Identities=26%  Similarity=0.402  Sum_probs=90.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      .++..+|+++|..|+|||+++.++--++... ..||+|  |.+.++.+  ++.++++||.+|+...+.+|+.||.+.|++
T Consensus        15 ~e~e~rililgldGaGkttIlyrlqvgevvt-tkPtig--fnve~v~y--KNLk~~vwdLggqtSirPyWRcYy~dt~av   89 (182)
T KOG0072|consen   15 PEREMRILILGLDGAGKTTILYRLQVGEVVT-TKPTIG--FNVETVPY--KNLKFQVWDLGGQTSIRPYWRCYYADTDAV   89 (182)
T ss_pred             CccceEEEEeeccCCCeeEEEEEcccCcccc-cCCCCC--cCcccccc--ccccceeeEccCcccccHHHHHHhcccceE
Confidence            3477899999999999999999998777544 679998  66566666  558999999999999999999999999999


Q ss_pred             EEEEecCcHhhHHHHHHHHHHhcCCc----ceeeecccccCCCC
Q psy5781          98 IIEVTSVEYCYQRNWHKQAVTLFDKY----KFGHAFSTSLAMPQ  137 (231)
Q Consensus        98 IlV~ditSf~~l~~w~~~i~~~~~~~----~~~~vv~~k~dl~~  137 (231)
                      |+|.|.+..+++..-..++...+.+.    ....++.||-|...
T Consensus        90 IyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~  133 (182)
T KOG0072|consen   90 IYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSG  133 (182)
T ss_pred             EEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchh
Confidence            99999996666654444444444332    44556677777665

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.27  E-value=2e-11  Score=94.88  Aligned_cols=106  Identities=16%  Similarity=0.267  Sum_probs=72.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc----------ccchhhhhccc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE----------RFRTITQSYYR   92 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~----------~~~~~~~~~~~   92 (231)
                      +|+++|++|+|||||++.++++.+.....++.+.+.....+..++   .+.+||++|..          .+......|+.
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~   77 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLE   77 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHH
Confidence            489999999999999999998777777777777555544444443   78999999832          34444455554


Q ss_pred             ---CCcEEEEEEecC-cH----hhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          93 ---SANGVIIEVTSV-EY----CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        93 ---~ad~vIlV~dit-Sf----~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                         ..+++++++|.+ ..    ..+..|+...      ..+..++.||.|+..
T Consensus        78 ~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~------~~~vi~v~nK~D~~~  124 (170)
T cd01876          78 NRENLKGVVLLIDSRHGPTEIDLEMLDWLEEL------GIPFLVVLTKADKLK  124 (170)
T ss_pred             hChhhhEEEEEEEcCcCCCHhHHHHHHHHHHc------CCCEEEEEEchhcCC
Confidence               356889999998 21    2223444332      244567889988853

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.

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

Probab=99.27  E-value=1.6e-11  Score=114.82  Aligned_cols=111  Identities=19%  Similarity=0.098  Sum_probs=75.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCC----cccceeeEEEEEEEE------------ECCeEEEEEEeeCCCccccchh
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEK----TGNTIGVDFSMKTVN------------IDGKKVKLQIWDTAGQERFRTI   86 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~----~~pt~~~~~~~~~~~------------~~~~~~~l~i~D~~G~~~~~~~   86 (231)
                      -|+++|..++|||||++++.+..+...    +.+++|..+......            ++.....+.||||+|++.|..+
T Consensus         6 iV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~l   85 (590)
T TIGR00491         6 IVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTNL   85 (590)
T ss_pred             EEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHHH
Confidence            599999999999999999998877543    334455333211110            0001123889999999999999


Q ss_pred             hhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          87 TQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        87 ~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +..+++.+|++++|||++   +.+....+ ..++   ....+.++++||.|+..
T Consensus        86 ~~~~~~~aD~~IlVvD~~~g~~~qt~e~i-~~l~---~~~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        86 RKRGGALADLAILIVDINEGFKPQTQEAL-NILR---MYKTPFVVAANKIDRIP  135 (590)
T ss_pred             HHHHHhhCCEEEEEEECCcCCCHhHHHHH-HHHH---HcCCCEEEEEECCCccc
Confidence            999999999999999998   22222211 1222   12345678999999863

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.

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.24  E-value=2.4e-11  Score=90.45  Aligned_cols=87  Identities=23%  Similarity=0.087  Sum_probs=66.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcc-cceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTG-NTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~-pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      +||+++|+.|||||+|+.||....|...+. +|++                           +..+...+++.++++++|
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v   53 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQC   53 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEE
Confidence            599999999999999999998888865554 5544                           444557788899999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |+.+   +++.+  |...+......+....++++|.|+..
T Consensus        54 ~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~   91 (124)
T smart00010       54 WRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEE   91 (124)
T ss_pred             EEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHh
Confidence            9999   55554  88877665555555667778887744

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.23  E-value=5.8e-11  Score=96.64  Aligned_cols=113  Identities=17%  Similarity=0.211  Sum_probs=70.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceee-EEEEEEEEEC-CeEEEEEEeeCCCccccchh-----hhhcccC
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGV-DFSMKTVNID-GKKVKLQIWDTAGQERFRTI-----TQSYYRS   93 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~-~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~-----~~~~~~~   93 (231)
                      .+||+++|++|||||||+|.+++..+.....++.+. +.......+. .....+.+||++|.......     ....+.+
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~   80 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGIGSTAFPPDDYLEEMKFSE   80 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCCCcccCCHHHHHHHhCccC
Confidence            379999999999999999999986654433333331 1110111111 11236899999997543222     2233677


Q ss_pred             CcEEEEEEecCcHhhHH-HHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          94 ANGVIIEVTSVEYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        94 ad~vIlV~ditSf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +|++++|.| ..|...+ .|++.+.+.   ....++++||.|...
T Consensus        81 ~d~~l~v~~-~~~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~  121 (197)
T cd04104          81 YDFFIIISS-TRFSSNDVKLAKAIQCM---GKKFYFVRTKVDRDL  121 (197)
T ss_pred             cCEEEEEeC-CCCCHHHHHHHHHHHHh---CCCEEEEEecccchh
Confidence            899888843 3555554 566666554   234578999999843

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

>KOG0076|consensus

Probab=99.23  E-value=1.2e-11  Score=96.75  Aligned_cols=116  Identities=18%  Similarity=0.310  Sum_probs=81.8

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC---C----CCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG---D----FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSY   90 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~---~----f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~   90 (231)
                      ....|.|+++|..++|||+|+.+.-..   .    -+.+..||+|.+  ..++.++  ...+.+||.+||+..+++|..|
T Consensus        14 ~Ke~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLn--ig~i~v~--~~~l~fwdlgGQe~lrSlw~~y   89 (197)
T KOG0076|consen   14 KKEDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLN--IGTIEVC--NAPLSFWDLGGQESLRSLWKKY   89 (197)
T ss_pred             hhhhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeeccccee--ecceeec--cceeEEEEcCChHHHHHHHHHH
Confidence            445688999999999999999776432   1    134566888844  4466665  4679999999999999999999


Q ss_pred             ccCCcEEEEEEecCcHhhHHHHHHHHHHhcC----CcceeeecccccCCCC
Q psy5781          91 YRSANGVIIEVTSVEYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        91 ~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~  137 (231)
                      |..++++|+++|.+.-+++++-...+++...    ...+.++.+||-|+..
T Consensus        90 Y~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~  140 (197)
T KOG0076|consen   90 YWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQN  140 (197)
T ss_pred             HHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhh
Confidence            9999999999999944444433333333322    2333445556655544

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

Probab=99.22  E-value=7.4e-11  Score=106.88  Aligned_cols=118  Identities=15%  Similarity=0.148  Sum_probs=78.1

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHc--CCCCC-----------------------------CcccceeeEEEEEEEEE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRS--GDFVE-----------------------------KTGNTIGVDFSMKTVNI   65 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~--~~f~~-----------------------------~~~pt~~~~~~~~~~~~   65 (231)
                      .....++|+++|..++|||||+.+++.  +....                             +....+..+.....+  
T Consensus         3 ~~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~--   80 (426)
T TIGR00483         3 KEKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKF--   80 (426)
T ss_pred             CCCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEE--
Confidence            345679999999999999999999985  22211                             111223333333333  


Q ss_pred             CCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHhhHHHHHHH--HHHhcCCcceeeecccccCCCC
Q psy5781          66 DGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQ--AVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        66 ~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~--i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ....+.+.|||++|+++|.......+..+|++|+|+|.+  .++....+...  +.+... .+..++++||.|+..
T Consensus        81 ~~~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~-~~~iIVviNK~Dl~~  155 (426)
T TIGR00483        81 ETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTLG-INQLIVAINKMDSVN  155 (426)
T ss_pred             ccCCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHcC-CCeEEEEEEChhccC
Confidence            334578999999999988766566778999999999999  33322222222  223332 345668999999863

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=99.21  E-value=7e-11  Score=110.78  Aligned_cols=113  Identities=21%  Similarity=0.259  Sum_probs=83.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc--CCCCCCc------------ccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhh
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS--GDFVEKT------------GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQ   88 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~--~~f~~~~------------~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~   88 (231)
                      +|+++|..++|||||+.+++.  +.+....            ....|++...+...++.+.++++||||+|+.+|.....
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~   82 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVE   82 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHHH
Confidence            799999999999999999986  4443211            12223344444444444558999999999999998889


Q ss_pred             hcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          89 SYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        89 ~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .+++.+|+++||+|.+  .......|+..+...   ..+.+++.||.|+...
T Consensus        83 ~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~---~ip~IVviNKiD~~~a  131 (594)
T TIGR01394        83 RVLGMVDGVLLLVDASEGPMPQTRFVLKKALEL---GLKPIVVINKIDRPSA  131 (594)
T ss_pred             HHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHC---CCCEEEEEECCCCCCc
Confidence            9999999999999998  455556666666542   2345789999998654

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.

>cd00880 Era_like Era (E

Probab=99.21  E-value=1.1e-10  Score=89.30  Aligned_cols=110  Identities=10%  Similarity=0.056  Sum_probs=70.4

Q ss_pred             EEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch-------hhhhcccCCcEE
Q psy5781          26 LIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT-------ITQSYYRSANGV   97 (231)
Q Consensus        26 vlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~-------~~~~~~~~ad~v   97 (231)
                      ++|..|+|||||++++++.... ....+.............+. ...+.+||++|......       ....+++.+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGP-LGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecC-CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            5899999999999999976544 21222111122222223221 46899999999876543       334578899999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      ++|+|.+   +..... |....   .......+++.||.|+.....
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~---~~~~~~~ivv~nK~D~~~~~~  121 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELL---RERGKPVLLVLNKIDLLPEEE  121 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHH---HhcCCeEEEEEEccccCChhh
Confidence            9999999   222222 23222   234555778999999876543

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

>PRK00089 era GTPase Era; Reviewed

Probab=99.20  E-value=1.4e-10  Score=99.84  Aligned_cols=113  Identities=11%  Similarity=0.091  Sum_probs=72.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCC--CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc--------hhhhh
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVE--KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR--------TITQS   89 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~--~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~--------~~~~~   89 (231)
                      +.-.|+++|.+|||||||++++++..+..  ....|..  .....+... ....+.+|||+|.....        .....
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~--~~i~~i~~~-~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~   80 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTR--HRIRGIVTE-DDAQIIFVDTPGIHKPKRALNRAMNKAAWS   80 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCccc--ccEEEEEEc-CCceEEEEECCCCCCchhHHHHHHHHHHHH
Confidence            34569999999999999999999876532  1222222  111122222 23679999999964322        22344


Q ss_pred             cccCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          90 YYRSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        90 ~~~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+..+|++++|+|++ .+.....++.....  ....+.++++||.|+..
T Consensus        81 ~~~~~D~il~vvd~~~~~~~~~~~i~~~l~--~~~~pvilVlNKiDl~~  127 (292)
T PRK00089         81 SLKDVDLVLFVVDADEKIGPGDEFILEKLK--KVKTPVILVLNKIDLVK  127 (292)
T ss_pred             HHhcCCEEEEEEeCCCCCChhHHHHHHHHh--hcCCCEEEEEECCcCCC
Confidence            678999999999999 44444433333222  22456678899999974

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.19  E-value=7.3e-11  Score=97.91  Aligned_cols=108  Identities=17%  Similarity=0.193  Sum_probs=73.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC--CCC----------------cccceeeEEEEEEEEE--------CCeEEEEEEee
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF--VEK----------------TGNTIGVDFSMKTVNI--------DGKKVKLQIWD   76 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f--~~~----------------~~pt~~~~~~~~~~~~--------~~~~~~l~i~D   76 (231)
                      +|+++|..+.|||||+.+++...-  ...                ...|+.  .....+..        +++.+.+.|||
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~--~~~~~~~~~~~~~~~~~~~~~~i~iiD   79 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMK--SSAISLYFEYEEEDKADGNEYLINLID   79 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccc--cceEEEEEecCcccccCCCceEEEEEC
Confidence            689999999999999999985321  100                001111  11111222        24578999999


Q ss_pred             CCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          77 TAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        77 ~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      |+|+.+|......+++.+|++|+|||++   +.+.    ...++.........++++||.|+.
T Consensus        80 TPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t----~~~l~~~~~~~~p~ilviNKiD~~  138 (222)
T cd01885          80 SPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQT----ETVLRQALKERVKPVLVINKIDRL  138 (222)
T ss_pred             CCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHH----HHHHHHHHHcCCCEEEEEECCCcc
Confidence            9999999999999999999999999999   3332    222222222334577899999976

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

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=99.17  E-value=4.4e-10  Score=83.40  Aligned_cols=102  Identities=19%  Similarity=0.215  Sum_probs=63.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc----------cchhhhhc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER----------FRTITQSY   90 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----------~~~~~~~~   90 (231)
                      ||+++|.+|+|||||++.+++...  .....++.. ......+.+++..  +.++||+|-..          +...... 
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~-~~~~~~~~~~~~~--~~~vDtpG~~~~~~~~~~~~~~~~~~~~-   76 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTR-DPVYGQFEYNNKK--FILVDTPGINDGESQDNDGKEIRKFLEQ-   76 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSS-SEEEEEEEETTEE--EEEEESSSCSSSSHHHHHHHHHHHHHHH-
T ss_pred             CEEEECCCCCCHHHHHHHHhcccccccccccccee-eeeeeeeeeceee--EEEEeCCCCcccchhhHHHHHHHHHHHH-
Confidence            799999999999999999997543  222333332 1222445566644  46999999532          1123333 


Q ss_pred             ccCCcEEEEEEecCc--HhhHHHHHHHHHHhcCCcceeeecccc
Q psy5781          91 YRSANGVIIEVTSVE--YCYQRNWHKQAVTLFDKYKFGHAFSTS  132 (231)
Q Consensus        91 ~~~ad~vIlV~ditS--f~~l~~w~~~i~~~~~~~~~~~vv~~k  132 (231)
                      +..+|++++|+|.+.  -+.....+++++    ..+..+++.||
T Consensus        77 ~~~~d~ii~vv~~~~~~~~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   77 ISKSDLIIYVVDASNPITEDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             HCTESEEEEEEETTSHSHHHHHHHHHHHH----TTSEEEEEEES
T ss_pred             HHHCCEEEEEEECCCCCCHHHHHHHHHHh----cCCCEEEEEcC
Confidence            489999999999773  122334444441    44445555554

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 ....

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.17  E-value=3.6e-10  Score=89.31  Aligned_cols=119  Identities=23%  Similarity=0.286  Sum_probs=86.2

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCC--------CCc----ccceeeEEEEEEEEECCeEEEEEEeeCCCccccc
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFV--------EKT----GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR   84 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~--------~~~----~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~   84 (231)
                      ...+..||+|.|+-++|||++++++.+....        ..+    .-|+.+|+.  ...+++ ...++++|||||++|+
T Consensus         6 ~k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g--~~~~~~-~~~v~LfgtPGq~RF~   82 (187)
T COG2229           6 NKMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFG--SIELDE-DTGVHLFGTPGQERFK   82 (187)
T ss_pred             ccccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeeccc--ceEEcC-cceEEEecCCCcHHHH
Confidence            3557789999999999999999999877631        111    235565665  333333 3679999999999999


Q ss_pred             hhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccc
Q psy5781          85 TITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPC  141 (231)
Q Consensus        85 ~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~  141 (231)
                      -+|..+.+.+.++|++.|.+   .+ .....+.-+.....  .+..+..||.|+....+-
T Consensus        83 fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~~--ip~vVa~NK~DL~~a~pp  139 (187)
T COG2229          83 FMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRNP--IPVVVAINKQDLFDALPP  139 (187)
T ss_pred             HHHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhccC--CCEEEEeeccccCCCCCH
Confidence            99999999999999999999   55 22333333322211  445677899999987764

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.16  E-value=2e-10  Score=94.31  Aligned_cols=111  Identities=16%  Similarity=0.178  Sum_probs=69.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC-CC------------------------------CcccceeeEEEEEEEEECCeEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF-VE------------------------------KTGNTIGVDFSMKTVNIDGKKVK   71 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f-~~------------------------------~~~pt~~~~~~~~~~~~~~~~~~   71 (231)
                      ||+++|..++|||||+++++...- ..                              +..+.+..+.....+..+  ...
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~--~~~   78 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTP--KRK   78 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecC--Cce
Confidence            689999999999999999975321 11                              000111112222223333  357


Q ss_pred             EEEeeCCCccccchhhhhcccCCcEEEEEEecC-cH-hhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          72 LQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-EY-CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        72 l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-Sf-~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +.||||+|+++|.......++.+|++|+|+|.+ .. +........+ +... .+..+++.||.|+..
T Consensus        79 ~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~-~~~~-~~~iIvviNK~D~~~  144 (208)
T cd04166          79 FIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTRRHSYIL-SLLG-IRHVVVAVNKMDLVD  144 (208)
T ss_pred             EEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHHH-HHcC-CCcEEEEEEchhccc
Confidence            889999999987665666789999999999998 22 2222222222 2221 233556899999864

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.15  E-value=4.1e-10  Score=102.16  Aligned_cols=112  Identities=21%  Similarity=0.190  Sum_probs=73.6

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch----------h
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT----------I   86 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~----------~   86 (231)
                      ...+||+++|.+|||||||++++++...  ......|. .+.....+..++  ..+.+|||+|..+...          .
T Consensus       171 ~~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt-~~~~~~~~~~~~--~~~~lvDT~G~~~~~~~~~~~e~~~~~  247 (435)
T PRK00093        171 DEPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTT-RDSIDTPFERDG--QKYTLIDTAGIRRKGKVTEGVEKYSVI  247 (435)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCce-EEEEEEEEEECC--eeEEEEECCCCCCCcchhhHHHHHHHH
Confidence            3579999999999999999999997542  22232232 233334444555  4578999999643211          1


Q ss_pred             -hhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          87 -TQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        87 -~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                       ...+++.+|++|+|+|.+   +..... +...+.+   .....++++||.|+..
T Consensus       248 ~~~~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~---~~~~~ivv~NK~Dl~~  298 (435)
T PRK00093        248 RTLKAIERADVVLLVIDATEGITEQDLR-IAGLALE---AGRALVIVVNKWDLVD  298 (435)
T ss_pred             HHHHHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCcEEEEEECccCCC
Confidence             124678999999999999   444432 2223322   3455778999999863

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.15  E-value=2.9e-10  Score=94.70  Aligned_cols=111  Identities=20%  Similarity=0.272  Sum_probs=70.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCc---ccceeeEEEEEEEEECCeEEEEEEeeCCCccccch-----hhhhcccCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKT---GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT-----ITQSYYRSA   94 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~---~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~-----~~~~~~~~a   94 (231)
                      ||+++|..++||||+.+....+--+.+.   .+|+.++.  ..+...+ .+.++|||+||+..+..     .....++++
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~--~~v~~~~-~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v   77 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEK--SHVRFLS-FLPLNIWDCPGQDDFMENYFNSQREEIFSNV   77 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEE--EEEECTT-SCEEEEEEE-SSCSTTHTTHTCCHHHHHCTE
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceE--EEEecCC-CcEEEEEEcCCccccccccccccHHHHHhcc
Confidence            8999999999999998888866443332   25555332  2333232 47899999999975533     357789999


Q ss_pred             cEEEEEEecC------cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          95 NGVIIEVTSV------EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        95 d~vIlV~dit------Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .++|+|+|+.      ....+...++.+.+..++.++ .++.-|.|+..
T Consensus        78 ~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v-~vfiHK~D~l~  125 (232)
T PF04670_consen   78 GVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKV-FVFIHKMDLLS  125 (232)
T ss_dssp             SEEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EE-EEEEE-CCCS-
T ss_pred             CEEEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeE-EEEEeecccCC
Confidence            9999999999      333444555556665555544 46667777754

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.

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

Probab=99.14  E-value=3.1e-10  Score=92.78  Aligned_cols=114  Identities=14%  Similarity=0.112  Sum_probs=68.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC---CCCcc--cceeeEEEEEEEE-------------------E----C--C----
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF---VEKTG--NTIGVDFSMKTVN-------------------I----D--G----   67 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f---~~~~~--pt~~~~~~~~~~~-------------------~----~--~----   67 (231)
                      ++|.++|..|+|||||+..+..-..   ..+..  .++...+..-.+.                   .    .  +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            4789999999999999999964311   11111  1111111110000                   0    0  1    


Q ss_pred             eEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCc--H-hhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          68 KKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVE--Y-CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        68 ~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditS--f-~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ....+.||||+|++.+.......+..+|++++|+|.+.  . ......+..+.. . +.+..+++.||.|+..
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~-~-~~~~iiivvNK~Dl~~  151 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEI-M-GLKHIIIVQNKIDLVK  151 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHH-c-CCCcEEEEEEchhccC
Confidence            12678999999999887777777888999999999982  1 111122222221 1 2234568999999864

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

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.14  E-value=6.9e-11  Score=94.64  Aligned_cols=115  Identities=22%  Similarity=0.298  Sum_probs=70.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEE-CCeEEEEEEeeCCCccccchh-hhh--cccCCcEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI-DGKKVKLQIWDTAGQERFRTI-TQS--YYRSANGV   97 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~~~~-~~~--~~~~ad~v   97 (231)
                      -.|+++|++|+|||+|..++.++.+.+.+.+. ....   .+.+ +.....+.+.|+||+++.+.. ...  +..++.++
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e~n~---~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~I   79 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-ENNI---AYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGI   79 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS---B---S-SEEE---ECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEE
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-cCCc---eEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEE
Confidence            35899999999999999999999776654443 2111   1122 223456899999999988763 333  58899999


Q ss_pred             EEEEecC----cHhhHHHHHHHHHHhc---CCcceeeecccccCCCCCcc
Q psy5781          98 IIEVTSV----EYCYQRNWHKQAVTLF---DKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        98 IlV~dit----Sf~~l~~w~~~i~~~~---~~~~~~~vv~~k~dl~~~~~  140 (231)
                      |+|.|.+    ....+.+.+-++....   ....+++++.||-|+...++
T Consensus        80 IfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~~  129 (181)
T PF09439_consen   80 IFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAKP  129 (181)
T ss_dssp             EEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT---
T ss_pred             EEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccCC
Confidence            9999998    3344445444443333   35566778899999887665

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.

>KOG0077|consensus

Probab=99.13  E-value=1.2e-10  Score=90.53  Aligned_cols=115  Identities=15%  Similarity=0.232  Sum_probs=90.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.=|++++|..++|||||++.+-+++.. ++.||....  .....+.|  ++++-+|.+|+..-+..|..|+..+|++|+
T Consensus        19 K~gKllFlGLDNAGKTTLLHMLKdDrl~-qhvPTlHPT--SE~l~Ig~--m~ftt~DLGGH~qArr~wkdyf~~v~~iv~   93 (193)
T KOG0077|consen   19 KFGKLLFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELSIGG--MTFTTFDLGGHLQARRVWKDYFPQVDAIVY   93 (193)
T ss_pred             cCceEEEEeecCCchhhHHHHHcccccc-ccCCCcCCC--hHHheecC--ceEEEEccccHHHHHHHHHHHHhhhceeEe
Confidence            4559999999999999999999988754 466766522  23456655  788999999999999999999999999999


Q ss_pred             EEecCcHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCc
Q psy5781         100 EVTSVEYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus       100 V~ditSf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~  139 (231)
                      .+|.-..++..+-+.++.....    ...+..+++||+|.+...
T Consensus        94 lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~  137 (193)
T KOG0077|consen   94 LVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAA  137 (193)
T ss_pred             eeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcc
Confidence            9999966666666666655543    344566889999888743

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

Probab=99.13  E-value=2.4e-10  Score=97.32  Aligned_cols=110  Identities=18%  Similarity=0.248  Sum_probs=72.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCC-------------Ccc-----cceeeEEEEEEEEECCeEEEEEEeeCCCccccc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVE-------------KTG-----NTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR   84 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~-------------~~~-----pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~   84 (231)
                      +|+++|.+|+|||||+++++......             ++.     ..+.+......+..+  .+.+.+|||+|..++.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~--~~~i~liDtPG~~~f~   78 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWK--GHKINLIDTPGYADFV   78 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEEC--CEEEEEEECcCHHHHH
Confidence            58999999999999999997532110             000     011111222233343  4788999999998887


Q ss_pred             hhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          85 TITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        85 ~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .....+++.+|++++|+|.+   .......|. .+..   ...+.+++.||.|....
T Consensus        79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~-~~~~---~~~p~iivvNK~D~~~~  131 (268)
T cd04170          79 GETRAALRAADAALVVVSAQSGVEVGTEKLWE-FADE---AGIPRIIFINKMDRERA  131 (268)
T ss_pred             HHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEECCccCCC
Confidence            77888999999999999999   222222332 2322   23445678999998754

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

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.13  E-value=3.6e-10  Score=105.92  Aligned_cols=114  Identities=18%  Similarity=0.060  Sum_probs=75.1

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC----cccceeeEEEEEEEEE--CCeEE----------EEEEeeCCCccc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK----TGNTIGVDFSMKTVNI--DGKKV----------KLQIWDTAGQER   82 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~----~~pt~~~~~~~~~~~~--~~~~~----------~l~i~D~~G~~~   82 (231)
                      .+...|+++|..++|||||++++.+..+...    +.+++|..+.......  .+..+          .+.+|||+|++.
T Consensus         4 ~R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~   83 (586)
T PRK04004          4 LRQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEA   83 (586)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHH
Confidence            3445799999999999999999986654332    2235553332211100  11111          268999999999


Q ss_pred             cchhhhhcccCCcEEEEEEecC-c--HhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          83 FRTITQSYYRSANGVIIEVTSV-E--YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        83 ~~~~~~~~~~~ad~vIlV~dit-S--f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      |..++...++.+|++++|+|.+ .  .+... .+..+..   ...+.++++||.|+.
T Consensus        84 f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e-~i~~~~~---~~vpiIvviNK~D~~  136 (586)
T PRK04004         84 FTNLRKRGGALADIAILVVDINEGFQPQTIE-AINILKR---RKTPFVVAANKIDRI  136 (586)
T ss_pred             HHHHHHHhHhhCCEEEEEEECCCCCCHhHHH-HHHHHHH---cCCCEEEEEECcCCc
Confidence            9999888899999999999998 1  22211 1222222   234467899999985

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.13  E-value=5.9e-10  Score=93.17  Aligned_cols=79  Identities=19%  Similarity=0.242  Sum_probs=56.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc----h---hhhhcccCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR----T---ITQSYYRSA   94 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~----~---~~~~~~~~a   94 (231)
                      ||+++|.+|||||||++++.+... ...+..+. .+.....+.+++  ..+++||++|..+..    .   ....+++++
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT-~~~~~g~~~~~~--~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~a   78 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTT-LTCVPGVLEYKG--AKIQLLDLPGIIEGAADGKGRGRQVIAVARTA   78 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCcc-ccceEEEEEECC--eEEEEEECCCcccccccchhHHHHHHHhhccC
Confidence            799999999999999999997653 23333222 123344555655  678999999975322    1   234578999


Q ss_pred             cEEEEEEecC
Q psy5781          95 NGVIIEVTSV  104 (231)
Q Consensus        95 d~vIlV~dit  104 (231)
                      |++++|+|.+
T Consensus        79 d~il~V~D~t   88 (233)
T cd01896          79 DLILMVLDAT   88 (233)
T ss_pred             CEEEEEecCC
Confidence            9999999998

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.13  E-value=4.3e-10  Score=100.62  Aligned_cols=115  Identities=11%  Similarity=-0.010  Sum_probs=76.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc----hh---hhhcccC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR----TI---TQSYYRS   93 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~----~~---~~~~~~~   93 (231)
                      ..|.+||.++||||||++++++.+. ...|.-|.- ....-.+..++ ...+.++|+||.-+-.    .+   ...++.+
T Consensus       160 adValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~-~p~~Giv~~~~-~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~r  237 (390)
T PRK12298        160 ADVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTL-VPNLGVVRVDD-ERSFVVADIPGLIEGASEGAGLGIRFLKHLER  237 (390)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhCCcccccCCCCCcc-CcEEEEEEeCC-CcEEEEEeCCCccccccchhhHHHHHHHHHHh
Confidence            3899999999999999999997653 122332221 11222333332 2458899999964311    11   1235788


Q ss_pred             CcEEEEEEecC------cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCC
Q psy5781          94 ANGVIIEVTSV------EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        94 ad~vIlV~dit------Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~  138 (231)
                      ++++++|+|++      .++++..|++++.....  ..++.+++.||.|+...
T Consensus       238 advlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~  290 (390)
T PRK12298        238 CRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDE  290 (390)
T ss_pred             CCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCCh
Confidence            99999999987      45667788888887643  24556788899998643

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.13  E-value=4.3e-10  Score=100.51  Aligned_cols=116  Identities=20%  Similarity=0.236  Sum_probs=84.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCC--CCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh--------hh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGD--FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI--------TQ   88 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~--f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~--------~~   88 (231)
                      +.-+|++++|.||||||||+|.+++.+  ...+..-|.. |.-...+.++|  +.+.|.||+|..+-...        ..
T Consensus       215 r~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTR-Dviee~i~i~G--~pv~l~DTAGiRet~d~VE~iGIeRs~  291 (454)
T COG0486         215 REGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTR-DVIEEDINLNG--IPVRLVDTAGIRETDDVVERIGIERAK  291 (454)
T ss_pred             hcCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCcc-ceEEEEEEECC--EEEEEEecCCcccCccHHHHHHHHHHH
Confidence            345899999999999999999999754  3455555654 66667788888  88999999997654433        34


Q ss_pred             hcccCCcEEEEEEecCc-HhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          89 SYYRSANGVIIEVTSVE-YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        89 ~~~~~ad~vIlV~ditS-f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      ..+.+||.+++|+|.+. ......   .+.......+..+++.||.|+.....
T Consensus       292 ~~i~~ADlvL~v~D~~~~~~~~d~---~~~~~~~~~~~~i~v~NK~DL~~~~~  341 (454)
T COG0486         292 KAIEEADLVLFVLDASQPLDKEDL---ALIELLPKKKPIIVVLNKADLVSKIE  341 (454)
T ss_pred             HHHHhCCEEEEEEeCCCCCchhhH---HHHHhcccCCCEEEEEechhcccccc
Confidence            56889999999999993 122111   11114456666779999999988544

>TIGR00503 prfC peptide chain release factor 3

Probab=99.13  E-value=3.8e-10  Score=104.52  Aligned_cols=118  Identities=14%  Similarity=0.164  Sum_probs=80.6

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHc-CCCCC----------------Cc---ccceeeEEEEEEEEECCeEEEEEEee
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRS-GDFVE----------------KT---GNTIGVDFSMKTVNIDGKKVKLQIWD   76 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~-~~f~~----------------~~---~pt~~~~~~~~~~~~~~~~~~l~i~D   76 (231)
                      +..+..+|+++|..++|||||+.+++. .....                ++   ...-|+.+......++.+.+.+.+||
T Consensus         7 ~~~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliD   86 (527)
T TIGR00503         7 EVDKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLD   86 (527)
T ss_pred             hhccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEE
Confidence            345678999999999999999999863 11111                00   11223333334444555568999999


Q ss_pred             CCCccccchhhhhcccCCcEEEEEEecC-cHh-hHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          77 TAGQERFRTITQSYYRSANGVIIEVTSV-EYC-YQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        77 ~~G~~~~~~~~~~~~~~ad~vIlV~dit-Sf~-~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |+|+.+|......+++.+|++|+|+|.+ ..+ ....+++..+.   ...+.+++.||.|+..
T Consensus        87 TPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~---~~~PiivviNKiD~~~  146 (527)
T TIGR00503        87 TPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRL---RDTPIFTFMNKLDRDI  146 (527)
T ss_pred             CCChhhHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHh---cCCCEEEEEECccccC
Confidence            9999988876777889999999999999 333 23444443322   3455778999999864

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.

>PRK13351 elongation factor G; Reviewed

Probab=99.12  E-value=2.3e-10  Score=109.51  Aligned_cols=112  Identities=17%  Similarity=0.188  Sum_probs=79.6

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCC-------------CCC-------CcccceeeEEEEEEEEECCeEEEEEEeeCC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGD-------------FVE-------KTGNTIGVDFSMKTVNIDGKKVKLQIWDTA   78 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~-------------f~~-------~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~   78 (231)
                      +...+|+|+|..++|||||+++|+...             +..       ++..|+.  .....+..  ..+.+++|||+
T Consensus         6 ~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~--~~~~~~~~--~~~~i~liDtP   81 (687)
T PRK13351          6 MQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIE--SAATSCDW--DNHRINLIDTP   81 (687)
T ss_pred             ccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcc--cceEEEEE--CCEEEEEEECC
Confidence            457899999999999999999998531             111       1223333  22223333  35789999999


Q ss_pred             CccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          79 GQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        79 G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      |+.+|...+..+++.+|++|+|+|.+   ..+....|. .+..   ...+.++++||.|+...
T Consensus        82 G~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~-~~~~---~~~p~iiviNK~D~~~~  140 (687)
T PRK13351         82 GHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWR-QADR---YGIPRLIFINKMDRVGA  140 (687)
T ss_pred             CcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHHh---cCCCEEEEEECCCCCCC
Confidence            99999888899999999999999998   444444443 3322   23456689999998753

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.12  E-value=5.3e-10  Score=101.27  Aligned_cols=119  Identities=15%  Similarity=0.133  Sum_probs=75.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCC--CCC------------------------Cc---ccceeeEEEEEEEEECCe
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGD--FVE------------------------KT---GNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~--f~~------------------------~~---~pt~~~~~~~~~~~~~~~   68 (231)
                      ....++|+++|..++|||||+++++...  ...                        +.   ...-|.........++..
T Consensus         3 ~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~   82 (425)
T PRK12317          3 EKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETD   82 (425)
T ss_pred             CCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecC
Confidence            4556999999999999999999998321  100                        00   001122222222333344


Q ss_pred             EEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCc---HhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          69 KVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVE---YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditS---f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+.+.||||+|+++|.......++.+|++|+|+|.+.   +.....+...+.+... .+..+++.||.|+..
T Consensus        83 ~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~-~~~iivviNK~Dl~~  153 (425)
T PRK12317         83 KYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLG-INQLIVAINKMDAVN  153 (425)
T ss_pred             CeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcC-CCeEEEEEEcccccc
Confidence            5789999999998876655555789999999999982   2222222222222222 234667999999864

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.07  E-value=6.3e-10  Score=103.06  Aligned_cols=119  Identities=13%  Similarity=0.125  Sum_probs=78.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc--CCC--------------C-CCcc---cceeeEEEEEEEEECCeEEEEEEeeC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS--GDF--------------V-EKTG---NTIGVDFSMKTVNIDGKKVKLQIWDT   77 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~--~~f--------------~-~~~~---pt~~~~~~~~~~~~~~~~~~l~i~D~   77 (231)
                      -.+..+|+++|..++|||||+.+++.  +..              . .++.   ..-|+.+......++.+.+.+++|||
T Consensus         7 ~~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDT   86 (526)
T PRK00741          7 VAKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDT   86 (526)
T ss_pred             hhcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEEC
Confidence            34677999999999999999999973  110              0 0111   11122222223333334588999999


Q ss_pred             CCccccchhhhhcccCCcEEEEEEecC-cH-hhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          78 AGQERFRTITQSYYRSANGVIIEVTSV-EY-CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        78 ~G~~~~~~~~~~~~~~ad~vIlV~dit-Sf-~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      +|+.+|......+++.+|++|+|+|.+ .. .....++....   ....+.+++.||.|.....
T Consensus        87 PG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~---~~~iPiiv~iNK~D~~~a~  147 (526)
T PRK00741         87 PGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCR---LRDTPIFTFINKLDRDGRE  147 (526)
T ss_pred             CCchhhHHHHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHH---hcCCCEEEEEECCcccccC
Confidence            999998887777899999999999998 22 12233333322   2345577889999976533

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.06  E-value=3.5e-10  Score=98.51  Aligned_cols=81  Identities=22%  Similarity=0.359  Sum_probs=59.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCCCC------CCcccceeeEEEEEE---------------EEECC-eEEEEEEeeCCCc-
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGDFV------EKTGNTIGVDFSMKT---------------VNIDG-KKVKLQIWDTAGQ-   80 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~f~------~~~~pt~~~~~~~~~---------------~~~~~-~~~~l~i~D~~G~-   80 (231)
                      |+++|.++||||||++++++..+.      ..+.|++|..+....               ...++ +.+.++|||++|. 
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv   80 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLV   80 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCC
Confidence            579999999999999999988643      345677775443211               11233 3478999999997 


Q ss_pred             ---cccchhhhhc---ccCCcEEEEEEecC
Q psy5781          81 ---ERFRTITQSY---YRSANGVIIEVTSV  104 (231)
Q Consensus        81 ---~~~~~~~~~~---~~~ad~vIlV~dit  104 (231)
                         +++..+...+   +++||++++|+|++
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence               5555555554   89999999999997

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.06  E-value=8.1e-10  Score=98.49  Aligned_cols=107  Identities=15%  Similarity=0.079  Sum_probs=74.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc---------hhhhhc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR---------TITQSY   90 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~---------~~~~~~   90 (231)
                      ..|+++|.++||||||.||+++.+.  ..++.-+.. |.......+.+  ..+.+.||+|-+...         ......
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTR-Dr~y~~~~~~~--~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~A   80 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTR-DRIYGDAEWLG--REFILIDTGGLDDGDEDELQELIREQALIA   80 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCcc-CCccceeEEcC--ceEEEEECCCCCcCCchHHHHHHHHHHHHH
Confidence            5799999999999999999998764  344443332 34445556655  448999999966322         224556


Q ss_pred             ccCCcEEEEEEecC-----cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          91 YRSANGVIIEVTSV-----EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        91 ~~~ad~vIlV~dit-----Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +..||++|||+|..     .-+.+.+|+.      ...++.+++.||.|...
T Consensus        81 i~eADvilfvVD~~~Git~~D~~ia~~Lr------~~~kpviLvvNK~D~~~  126 (444)
T COG1160          81 IEEADVILFVVDGREGITPADEEIAKILR------RSKKPVILVVNKIDNLK  126 (444)
T ss_pred             HHhCCEEEEEEeCCCCCCHHHHHHHHHHH------hcCCCEEEEEEcccCch
Confidence            77999999999998     2233334333      34466779999999884

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.04  E-value=6.3e-10  Score=106.87  Aligned_cols=117  Identities=20%  Similarity=0.241  Sum_probs=81.2

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcC---------------CCCCC---cccceeeEEEEEEEEECCeEEEEEEeeCC
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSG---------------DFVEK---TGNTIGVDFSMKTVNIDGKKVKLQIWDTA   78 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~---------------~f~~~---~~pt~~~~~~~~~~~~~~~~~~l~i~D~~   78 (231)
                      ......+|+++|..++|||||+.+|+..               .+.++   ...|+........+..++..+.+.||||+
T Consensus        15 ~~~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTP   94 (720)
T TIGR00490        15 KPKFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTP   94 (720)
T ss_pred             CcccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCC
Confidence            3456789999999999999999999852               22211   22355433333334456777999999999


Q ss_pred             CccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          79 GQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        79 G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |+.+|.......++.+|++|+|+|..   ..+....|.. +.   ......+++.||.|...
T Consensus        95 G~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~-~~---~~~~p~ivviNKiD~~~  152 (720)
T TIGR00490        95 GHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQ-AL---KENVKPVLFINKVDRLI  152 (720)
T ss_pred             CccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHHH-HH---HcCCCEEEEEEChhccc
Confidence            99998888888999999999999998   2333223332 11   22233458899998753

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.

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

Probab=99.01  E-value=3.7e-09  Score=90.22  Aligned_cols=110  Identities=17%  Similarity=0.140  Sum_probs=72.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC--C----------------CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF--V----------------EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR   84 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f--~----------------~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~   84 (231)
                      +|+++|..++|||||+++++...-  .                .+....+.++.....+..+  ...+.+|||||..++.
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~--~~~i~liDTPG~~df~   78 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWK--DHRINIIDTPGHVDFT   78 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEEC--CEEEEEEECCCcHHHH
Confidence            489999999999999999974211  0                0011111112222333343  4778999999999888


Q ss_pred             hhhhhcccCCcEEEEEEecC-cHh-hHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          85 TITQSYYRSANGVIIEVTSV-EYC-YQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        85 ~~~~~~~~~ad~vIlV~dit-Sf~-~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ..+..+++.+|++|+|.|.+ ..+ .-...++.+..   ...+.+++.||.|+..
T Consensus        79 ~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~---~~~p~ivviNK~D~~~  130 (270)
T cd01886          79 IEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADR---YNVPRIAFVNKMDRTG  130 (270)
T ss_pred             HHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHH---cCCCEEEEEECCCCCC
Confidence            88889999999999999998 221 11233333322   2344568899999875

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

>KOG1707|consensus

Probab=99.00  E-value=2.7e-09  Score=97.20  Aligned_cols=121  Identities=12%  Similarity=0.178  Sum_probs=92.2

Q ss_pred             CCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhccc
Q psy5781          13 FQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYR   92 (231)
Q Consensus        13 ~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~   92 (231)
                      ...++.++.+++.|+|..++|||.|++.|+++.+...+..+....+....+.+.|+...+.+-|.+-. ....+...- .
T Consensus       417 ~~~~~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~  494 (625)
T KOG1707|consen  417 KKKQTDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-A  494 (625)
T ss_pred             ccccccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-c
Confidence            34567889999999999999999999999999988877777777777788888888889999998765 333343333 7


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .||+++++||++   ||+.+...++.-...  ...+...++.|.|+..
T Consensus       495 ~cDv~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe  540 (625)
T KOG1707|consen  495 ACDVACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDE  540 (625)
T ss_pred             eeeeEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccch
Confidence            899999999999   888776655544322  3334556666666655

>COG1159 Era GTPase [General function prediction only]

Probab=98.99  E-value=3.4e-09  Score=89.97  Aligned_cols=147  Identities=12%  Similarity=0.121  Sum_probs=91.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc--------hhhhh
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR--------TITQS   89 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~--------~~~~~   89 (231)
                      +.--|+++|.++||||||+|++++.+.  ......|..  ...+-+...+ ...+.+.||||-.+-+        .....
T Consensus         5 ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR--~~I~GI~t~~-~~QiIfvDTPGih~pk~~l~~~m~~~a~~   81 (298)
T COG1159           5 KSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTR--NRIRGIVTTD-NAQIIFVDTPGIHKPKHALGELMNKAARS   81 (298)
T ss_pred             eEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhh--hheeEEEEcC-CceEEEEeCCCCCCcchHHHHHHHHHHHH
Confidence            445799999999999999999998775  233333433  2223333333 5778999999954322        22345


Q ss_pred             cccCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc-----cc
Q psy5781          90 YYRSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP-----CL  163 (231)
Q Consensus        90 ~~~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~-----~~  163 (231)
                      .+..+|+++||.|.+ .+..-.+|.-+..+.  ...+.+++.||+|........ ...........++.+++.     ..
T Consensus        82 sl~dvDlilfvvd~~~~~~~~d~~il~~lk~--~~~pvil~iNKID~~~~~~~l-~~~~~~~~~~~~f~~ivpiSA~~g~  158 (298)
T COG1159          82 ALKDVDLILFVVDADEGWGPGDEFILEQLKK--TKTPVILVVNKIDKVKPKTVL-LKLIAFLKKLLPFKEIVPISALKGD  158 (298)
T ss_pred             HhccCcEEEEEEeccccCCccHHHHHHHHhh--cCCCeEEEEEccccCCcHHHH-HHHHHHHHhhCCcceEEEeeccccC
Confidence            677999999999999 566555554443332  344566889999976644421 122234444455556554     34


Q ss_pred             chhhhhhhh
Q psy5781         164 KFGHAFSTS  172 (231)
Q Consensus       164 nv~e~f~~~  172 (231)
                      |++......
T Consensus       159 n~~~L~~~i  167 (298)
T COG1159         159 NVDTLLEII  167 (298)
T ss_pred             CHHHHHHHH
Confidence            455544443

>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=98.98  E-value=1.7e-09  Score=87.22  Aligned_cols=112  Identities=18%  Similarity=0.140  Sum_probs=75.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCC--C------------------CcccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFV--E------------------KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~--~------------------~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      ...+|+++|..++|||||+.+++...-.  .                  +..-|+.  .....+..+.....++++|+||
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~--~~~~~~~~~~~~~~i~~iDtPG   79 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITID--LSFISFEKNENNRKITLIDTPG   79 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSS--SEEEEEEBTESSEEEEEEEESS
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccc--cccccccccccccceeeccccc
Confidence            4689999999999999999999854311  0                  0112222  2222333124457899999999


Q ss_pred             ccccchhhhhcccCCcEEEEEEecC-cHhh-HHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          80 QERFRTITQSYYRSANGVIIEVTSV-EYCY-QRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        80 ~~~~~~~~~~~~~~ad~vIlV~dit-Sf~~-l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      +.+|.......++.+|++|+|.|.. .... ..+.+..+.   ....+.+++.||.|..
T Consensus        80 ~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~---~~~~p~ivvlNK~D~~  135 (188)
T PF00009_consen   80 HEDFIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILR---ELGIPIIVVLNKMDLI  135 (188)
T ss_dssp             SHHHHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHH---HTT-SEEEEEETCTSS
T ss_pred             ccceeecccceecccccceeeeeccccccccccccccccc---ccccceEEeeeeccch
Confidence            9998887788899999999999998 3222 222232332   2233377899999988

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 ....

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=98.98  E-value=8.6e-09  Score=88.93  Aligned_cols=117  Identities=16%  Similarity=0.142  Sum_probs=71.4

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh-------h
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI-------T   87 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~-------~   87 (231)
                      .+...++|+++|.+||||||++|++++.+.  .....+ .+..........+|  ..+.++||+|..+....       .
T Consensus        34 ~~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s-~t~~~~~~~~~~~G--~~l~VIDTPGL~d~~~~~e~~~~~i  110 (313)
T TIGR00991        34 EDVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQS-EGLRPMMVSRTRAG--FTLNIIDTPGLIEGGYINDQAVNII  110 (313)
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCC-cceeEEEEEEEECC--eEEEEEECCCCCchHHHHHHHHHHH
Confidence            346789999999999999999999997653  222221 11111112223344  67999999996643211       1


Q ss_pred             hhcc--cCCcEEEEEEecC--cHhhH-HHHHHHHHHhcCCcce--eeecccccCCC
Q psy5781          88 QSYY--RSANGVIIEVTSV--EYCYQ-RNWHKQAVTLFDKYKF--GHAFSTSLAMP  136 (231)
Q Consensus        88 ~~~~--~~ad~vIlV~dit--Sf~~l-~~w~~~i~~~~~~~~~--~~vv~~k~dl~  136 (231)
                      ..++  ...|++++|.+++  .+... ...++.+...+++...  .+++.+..+..
T Consensus       111 k~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~  166 (313)
T TIGR00991       111 KRFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFS  166 (313)
T ss_pred             HHHhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccC
Confidence            2222  1589999997766  44433 4566667776654322  45566665544

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.96  E-value=6.6e-09  Score=97.97  Aligned_cols=110  Identities=15%  Similarity=0.128  Sum_probs=72.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc---CCCCCCc--ccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS---GDFVEKT--GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~---~~f~~~~--~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      -|.++|..++|||||++++.+   +.+.++.  -.|+...+  ..+...+ ...+.|||++|+++|.......+..+|++
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~--~~~~~~~-g~~i~~IDtPGhe~fi~~m~~g~~~~D~~   78 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGY--AYWPQPD-GRVLGFIDVPGHEKFLSNMLAGVGGIDHA   78 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeee--EEEecCC-CcEEEEEECCCHHHHHHHHHHHhhcCCEE
Confidence            478999999999999999985   4454443  34444322  2333322 23479999999999877666778899999


Q ss_pred             EEEEecC-cH-hhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          98 IIEVTSV-EY-CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        98 IlV~dit-Sf-~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ++|+|.+ .. ..-.+.+..+ +... .+..+++.||.|+..
T Consensus        79 lLVVda~eg~~~qT~ehl~il-~~lg-i~~iIVVlNKiDlv~  118 (614)
T PRK10512         79 LLVVACDDGVMAQTREHLAIL-QLTG-NPMLTVALTKADRVD  118 (614)
T ss_pred             EEEEECCCCCcHHHHHHHHHH-HHcC-CCeEEEEEECCccCC
Confidence            9999998 11 1111222222 2222 333468999999864

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.94  E-value=5.8e-09  Score=84.03  Aligned_cols=110  Identities=16%  Similarity=0.236  Sum_probs=80.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC----------ccccchhhh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG----------QERFRTITQ   88 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G----------~~~~~~~~~   88 (231)
                      +...-|+++|.++||||||||.+++.+-......|.|.+.....+.++++   +.+.|.||          ++.+..+..
T Consensus        22 ~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~~i~   98 (200)
T COG0218          22 DDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKKLIE   98 (200)
T ss_pred             CCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHHHHH
Confidence            35678999999999999999999997766667788887676667777664   78999998          445666777


Q ss_pred             hcccC---CcEEEEEEecC-cHhhH----HHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          89 SYYRS---ANGVIIEVTSV-EYCYQ----RNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        89 ~~~~~---ad~vIlV~dit-Sf~~l----~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .|++.   -.+++++.|+. -...+    -+|+.+      .....+++.+|.|-..
T Consensus        99 ~YL~~R~~L~~vvlliD~r~~~~~~D~em~~~l~~------~~i~~~vv~tK~DKi~  149 (200)
T COG0218          99 EYLEKRANLKGVVLLIDARHPPKDLDREMIEFLLE------LGIPVIVVLTKADKLK  149 (200)
T ss_pred             HHHhhchhheEEEEEEECCCCCcHHHHHHHHHHHH------cCCCeEEEEEccccCC
Confidence            77764   46889999998 33322    244433      2445667888876554

>KOG1423|consensus

Probab=98.94  E-value=2.4e-09  Score=91.05  Aligned_cols=93  Identities=16%  Similarity=0.227  Sum_probs=62.9

Q ss_pred             CCCCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcc--cceeeEEEEEEEEECCeEEEEEEeeCCCccc----
Q psy5781           9 HPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTG--NTIGVDFSMKTVNIDGKKVKLQIWDTAGQER----   82 (231)
Q Consensus         9 ~~~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~--pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----   82 (231)
                      ..++.+.++..+.+.|+|||.++||||+|.|++++.+......  .|..  ...--+ +......+.++||+|--.    
T Consensus        60 ~~esrde~e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr--~~ilgi-~ts~eTQlvf~DTPGlvs~~~~  136 (379)
T KOG1423|consen   60 ALESRDEEEAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTR--HRILGI-ITSGETQLVFYDTPGLVSKKMH  136 (379)
T ss_pred             cccCCCchhcceEEEEEEEcCCCcchhhhhhHhhCCcccccccccccee--eeeeEE-EecCceEEEEecCCcccccchh
Confidence            3456666778899999999999999999999999887643221  2221  111111 223457789999999421    


Q ss_pred             --cch------hhhhcccCCcEEEEEEecC
Q psy5781          83 --FRT------ITQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        83 --~~~------~~~~~~~~ad~vIlV~dit  104 (231)
                        +..      -....+.+||.++.|+|++
T Consensus       137 r~~~l~~s~lq~~~~a~q~AD~vvVv~Das  166 (379)
T KOG1423|consen  137 RRHHLMMSVLQNPRDAAQNADCVVVVVDAS  166 (379)
T ss_pred             hhHHHHHHhhhCHHHHHhhCCEEEEEEecc
Confidence              111      1233566899999999999

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

Probab=98.94  E-value=3.6e-09  Score=87.52  Aligned_cols=111  Identities=15%  Similarity=0.174  Sum_probs=68.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC---------------------------CCC----CcccceeeEEEEEEEEECCeEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD---------------------------FVE----KTGNTIGVDFSMKTVNIDGKKVK   71 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~---------------------------f~~----~~~pt~~~~~~~~~~~~~~~~~~   71 (231)
                      +|+++|..++|||||+.+++...                           +.+    +....+-.+.....+..  ....
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~--~~~~   78 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFET--EKYR   78 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEee--CCeE
Confidence            48999999999999999996321                           000    00011111222223333  4478


Q ss_pred             EEEeeCCCccccchhhhhcccCCcEEEEEEecC--cH----hh---HHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          72 LQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EY----CY---QRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        72 l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf----~~---l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +.+||++|+..|.......+..+|++|+|+|.+  .+    ..   ........ +.. ..+..+++.||.|+..
T Consensus        79 i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~-~~~-~~~~iiivvNK~Dl~~  151 (219)
T cd01883          79 FTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLA-RTL-GVKQLIVAVNKMDDVT  151 (219)
T ss_pred             EEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHH-HHc-CCCeEEEEEEcccccc
Confidence            999999999887766666778899999999998  22    21   11111112 222 2245667999999873

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

>cd00066 G-alpha G protein alpha subunit

Probab=98.94  E-value=3.3e-09  Score=92.58  Aligned_cols=69  Identities=14%  Similarity=0.157  Sum_probs=54.4

Q ss_pred             EEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCcH----------hhHHHHHHHHHHhcC----CcceeeecccccC
Q psy5781          69 KVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEY----------CYQRNWHKQAVTLFD----KYKFGHAFSTSLA  134 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditSf----------~~l~~w~~~i~~~~~----~~~~~~vv~~k~d  134 (231)
                      .+.+.+||++|+...+..|.+|+.+++++|+|.|++.|          +++.+-+..+...+.    ...+.++++||.|
T Consensus       160 ~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D  239 (317)
T cd00066         160 NLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKD  239 (317)
T ss_pred             ceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChH
Confidence            47899999999999999999999999999999999954          455555555555444    3456778889988


Q ss_pred             CCC
Q psy5781         135 MPQ  137 (231)
Q Consensus       135 l~~  137 (231)
                      +..
T Consensus       240 ~f~  242 (317)
T cd00066         240 LFE  242 (317)
T ss_pred             HHH
Confidence            654

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.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=98.93  E-value=6.7e-09  Score=93.27  Aligned_cols=118  Identities=14%  Similarity=0.148  Sum_probs=73.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC-------CC-----CCC--cccceeeEEEEEEEEECCeEEEEEEeeCCCcccc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG-------DF-----VEK--TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF   83 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~-------~f-----~~~--~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~   83 (231)
                      ....++|+++|..++|||||+.++++.       .+     .+.  ....-|.......+.++.....+.||||+|+++|
T Consensus         9 ~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~~f   88 (394)
T TIGR00485         9 TKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHADY   88 (394)
T ss_pred             CCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchHHH
Confidence            455799999999999999999999732       00     000  0011122222333444445567899999999988


Q ss_pred             chhhhhcccCCcEEEEEEecCc--HhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          84 RTITQSYYRSANGVIIEVTSVE--YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        84 ~~~~~~~~~~ad~vIlV~ditS--f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ..........+|++++|+|.+.  ...-.+.+..+...  ..+..+++.||.|+..
T Consensus        89 ~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~~--gi~~iIvvvNK~Dl~~  142 (394)
T TIGR00485        89 VKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQV--GVPYIVVFLNKCDMVD  142 (394)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHc--CCCEEEEEEEecccCC
Confidence            6554555667899999999981  11222222223221  2333446789999864

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=98.91  E-value=1.2e-08  Score=91.64  Aligned_cols=118  Identities=14%  Similarity=0.101  Sum_probs=72.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC-------CCC-----C--CcccceeeEEEEEEEEECCeEEEEEEeeCCCcccc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG-------DFV-----E--KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF   83 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~-------~f~-----~--~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~   83 (231)
                      ....++|+++|..++|||||++++++.       .+.     +  .....-|.........+......+.++||+|+++|
T Consensus         9 ~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~~f   88 (396)
T PRK12735          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADY   88 (396)
T ss_pred             CCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHHHH
Confidence            456799999999999999999999852       110     0  00011222222223333333456789999999887


Q ss_pred             chhhhhcccCCcEEEEEEecC-cH-hhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          84 RTITQSYYRSANGVIIEVTSV-EY-CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        84 ~~~~~~~~~~ad~vIlV~dit-Sf-~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ......-+..+|++++|+|.+ .. ....+.+..+..  .+.+.++++.||.|+..
T Consensus        89 ~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~--~gi~~iivvvNK~Dl~~  142 (396)
T PRK12735         89 VKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQ--VGVPYIVVFLNKCDMVD  142 (396)
T ss_pred             HHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHH--cCCCeEEEEEEecCCcc
Confidence            665556677899999999998 22 222222222221  12233445789999863

>PLN03126 Elongation factor Tu; Provisional

Probab=98.90  E-value=8.1e-09  Score=94.66  Aligned_cols=118  Identities=14%  Similarity=0.094  Sum_probs=75.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC------CCCCCc--------ccceeeEEEEEEEEECCeEEEEEEeeCCCcccc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG------DFVEKT--------GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF   83 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~------~f~~~~--------~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~   83 (231)
                      ....++|+++|..++|||||+.+++..      .....+        ....|+........+..+...+.++|++|+++|
T Consensus        78 ~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~f  157 (478)
T PLN03126         78 KKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADY  157 (478)
T ss_pred             cCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHHH
Confidence            456789999999999999999999852      111100        111222222222223233457899999999988


Q ss_pred             chhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          84 RTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        84 ~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ......-+..+|++++|+|.+  -...-.+++..+...  ..+..+++.||.|+..
T Consensus       158 ~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~--gi~~iIvvvNK~Dl~~  211 (478)
T PLN03126        158 VKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQV--GVPNMVVFLNKQDQVD  211 (478)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHc--CCCeEEEEEecccccC
Confidence            766666677899999999988  222223333333322  2233557899999864

>cd01884 EF_Tu EF-Tu subfamily

Probab=98.90  E-value=1.3e-08  Score=82.81  Aligned_cols=114  Identities=16%  Similarity=0.132  Sum_probs=72.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCC-------CC----CCcc---cceeeEEEEEEEEECCeEEEEEEeeCCCccccchh
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGD-------FV----EKTG---NTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI   86 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~-------f~----~~~~---pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~   86 (231)
                      .++|+++|..++|||||+.+++...       ..    -+..   ..-|................+.+.||+|..+|...
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~   81 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKN   81 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHH
Confidence            4789999999999999999998531       00    0000   11122233333334344567889999999888776


Q ss_pred             hhhcccCCcEEEEEEecC-cHhh-HHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          87 TQSYYRSANGVIIEVTSV-EYCY-QRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        87 ~~~~~~~ad~vIlV~dit-Sf~~-l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      ....+..+|++++|+|.+ .... ....+..+.+.  +.+..+++.||.|+.
T Consensus        82 ~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~--~~~~iIvviNK~D~~  131 (195)
T cd01884          82 MITGAAQMDGAILVVSATDGPMPQTREHLLLARQV--GVPYIVVFLNKADMV  131 (195)
T ss_pred             HHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHc--CCCcEEEEEeCCCCC
Confidence            677788999999999998 3222 22333333322  122245778999985

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.

>COG1084 Predicted GTPase [General function prediction only]

Probab=98.90  E-value=1.4e-08  Score=87.19  Aligned_cols=113  Identities=17%  Similarity=0.169  Sum_probs=78.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEE---CCeEEEEEEeeCCCccc------c--chhh
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNI---DGKKVKLQIWDTAGQER------F--RTIT   87 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~---~~~~~~l~i~D~~G~~~------~--~~~~   87 (231)
                      ....|+|-|-||||||||++.+.+.+. ...|+      |.++.+.+   +....++++.||||.-+      .  ....
T Consensus       167 ~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YP------FTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qA  240 (346)
T COG1084         167 DLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYP------FTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQA  240 (346)
T ss_pred             CCCeEEEecCCCCcHHHHHHHHhcCCCccCCCC------ccccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHH
Confidence            457899999999999999999998764 23343      33333333   22346899999999421      1  1111


Q ss_pred             hhccc-CCcEEEEEEecC-----cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          88 QSYYR-SANGVIIEVTSV-----EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        88 ~~~~~-~ad~vIlV~dit-----Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      -..++ -+++++++||.+     +.+.-...+++++....  .+..+|.||.|+.....
T Consensus       241 i~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~~~e~  297 (346)
T COG1084         241 ILALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIADEEK  297 (346)
T ss_pred             HHHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEecccccchhH
Confidence            11122 357899999999     78887888889988887  66779999999885433

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.89  E-value=1.1e-08  Score=97.88  Aligned_cols=114  Identities=18%  Similarity=0.175  Sum_probs=76.8

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCC-C---CCc--------------ccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDF-V---EKT--------------GNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f-~---~~~--------------~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      .++..+|+++|..++|||||+++++...- .   ...              ...+.++.....+..+  ...+.+|||+|
T Consensus         7 ~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~--~~~i~liDTPG   84 (689)
T TIGR00484         7 LNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWK--GHRINIIDTPG   84 (689)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEEC--CeEEEEEECCC
Confidence            34567999999999999999999974210 0   000              0111122333344444  47889999999


Q ss_pred             ccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          80 QERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        80 ~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +.++......+++.+|++|+|+|.+   ..+...-| ..+.+   ...+.+++.||.|+..
T Consensus        85 ~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~-~~~~~---~~~p~ivviNK~D~~~  141 (689)
T TIGR00484        85 HVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVW-RQANR---YEVPRIAFVNKMDKTG  141 (689)
T ss_pred             CcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHHHH-HHHHH---cCCCEEEEEECCCCCC
Confidence            9988888889999999999999998   33333333 23322   2344567899999875

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=98.86  E-value=9.6e-09  Score=92.59  Aligned_cols=118  Identities=11%  Similarity=0.094  Sum_probs=74.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCC---CCc--ccceeeEEEEEE------------EEE----CC------eEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFV---EKT--GNTIGVDFSMKT------------VNI----DG------KKVK   71 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~---~~~--~pt~~~~~~~~~------------~~~----~~------~~~~   71 (231)
                      ...++|+++|..++|||||+.++.+....   ++.  .-|+...+..-.            ++.    ++      ....
T Consensus         2 ~~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (406)
T TIGR03680         2 QPEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRR   81 (406)
T ss_pred             CceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccE
Confidence            45789999999999999999999743211   111  012221111000            001    11      1367


Q ss_pred             EEEeeCCCccccchhhhhcccCCcEEEEEEecC-c--HhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          72 LQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-E--YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        72 l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-S--f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +.+||++|+++|..........+|++++|+|.+ .  .....+.+..+ +... .+..+++.||.|+...
T Consensus        82 i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l-~~~g-i~~iIVvvNK~Dl~~~  149 (406)
T TIGR03680        82 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMAL-EIIG-IKNIVIVQNKIDLVSK  149 (406)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHH-HHcC-CCeEEEEEEccccCCH
Confidence            899999999999877777788899999999998 2  23333333333 2222 2345678899998753

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

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.86  E-value=1.8e-08  Score=81.80  Aligned_cols=109  Identities=17%  Similarity=0.176  Sum_probs=65.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC-CCCc---ccceeeEEEEEEEEECCeEEEEEEeeCCCccccc--------hh---
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF-VEKT---GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR--------TI---   86 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~---~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~--------~~---   86 (231)
                      ++|+++|.+|||||||+|.+++.+. ....   ..|..  .......+++  ..+.++||||-.+..        .+   
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~--~~~~~~~~~~--~~i~viDTPG~~d~~~~~~~~~~~i~~~   76 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKT--CQKESAVWDG--RRVNVIDTPGLFDTSVSPEQLSKEIVRC   76 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccc--cceeeEEECC--eEEEEEECcCCCCccCChHHHHHHHHHH
Confidence            4799999999999999999998653 2221   12222  2223334455  568999999954321        11   


Q ss_pred             hhhcccCCcEEEEEEecCcHh-hHHHHHHHHHHhcCCcc--eeeecccccC
Q psy5781          87 TQSYYRSANGVIIEVTSVEYC-YQRNWHKQAVTLFDKYK--FGHAFSTSLA  134 (231)
Q Consensus        87 ~~~~~~~ad~vIlV~ditSf~-~l~~w~~~i~~~~~~~~--~~~vv~~k~d  134 (231)
                      ........|++++|.|+..+. .-...++.+.+.+++..  ..+++.++.|
T Consensus        77 ~~~~~~g~~~illVi~~~~~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d  127 (196)
T cd01852          77 LSLSAPGPHAFLLVVPLGRFTEEEEQAVETLQELFGEKVLDHTIVLFTRGD  127 (196)
T ss_pred             HHhcCCCCEEEEEEEECCCcCHHHHHHHHHHHHHhChHhHhcEEEEEECcc
Confidence            122346789999999998322 22344555555555432  2334444443

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).

>KOG1191|consensus

Probab=98.86  E-value=6.9e-09  Score=93.07  Aligned_cols=123  Identities=14%  Similarity=0.125  Sum_probs=83.5

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceee--EEEEEEEEECCeEEEEEEeeCCCccc-cch--------hh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGV--DFSMKTVNIDGKKVKLQIWDTAGQER-FRT--------IT   87 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~--~~~~~~~~~~~~~~~l~i~D~~G~~~-~~~--------~~   87 (231)
                      +.-++|+++|.||||||||+|.+..++- .-..|-.|.  |.-...++++|  +++.|.||+|..+ -..        ..
T Consensus       266 q~gl~iaIvGrPNvGKSSLlNaL~~~dr-sIVSpv~GTTRDaiea~v~~~G--~~v~L~DTAGiRe~~~~~iE~~gI~rA  342 (531)
T KOG1191|consen  266 QSGLQIAIVGRPNVGKSSLLNALSREDR-SIVSPVPGTTRDAIEAQVTVNG--VPVRLSDTAGIREESNDGIEALGIERA  342 (531)
T ss_pred             hcCCeEEEEcCCCCCHHHHHHHHhcCCc-eEeCCCCCcchhhheeEeecCC--eEEEEEeccccccccCChhHHHhHHHH
Confidence            4458999999999999999999997753 223333343  33334555666  7888999999654 111        13


Q ss_pred             hhcccCCcEEEEEEecC-----cHhhHHHHHHHHHHhcC------CcceeeecccccCCCCCcccccc
Q psy5781          88 QSYYRSANGVIIEVTSV-----EYCYQRNWHKQAVTLFD------KYKFGHAFSTSLAMPQVRPCLFH  144 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit-----Sf~~l~~w~~~i~~~~~------~~~~~~vv~~k~dl~~~~~~~~~  144 (231)
                      ...++.+|++++|+|..     +...+.+.+++...-+.      .....+++.||.|+..+.+|...
T Consensus       343 ~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~  410 (531)
T KOG1191|consen  343 RKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTK  410 (531)
T ss_pred             HHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccC
Confidence            45677899999999994     44455556655543332      23556788999999887665443

>PRK12736 elongation factor Tu; Reviewed

Probab=98.85  E-value=2.2e-08  Score=89.94  Aligned_cols=118  Identities=14%  Similarity=0.113  Sum_probs=74.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCC-------CC-----C--CcccceeeEEEEEEEEECCeEEEEEEeeCCCcccc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGD-------FV-----E--KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF   83 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~-------f~-----~--~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~   83 (231)
                      ....++|+++|..++|||||+.++++..       +.     +  .....-|.........+......+.++||+|+++|
T Consensus         9 ~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~~f   88 (394)
T PRK12736          9 SKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADY   88 (394)
T ss_pred             CCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHHHH
Confidence            4557999999999999999999998521       00     0  00011222233333344334467789999999987


Q ss_pred             chhhhhcccCCcEEEEEEecC-c-HhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          84 RTITQSYYRSANGVIIEVTSV-E-YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        84 ~~~~~~~~~~ad~vIlV~dit-S-f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ......-+..+|++++|+|.+ . ...-.+.+..+...  +.+..+++.||.|+..
T Consensus        89 ~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~--g~~~~IvviNK~D~~~  142 (394)
T PRK12736         89 VKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQV--GVPYLVVFLNKVDLVD  142 (394)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHc--CCCEEEEEEEecCCcc
Confidence            665555567889999999998 1 22222333333222  2333557899999863

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=98.82  E-value=5e-08  Score=82.34  Aligned_cols=118  Identities=18%  Similarity=0.216  Sum_probs=71.9

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCC--CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc--h-h----
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVE--KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR--T-I----   86 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~--~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~--~-~----   86 (231)
                      +.....++|+|+|.+|||||||+|.+++.....  .+.++.. .........++  ..+.+|||+|-.+..  . .    
T Consensus        26 ~~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~-~~~~~~~~~~g--~~i~vIDTPGl~~~~~~~~~~~~~  102 (249)
T cd01853          26 EELDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETL-RVREVSGTVDG--FKLNIIDTPGLLESVMDQRVNRKI  102 (249)
T ss_pred             hhccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceE-EEEEEEEEECC--eEEEEEECCCcCcchhhHHHHHHH
Confidence            456678999999999999999999999875422  2222221 12212223444  678999999965431  1 0    


Q ss_pred             ---hhhccc--CCcEEEEEEecC--cHhhH-HHHHHHHHHhcCCc--ceeeecccccCCC
Q psy5781          87 ---TQSYYR--SANGVIIEVTSV--EYCYQ-RNWHKQAVTLFDKY--KFGHAFSTSLAMP  136 (231)
Q Consensus        87 ---~~~~~~--~ad~vIlV~dit--Sf~~l-~~w~~~i~~~~~~~--~~~~vv~~k~dl~  136 (231)
                         ...|+.  ..+++++|..++  .++.. ...++.|.+.++..  ...+++.++.|..
T Consensus       103 ~~~I~~~l~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~  162 (249)
T cd01853         103 LSSIKRYLKKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASS  162 (249)
T ss_pred             HHHHHHHHhccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccC
Confidence               122333  568888887776  33333 35666666655543  2245666776554

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.

>PRK09602 translation-associated GTPase; Reviewed

Probab=98.80  E-value=2e-08  Score=90.06  Aligned_cols=83  Identities=23%  Similarity=0.361  Sum_probs=58.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCC-Cc-----ccceeeEEEEEEE---------------EECC-eEEEEEEeeCCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVE-KT-----GNTIGVDFSMKTV---------------NIDG-KKVKLQIWDTAG   79 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~-~~-----~pt~~~~~~~~~~---------------~~~~-~~~~l~i~D~~G   79 (231)
                      +||.++|.++||||||++++++..+.. +|     .|++|+-+....+               ..++ ..+.+++||++|
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            699999999999999999999876642 34     3555542221100               0122 346799999999


Q ss_pred             c----cccchhhhhc---ccCCcEEEEEEecC
Q psy5781          80 Q----ERFRTITQSY---YRSANGVIIEVTSV  104 (231)
Q Consensus        80 ~----~~~~~~~~~~---~~~ad~vIlV~dit  104 (231)
                      .    .+...+...+   ++++|++++|+|..
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            4    3444555556   88999999999995

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

Probab=98.79  E-value=2.4e-08  Score=90.18  Aligned_cols=120  Identities=14%  Similarity=0.173  Sum_probs=70.9

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCc------ccceeeEEEEEEE----------------EEC--C----
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKT------GNTIGVDFSMKTV----------------NID--G----   67 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~------~pt~~~~~~~~~~----------------~~~--~----   67 (231)
                      +.+...++|+++|..++|||||+.++.+. +....      -.|+...+....+                .++  +    
T Consensus         4 ~~~~~~~ni~v~Gh~d~GKSTL~~~L~~~-~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (411)
T PRK04000          4 EKVQPEVNIGMVGHVDHGKTTLVQALTGV-WTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETE   82 (411)
T ss_pred             ccCCCcEEEEEEccCCCCHHHHHHHhhCe-ecccCHhHHhcCcEEEecccccccccccccCccccccccccccccccccc
Confidence            34566799999999999999999888642 21111      1233222111000                011  1    


Q ss_pred             eEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC-c--HhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          68 KKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-E--YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        68 ~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-S--f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ....+.|||++|+++|..........+|++++|+|.+ -  ......-+..+.. . ..+..++++||.|+...
T Consensus        83 ~~~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~-~-~i~~iiVVlNK~Dl~~~  154 (411)
T PRK04000         83 LLRRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDI-I-GIKNIVIVQNKIDLVSK  154 (411)
T ss_pred             cccEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHH-c-CCCcEEEEEEeeccccc
Confidence            1367899999999887654444455679999999998 2  1221221222221 1 22335678899998653

>CHL00071 tufA elongation factor Tu

Probab=98.77  E-value=7.5e-08  Score=86.92  Aligned_cols=117  Identities=13%  Similarity=0.068  Sum_probs=74.4

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCC----------------CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDF----------------VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f----------------~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~   80 (231)
                      +....++|+++|..++|||||++++++..-                .++..+  |.........+..+...+.+.||||+
T Consensus         8 ~~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~r--g~T~~~~~~~~~~~~~~~~~iDtPGh   85 (409)
T CHL00071          8 RKKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKAR--GITINTAHVEYETENRHYAHVDCPGH   85 (409)
T ss_pred             CCCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcC--CEeEEccEEEEccCCeEEEEEECCCh
Confidence            345569999999999999999999986311                111112  22222222233333456789999999


Q ss_pred             cccchhhhhcccCCcEEEEEEecC-cH-hhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          81 ERFRTITQSYYRSANGVIIEVTSV-EY-CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        81 ~~~~~~~~~~~~~ad~vIlV~dit-Sf-~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+|.......+..+|++++|+|.+ -. ..-.+.+..+...  +.+..+++.||.|+..
T Consensus        86 ~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~--g~~~iIvvvNK~D~~~  142 (409)
T CHL00071         86 ADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQV--GVPNIVVFLNKEDQVD  142 (409)
T ss_pred             HHHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHc--CCCEEEEEEEccCCCC
Confidence            887666666778999999999998 22 2222333333221  2233557899999864

>smart00275 G_alpha G protein alpha subunit

Probab=98.77  E-value=3.2e-08  Score=87.20  Aligned_cols=74  Identities=12%  Similarity=0.136  Sum_probs=55.5

Q ss_pred             EEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCcH----------hhHHHHHHHHHHhcC----Ccceee
Q psy5781          62 TVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEY----------CYQRNWHKQAVTLFD----KYKFGH  127 (231)
Q Consensus        62 ~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditSf----------~~l~~w~~~i~~~~~----~~~~~~  127 (231)
                      .+.+++  +.+.+||.+|+...+..|.+|+.+++++|+|.|++.|          .++.+-+..+...+.    ...+.+
T Consensus       178 ~f~~~~--~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~pii  255 (342)
T smart00275      178 AFIVKK--LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSII  255 (342)
T ss_pred             EEEECC--eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEE
Confidence            344443  6789999999999999999999999999999999944          245555555555444    345577


Q ss_pred             ecccccCCCC
Q psy5781         128 AFSTSLAMPQ  137 (231)
Q Consensus       128 vv~~k~dl~~  137 (231)
                      ++.||.|+..
T Consensus       256 l~~NK~D~~~  265 (342)
T smart00275      256 LFLNKIDLFE  265 (342)
T ss_pred             EEEecHHhHH
Confidence            8889988765

Subunit of G proteins that contains the guanine nucleotide binding site

>cd04165 GTPBP1_like GTPBP1-like

Probab=98.77  E-value=7.6e-08  Score=80.01  Aligned_cols=110  Identities=16%  Similarity=0.232  Sum_probs=67.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcc----------------c-------ceeeEEEE---------------EEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTG----------------N-------TIGVDFSM---------------KTVN   64 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~----------------p-------t~~~~~~~---------------~~~~   64 (231)
                      ||+++|+.++|||||+.+|..+.|.....                .       ..|.+..-               ..+.
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            68999999999999999999876643111                0       11111000               1111


Q ss_pred             ECCeEEEEEEeeCCCccccchhhhhcc--cCCcEEEEEEecC-cHh-hHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          65 IDGKKVKLQIWDTAGQERFRTITQSYY--RSANGVIIEVTSV-EYC-YQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        65 ~~~~~~~l~i~D~~G~~~~~~~~~~~~--~~ad~vIlV~dit-Sf~-~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .  ....+.+.|++|+++|.......+  ..+|++++|.|.+ ... .-..++..+...   ..+.+++.||.|+..
T Consensus        81 ~--~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~---~ip~ivvvNK~D~~~  152 (224)
T cd04165          81 K--SSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALAL---NIPVFVVVTKIDLAP  152 (224)
T ss_pred             e--CCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHc---CCCEEEEEECccccC
Confidence            1  235789999999998865433334  3689999999987 222 222333333322   233568899999753

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

>PLN00043 elongation factor 1-alpha; Provisional

Probab=98.76  E-value=2.3e-08  Score=91.13  Aligned_cols=119  Identities=12%  Similarity=0.056  Sum_probs=77.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCC--C------------------------CCccc---ceeeEEEEEEEEECCe
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDF--V------------------------EKTGN---TIGVDFSMKTVNIDGK   68 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f--~------------------------~~~~p---t~~~~~~~~~~~~~~~   68 (231)
                      ....++|+++|..++|||||+-+++...-  .                        -+..+   .-|+............
T Consensus         4 ~k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~   83 (447)
T PLN00043          4 EKVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETT   83 (447)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCC
Confidence            34568999999999999999988874210  0                        00000   1111122222333445


Q ss_pred             EEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhc----C-CcceeeecccccCCC
Q psy5781          69 KVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLF----D-KYKFGHAFSTSLAMP  136 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~----~-~~~~~~vv~~k~dl~  136 (231)
                      ...++|.|++|+++|.......+..+|++|+|+|.+  .|+....|....++..    . .-+..+++.||.|+.
T Consensus        84 ~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~~  158 (447)
T PLN00043         84 KYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDAT  158 (447)
T ss_pred             CEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHHHcCCCcEEEEEEcccCC
Confidence            678999999999999888888899999999999999  5764433332222222    1 233456788999976

>PRK00049 elongation factor Tu; Reviewed

Probab=98.73  E-value=1.2e-07  Score=85.33  Aligned_cols=118  Identities=15%  Similarity=0.114  Sum_probs=74.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCC------------C--CcccceeeEEEEEEEEECCeEEEEEEeeCCCcccc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFV------------E--KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF   83 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~------------~--~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~   83 (231)
                      ....++|+++|..++|||||+.++++....            +  .....-|.........+......+.+.||+|+.+|
T Consensus         9 ~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~f   88 (396)
T PRK00049          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHADY   88 (396)
T ss_pred             CCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHHHH
Confidence            356799999999999999999999862100            0  00011222222223333333456789999999887


Q ss_pred             chhhhhcccCCcEEEEEEecC-c-HhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          84 RTITQSYYRSANGVIIEVTSV-E-YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        84 ~~~~~~~~~~ad~vIlV~dit-S-f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .......+..+|++++|+|.+ - ...-.+++..+...  +.+..+++.||.|+..
T Consensus        89 ~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~--g~p~iiVvvNK~D~~~  142 (396)
T PRK00049         89 VKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQV--GVPYIVVFLNKCDMVD  142 (396)
T ss_pred             HHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHc--CCCEEEEEEeecCCcc
Confidence            766666788999999999998 2 22223333333322  2233445789999864

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=98.72  E-value=7.2e-08  Score=88.55  Aligned_cols=115  Identities=17%  Similarity=0.202  Sum_probs=71.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCC-CCC------------c--------------------ccceeeEEEEEEEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDF-VEK------------T--------------------GNTIGVDFSMKTVN   64 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f-~~~------------~--------------------~pt~~~~~~~~~~~   64 (231)
                      ....+||+++|..++|||||+.+++...- ...            .                    ...+-++.....+.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~  103 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFS  103 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEec
Confidence            46679999999999999999999984321 110            0                    00011122222222


Q ss_pred             ECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC-cHh--hHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          65 IDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-EYC--YQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        65 ~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-Sf~--~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                        .....+.|+||+|+++|......-+..+|++++|+|.+ -..  ..+.|.  +..... .+..+++.||.|+..
T Consensus       104 --~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~--l~~~lg-~~~iIvvvNKiD~~~  174 (474)
T PRK05124        104 --TEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSF--IATLLG-IKHLVVAVNKMDLVD  174 (474)
T ss_pred             --cCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHHH--HHHHhC-CCceEEEEEeecccc
Confidence              33457889999999888654445578999999999998 221  111221  222222 234567899999863

>KOG0090|consensus

Probab=98.72  E-value=3.8e-08  Score=79.77  Aligned_cols=114  Identities=15%  Similarity=0.159  Sum_probs=79.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhccc---CCcEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYR---SANGVI   98 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~---~ad~vI   98 (231)
                      =.|+++|..++|||+|..++..+.+...+.+...   ....+.++..  .+++.|.||+.+.+.-...|+.   .+-++|
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~TvtSiep---n~a~~r~gs~--~~~LVD~PGH~rlR~kl~e~~~~~~~akaiV  113 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHRGTVTSIEP---NEATYRLGSE--NVTLVDLPGHSRLRRKLLEYLKHNYSAKAIV  113 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCccCeeeeecc---ceeeEeecCc--ceEEEeCCCcHHHHHHHHHHccccccceeEE
Confidence            3689999999999999999999976554432222   1123333332  2799999999987776555665   789999


Q ss_pred             EEEecC----cHhhHHHHHHHHHHhc---CCcceeeecccccCCCCCcc
Q psy5781          99 IEVTSV----EYCYQRNWHKQAVTLF---DKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        99 lV~dit----Sf~~l~~w~~~i~~~~---~~~~~~~vv~~k~dl~~~~~  140 (231)
                      ||.|..    ....+.+++-++.-..   .+....++..||.|+--..+
T Consensus       114 FVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt  162 (238)
T KOG0090|consen  114 FVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKT  162 (238)
T ss_pred             EEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCc
Confidence            999999    3344445555554443   45555677788888876655

>PRK12739 elongation factor G; Reviewed

Probab=98.72  E-value=7.2e-08  Score=92.43  Aligned_cols=114  Identities=17%  Similarity=0.118  Sum_probs=75.8

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCC--CC-----C-----------CcccceeeEEEEEEEEECCeEEEEEEeeCCCc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGD--FV-----E-----------KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~--f~-----~-----------~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~   80 (231)
                      ++..+|+++|..++|||||+++++...  ..     .           +....+.++.....+..++  ..+.++||+|+
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG~   83 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKG--HRINIIDTPGH   83 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECC--EEEEEEcCCCH
Confidence            457899999999999999999997421  00     0           0111122223333444444  67899999999


Q ss_pred             cccchhhhhcccCCcEEEEEEecC-cHhhH-HHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          81 ERFRTITQSYYRSANGVIIEVTSV-EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        81 ~~~~~~~~~~~~~ad~vIlV~dit-Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .++.......++.+|++|+|+|.+ -.+.- ...+..+.+   .....+++.||.|+..
T Consensus        84 ~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~---~~~p~iv~iNK~D~~~  139 (691)
T PRK12739         84 VDFTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADK---YGVPRIVFVNKMDRIG  139 (691)
T ss_pred             HHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHH---cCCCEEEEEECCCCCC
Confidence            988888888999999999999998 22211 122222222   2334568899999875

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=98.70  E-value=5.6e-08  Score=87.62  Aligned_cols=111  Identities=14%  Similarity=0.193  Sum_probs=69.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC-CCC--------------------------------cccceeeEEEEEEEEECCe
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF-VEK--------------------------------TGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f-~~~--------------------------------~~pt~~~~~~~~~~~~~~~   68 (231)
                      +||+++|..++|||||+.+++...- ...                                ....+-++.....+..  .
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~--~   78 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFST--D   78 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEcc--C
Confidence            5899999999999999999974321 000                                0000011222222333  3


Q ss_pred             EEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC-c--HhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          69 KVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-E--YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-S--f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ...+.|+||+|+++|.......+..+|++++|+|.+ -  -+..+.|.  +.+... .+..+++.||.|+..
T Consensus        79 ~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~--~~~~~~-~~~iivviNK~D~~~  147 (406)
T TIGR02034        79 KRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHSY--IASLLG-IRHVVLAVNKMDLVD  147 (406)
T ss_pred             CeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHHH--HHHHcC-CCcEEEEEEeccccc
Confidence            457889999999988765556788999999999998 2  11112222  122222 234567899999864

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).

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

Probab=98.68  E-value=7.6e-08  Score=91.41  Aligned_cols=117  Identities=18%  Similarity=0.167  Sum_probs=71.2

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCC-CC-C----------cccc---------------------eeeEEEEEEE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDF-VE-K----------TGNT---------------------IGVDFSMKTV   63 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f-~~-~----------~~pt---------------------~~~~~~~~~~   63 (231)
                      .....++|+++|..++|||||+++++...- .. .          ...+                     +.++.....+
T Consensus        20 ~~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~   99 (632)
T PRK05506         20 ERKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYF   99 (632)
T ss_pred             cCCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEE
Confidence            344568999999999999999999985321 11 0          0000                     0011111222


Q ss_pred             EECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          64 NIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        64 ~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ..+  ...+.|+||+|+++|.......+..+|++++|+|.+  ....-.+....+...  ..+..+++.||.|+..
T Consensus       100 ~~~--~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~~~~~~~~--~~~~iivvvNK~D~~~  171 (632)
T PRK05506        100 ATP--KRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRHSFIASLL--GIRHVVLAVNKMDLVD  171 (632)
T ss_pred             ccC--CceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHHHHHHHHHh--CCCeEEEEEEeccccc
Confidence            223  356789999999987655555678999999999998  111111112122221  2244567899999864

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.67  E-value=4e-08  Score=82.62  Aligned_cols=106  Identities=19%  Similarity=0.306  Sum_probs=69.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCc--ccceeeEEEEEEEEECCeEEEEEEeeCCCccc-------cchhhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKT--GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER-------FRTITQ   88 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~--~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~-------~~~~~~   88 (231)
                      ....++|+++|..|+|||||||.+..+...+..  ..+.....+ ....+++  -.+.|||++|-++       ++....
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~-~~~~~~~--~~l~lwDtPG~gdg~~~D~~~r~~~~  112 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTR-LRLSYDG--ENLVLWDTPGLGDGKDKDAEHRQLYR  112 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhh-HHhhccc--cceEEecCCCcccchhhhHHHHHHHH
Confidence            456789999999999999999999975543321  111111111 1123333  5689999998554       666778


Q ss_pred             hcccCCcEEEEEEecC-cHhhH-HHHHHHHHHhcCCccee
Q psy5781          89 SYYRSANGVIIEVTSV-EYCYQ-RNWHKQAVTLFDKYKFG  126 (231)
Q Consensus        89 ~~~~~ad~vIlV~dit-Sf~~l-~~w~~~i~~~~~~~~~~  126 (231)
                      .++.+.|.++++.+.. .+..+ .+.++++.-..-+++.+
T Consensus       113 d~l~~~DLvL~l~~~~draL~~d~~f~~dVi~~~~~~~~i  152 (296)
T COG3596         113 DYLPKLDLVLWLIKADDRALGTDEDFLRDVIILGLDKRVL  152 (296)
T ss_pred             HHhhhccEEEEeccCCCccccCCHHHHHHHHHhccCceeE
Confidence            8889999888888888 33333 35556665555544444

>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=98.66  E-value=1.1e-07  Score=78.25  Aligned_cols=98  Identities=15%  Similarity=0.249  Sum_probs=58.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCc----ccceeeEEEEEEEEECCeEEEEEEeeCCCcccc--------chh---
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKT----GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF--------RTI---   86 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~----~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~--------~~~---   86 (231)
                      ++|+|+|..|+||||++|.+++...-...    .-|..  .......++|  ..+.++||||--+.        ..+   
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~--~~~~~~~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~   76 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQE--CQKYSGEVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRC   76 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS---EEEEEEETT--EEEEEEE--SSEETTEEHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccc--cceeeeeecc--eEEEEEeCCCCCCCcccHHHHHHHHHHH
Confidence            58999999999999999999986643222    12222  3333446777  56789999993221        111   


Q ss_pred             hhhcccCCcEEEEEEecCcHhhH-HHHHHHHHHhcCCc
Q psy5781          87 TQSYYRSANGVIIEVTSVEYCYQ-RNWHKQAVTLFDKY  123 (231)
Q Consensus        87 ~~~~~~~ad~vIlV~ditSf~~l-~~w~~~i~~~~~~~  123 (231)
                      ........++++||...+.|..- ...++.+.+.+++.
T Consensus        77 l~~~~~g~ha~llVi~~~r~t~~~~~~l~~l~~~FG~~  114 (212)
T PF04548_consen   77 LSLCSPGPHAFLLVIPLGRFTEEDREVLELLQEIFGEE  114 (212)
T ss_dssp             HHHTTT-ESEEEEEEETTB-SHHHHHHHHHHHHHHCGG
T ss_pred             HHhccCCCeEEEEEEecCcchHHHHHHHHHHHHHccHH
Confidence            11234568999999999833322 34555666666654

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 ....

>PLN03127 Elongation factor Tu; Provisional

Probab=98.62  E-value=3.7e-07  Score=83.22  Aligned_cols=115  Identities=15%  Similarity=0.069  Sum_probs=70.6

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC------C----------CCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG------D----------FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER   82 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~------~----------f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~   82 (231)
                      ...++|+++|..++|||||+.++.+.      .          ..++..+.+-.+.  ....+......+.+.||+|+.+
T Consensus        59 k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~--~~~~~~~~~~~i~~iDtPGh~~  136 (447)
T PLN03127         59 KPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIAT--AHVEYETAKRHYAHVDCPGHAD  136 (447)
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeee--eEEEEcCCCeEEEEEECCCccc
Confidence            45689999999999999999999621      1          0111112222222  2333433445788999999988


Q ss_pred             cchhhhhcccCCcEEEEEEecC-cH-hhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          83 FRTITQSYYRSANGVIIEVTSV-EY-CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        83 ~~~~~~~~~~~ad~vIlV~dit-Sf-~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |......-...+|++++|.|.+ .. ..-.+.+..+...  +.+..+++.||.|+..
T Consensus       137 f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~~--gip~iIvviNKiDlv~  191 (447)
T PLN03127        137 YVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQV--GVPSLVVFLNKVDVVD  191 (447)
T ss_pred             hHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHc--CCCeEEEEEEeeccCC
Confidence            7665455566799999999998 21 1112222222211  2233457789999864

>KOG0705|consensus

Probab=98.62  E-value=3.4e-08  Score=89.56  Aligned_cols=112  Identities=18%  Similarity=0.246  Sum_probs=87.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+|+-|||+.+.|||+|++||+.+.|..+..|.-|  .+.+.+.++++...+-+.|.+|..     ...|..+.|++|+
T Consensus        29 pelk~givg~~~sgktalvhr~ltgty~~~e~~e~~--~~kkE~vv~gqs~lLlirdeg~~~-----~aQft~wvdavIf  101 (749)
T KOG0705|consen   29 PELKLGIVGTSQSGKTALVHRYLTGTYTQDESPEGG--RFKKEVVVDGQSHLLLIRDEGGHP-----DAQFCQWVDAVVF  101 (749)
T ss_pred             chhheeeeecccCCceeeeeeeccceeccccCCcCc--cceeeEEeeccceEeeeecccCCc-----hhhhhhhccceEE
Confidence            358999999999999999999999999887777666  556778889999999999999843     3567789999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcce-eeecccccCCCCC
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYKF-GHAFSTSLAMPQV  138 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~~-~~vv~~k~dl~~~  138 (231)
                      ||.+.   +|+.++...-.+..+.....+ ..+++++..+..+
T Consensus       102 vf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~  144 (749)
T KOG0705|consen  102 VFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAK  144 (749)
T ss_pred             EEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcc
Confidence            99998   999998888777655554333 3344554444433

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=98.62  E-value=4.1e-07  Score=84.91  Aligned_cols=148  Identities=11%  Similarity=0.047  Sum_probs=97.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc------cchhhhhccc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER------FRTITQSYYR   92 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~------~~~~~~~~~~   92 (231)
                      +..+|+++|.||||||||.|++++.+. ..++. -+-++...-.+..++  .+++|.|.||.-.      -+...+.|+.
T Consensus         2 ~~~~valvGNPNvGKTtlFN~LTG~~q~VgNwp-GvTVEkkeg~~~~~~--~~i~ivDLPG~YSL~~~S~DE~Var~~ll   78 (653)
T COG0370           2 KKLTVALVGNPNVGKTTLFNALTGANQKVGNWP-GVTVEKKEGKLKYKG--HEIEIVDLPGTYSLTAYSEDEKVARDFLL   78 (653)
T ss_pred             CcceEEEecCCCccHHHHHHHHhccCceecCCC-CeeEEEEEEEEEecC--ceEEEEeCCCcCCCCCCCchHHHHHHHHh
Confidence            346799999999999999999997543 34442 222233334444444  4589999999532      2233444443


Q ss_pred             --CCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhh
Q psy5781          93 --SANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        93 --~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                        +.|++|-|.|.+..++--..--++.+   -..+.++..|..|.-+.+-...+....++..|.++-.+..  ..++++.
T Consensus        79 ~~~~D~ivnVvDAtnLeRnLyltlQLlE---~g~p~ilaLNm~D~A~~~Gi~ID~~~L~~~LGvPVv~tvA~~g~G~~~l  155 (653)
T COG0370          79 EGKPDLIVNVVDATNLERNLYLTLQLLE---LGIPMILALNMIDEAKKRGIRIDIEKLSKLLGVPVVPTVAKRGEGLEEL  155 (653)
T ss_pred             cCCCCEEEEEcccchHHHHHHHHHHHHH---cCCCeEEEeccHhhHHhcCCcccHHHHHHHhCCCEEEEEeecCCCHHHH
Confidence              56999999999955543333333333   2333667888888877666666666688889999888877  4556666


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      .....
T Consensus       156 ~~~i~  160 (653)
T COG0370         156 KRAII  160 (653)
T ss_pred             HHHHH
Confidence            65544

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.60  E-value=1.8e-07  Score=83.62  Aligned_cols=114  Identities=18%  Similarity=0.142  Sum_probs=73.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc----------cchh-
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER----------FRTI-   86 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----------~~~~-   86 (231)
                      ..+||+++|.|+||||||+|++++.+-  ......|. .|.-...++.++  .++.+.||+|..+          |... 
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTT-RD~I~~~~e~~~--~~~~liDTAGiRrk~ki~e~~E~~Sv~r  253 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTT-RDSIDIEFERDG--RKYVLIDTAGIRRKGKITESVEKYSVAR  253 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCcc-ccceeeeEEECC--eEEEEEECCCCCcccccccceEEEeehh
Confidence            679999999999999999999997652  22222222 244445566666  4567999999543          2221 


Q ss_pred             hhhcccCCcEEEEEEecC-cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          87 TQSYYRSANGVIIEVTSV-EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        87 ~~~~~~~ad~vIlV~dit-Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      ....+..+|+++||.|.+ -+..- ......+   ....+...++.||.|+....
T Consensus       254 t~~aI~~a~vvllviDa~~~~~~qD~~ia~~i---~~~g~~~vIvvNKWDl~~~~  305 (444)
T COG1160         254 TLKAIERADVVLLVIDATEGISEQDLRIAGLI---EEAGRGIVIVVNKWDLVEED  305 (444)
T ss_pred             hHhHHhhcCEEEEEEECCCCchHHHHHHHHHH---HHcCCCeEEEEEccccCCch
Confidence            234577899999999999 22221 1222222   23445566888999976653

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.60  E-value=1e-07  Score=73.32  Aligned_cols=54  Identities=20%  Similarity=0.316  Sum_probs=41.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~   80 (231)
                      +++++|.+|||||||+|+++.+.... .....+.+.....+.+++   .+.||||+|-
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVS-VSATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee-eCCCCCcccceEEEEeCC---CEEEEECCCc
Confidence            89999999999999999999887643 333444445555566654   4799999995

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=98.58  E-value=4.1e-07  Score=78.16  Aligned_cols=98  Identities=18%  Similarity=0.125  Sum_probs=66.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc----cc---hhhhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER----FR---TITQS   89 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----~~---~~~~~   89 (231)
                      +..--+++++|.|+||||||++.+++-.. ..+|.-|.- +...-.++++|  ..++|.|+||.-+    -+   ...-.
T Consensus        60 KsGda~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl-~~VPG~l~Y~g--a~IQild~Pgii~gas~g~grG~~vls  136 (365)
T COG1163          60 KSGDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTL-EPVPGMLEYKG--AQIQLLDLPGIIEGASSGRGRGRQVLS  136 (365)
T ss_pred             ccCCeEEEEEcCCCccHHHHHHHHhCCCccccccCceec-ccccceEeecC--ceEEEEcCcccccCcccCCCCcceeee
Confidence            44567899999999999999999997654 234443321 22233455555  7899999997321    11   23456


Q ss_pred             cccCCcEEEEEEecC-cHhhHHHHHHHHHH
Q psy5781          90 YYRSANGVIIEVTSV-EYCYQRNWHKQAVT  118 (231)
Q Consensus        90 ~~~~ad~vIlV~dit-Sf~~l~~w~~~i~~  118 (231)
                      ..++||.+++|.|+. ....++...+++..
T Consensus       137 v~R~ADlIiiVld~~~~~~~~~~i~~ELe~  166 (365)
T COG1163         137 VARNADLIIIVLDVFEDPHHRDIIERELED  166 (365)
T ss_pred             eeccCCEEEEEEecCCChhHHHHHHHHHHh
Confidence            788999999999999 44445556666654

>PRK12740 elongation factor G; Reviewed

Probab=98.55  E-value=2.9e-07  Score=88.03  Aligned_cols=106  Identities=21%  Similarity=0.251  Sum_probs=69.8

Q ss_pred             EcCCCCcHHHHHHHHHcCCCC--C-----------C-----cccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhh
Q psy5781          27 IGDCGVGKTCVVHRFRSGDFV--E-----------K-----TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQ   88 (231)
Q Consensus        27 lG~~~vGKTSLl~~~~~~~f~--~-----------~-----~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~   88 (231)
                      +|..++|||||+++++...-.  .           +     ....+.+......+..++  +.+.+|||+|+.++...+.
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~--~~i~liDtPG~~~~~~~~~   78 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKG--HKINLIDTPGHVDFTGEVE   78 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECC--EEEEEEECCCcHHHHHHHH
Confidence            689999999999999643110  0           0     011111123333444444  7899999999998877788


Q ss_pred             hcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          89 SYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        89 ~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .+++.+|++++|+|.+   .......|. .+..   ...+.+++.||.|....
T Consensus        79 ~~l~~aD~vllvvd~~~~~~~~~~~~~~-~~~~---~~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         79 RALRVLDGAVVVVCAVGGVEPQTETVWR-QAEK---YGVPRIIFVNKMDRAGA  127 (668)
T ss_pred             HHHHHhCeEEEEEeCCCCcCHHHHHHHH-HHHH---cCCCEEEEEECCCCCCC
Confidence            8899999999999998   433333333 2222   23455678999997653

>KOG3886|consensus

Probab=98.55  E-value=8.6e-08  Score=78.69  Aligned_cols=114  Identities=22%  Similarity=0.331  Sum_probs=73.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCC--CC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc-----hhhhhccc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGD--FV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR-----TITQSYYR   92 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~--f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~-----~~~~~~~~   92 (231)
                      .-||+++|.+|+||||+=..+..+.  +. ...-+|+.++.  ..+..-| ...|.+||++||+.+.     ...+..++
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveH--sh~RflG-nl~LnlwDcGgqe~fmen~~~~q~d~iF~   80 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEH--SHVRFLG-NLVLNLWDCGGQEEFMENYLSSQEDNIFR   80 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeee--hhhhhhh-hheeehhccCCcHHHHHHHHhhcchhhhe
Confidence            3589999999999999865554322  11 12234554333  3333333 3779999999998532     24567899


Q ss_pred             CCcEEEEEEecC------cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          93 SANGVIIEVTSV------EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        93 ~ad~vIlV~dit------Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +.+++++|||+.      .++.-+..++.+.++.+..++- .+..|.|+.+.
T Consensus        81 nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP~AkiF-~l~hKmDLv~~  131 (295)
T KOG3886|consen   81 NVQVLIYVFDVESREMEKDFHYYQKCLEALLQNSPEAKIF-CLLHKMDLVQE  131 (295)
T ss_pred             eheeeeeeeeccchhhhhhHHHHHHHHHHHHhcCCcceEE-EEEeechhccc
Confidence            999999999999      3334445555566655555543 44556666553

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=98.54  E-value=6.4e-07  Score=83.89  Aligned_cols=113  Identities=17%  Similarity=0.227  Sum_probs=71.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCC-CCCCc--ccceeeEEEEEEEEECCeEEEEEEeeCCCccccc-------hh-
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGD-FVEKT--GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR-------TI-   86 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~-f~~~~--~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~-------~~-   86 (231)
                      .+..++|+|+|.+||||||++|.+++.. |....  ..|..  ........++  ..+.++||+|-....       .+ 
T Consensus       115 LdfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr--~~ei~~~idG--~~L~VIDTPGL~dt~~dq~~neeIL  190 (763)
T TIGR00993       115 LDFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTS--VQEIEGLVQG--VKIRVIDTPGLKSSASDQSKNEKIL  190 (763)
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceE--EEEEEEEECC--ceEEEEECCCCCccccchHHHHHHH
Confidence            4567899999999999999999999865 33221  12222  1111223454  568999999965321       11 


Q ss_pred             --hhhccc--CCcEEEEEEecC--cHh-hHHHHHHHHHHhcCCcce--eeecccccC
Q psy5781          87 --TQSYYR--SANGVIIEVTSV--EYC-YQRNWHKQAVTLFDKYKF--GHAFSTSLA  134 (231)
Q Consensus        87 --~~~~~~--~ad~vIlV~dit--Sf~-~l~~w~~~i~~~~~~~~~--~~vv~~k~d  134 (231)
                        ...++.  ..|++|+|.+++  ..+ .-..+++.|.+.++....  .+++.+.-|
T Consensus       191 k~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD  247 (763)
T TIGR00993       191 SSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAA  247 (763)
T ss_pred             HHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCc
Confidence              122333  479999999887  222 233788888888886644  334444433

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.

>PRK00007 elongation factor G; Reviewed

Probab=98.53  E-value=4.2e-07  Score=87.21  Aligned_cols=114  Identities=18%  Similarity=0.184  Sum_probs=74.8

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc--CCCCC-----------C-----cccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS--GDFVE-----------K-----TGNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~--~~f~~-----------~-----~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      .++..+|+++|..++|||||+++++.  +....           +     ....+.++.....+..++  ..+.+.||+|
T Consensus         7 ~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~--~~~~liDTPG   84 (693)
T PRK00007          7 LERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKD--HRINIIDTPG   84 (693)
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECC--eEEEEEeCCC
Confidence            44578999999999999999999973  21100           0     111122223333444444  6789999999


Q ss_pred             ccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          80 QERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        80 ~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ..+|.......++.+|++|+|.|.+   ..+...-|.. +.+   .....+++.||.|+..
T Consensus        85 ~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~~-~~~---~~~p~iv~vNK~D~~~  141 (693)
T PRK00007         85 HVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQ-ADK---YKVPRIAFVNKMDRTG  141 (693)
T ss_pred             cHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEECCCCCC
Confidence            9887766677788999999999988   3333233332 222   2234468899999874

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=98.53  E-value=6.8e-07  Score=81.53  Aligned_cols=119  Identities=16%  Similarity=0.137  Sum_probs=73.7

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC--CCC------------------------CCcc---cceeeEEEEEEEEECCe
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG--DFV------------------------EKTG---NTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~------------------------~~~~---pt~~~~~~~~~~~~~~~   68 (231)
                      ....++|+++|..++|||||+.+++..  ...                        -+..   ..-|.............
T Consensus         4 ~k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~   83 (446)
T PTZ00141          4 EKTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETP   83 (446)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccC
Confidence            455689999999999999999999751  100                        0000   00111222222333444


Q ss_pred             EEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHh----hHHHHHHHHHHhcC-CcceeeecccccCCC
Q psy5781          69 KVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYC----YQRNWHKQAVTLFD-KYKFGHAFSTSLAMP  136 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~----~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~  136 (231)
                      ...+.|.|+||+++|.......+..+|++|||.|.+  -|+    .-..-.+++.-... .-+..+++.||.|..
T Consensus        84 ~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD~~  158 (446)
T PTZ00141         84 KYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDDK  158 (446)
T ss_pred             CeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcCCCeEEEEEEccccc
Confidence            578999999999998877777788999999999998  332    00111222222222 223355789999943

>cd01859 MJ1464 MJ1464

Probab=98.47  E-value=4.8e-07  Score=70.57  Aligned_cols=56  Identities=25%  Similarity=0.323  Sum_probs=41.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      ...+++++|.++||||||++++.++. ...+.++.+.+.....+..++   .+.+|||+|
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~-~~~~~~~~~~t~~~~~~~~~~---~~~~~DtpG  155 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRH-SASTSPSPGYTKGEQLVKITS---KIYLLDTPG  155 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC-ccccCCCCCeeeeeEEEEcCC---CEEEEECcC
Confidence            45789999999999999999999655 444667777544333333332   589999998

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=98.47  E-value=6.5e-07  Score=87.59  Aligned_cols=118  Identities=12%  Similarity=0.140  Sum_probs=76.9

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCC-----------CCccc-----ceeeEEEEEEEEE-------------
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFV-----------EKTGN-----TIGVDFSMKTVNI-------------   65 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-----------~~~~p-----t~~~~~~~~~~~~-------------   65 (231)
                      ....+...+|+++|..++|||||+.+++...-.           .++.+     .+.++.....+..             
T Consensus        13 ~~~~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~   92 (843)
T PLN00116         13 MDKKHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGE   92 (843)
T ss_pred             hhCccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccc
Confidence            345667789999999999999999999853210           01111     0000111111111             


Q ss_pred             -CCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          66 -DGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        66 -~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                       ++..+.++|.||+|+.+|.......++.+|++|+|.|.+   ......-|...    .......+++.||.|..
T Consensus        93 ~~~~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~----~~~~~p~i~~iNK~D~~  163 (843)
T PLN00116         93 RDGNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQA----LGERIRPVLTVNKMDRC  163 (843)
T ss_pred             cCCCceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHH----HHCCCCEEEEEECCccc
Confidence             223678999999999999888888889999999999998   22222233322    23344556888999887

>cd01856 YlqF YlqF

Probab=98.46  E-value=4.9e-07  Score=71.80  Aligned_cols=58  Identities=26%  Similarity=0.423  Sum_probs=42.5

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~   80 (231)
                      ...++++++|.+|||||||++++....+. ...+..+.+.....+.++   ..+.++||+|-
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~-~~~~~~~~T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVA-KVGNKPGVTKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCEEeeeEEEEec---CCEEEEECCCC
Confidence            45589999999999999999999987764 234444444444445554   34789999984

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.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=98.44  E-value=5.1e-07  Score=69.53  Aligned_cols=96  Identities=20%  Similarity=0.298  Sum_probs=61.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc----ccchhhhhcccCCcEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE----RFRTITQSYYRSANGVI   98 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~----~~~~~~~~~~~~ad~vI   98 (231)
                      ||+++|..|+|||||++++.+...  .|..|..+.|+            =.+.||||.-    .+....-....+||.++
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~~------------~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~   68 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEYY------------DNTIDTPGEYIENPRFYHALIVTAQDADVVL   68 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEec------------ccEEECChhheeCHHHHHHHHHHHhhCCEEE
Confidence            899999999999999999998654  34444433333            1347899842    23333344555999999


Q ss_pred             EEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          99 IEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        99 lV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +|.|.+ .+.....   .+.+.+.  ++.+-+.+|.|+..
T Consensus        69 ll~dat~~~~~~pP---~fa~~f~--~pvIGVITK~Dl~~  103 (143)
T PF10662_consen   69 LLQDATEPRSVFPP---GFASMFN--KPVIGVITKIDLPS  103 (143)
T ss_pred             EEecCCCCCccCCc---hhhcccC--CCEEEEEECccCcc
Confidence            999999 2222211   1222222  23446778888883

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

>PTZ00416 elongation factor 2; Provisional

Probab=98.43  E-value=9e-07  Score=86.49  Aligned_cols=115  Identities=14%  Similarity=0.168  Sum_probs=74.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCC-C-C---------Cccc-----ceeeEEEEEEEEEC--------CeEEEEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDF-V-E---------KTGN-----TIGVDFSMKTVNID--------GKKVKLQ   73 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f-~-~---------~~~p-----t~~~~~~~~~~~~~--------~~~~~l~   73 (231)
                      .+...+|+++|..++|||||+.+++...- . .         ++.+     .+.++.....+..+        ++...+.
T Consensus        16 ~~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~   95 (836)
T PTZ00416         16 PDQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLIN   95 (836)
T ss_pred             ccCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEE
Confidence            45566999999999999999999985211 0 0         0000     00001111112222        2357899


Q ss_pred             EeeCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          74 IWDTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        74 i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      +.||+|+.+|.......++.+|++|+|.|.+   ......-| +.+.   ....+.+++.||.|..
T Consensus        96 liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~-~~~~---~~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         96 LIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTETVL-RQAL---QERIRPVLFINKVDRA  157 (836)
T ss_pred             EEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHHHH-HHHH---HcCCCEEEEEEChhhh
Confidence            9999999998887788899999999999998   22222223 2222   2334567889999887

>PTZ00258 GTP-binding protein; Provisional

Probab=98.41  E-value=7.6e-07  Score=79.50  Aligned_cols=85  Identities=21%  Similarity=0.208  Sum_probs=54.6

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCe---------------EEEEEEeeCCCcc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGK---------------KVKLQIWDTAGQE   81 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~---------------~~~l~i~D~~G~~   81 (231)
                      ....+||.+||.++||||||++.+.+.... .+|..|. .+.....+.+.+.               ...+.+.|++|-.
T Consensus        18 ~~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftT-i~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv   96 (390)
T PTZ00258         18 PGNNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCT-IDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLV   96 (390)
T ss_pred             CCCCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCc-ccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcC
Confidence            456789999999999999999999875532 2332221 1222223333322               2348999999943


Q ss_pred             c----cchh---hhhcccCCcEEEEEEec
Q psy5781          82 R----FRTI---TQSYYRSANGVIIEVTS  103 (231)
Q Consensus        82 ~----~~~~---~~~~~~~ad~vIlV~di  103 (231)
                      .    -..+   .-..++++|++++|.|.
T Consensus        97 ~ga~~g~gLg~~fL~~Ir~aD~il~VVd~  125 (390)
T PTZ00258         97 KGASEGEGLGNAFLSHIRAVDGIYHVVRA  125 (390)
T ss_pred             cCCcchhHHHHHHHHHHHHCCEEEEEEeC
Confidence            2    1112   22346789999999997

>KOG1489|consensus

Probab=98.38  E-value=1.8e-06  Score=74.10  Aligned_cols=110  Identities=15%  Similarity=0.176  Sum_probs=74.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC-CCCcc-----cceeeEEEEEEEEECCeEEEEEEeeCCCcc----ccchhhhh---
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF-VEKTG-----NTIGVDFSMKTVNIDGKKVKLQIWDTAGQE----RFRTITQS---   89 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~-----pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~----~~~~~~~~---   89 (231)
                      .|-+||-|++|||||++.+...+- ...|.     |++|      ++.+++- ..+.+-|.||.-    ..+.+--.   
T Consensus       198 dvGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG------~v~yddf-~q~tVADiPGiI~GAh~nkGlG~~FLr  270 (366)
T KOG1489|consen  198 DVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIG------TVNYDDF-SQITVADIPGIIEGAHMNKGLGYKFLR  270 (366)
T ss_pred             ccceecCCCCcHHHHHHHhhccCCcccccceeeeccccc------eeecccc-ceeEeccCccccccccccCcccHHHHH
Confidence            567999999999999999987543 22333     4444      3444432 338999999843    22233222   


Q ss_pred             cccCCcEEEEEEecCc------HhhHHHHHHHHHHhcC--CcceeeecccccCCCCCc
Q psy5781          90 YYRSANGVIIEVTSVE------YCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        90 ~~~~ad~vIlV~ditS------f~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~  139 (231)
                      .+..++.+++|.|++.      ++.++....|+..+-.  .+++.+++.||+|++...
T Consensus       271 HiER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae  328 (366)
T KOG1489|consen  271 HIERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAE  328 (366)
T ss_pred             HHHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHH
Confidence            3568999999999993      4566666666655443  456678999999997433

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=98.38  E-value=3.4e-06  Score=66.22  Aligned_cols=34  Identities=32%  Similarity=0.432  Sum_probs=28.1

Q ss_pred             EEEEeeCCCcc----ccchhhhhcccCCcEEEEEEecC
Q psy5781          71 KLQIWDTAGQE----RFRTITQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        71 ~l~i~D~~G~~----~~~~~~~~~~~~ad~vIlV~dit  104 (231)
                      .+.|+|+||-.    ....+...|+..+|++|+|.+.+
T Consensus       102 ~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~  139 (168)
T PF00350_consen  102 NLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDAN  139 (168)
T ss_dssp             SEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETT
T ss_pred             ceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccC
Confidence            57899999964    23356788889999999999999

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>cd01900 YchF YchF subfamily

Probab=98.38  E-value=7.3e-07  Score=76.16  Aligned_cols=79  Identities=14%  Similarity=0.167  Sum_probs=50.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCe---------------EEEEEEeeCCCccc----c
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGK---------------KVKLQIWDTAGQER----F   83 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~---------------~~~l~i~D~~G~~~----~   83 (231)
                      |.++|.++||||||++++++.... ..|.. ...+.....+.+.+.               ...++++|++|-.+    .
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pf-tTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~   79 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPF-CTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKG   79 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccc-cchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchh
Confidence            578999999999999999987642 22322 112233334444332               23589999999432    1


Q ss_pred             chhh---hhcccCCcEEEEEEec
Q psy5781          84 RTIT---QSYYRSANGVIIEVTS  103 (231)
Q Consensus        84 ~~~~---~~~~~~ad~vIlV~di  103 (231)
                      ..+.   -..++++|++++|+|.
T Consensus        80 ~glg~~fL~~i~~~D~li~VV~~  102 (274)
T cd01900          80 EGLGNKFLSHIREVDAIAHVVRC  102 (274)
T ss_pred             hHHHHHHHHHHHhCCEEEEEEeC
Confidence            1222   2335689999999986

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=98.36  E-value=1.7e-06  Score=74.24  Aligned_cols=61  Identities=26%  Similarity=0.565  Sum_probs=42.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCc----------ccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKT----------GNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~----------~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      ...++|+|+|.+|+||||||+.+++.......          ..+..+......+.-++..+.|.|+||+|
T Consensus         2 g~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpG   72 (281)
T PF00735_consen    2 GFNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPG   72 (281)
T ss_dssp             EEEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCC
Confidence            35799999999999999999999986554321          12333333334445578899999999998

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.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=98.32  E-value=2.1e-06  Score=75.92  Aligned_cols=82  Identities=13%  Similarity=0.180  Sum_probs=52.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCe---------------EEEEEEeeCCCccc---
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGK---------------KVKLQIWDTAGQER---   82 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~---------------~~~l~i~D~~G~~~---   82 (231)
                      ++|.+||.++||||||++++++.... .+|..|. .+.....+.+.+.               ...+.+.|++|-..   
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftT-i~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~   81 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCT-IEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGAS   81 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeeccccccc-ccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCC
Confidence            78999999999999999999986632 2332221 1122223333321               13589999999432   


Q ss_pred             -cchh---hhhcccCCcEEEEEEecC
Q psy5781          83 -FRTI---TQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        83 -~~~~---~~~~~~~ad~vIlV~dit  104 (231)
                       ...+   .-..++++|++++|+|..
T Consensus        82 ~g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         82 KGEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             hHHHHHHHHHHHHHhCCEEEEEEeCC
Confidence             1122   223467899999999983

>PRK07560 elongation factor EF-2; Reviewed

Probab=98.32  E-value=1.5e-06  Score=84.01  Aligned_cols=116  Identities=16%  Similarity=0.151  Sum_probs=75.1

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCC-CC----------Ccc-------cceeeEEEEEEEEECCeEEEEEEeeCC
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDF-VE----------KTG-------NTIGVDFSMKTVNIDGKKVKLQIWDTA   78 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f-~~----------~~~-------pt~~~~~~~~~~~~~~~~~~l~i~D~~   78 (231)
                      ..++.-+|+++|..++|||||+.+++...- ..          ++.       -|+........+..+++.+.+.+.|||
T Consensus        16 ~~~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtP   95 (731)
T PRK07560         16 NPEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTP   95 (731)
T ss_pred             chhcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCC
Confidence            345667899999999999999999985321 00          111       111100111112334556889999999


Q ss_pred             CccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          79 GQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        79 G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      |+.+|.......++.+|++|+|+|..   ..+....|.... +.  .. ..+++.||.|..
T Consensus        96 G~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~~-~~--~~-~~iv~iNK~D~~  152 (731)
T PRK07560         96 GHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQAL-RE--RV-KPVLFINKVDRL  152 (731)
T ss_pred             CccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHHH-Hc--CC-CeEEEEECchhh
Confidence            99998888888899999999999998   222223343322 21  22 346789999865

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.30  E-value=2.2e-06  Score=68.33  Aligned_cols=57  Identities=28%  Similarity=0.464  Sum_probs=41.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      ...++|+++|.+|||||||+|++.+..... ..+..|.+.....+.++.   .+.++||||
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~~~-~~~~pg~T~~~~~~~~~~---~~~l~DtPG  171 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRACN-VGATPGVTKSMQEVHLDK---KVKLLDSPG  171 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCcccce-ecCCCCeEcceEEEEeCC---CEEEEECcC
Confidence            345899999999999999999999865422 344455444444445443   478999998

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=98.30  E-value=4.4e-06  Score=76.43  Aligned_cols=99  Identities=17%  Similarity=0.313  Sum_probs=74.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC--CeEEEEEEeeCCCccccchhhhhcccC----C
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID--GKKVKLQIWDTAGQERFRTITQSYYRS----A   94 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~--~~~~~l~i~D~~G~~~~~~~~~~~~~~----a   94 (231)
                      .-.|+|+|+.++||||||.+|.+.   +++.++.+.+|....+.-+  ....++.+|-..|...+..+.+..+..    -
T Consensus        25 ~k~vlvlG~~~~GKttli~~L~~~---e~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~  101 (472)
T PF05783_consen   25 EKSVLVLGDKGSGKTTLIARLQGI---EDPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPN  101 (472)
T ss_pred             CceEEEEeCCCCchHHHHHHhhcc---CCCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccc
Confidence            457999999999999999998654   3466788877765554332  234678999998877676666555542    2


Q ss_pred             cEEEEEEecC----cHhhHHHHHHHHHHhcCC
Q psy5781          95 NGVIIEVTSV----EYCYQRNWHKQAVTLFDK  122 (231)
Q Consensus        95 d~vIlV~dit----Sf~~l~~w~~~i~~~~~~  122 (231)
                      -.+|||.|.+    -.+.+..|+..+++....
T Consensus       102 t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~  133 (472)
T PF05783_consen  102 TLVVIVLDLSKPWNIMESLEKWLSVLREHIEK  133 (472)
T ss_pred             eEEEEEecCCChHHHHHHHHHHHHHHHHHHHH
Confidence            4889999999    777889999988876643

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 [].

>cd01858 NGP_1 NGP-1

Probab=98.29  E-value=2.4e-06  Score=66.74  Aligned_cols=56  Identities=20%  Similarity=0.291  Sum_probs=37.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      ..++|+++|.+|||||||+|++.+..... ..++.|.......+..++   .+.|.||||
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~-~~~~~g~T~~~~~~~~~~---~~~liDtPG  156 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCK-VAPIPGETKVWQYITLMK---RIYLIDCPG  156 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCcee-eCCCCCeeEeEEEEEcCC---CEEEEECcC
Confidence            45789999999999999999999765422 233444333322333322   267999998

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.

>KOG0082|consensus

Probab=98.29  E-value=2.8e-06  Score=74.51  Aligned_cols=74  Identities=19%  Similarity=0.203  Sum_probs=53.8

Q ss_pred             EEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCcHh----------hHHHHHHHHHHhcCCc----ceee
Q psy5781          62 TVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYC----------YQRNWHKQAVTLFDKY----KFGH  127 (231)
Q Consensus        62 ~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditSf~----------~l~~w~~~i~~~~~~~----~~~~  127 (231)
                      .+.+.+  ..+.++|++||..-+.-|-+++.+++++|+|.+++.++          ++.+-++....++...    ...+
T Consensus       189 ~F~~k~--~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsii  266 (354)
T KOG0082|consen  189 EFTIKG--LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSII  266 (354)
T ss_pred             EEEeCC--CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEE
Confidence            444444  78899999999988889999999999999999999333          2334444445555443    3466


Q ss_pred             ecccccCCCC
Q psy5781         128 AFSTSLAMPQ  137 (231)
Q Consensus       128 vv~~k~dl~~  137 (231)
                      +..||.|+-.
T Consensus       267 LFLNK~DLFe  276 (354)
T KOG0082|consen  267 LFLNKKDLFE  276 (354)
T ss_pred             EEeecHHHHH
Confidence            7889988754

>cd01882 BMS1 Bms1

Probab=98.23  E-value=9.8e-06  Score=67.35  Aligned_cols=109  Identities=17%  Similarity=0.195  Sum_probs=64.6

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .....|+++|.+|+|||+|++.++...-........| .+   .+. ......+.++|++|.-  ..+. ...+.+|+++
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g-~i---~i~-~~~~~~i~~vDtPg~~--~~~l-~~ak~aDvVl  108 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKG-PI---TVV-TGKKRRLTFIECPNDI--NAMI-DIAKVADLVL  108 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccCccccccc-cE---EEE-ecCCceEEEEeCCchH--HHHH-HHHHhcCEEE
Confidence            3457899999999999999999986421111111122 11   111 1234667899999854  2222 3357899999


Q ss_pred             EEEecC-cHhh-HHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          99 IEVTSV-EYCY-QRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        99 lV~dit-Sf~~-l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +|+|.+ .+.. ...++..+...  +.+..+++.||.|+..
T Consensus       109 lviDa~~~~~~~~~~i~~~l~~~--g~p~vi~VvnK~D~~~  147 (225)
T cd01882         109 LLIDASFGFEMETFEFLNILQVH--GFPRVMGVLTHLDLFK  147 (225)
T ss_pred             EEEecCcCCCHHHHHHHHHHHHc--CCCeEEEEEeccccCC
Confidence            999998 2222 12233333221  2233445889999754

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.20  E-value=5.5e-06  Score=71.34  Aligned_cols=59  Identities=25%  Similarity=0.410  Sum_probs=43.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE   81 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~   81 (231)
                      ...++|+++|.+|||||||+|++.+..... ..+..|.+.....+.+++   .+.++||||--
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~-~~~~~g~T~~~~~~~~~~---~~~l~DtPGi~  177 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAK-TGNRPGVTKAQQWIKLGK---GLELLDTPGIL  177 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccc-cCCCCCeEEEEEEEEeCC---cEEEEECCCcC
Confidence            356899999999999999999999876432 344455445444555543   37899999963

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.20  E-value=4.4e-06  Score=71.53  Aligned_cols=58  Identities=22%  Similarity=0.424  Sum_probs=42.1

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~   80 (231)
                      ...++|+++|.+|||||||+|++.+..... ..+..|.+.....+.++.   .+.|+||||.
T Consensus       116 ~~~~~~~~vG~~nvGKSslin~l~~~~~~~-~~~~~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       116 NRPIRAMIVGIPNVGKSTLINRLAGKKVAK-VGNRPGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccc-cCCCCCeecceEEEEeCC---CEEEEECCCc
Confidence            346899999999999999999999776433 233445444444555543   4789999997

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.

>KOG0462|consensus

Probab=98.20  E-value=1.4e-05  Score=73.04  Aligned_cols=117  Identities=16%  Similarity=0.221  Sum_probs=83.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCC-CCC----------------CcccceeeEEEEEEEEECCeEEEEEEeeCCCcc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGD-FVE----------------KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE   81 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~-f~~----------------~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~   81 (231)
                      ++.-++.+|-.-.=|||||.-|++.-. +..                +--.|+.-. ....+..+|+.+.|++.||||+.
T Consensus        58 ~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQ-tasify~~~~~ylLNLIDTPGHv  136 (650)
T KOG0462|consen   58 ENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQ-TASIFYKDGQSYLLNLIDTPGHV  136 (650)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEee-eeEEEEEcCCceEEEeecCCCcc
Confidence            456678889999999999999997311 111                111222211 11222335788999999999999


Q ss_pred             ccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          82 RFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        82 ~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      +|.......+.-|+|++||.|.+   --+.+..++..+    ...-.++.+.||+|++..++
T Consensus       137 DFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAf----e~~L~iIpVlNKIDlp~adp  194 (650)
T KOG0462|consen  137 DFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAF----EAGLAIIPVLNKIDLPSADP  194 (650)
T ss_pred             cccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHH----HcCCeEEEeeeccCCCCCCH
Confidence            99998889999999999999999   444444444444    34445678899999998776

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

Probab=98.13  E-value=1.1e-05  Score=72.69  Aligned_cols=118  Identities=18%  Similarity=0.190  Sum_probs=81.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC--CCCC---------------CcccceeeEEEEEEEEE-CCeEEEEEEeeCCCc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG--DFVE---------------KTGNTIGVDFSMKTVNI-DGKKVKLQIWDTAGQ   80 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~---------------~~~pt~~~~~~~~~~~~-~~~~~~l~i~D~~G~   80 (231)
                      .+.-++.++-.=.=|||||.-|++..  ...+               +.-.|+....-.-.+.. +|+.+.+++.||||+
T Consensus         7 ~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGH   86 (603)
T COG0481           7 KNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGH   86 (603)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCc
Confidence            34445677777788999999999742  1111               11133332222122222 678999999999999


Q ss_pred             cccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          81 ERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        81 ~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      -+|.-.....+..|.|.+||.|.+   --+.+.+.+..+    +.+-.++.+.||+|++...+
T Consensus        87 VDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAl----e~~LeIiPViNKIDLP~Adp  145 (603)
T COG0481          87 VDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL----ENNLEIIPVLNKIDLPAADP  145 (603)
T ss_pred             cceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHH----HcCcEEEEeeecccCCCCCH
Confidence            998877788888999999999999   444444444444    44556778899999998766

>cd01855 YqeH YqeH

Probab=98.12  E-value=5.1e-06  Score=66.94  Aligned_cols=55  Identities=20%  Similarity=0.367  Sum_probs=37.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCC-------CcccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVE-------KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~-------~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      .+++++|.+|||||||+|.+.......       ...+..|.+.....+.++.   .+.|+||||
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~~~DtPG  189 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGN---GKKLYDTPG  189 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCC---CCEEEeCcC
Confidence            589999999999999999999754311       1223334344444455543   479999998

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.

>COG2262 HflX GTPases [General function prediction only]

Probab=98.10  E-value=2.4e-05  Score=69.41  Aligned_cols=120  Identities=12%  Similarity=0.055  Sum_probs=80.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc---------ccchhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE---------RFRTIT   87 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~---------~~~~~~   87 (231)
                      ......|.++|=.++|||||+|++++.... .+...+. .+-..+.+.+.+ ...+.+-||.|--         .|++..
T Consensus       189 ~~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFAT-LdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFksTL  266 (411)
T COG2262         189 RSGIPLVALVGYTNAGKSTLFNALTGADVYVADQLFAT-LDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKSTL  266 (411)
T ss_pred             ccCCCeEEEEeeccccHHHHHHHHhccCeecccccccc-ccCceeEEEeCC-CceEEEecCccCcccCChHHHHHHHHHH
Confidence            345678999999999999999999965433 3222222 234556677764 3567788998832         233222


Q ss_pred             hhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          88 QSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                       .-...+|.++.|.|.+   ..+.++.-..-+.+..-...+.+++.||+|...+..
T Consensus       267 -EE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~  321 (411)
T COG2262         267 -EEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE  321 (411)
T ss_pred             -HHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh
Confidence             2345899999999999   344444555555555556678889999999665443

>KOG1547|consensus

Probab=98.08  E-value=1.2e-05  Score=66.59  Aligned_cols=61  Identities=23%  Similarity=0.477  Sum_probs=47.7

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCC---------CcccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVE---------KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~---------~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      ...|+|+|||.+|.|||||++.+.......         .+..|.++......+.-+|.+.+|++.||+|
T Consensus        44 GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPG  113 (336)
T KOG1547|consen   44 GFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPG  113 (336)
T ss_pred             cCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCC
Confidence            457899999999999999999987543322         3445666666666677788899999999998

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=98.06  E-value=6.2e-06  Score=73.11  Aligned_cols=111  Identities=14%  Similarity=0.117  Sum_probs=51.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccc--eeeEEEEEEEEECCeEEEEEEeeCCCccccchhh-----hhcc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNT--IGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTIT-----QSYY   91 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt--~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~-----~~~~   91 (231)
                      ..++|+|+|++|+|||||||.+.+-.-. +..-+|  ++.+.....+... ..-.+.+||.||.....-..     ..-+
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p-~~pnv~lWDlPG~gt~~f~~~~Yl~~~~~  112 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHP-KFPNVTLWDLPGIGTPNFPPEEYLKEVKF  112 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-S-S-TTEEEEEE--GGGSS--HHHHHHHTTG
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCC-CCCCCeEEeCCCCCCCCCCHHHHHHHccc
Confidence            5689999999999999999999642211 111111  1111111122221 22248999999954322122     2235


Q ss_pred             cCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCC
Q psy5781          92 RSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAM  135 (231)
Q Consensus        92 ~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl  135 (231)
                      ..-|.+|++.+-. +-.++. ..+++.+.   .+.-..|-+|+|.
T Consensus       113 ~~yD~fiii~s~rf~~ndv~-La~~i~~~---gK~fyfVRTKvD~  153 (376)
T PF05049_consen  113 YRYDFFIIISSERFTENDVQ-LAKEIQRM---GKKFYFVRTKVDS  153 (376)
T ss_dssp             GG-SEEEEEESSS--HHHHH-HHHHHHHT---T-EEEEEE--HHH
T ss_pred             cccCEEEEEeCCCCchhhHH-HHHHHHHc---CCcEEEEEecccc
Confidence            5678888876655 433322 22334332   2234455666553

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.

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

Probab=98.05  E-value=2.4e-05  Score=69.46  Aligned_cols=119  Identities=16%  Similarity=0.190  Sum_probs=76.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC--CCCC----C-----------------------cccceeeEEEEEEEEECCe
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG--DFVE----K-----------------------TGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~----~-----------------------~~pt~~~~~~~~~~~~~~~   68 (231)
                      ....++++++|...+|||||+=|++.+  .+.+    +                       ....-|...........-.
T Consensus         4 ~Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~   83 (428)
T COG5256           4 EKPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETD   83 (428)
T ss_pred             CCCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecC
Confidence            445689999999999999999888643  2211    0                       0011122223333333344


Q ss_pred             EEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHhhH----HHHHHH--HHHhcCCcceeeecccccCCCC
Q psy5781          69 KVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYCYQ----RNWHKQ--AVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~~l----~~w~~~--i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+.++|.|++|+.+|-.-.-.-...||+.|||.|..  .|+.-    -.-+++  |.+..+ -.-.++..||.|+..
T Consensus        84 k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG-i~~lIVavNKMD~v~  159 (428)
T COG5256          84 KYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG-IKQLIVAVNKMDLVS  159 (428)
T ss_pred             CceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcC-CceEEEEEEcccccc
Confidence            578999999999888776667788999999999999  44432    122222  333333 333557778888765

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.02  E-value=1.2e-05  Score=70.39  Aligned_cols=58  Identities=24%  Similarity=0.385  Sum_probs=45.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~   80 (231)
                      ...+++.|+|-++||||||||++++..- ....+..|.+-....+.++..   +.|+||||-
T Consensus       130 ~~~~~v~vvG~PNVGKSslIN~L~~k~~-~~~s~~PG~Tk~~q~i~~~~~---i~LlDtPGi  187 (322)
T COG1161         130 KRKIRVGVVGYPNVGKSTLINRLLGKKV-AKTSNRPGTTKGIQWIKLDDG---IYLLDTPGI  187 (322)
T ss_pred             ccceEEEEEcCCCCcHHHHHHHHhcccc-eeeCCCCceecceEEEEcCCC---eEEecCCCc
Confidence            3458899999999999999999998775 334555576666666666543   899999995

>KOG0468|consensus

Probab=98.02  E-value=3.4e-05  Score=72.00  Aligned_cols=116  Identities=21%  Similarity=0.203  Sum_probs=78.7

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccce---------------e--eEEEEEEEE---ECCeEEEEEE
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTI---------------G--VDFSMKTVN---IDGKKVKLQI   74 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~---------------~--~~~~~~~~~---~~~~~~~l~i   74 (231)
                      +.......+|.++|.-+.|||+|+..+.....++-+.++.               |  +.....++-   .+++.+.++|
T Consensus       122 ~~~p~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~ni  201 (971)
T KOG0468|consen  122 MDNPERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNI  201 (971)
T ss_pred             ccCcceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeee
Confidence            4456778899999999999999999998665433211111               1  111111221   2578899999


Q ss_pred             eeCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccC
Q psy5781          75 WDTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLA  134 (231)
Q Consensus        75 ~D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~d  134 (231)
                      .||+|+-.|.......++.+|++++|+|+.   ++. .+..+++   ...++..+.++.||+|
T Consensus       202 lDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmln-tEr~ikh---aiq~~~~i~vviNKiD  260 (971)
T KOG0468|consen  202 LDTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLN-TERIIKH---AIQNRLPIVVVINKVD  260 (971)
T ss_pred             ecCCCcccchHHHHHHhhhcceEEEEEEcccCceee-HHHHHHH---HHhccCcEEEEEehhH
Confidence            999999999988888999999999999998   332 2233322   2334555566667665

>smart00053 DYNc Dynamin, GTPase

Probab=98.01  E-value=4.2e-05  Score=64.20  Aligned_cols=67  Identities=10%  Similarity=0.113  Sum_probs=40.8

Q ss_pred             EEEEEeeCCCccc-------------cchhhhhcccC-CcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccC
Q psy5781          70 VKLQIWDTAGQER-------------FRTITQSYYRS-ANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLA  134 (231)
Q Consensus        70 ~~l~i~D~~G~~~-------------~~~~~~~~~~~-ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~d  134 (231)
                      ..+.+.|++|-..             ...+...|+++ .+.+++|.|.+ .+.+- ..++..+...+.....+.+.||.|
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~-d~l~ia~~ld~~~~rti~ViTK~D  203 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANS-DALKLAKEVDPQGERTIGVITKLD  203 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCch-hHHHHHHHHHHcCCcEEEEEECCC
Confidence            4788999999642             22345667884 45888899877 22211 122222222334555668899998


Q ss_pred             CCC
Q psy5781         135 MPQ  137 (231)
Q Consensus       135 l~~  137 (231)
                      ...
T Consensus       204 ~~~  206 (240)
T smart00053      204 LMD  206 (240)
T ss_pred             CCC
Confidence            875

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.00  E-value=6.2e-05  Score=65.95  Aligned_cols=62  Identities=24%  Similarity=0.510  Sum_probs=49.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC----------cccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK----------TGNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~----------~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      ....+.|+++|.+|.|||||+|.+++......          ..|++.+..+...+.-+|..+.|++.||+|
T Consensus        20 ~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpG   91 (373)
T COG5019          20 KGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPG   91 (373)
T ss_pred             cCCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCC
Confidence            46789999999999999999999987633221          346666666666666688899999999998

>KOG3905|consensus

Probab=97.96  E-value=3.7e-05  Score=66.40  Aligned_cols=99  Identities=15%  Similarity=0.272  Sum_probs=69.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC--CeEEEEEEeeCCCccccchhhhhcccCC---
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID--GKKVKLQIWDTAGQERFRTITQSYYRSA---   94 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~--~~~~~l~i~D~~G~~~~~~~~~~~~~~a---   94 (231)
                      ..-.|+|+|+.|+||||||.++-+.+   .+.+--|.+|....+.-+  +...++.+|-..|..-...+....+...   
T Consensus        51 sgk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~a  127 (473)
T KOG3905|consen   51 SGKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLA  127 (473)
T ss_pred             CCCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCcc
Confidence            34579999999999999999998765   344555555554433332  2356778888878765555655554432   


Q ss_pred             -cEEEEEEecC----cHhhHHHHHHHHHHhcC
Q psy5781          95 -NGVIIEVTSV----EYCYQRNWHKQAVTLFD  121 (231)
Q Consensus        95 -d~vIlV~dit----Sf~~l~~w~~~i~~~~~  121 (231)
                       -.+||+.|++    -.+.+++|..-+++..+
T Consensus       128 etlviltasms~Pw~~lesLqkWa~Vl~ehid  159 (473)
T KOG3905|consen  128 ETLVILTASMSNPWTLLESLQKWASVLREHID  159 (473)
T ss_pred             ceEEEEEEecCCcHHHHHHHHHHHHHHHHHHH
Confidence             4788999999    67888999988776654

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=97.93  E-value=4.4e-05  Score=66.29  Aligned_cols=116  Identities=11%  Similarity=0.017  Sum_probs=74.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc----ccchhh---hhcccCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE----RFRTIT---QSYYRSA   94 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~----~~~~~~---~~~~~~a   94 (231)
                      .|-+||-|++||||||+.+...+- +.+|.-|.-... --.+.++ ..-.+.|-|.||.-    +-..+-   -..+.++
T Consensus       161 DVGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~Pn-LGvV~~~-~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt  238 (369)
T COG0536         161 DVGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPN-LGVVRVD-GGESFVVADIPGLIEGASEGVGLGLRFLRHIERT  238 (369)
T ss_pred             ccccccCCCCcHHHHHHHHhhcCCcccCCccccccCc-ccEEEec-CCCcEEEecCcccccccccCCCccHHHHHHHHhh
Confidence            466899999999999999986543 344543322111 0123332 23457889999842    112222   2345688


Q ss_pred             cEEEEEEecC------cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCCcc
Q psy5781          95 NGVIIEVTSV------EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        95 d~vIlV~dit------Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~~  140 (231)
                      .+++.|.|++      -.++.+....|+..+.+  ..++.+++.||+|+..+.+
T Consensus       239 ~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e  292 (369)
T COG0536         239 RVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEE  292 (369)
T ss_pred             heeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHH
Confidence            9999999999      25566677777776654  3566779999999766544

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

Probab=97.87  E-value=9.5e-05  Score=67.54  Aligned_cols=114  Identities=18%  Similarity=0.148  Sum_probs=79.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCC----cccceeeEEEEEEEEEC-CeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEK----TGNTIGVDFSMKTVNID-GKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~----~~pt~~~~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      ..=|+++|.---|||||+-.+-..+....    +...+|  -+  .+.++ +..-.+.+.||||++.|..++..=..-+|
T Consensus         5 ~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIG--A~--~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtD   80 (509)
T COG0532           5 PPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIG--AY--QVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTD   80 (509)
T ss_pred             CCEEEEeCcccCCccchhhhHhcCccccccCCceeeEee--eE--EEEeccCCCceEEEEcCCcHHHHHHHHhcCCcccc
Confidence            34589999999999999998876654332    222333  22  22332 12357899999999999999998889999


Q ss_pred             EEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          96 GVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        96 ~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      .+|||.|++ .+.  ..-.+.+........+..+..||+|-...++
T Consensus        81 IaILVVa~dDGv~--pQTiEAI~hak~a~vP~iVAiNKiDk~~~np  124 (509)
T COG0532          81 IAILVVAADDGVM--PQTIEAINHAKAAGVPIVVAINKIDKPEANP  124 (509)
T ss_pred             EEEEEEEccCCcc--hhHHHHHHHHHHCCCCEEEEEecccCCCCCH
Confidence            999999999 221  1222334444445566778889999887666

>KOG2655|consensus

Probab=97.85  E-value=4.5e-05  Score=67.07  Aligned_cols=63  Identities=22%  Similarity=0.460  Sum_probs=47.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC---------cccceeeEEEEEEEEECCeEEEEEEeeCCCc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK---------TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~---------~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~   80 (231)
                      +...|.++++|++|.|||||+|.++...+..+         ...|..+..+...+.-+|..+.|++.||+|-
T Consensus        18 kG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGf   89 (366)
T KOG2655|consen   18 KGFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGF   89 (366)
T ss_pred             cCCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCC
Confidence            45679999999999999999999876644332         2235555555555555788999999999983

>PRK14845 translation initiation factor IF-2; Provisional

Probab=97.83  E-value=6.5e-05  Score=74.59  Aligned_cols=63  Identities=14%  Similarity=0.013  Sum_probs=45.9

Q ss_pred             EEEeeCCCccccchhhhhcccCCcEEEEEEecC-cHhhH-HHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          72 LQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        72 l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +.||||+|++.|..+....+..+|++++|+|++ .+..- ...+..+..   ...+.++++||.|+..
T Consensus       528 i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I~~lk~---~~iPiIVViNKiDL~~  592 (1049)
T PRK14845        528 LLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQ---YKTPFVVAANKIDLIP  592 (1049)
T ss_pred             EEEEECCCcHHHHHHHHhhcccCCEEEEEEECcccCCHhHHHHHHHHHH---cCCCEEEEEECCCCcc
Confidence            899999999999888888889999999999998 21111 122222322   2345778999999864

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.81  E-value=3.4e-05  Score=64.96  Aligned_cols=90  Identities=7%  Similarity=-0.055  Sum_probs=61.0

Q ss_pred             cccchhhhhcccCCcEEEEEEecC----cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCc
Q psy5781          81 ERFRTITQSYYRSANGVIIEVTSV----EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPF  156 (231)
Q Consensus        81 ~~~~~~~~~~~~~ad~vIlV~dit----Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~  156 (231)
                      +++..+.+.+++++|++++|||++    |++.+.+|+..+..   .....++++||.|+...............+.+..+
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~~~~~~~~~~~g~~v  100 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDMEKEQLDIYRNIGYQV  100 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHHHHHHHCCCeE
Confidence            567778889999999999999998    89999999987653   44567789999999654332111111222344445


Q ss_pred             ccccc--ccchhhhhhhhc
Q psy5781         157 PQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       157 ~ev~~--~~nv~e~f~~~~  173 (231)
                      .+++.  ..|++++|...+
T Consensus       101 ~~~SAktg~gi~eLf~~l~  119 (245)
T TIGR00157       101 LMTSSKNQDGLKELIEALQ  119 (245)
T ss_pred             EEEecCCchhHHHHHhhhc
Confidence            55544  455666665543

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

>KOG1486|consensus

Probab=97.80  E-value=0.0002  Score=60.01  Aligned_cols=97  Identities=16%  Similarity=0.097  Sum_probs=62.8

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc------c-chhhhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER------F-RTITQS   89 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~------~-~~~~~~   89 (231)
                      +..--||+++|-|.||||||+..+..-... ..|.-|.- +...-.+.++|  ..+++.|.||.-+      - ....-.
T Consensus        59 KsGdaRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTL-tcIpGvi~y~g--a~IQllDLPGIieGAsqgkGRGRQvia  135 (364)
T KOG1486|consen   59 KSGDARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTL-TCIPGVIHYNG--ANIQLLDLPGIIEGASQGKGRGRQVIA  135 (364)
T ss_pred             ccCCeEEEEecCCCccHHHHHHHhhcchhhhhceeeeEE-EeecceEEecC--ceEEEecCcccccccccCCCCCceEEE
Confidence            344569999999999999999999864432 23333331 33344556666  6789999998422      1 112334


Q ss_pred             cccCCcEEEEEEecC-cHhhHHHHHHHHH
Q psy5781          90 YYRSANGVIIEVTSV-EYCYQRNWHKQAV  117 (231)
Q Consensus        90 ~~~~ad~vIlV~dit-Sf~~l~~w~~~i~  117 (231)
                      ..+.||.+++|.|.+ +-+.-...-+++.
T Consensus       136 vArtaDlilMvLDatk~e~qr~~le~ELe  164 (364)
T KOG1486|consen  136 VARTADLILMVLDATKSEDQREILEKELE  164 (364)
T ss_pred             EeecccEEEEEecCCcchhHHHHHHHHHH
Confidence            567899999999999 4444333334443

>PRK09866 hypothetical protein; Provisional

Probab=97.77  E-value=0.00039  Score=65.46  Aligned_cols=106  Identities=8%  Similarity=0.039  Sum_probs=60.2

Q ss_pred             EEEEeeCCCcccc-----chhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcccc
Q psy5781          71 KLQIWDTAGQERF-----RTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCL  142 (231)
Q Consensus        71 ~l~i~D~~G~~~~-----~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~  142 (231)
                      .+.+.||||-...     .......+..+|++++|.|.+   +..+ ....+.+.+. .+..+.+++.||+|......-.
T Consensus       231 QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~-~K~~PVILVVNKIDl~dreedd  308 (741)
T PRK09866        231 QLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAV-GQSVPLYVLVNKFDQQDRNSDD  308 (741)
T ss_pred             CEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhc-CCCCCEEEEEEcccCCCcccch
Confidence            4678899996531     222344789999999999998   2222 2333344332 2223577899999985321111


Q ss_pred             ccchh--h---hhhcCCCcccccc-----ccchhhhhhhhccCCCc
Q psy5781         143 FHKFG--H---ASSSAMPFPQVWP-----CLKFGHAFSTSLAMPQV  178 (231)
Q Consensus       143 ~~~~~--~---s~~~~~~~~ev~~-----~~nv~e~f~~~~~~~~~  178 (231)
                      .....  .   -.+...++.+++.     ..|+++.......-+++
T Consensus       309 kE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~~~~l  354 (741)
T PRK09866        309 ADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELANNGKL  354 (741)
T ss_pred             HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHhCCCC
Confidence            11111  1   1123445666655     66777777777755443

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.76  E-value=9e-05  Score=57.74  Aligned_cols=57  Identities=30%  Similarity=0.401  Sum_probs=36.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      ....+|+++|.+|||||||+|.+....-.. ..+..+.......+..+   ..+.+.||+|
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~-~~~~~~~t~~~~~~~~~---~~~~liDtPG  154 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLK-VGNVPGTTTSQQEVKLD---NKIKLLDTPG  154 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHcccccc-ccCCCCcccceEEEEec---CCEEEEECCC
Confidence            456889999999999999999999765211 11111111222223332   2488999998

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.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=97.73  E-value=4e-05  Score=60.36  Aligned_cols=24  Identities=29%  Similarity=0.551  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      =.++++|.+|||||||||.++...
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhc
Confidence            368999999999999999999764

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>PRK13768 GTPase; Provisional

Probab=97.71  E-value=3.3e-05  Score=65.37  Aligned_cols=68  Identities=13%  Similarity=0.001  Sum_probs=41.7

Q ss_pred             EEEEeeCCCcccc---chhhhhcccC-----CcEEEEEEecC---cHhhH--HHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          71 KLQIWDTAGQERF---RTITQSYYRS-----ANGVIIEVTSV---EYCYQ--RNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        71 ~l~i~D~~G~~~~---~~~~~~~~~~-----ad~vIlV~dit---Sf~~l--~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+.|||++|+.+.   +..+..+++.     ++++++|+|.+   .....  ..|+...... ......+++.||.|+..
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~  176 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLS  176 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcC
Confidence            6889999998663   3333233222     89999999997   22222  2344333322 23456668999999865


Q ss_pred             Cc
Q psy5781         138 VR  139 (231)
Q Consensus       138 ~~  139 (231)
                      ..
T Consensus       177 ~~  178 (253)
T PRK13768        177 EE  178 (253)
T ss_pred             ch
Confidence            43

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=97.67  E-value=2.8e-05  Score=58.16  Aligned_cols=133  Identities=16%  Similarity=0.116  Sum_probs=75.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc----ccchhhhhcccCCcEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE----RFRTITQSYYRSANGVI   98 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~----~~~~~~~~~~~~ad~vI   98 (231)
                      ||.++|..|+|||+|.+.+-+....  |..|..++|..+           -..||+|.-    .+..-......++|+++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~l--ykKTQAve~~d~-----------~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~   69 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDTL--YKKTQAVEFNDK-----------GDIDTPGEYFEHPRWYHALITTLQDADVII   69 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchhh--hcccceeeccCc-----------cccCCchhhhhhhHHHHHHHHHhhccceee
Confidence            7999999999999999998876532  334444333211           145888842    22222344567899999


Q ss_pred             EEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhh
Q psy5781          99 IEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        99 lV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      +|-..+.-+.  .+-..+.....+.  .+-+.+|.|+..+.........+......++-++..  +-++++.+.-.
T Consensus        70 ~v~~and~~s--~f~p~f~~~~~k~--vIgvVTK~DLaed~dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L  141 (148)
T COG4917          70 YVHAANDPES--RFPPGFLDIGVKK--VIGVVTKADLAEDADISLVKRWLREAGAEPIFETSAVDNQGVEELVDYL  141 (148)
T ss_pred             eeecccCccc--cCCcccccccccc--eEEEEecccccchHhHHHHHHHHHHcCCcceEEEeccCcccHHHHHHHH
Confidence            9988881111  1111222222222  446678889986544333333344444555555555  44566655443

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=97.67  E-value=0.00015  Score=66.42  Aligned_cols=119  Identities=13%  Similarity=0.152  Sum_probs=72.6

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcC---CCCCCcc--cceeeEEEEEE----------E---EEC-C----------
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSG---DFVEKTG--NTIGVDFSMKT----------V---NID-G----------   67 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~---~f~~~~~--pt~~~~~~~~~----------~---~~~-~----------   67 (231)
                      ..+-.++|.++|.-..|||||+..+.+-   ++.++..  -|+..-|....          .   ... +          
T Consensus        30 ~~~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (460)
T PTZ00327         30 SRQATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGC  109 (460)
T ss_pred             cCCCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccc
Confidence            4566789999999999999999999853   2222211  12211121110          0   000 0          


Q ss_pred             -----eEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC-cH-hh-HHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          68 -----KKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-EY-CY-QRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        68 -----~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-Sf-~~-l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                           ....+.+.|++|+++|......-+..+|+++||.|.+ .. .. ..+.+. +.+... .+..+++.||.|+..
T Consensus       110 ~~~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~-i~~~lg-i~~iIVvlNKiDlv~  185 (460)
T PTZ00327        110 GHKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLA-AVEIMK-LKHIIILQNKIDLVK  185 (460)
T ss_pred             cccccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHH-HHHHcC-CCcEEEEEecccccC
Confidence                 0236899999999988766566677899999999998 21 11 112221 222222 244568899999864

>PRK12288 GTPase RsgA; Reviewed

Probab=97.66  E-value=8.8e-05  Score=65.59  Aligned_cols=78  Identities=13%  Similarity=0.191  Sum_probs=45.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCCCCC--Ccccc--ee--eEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGDFVE--KTGNT--IG--VDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~f~~--~~~pt--~~--~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ++++|.+|||||||||+++.+.-..  +....  .|  .+.....+.+++.   ..|.||||-.++.             
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~---~~liDTPGir~~~-------------  271 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHG---GDLIDSPGVREFG-------------  271 (347)
T ss_pred             EEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCC---CEEEECCCCCccc-------------
Confidence            7899999999999999999764321  11110  01  1112223344322   2489999987643             


Q ss_pred             EEEEecCcHhhHHHHHHHHHHhc
Q psy5781          98 IIEVTSVEYCYQRNWHKQAVTLF  120 (231)
Q Consensus        98 IlV~ditSf~~l~~w~~~i~~~~  120 (231)
                        ++++ .-+.+...++++....
T Consensus       272 --l~~~-~~~~l~~~F~ei~~~~  291 (347)
T PRK12288        272 --LWHL-EPEQVTQGFVEFRDYL  291 (347)
T ss_pred             --CCCC-CHHHHHHhhHHHHHHh
Confidence              1111 2356677777776554

>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=97.66  E-value=3.6e-05  Score=64.55  Aligned_cols=67  Identities=13%  Similarity=0.034  Sum_probs=35.3

Q ss_pred             EEEEeeCCCccccchhhhhcc--------cCCcEEEEEEecCcHh----hHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          71 KLQIWDTAGQERFRTITQSYY--------RSANGVIIEVTSVEYC----YQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        71 ~l~i~D~~G~~~~~~~~~~~~--------~~ad~vIlV~ditSf~----~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+.|+|||||-++-..+....        ...-++|++.|.....    -+..++-.+.-...-..+.+.+.+|.|+..
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~  170 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLS  170 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCccc
Confidence            689999999987544333222        3455888999998222    233444444444444556668889999876

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>TIGR00092 GTP-binding protein YchF

Probab=97.64  E-value=0.00017  Score=63.96  Aligned_cols=82  Identities=15%  Similarity=0.034  Sum_probs=54.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC-C-CCcccceeeEEEEEEEEECCe---------------EEEEEEeeCCCccc--
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF-V-EKTGNTIGVDFSMKTVNIDGK---------------KVKLQIWDTAGQER--   82 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f-~-~~~~pt~~~~~~~~~~~~~~~---------------~~~l~i~D~~G~~~--   82 (231)
                      +|+.++|.++||||||.+.++...- . ..|..|. .+-....+.+.+.               ...+.+.|.+|-..  
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftT-i~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gA   81 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTT-IEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGA   81 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCC-CCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccch
Confidence            7899999999999999999997764 2 3343221 1122233444332               23678999998532  


Q ss_pred             -----cchhhhhcccCCcEEEEEEecC
Q psy5781          83 -----FRTITQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        83 -----~~~~~~~~~~~ad~vIlV~dit  104 (231)
                           .....-..++++|+++.|.+..
T Consensus        82 s~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        82 SKGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             hcccCcchHHHHHHHhCCEEEEEEeCC
Confidence                 1112344678999999999973

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>KOG1954|consensus

Probab=97.62  E-value=0.00024  Score=62.42  Aligned_cols=122  Identities=14%  Similarity=0.175  Sum_probs=79.2

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCc---ccceeeEEEEEEEE------ECCeE------------------
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKT---GNTIGVDFSMKTVN------IDGKK------------------   69 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~---~pt~~~~~~~~~~~------~~~~~------------------   69 (231)
                      +-+.+--|+++|.-..||||+|+.++...|+.-.   .||..  +......      ++|..                  
T Consensus        54 dfd~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd--~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~a  131 (532)
T KOG1954|consen   54 DFDAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTD--RFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNA  131 (532)
T ss_pred             ccccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcc--eeEEEEecCcccccCCceeeecCCCchhhhhhhHHH
Confidence            4445567999999999999999999999886422   23332  2221111      11111                  


Q ss_pred             ---------------EEEEEeeCCCcc-----------ccchhhhhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCc
Q psy5781          70 ---------------VKLQIWDTAGQE-----------RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKY  123 (231)
Q Consensus        70 ---------------~~l~i~D~~G~~-----------~~~~~~~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~  123 (231)
                                     -.++|.||+|.-           .|....+=|..++|.++|+||.--++--.++.+-|....+.+
T Consensus       132 flnRf~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~E  211 (532)
T KOG1954|consen  132 FLNRFMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGHE  211 (532)
T ss_pred             HHHHHHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCCc
Confidence                           168899999832           133445667889999999999984443344455555555655


Q ss_pred             ceeeecccccCCCCCcc
Q psy5781         124 KFGHAFSTSLAMPQVRP  140 (231)
Q Consensus       124 ~~~~vv~~k~dl~~~~~  140 (231)
                      .-+-++.||.|....++
T Consensus       212 dkiRVVLNKADqVdtqq  228 (532)
T KOG1954|consen  212 DKIRVVLNKADQVDTQQ  228 (532)
T ss_pred             ceeEEEeccccccCHHH
Confidence            55668888887766443

>PRK12289 GTPase RsgA; Reviewed

Probab=97.60  E-value=0.00011  Score=65.03  Aligned_cols=57  Identities=21%  Similarity=0.335  Sum_probs=34.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCC--Ccccce--e--eEEEEEEEEECCeEEEEEEeeCCCccc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVE--KTGNTI--G--VDFSMKTVNIDGKKVKLQIWDTAGQER   82 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~--~~~pt~--~--~~~~~~~~~~~~~~~~l~i~D~~G~~~   82 (231)
                      .++++|.+|||||||||.++.+.-..  ......  |  .+.....+.+++.   ..|.||||-..
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g---~~liDTPG~~~  236 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNG---GLLADTPGFNQ  236 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCC---cEEEeCCCccc
Confidence            37999999999999999999654321  111100  0  1122233344322   26899999654

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.59  E-value=0.00018  Score=64.04  Aligned_cols=58  Identities=19%  Similarity=0.344  Sum_probs=37.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCC----CcccceeeEEEEEEEEECCeEEEEEEeeCCCccc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVE----KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER   82 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~----~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~   82 (231)
                      .++.++|.+|||||||+|+++......    ...+..|.+.....+.+++.   +.|+||||-..
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~~---~~l~DtPG~~~  216 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDDG---HSLYDTPGIIN  216 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCCC---CEEEECCCCCC
Confidence            489999999999999999999753211    12222332333334444322   57999999653

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.

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=97.57  E-value=0.00052  Score=57.00  Aligned_cols=85  Identities=15%  Similarity=0.137  Sum_probs=53.7

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC--CCCC---CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch------hh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG--DFVE---KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT------IT   87 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~---~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~------~~   87 (231)
                      ....-|.|+|..++|||+|+|++++.  .|.-   ...-|.|+......+.. +....+.+.||.|......      ..
T Consensus         5 ~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~-~~~~~v~~lDteG~~~~~~~~~~~~~~   83 (224)
T cd01851           5 FPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKL-GKEHAVLLLDTEGTDGRERGEFEDDAR   83 (224)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccC-CCcceEEEEecCCcCccccCchhhhhH
Confidence            34567899999999999999999988  6632   22344554333222221 3457799999999653211      12


Q ss_pred             hhcccC--CcEEEEEEecC
Q psy5781          88 QSYYRS--ANGVIIEVTSV  104 (231)
Q Consensus        88 ~~~~~~--ad~vIlV~dit  104 (231)
                      ...+..  ++++|+..+.+
T Consensus        84 ~~~l~~llss~~i~n~~~~  102 (224)
T cd01851          84 LFALATLLSSVLIYNSWET  102 (224)
T ss_pred             HHHHHHHHhCEEEEeccCc
Confidence            222333  78888777766

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>PRK13796 GTPase YqeH; Provisional

Probab=97.56  E-value=0.00012  Score=65.18  Aligned_cols=57  Identities=25%  Similarity=0.310  Sum_probs=36.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCC----cccceeeEEEEEEEEECCeEEEEEEeeCCCcc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEK----TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE   81 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~----~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~   81 (231)
                      .++.++|.+|||||||||+++.......    ..+..|.+.....+.+++.   ..|+||||-.
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCcc
Confidence            4799999999999999999986432111    1222333333344444432   3799999964

>KOG0458|consensus

Probab=97.55  E-value=0.0003  Score=64.84  Aligned_cols=119  Identities=14%  Similarity=0.122  Sum_probs=77.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCC-----------------------------CCcccceeeEEEEEEEEECCe
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFV-----------------------------EKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-----------------------------~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      +.-.+.++|+|.-.+|||||+-+++.+--.                             ......-|+...+....++..
T Consensus       174 ~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes~  253 (603)
T KOG0458|consen  174 PKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFESK  253 (603)
T ss_pred             CccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEecC
Confidence            335789999999999999999888543100                             011122233444455555666


Q ss_pred             EEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHhh---H-HHHHH--HHHHhcCCcceeeecccccCCCC
Q psy5781          69 KVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYCY---Q-RNWHK--QAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~~---l-~~w~~--~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ...++|.|.||+..|..-.-.-...||+.|||.|.+  .|+.   . ...++  .+.+.++ ..-.+++.||.|+..
T Consensus       254 ~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg-i~qlivaiNKmD~V~  329 (603)
T KOG0458|consen  254 SKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG-ISQLIVAINKMDLVS  329 (603)
T ss_pred             ceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC-cceEEEEeecccccC
Confidence            788999999999888776666677899999999999  4442   2 12222  2233333 222456778887654

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

Probab=97.53  E-value=0.00047  Score=66.03  Aligned_cols=115  Identities=15%  Similarity=0.193  Sum_probs=76.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC--CCCC--Ccc------------cceeeEEEEEEEEECCe-EEEEEEeeCCCc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG--DFVE--KTG------------NTIGVDFSMKTVNIDGK-KVKLQIWDTAGQ   80 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~--~~~------------pt~~~~~~~~~~~~~~~-~~~l~i~D~~G~   80 (231)
                      ..+.-+|.++|.-..|||||..+++..  ....  +..            ..-|+......+....+ .+.++|.||||+
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~~~~iNlIDTPGH   86 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPGH   86 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcCceEEEEeCCCCc
Confidence            566789999999999999999999742  1111  000            11122222233333223 589999999999


Q ss_pred             cccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          81 ERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        81 ~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      -+|.......++-+|++|+|+|..   ..+.-.-|+...+    ...+.++..||.|-.
T Consensus        87 VDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~~----~~vp~i~fiNKmDR~  141 (697)
T COG0480          87 VDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADK----YGVPRILFVNKMDRL  141 (697)
T ss_pred             cccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHhh----cCCCeEEEEECcccc
Confidence            999999999999999999999999   4444345554443    233445566665543

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.51  E-value=0.00018  Score=60.63  Aligned_cols=79  Identities=18%  Similarity=0.203  Sum_probs=45.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCC--Cccccee----eEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVE--KTGNTIG----VDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~--~~~pt~~----~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .++++|.+|||||||||+++...-..  +.....+    .+.....+.+++    -.|+||||-..+.-.          
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l~~----~~liDtPG~~~~~l~----------  187 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHFHG----GLIADTPGFNEFGLW----------  187 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEcCC----cEEEeCCCccccCCC----------
Confidence            68999999999999999999754322  1111000    111222333333    269999997643211          


Q ss_pred             EEEEEecCcHhhHHHHHHHHHHhcC
Q psy5781          97 VIIEVTSVEYCYQRNWHKQAVTLFD  121 (231)
Q Consensus        97 vIlV~ditSf~~l~~w~~~i~~~~~  121 (231)
                           ++ +-+.+...++++.+...
T Consensus       188 -----~~-~~~~~~~~f~e~~~~~~  206 (245)
T TIGR00157       188 -----HL-EPEQLTQGFVEFRDYLG  206 (245)
T ss_pred             -----CC-CHHHHHHhCHHHHHHhC
Confidence                 01 23556777777765443

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

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

Probab=97.50  E-value=0.00046  Score=62.31  Aligned_cols=118  Identities=19%  Similarity=0.254  Sum_probs=81.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc--CCCCCC------------cccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS--GDFVEK------------TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI   86 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~--~~f~~~------------~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~   86 (231)
                      .-+|.++-.-.=|||||+..++.  +.|.+.            ....-|+..-.++.-++.+.++++|.||+|+.+|..-
T Consensus         5 iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGE   84 (603)
T COG1217           5 IRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGE   84 (603)
T ss_pred             cceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccch
Confidence            34788899999999999999984  334321            1122233344444444445589999999999999999


Q ss_pred             hhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccc
Q psy5781          87 TQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPC  141 (231)
Q Consensus        87 ~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~  141 (231)
                      ....+.=.|+++|+.|..  ..-.-+.   -+++.+...-..+++.||+|-+..++.
T Consensus        85 VERvl~MVDgvlLlVDA~EGpMPQTrF---VlkKAl~~gL~PIVVvNKiDrp~Arp~  138 (603)
T COG1217          85 VERVLSMVDGVLLLVDASEGPMPQTRF---VLKKALALGLKPIVVINKIDRPDARPD  138 (603)
T ss_pred             hhhhhhhcceEEEEEEcccCCCCchhh---hHHHHHHcCCCcEEEEeCCCCCCCCHH
Confidence            899999999999999998  2222221   122333334445688999999888873

>KOG1491|consensus

Probab=97.50  E-value=0.00022  Score=61.91  Aligned_cols=87  Identities=16%  Similarity=0.119  Sum_probs=58.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC---------------CeEEEEEEeeCCCcc-
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID---------------GKKVKLQIWDTAGQE-   81 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~---------------~~~~~l~i~D~~G~~-   81 (231)
                      ....+||-+||.++||||||+|.+.+.......-|-.-+|-....+.+.               .....|+++|++|-- 
T Consensus        17 ~~~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvk   96 (391)
T KOG1491|consen   17 DGNNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVK   96 (391)
T ss_pred             CCCcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeeccccc
Confidence            4467899999999999999999999876544333333333333344442               135689999998743 


Q ss_pred             ---ccchh---hhhcccCCcEEEEEEecC
Q psy5781          82 ---RFRTI---TQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        82 ---~~~~~---~~~~~~~ad~vIlV~dit  104 (231)
                         .-..+   .-..+|.+|+++-|.+..
T Consensus        97 GAs~G~GLGN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   97 GASAGEGLGNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             CcccCcCchHHHHHhhhhccceeEEEEec
Confidence               22223   234467899999988765

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=97.46  E-value=0.0005  Score=60.58  Aligned_cols=83  Identities=16%  Similarity=0.236  Sum_probs=53.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcc-----cceeeEEEEEEEE-------EC----CeEEEEEEeeCCCc---
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTG-----NTIGVDFSMKTVN-------ID----GKKVKLQIWDTAGQ---   80 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~-----pt~~~~~~~~~~~-------~~----~~~~~l~i~D~~G~---   80 (231)
                      .+++-+||.|+||||||.+.++...-. .+|+     |..|+-+- ....       +.    -....+++.|.+|-   
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v-~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~G   80 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYV-PDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKG   80 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEec-CchHHHHHHHhcCCCCcEEeeeeEEEEecccCCC
Confidence            478999999999999999999976632 3343     33332110 0000       01    12457899999873   


Q ss_pred             -cccchhh---hhcccCCcEEEEEEecC
Q psy5781          81 -ERFRTIT---QSYYRSANGVIIEVTSV  104 (231)
Q Consensus        81 -~~~~~~~---~~~~~~ad~vIlV~dit  104 (231)
                       .+-+.+-   -.-+|.+|+++.|+|..
T Consensus        81 As~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          81 ASKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             cccCCCcchHHHHhhhhcCeEEEEEEec
Confidence             2333333   33477899999999886

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=97.42  E-value=0.00024  Score=56.45  Aligned_cols=52  Identities=25%  Similarity=0.383  Sum_probs=36.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT   77 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~   77 (231)
                      ||++.|++|+|||||+++++..- ...-.+..|  |++..+.-+|..+-+.+.|.
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l-~~~~~~v~G--f~t~evr~~g~r~GF~iv~l   52 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEEL-KKKGLPVGG--FYTEEVRENGRRIGFDIVDL   52 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHH-HHTCGGEEE--EEEEEEETTSSEEEEEEEET
T ss_pred             CEEEECcCCCCHHHHHHHHHHHh-hccCCccce--EEeecccCCCceEEEEEEEC
Confidence            68999999999999999988432 111234455  66666666777777777776

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>KOG1490|consensus

Probab=97.34  E-value=0.00023  Score=64.72  Aligned_cols=116  Identities=16%  Similarity=0.097  Sum_probs=73.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEE---CCeEEEEEEeeCCCcccc----chhhh--
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI---DGKKVKLQIWDTAGQERF----RTITQ--   88 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~---~~~~~~l~i~D~~G~~~~----~~~~~--   88 (231)
                      +...-.++++|-++||||||++........-...+     |.++.+.+   +-+-...++.||||.-+.    +....  
T Consensus       165 Dp~trTlllcG~PNVGKSSf~~~vtradvevqpYa-----FTTksL~vGH~dykYlrwQViDTPGILD~plEdrN~IEmq  239 (620)
T KOG1490|consen  165 DPNTRTLLVCGYPNVGKSSFNNKVTRADDEVQPYA-----FTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQ  239 (620)
T ss_pred             CCCcCeEEEecCCCCCcHhhcccccccccccCCcc-----cccchhhhhhhhhheeeeeecCCccccCcchhhhhHHHHH
Confidence            34456789999999999999988876654322222     22222222   234467788899994321    11111  


Q ss_pred             ---hcccCCcEEEEEEecC-----cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          89 ---SYYRSANGVIIEVTSV-----EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        89 ---~~~~~ad~vIlV~dit-----Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                         ....--.+|+++.|++     |.+.--..+..|+..+.+...+ ++.||+|+..-.
T Consensus       240 sITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaNK~~I-lvlNK~D~m~~e  297 (620)
T KOG1490|consen  240 IITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFANKVTI-LVLNKIDAMRPE  297 (620)
T ss_pred             HHHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcCCceE-EEeecccccCcc
Confidence               1111225799999999     7777778888888777666554 778888876533

>KOG1145|consensus

Probab=97.33  E-value=0.0014  Score=60.37  Aligned_cols=116  Identities=16%  Similarity=0.113  Sum_probs=81.7

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC----cccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK----TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRS   93 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~----~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~   93 (231)
                      .++.-=|.++|.-.=||||||-.|-+......    ....+|  -+...+. +|  -++++.||||+..|..|+..-.+-
T Consensus       150 ~~RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIG--AF~V~~p-~G--~~iTFLDTPGHaAF~aMRaRGA~v  224 (683)
T KOG1145|consen  150 EPRPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIG--AFTVTLP-SG--KSITFLDTPGHAAFSAMRARGANV  224 (683)
T ss_pred             CCCCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceec--eEEEecC-CC--CEEEEecCCcHHHHHHHHhccCcc
Confidence            44556688999999999999998876554321    112233  3323333 44  678999999999999999999999


Q ss_pred             CcEEEEEEecCcHhhH-HHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          94 ANGVIIEVTSVEYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        94 ad~vIlV~ditSf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      +|.+|||....  +-+ ..-.+.|........++++..||+|-+...+
T Consensus       225 tDIvVLVVAad--DGVmpQT~EaIkhAk~A~VpiVvAinKiDkp~a~p  270 (683)
T KOG1145|consen  225 TDIVVLVVAAD--DGVMPQTLEAIKHAKSANVPIVVAINKIDKPGANP  270 (683)
T ss_pred             ccEEEEEEEcc--CCccHhHHHHHHHHHhcCCCEEEEEeccCCCCCCH
Confidence            99999999988  111 1233344445556667778889999766554

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.32  E-value=0.00049  Score=59.30  Aligned_cols=59  Identities=22%  Similarity=0.317  Sum_probs=36.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCC--cccc--ee--eEEEEEEEEECCeEEEEEEeeCCCcccc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEK--TGNT--IG--VDFSMKTVNIDGKKVKLQIWDTAGQERF   83 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~--~~pt--~~--~~~~~~~~~~~~~~~~l~i~D~~G~~~~   83 (231)
                      -.++++|.+|||||||+|.+++......  ...+  .|  .+.....+...+.   ..++||||..++
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~---~~liDtPG~~~~  226 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG---GLLIDTPGFREF  226 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC---CEEEECCCCCcc
Confidence            4799999999999999999997543221  1100  01  1122223333321   258999998764

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.29  E-value=0.0023  Score=50.20  Aligned_cols=56  Identities=29%  Similarity=0.423  Sum_probs=42.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCC
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA   78 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~   78 (231)
                      ...||.+.|.+||||||++.++.+.--..-  -+++ -+.+..+.-+|+.+=+.|.|+.
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g--~kvg-Gf~t~EVR~gGkR~GF~Ivdl~   59 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLREKG--YKVG-GFITPEVREGGKRIGFKIVDLA   59 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHhcC--ceee-eEEeeeeecCCeEeeeEEEEcc
Confidence            458999999999999999999885321111  1222 3777788888888889999986

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

Probab=97.27  E-value=0.0021  Score=56.31  Aligned_cols=125  Identities=16%  Similarity=0.167  Sum_probs=76.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCC--CC-----------------------------cccceeeEEEEEEEEEC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFV--EK-----------------------------TGNTIGVDFSMKTVNID   66 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~--~~-----------------------------~~pt~~~~~~~~~~~~~   66 (231)
                      ....+|++-+|.--=||||||=|++.+.-.  ++                             -....|+...+...+..
T Consensus         3 ~k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFs   82 (431)
T COG2895           3 HKSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFS   82 (431)
T ss_pred             cccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecc
Confidence            456799999999999999999999754210  00                             00111111221112222


Q ss_pred             CeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcccccc
Q psy5781          67 GKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFH  144 (231)
Q Consensus        67 ~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~  144 (231)
                      -.+-++.|-||||+++|-...-.-...||+.|++.|..  -.+.- +-..-|... -.-+...+..||.||..-.+..+.
T Consensus        83 T~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gvl~QT-rRHs~I~sL-LGIrhvvvAVNKmDLvdy~e~~F~  160 (431)
T COG2895          83 TEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQT-RRHSFIASL-LGIRHVVVAVNKMDLVDYSEEVFE  160 (431)
T ss_pred             cccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhhHHHh-HHHHHHHHH-hCCcEEEEEEeeecccccCHHHHH
Confidence            23457889999999998765555667899999999997  22221 111122222 234445577899999886654333

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=97.26  E-value=0.0023  Score=57.61  Aligned_cols=112  Identities=15%  Similarity=0.184  Sum_probs=66.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcC----CCCCC----------ccccee-------eEE---EEEEEEE-CCeEEEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSG----DFVEK----------TGNTIG-------VDF---SMKTVNI-DGKKVKLQI   74 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~----~f~~~----------~~pt~~-------~~~---~~~~~~~-~~~~~~l~i   74 (231)
                      ..+-|.|+|+-++|||||+++|.+.    .....          ..+..|       .-|   ....+.. ++...++.+
T Consensus        16 G~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~Vrl   95 (492)
T TIGR02836        16 GDIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRL   95 (492)
T ss_pred             CcEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEE
Confidence            3577999999999999999999877    22210          111122       112   1122222 456678999


Q ss_pred             eeCCCccc--------cch--h-------------------hhhccc-CCcEEEEEE-ecC-------cHhhH-HHHHHH
Q psy5781          75 WDTAGQER--------FRT--I-------------------TQSYYR-SANGVIIEV-TSV-------EYCYQ-RNWHKQ  115 (231)
Q Consensus        75 ~D~~G~~~--------~~~--~-------------------~~~~~~-~ad~vIlV~-dit-------Sf~~l-~~w~~~  115 (231)
                      .||.|-..        -..  +                   .+.-++ .++..|+|. |-+       .+... .+|+++
T Consensus        96 IDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~e  175 (492)
T TIGR02836        96 VDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEE  175 (492)
T ss_pred             EECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHH
Confidence            99998321        111  0                   233445 889888888 664       33333 356666


Q ss_pred             HHHhcCCcceeeecccccC
Q psy5781         116 AVTLFDKYKFGHAFSTSLA  134 (231)
Q Consensus       116 i~~~~~~~~~~~vv~~k~d  134 (231)
                      +++   ..++-+++.|+.+
T Consensus       176 Lk~---~~kPfiivlN~~d  191 (492)
T TIGR02836       176 LKE---LNKPFIILLNSTH  191 (492)
T ss_pred             HHh---cCCCEEEEEECcC
Confidence            654   3455567778877

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=97.25  E-value=0.00064  Score=58.91  Aligned_cols=82  Identities=18%  Similarity=0.217  Sum_probs=45.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCC--cccc--ee--eEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEK--TGNT--IG--VDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~--~~pt--~~--~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .++++|.+|||||||+|.+++..-...  ....  .|  .......+.+++.   ..|.||+|-..+.-           
T Consensus       166 ~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~---~~~~DtpG~~~~~~-----------  231 (298)
T PRK00098        166 VTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGG---GLLIDTPGFSSFGL-----------  231 (298)
T ss_pred             eEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCC---cEEEECCCcCccCC-----------
Confidence            689999999999999999986542211  1000  00  1111222333322   36899999754210           


Q ss_pred             EEEEEecCcHhhHHHHHHHHHHhcCCc
Q psy5781          97 VIIEVTSVEYCYQRNWHKQAVTLFDKY  123 (231)
Q Consensus        97 vIlV~ditSf~~l~~w~~~i~~~~~~~  123 (231)
                          +++ +.+.+...+.++.......
T Consensus       232 ----~~~-~~~~~~~~f~~~~~~~~~c  253 (298)
T PRK00098        232 ----HDL-EAEELEHYFPEFRPLSGDC  253 (298)
T ss_pred             ----CCC-CHHHHHHHHHHHHHHhCCC
Confidence                011 3356666777776655443

>KOG4273|consensus

Probab=97.22  E-value=0.00099  Score=55.82  Aligned_cols=91  Identities=18%  Similarity=0.279  Sum_probs=59.4

Q ss_pred             EEEEEcCCCC--cHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe--EEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          23 KVVLIGDCGV--GKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK--KVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        23 kIvvlG~~~v--GKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~--~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      -++|+|.+||  ||-.|+.|+....|..........+++.+++...-.  .+.+.|.-.. .+.+ ........-..++|
T Consensus         6 ~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hgwtid~kyysadi~lcishic-de~~-lpn~~~a~pl~a~v   83 (418)
T KOG4273|consen    6 CALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHGWTIDNKYYSADINLCISHIC-DEKF-LPNAEIAEPLQAFV   83 (418)
T ss_pred             eEEEecccccccchHHHHHHhcchhheeeccccCceeeeceEecceeeecceeEEeeccc-chhc-cCCcccccceeeEE
Confidence            3689999999  999999999999998776666666677665543221  2223332211 1111 11111223347899


Q ss_pred             EEEecC---cHhhHHHHHHH
Q psy5781          99 IEVTSV---EYCYQRNWHKQ  115 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~  115 (231)
                      +|||++   .+..++.|+.+
T Consensus        84 mvfdlse~s~l~alqdwl~h  103 (418)
T KOG4273|consen   84 MVFDLSEKSGLDALQDWLPH  103 (418)
T ss_pred             EEEeccchhhhHHHHhhccc
Confidence            999999   88899999984

>KOG0099|consensus

Probab=97.22  E-value=0.0011  Score=55.90  Aligned_cols=39  Identities=23%  Similarity=0.399  Sum_probs=34.6

Q ss_pred             EEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCcHh
Q psy5781          69 KVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYC  107 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditSf~  107 (231)
                      .++++++|.+||.+-+.-|-..+.+..++|+|...+||+
T Consensus       201 kv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn  239 (379)
T KOG0099|consen  201 KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYN  239 (379)
T ss_pred             ccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchh
Confidence            367999999999998999999999999999999888444

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=97.12  E-value=0.0014  Score=66.65  Aligned_cols=110  Identities=16%  Similarity=0.088  Sum_probs=68.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCCCCCC------cccceeeEEEEEEEEECCeEEEEEEeeCCCcc--------ccchhhhh
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGDFVEK------TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE--------RFRTITQS   89 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~f~~~------~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~--------~~~~~~~~   89 (231)
                      .+|||++|+||||+|.+- +-.|+-.      ....++-+.+ ....+.++   -.++||+|.-        .....|..
T Consensus       114 YlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~-c~wwf~~~---avliDtaG~y~~~~~~~~~~~~~W~~  188 (1169)
T TIGR03348       114 YLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRN-CDWWFTDE---AVLIDTAGRYTTQDSDPEEDAAAWLG  188 (1169)
T ss_pred             EEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcc-cceEecCC---EEEEcCCCccccCCCcccccHHHHHH
Confidence            589999999999999987 3334221      1111111111 11112222   3488999832        11222333


Q ss_pred             cc---------cCCcEEEEEEecC-----cH-------hhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          90 YY---------RSANGVIIEVTSV-----EY-------CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        90 ~~---------~~ad~vIlV~dit-----Sf-------~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ++         +-.||+|+++|+.     +-       ..++..+.++.+.++-..++.++.+|.|+...
T Consensus       189 fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~G  258 (1169)
T TIGR03348       189 FLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLAG  258 (1169)
T ss_pred             HHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhcC
Confidence            22         3479999999998     22       25567778888888888889999999997743

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.10  E-value=0.00091  Score=57.57  Aligned_cols=80  Identities=18%  Similarity=0.170  Sum_probs=47.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCC--Ccccce----eeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVE--KTGNTI----GVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~--~~~pt~----~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      -.+++|.+|||||||+|++..+.-..  +.....    ..+....-+.+++.   =.|.||||-..+.-           
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~g---G~iiDTPGf~~~~l-----------  231 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGG---GWIIDTPGFRSLGL-----------  231 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCC---CEEEeCCCCCccCc-----------
Confidence            57899999999999999998643211  111111    01123334444211   25789999765431           


Q ss_pred             EEEEEecCcHhhHHHHHHHHHHhcC
Q psy5781          97 VIIEVTSVEYCYQRNWHKQAVTLFD  121 (231)
Q Consensus        97 vIlV~ditSf~~l~~w~~~i~~~~~  121 (231)
                           .-...+.+...+.++.+...
T Consensus       232 -----~~~~~e~l~~~F~ef~~~~~  251 (301)
T COG1162         232 -----AHLEPEDLVQAFPEFAELAR  251 (301)
T ss_pred             -----ccCCHHHHHHHhHHHHHHhc
Confidence                 01156777888888877654

>KOG1424|consensus

Probab=97.07  E-value=0.001  Score=60.65  Aligned_cols=61  Identities=20%  Similarity=0.272  Sum_probs=47.3

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE   81 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~   81 (231)
                      .+.-.+.|-+||=++|||||+||.+.+.+-.. ...|.|-+-+-.++.+..   .+.+.|++|--
T Consensus       310 ~~~~~vtVG~VGYPNVGKSSTINaLvG~KkVs-VS~TPGkTKHFQTi~ls~---~v~LCDCPGLV  370 (562)
T KOG1424|consen  310 RYKDVVTVGFVGYPNVGKSSTINALVGRKKVS-VSSTPGKTKHFQTIFLSP---SVCLCDCPGLV  370 (562)
T ss_pred             CCCceeEEEeecCCCCchhHHHHHHhcCceee-eecCCCCcceeEEEEcCC---CceecCCCCcc
Confidence            33347999999999999999999999988554 567888655556666643   37899999953

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.06  E-value=0.002  Score=46.43  Aligned_cols=81  Identities=17%  Similarity=0.212  Sum_probs=52.8

Q ss_pred             EEEEc-CCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          24 VVLIG-DCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        24 IvvlG-~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      |++.| ..|+|||++...+...- ...-.++.-       +..|.. +.+.|+|+++....  .....+..+|.++++.+
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~-~~~~~~vl~-------~d~d~~-~d~viiD~p~~~~~--~~~~~l~~ad~viv~~~   70 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAAL-ARRGKRVLL-------IDLDPQ-YDYIIIDTPPSLGL--LTRNALAAADLVLIPVQ   70 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHH-HhCCCcEEE-------EeCCCC-CCEEEEeCcCCCCH--HHHHHHHHCCEEEEecc
Confidence            56677 55999999987765321 111112222       222322 77899999886432  23367778999999999


Q ss_pred             cC--cHhhHHHHHHH
Q psy5781         103 SV--EYCYQRNWHKQ  115 (231)
Q Consensus       103 it--Sf~~l~~w~~~  115 (231)
                      .+  ++..+..+++.
T Consensus        71 ~~~~s~~~~~~~~~~   85 (104)
T cd02042          71 PSPLDLDGLEKLLET   85 (104)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            99  88887777664

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

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

Probab=97.01  E-value=0.0035  Score=56.36  Aligned_cols=115  Identities=17%  Similarity=0.179  Sum_probs=74.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc--CCCCC--------------------CcccceeeEEEEEEEEECCeEEEEEEeeCC
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS--GDFVE--------------------KTGNTIGVDFSMKTVNIDGKKVKLQIWDTA   78 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~--~~f~~--------------------~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~   78 (231)
                      .-...+|-.|-+|||||-.+++-  +....                    +...-|.+...+-.+.++  .+.++|.|||
T Consensus        12 RRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~--~~~iNLLDTP   89 (528)
T COG4108          12 RRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYA--DCLVNLLDTP   89 (528)
T ss_pred             hcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccC--CeEEeccCCC
Confidence            34578899999999999998852  11110                    112233333444444454  4889999999


Q ss_pred             CccccchhhhhcccCCcEEEEEEecC-cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCcc
Q psy5781          79 GQERFRTITQSYYRSANGVIIEVTSV-EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        79 G~~~~~~~~~~~~~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~  140 (231)
                      |+++|..-.-.-+..+|..|+|.|.. -.+.--.   .|-+.|. ...+++...||.|-....|
T Consensus        90 GHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~---KLfeVcrlR~iPI~TFiNKlDR~~rdP  150 (528)
T COG4108          90 GHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTL---KLFEVCRLRDIPIFTFINKLDREGRDP  150 (528)
T ss_pred             CccccchhHHHHHHhhheeeEEEecccCccHHHH---HHHHHHhhcCCceEEEeeccccccCCh
Confidence            99998876666777899999999998 3332211   2222332 3445667788887666555

>KOG3859|consensus

Probab=97.00  E-value=0.0036  Score=53.27  Aligned_cols=63  Identities=24%  Similarity=0.434  Sum_probs=46.4

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC----cccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK----TGNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~----~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      .+...|+|+-||..|.|||||+..+.+-.|..+    ..|+++....+..+.-.+..++|+|.||.|
T Consensus        38 ~~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvG  104 (406)
T KOG3859|consen   38 SQGFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVG  104 (406)
T ss_pred             hcCceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecc
Confidence            356789999999999999999999998887653    335554333222222346788999999987

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.99  E-value=0.0013  Score=58.65  Aligned_cols=116  Identities=13%  Similarity=0.062  Sum_probs=62.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCC---CCCCcccceeeEEE------------------EEEEEEC---------CeEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGD---FVEKTGNTIGVDFS------------------MKTVNID---------GKKVK   71 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~---f~~~~~pt~~~~~~------------------~~~~~~~---------~~~~~   71 (231)
                      -.++++|++||||||++.++....   +.....--+..|.+                  ...+...         -....
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~D  217 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNKH  217 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCCC
Confidence            468899999999999999987531   11000000000111                  0011100         12457


Q ss_pred             EEEeeCCCccccchh----hhh--cccCCcEEEEEEecC-cHhhHHHHHHHHHHhcCC-----cceeeecccccCCCC
Q psy5781          72 LQIWDTAGQERFRTI----TQS--YYRSANGVIIEVTSV-EYCYQRNWHKQAVTLFDK-----YKFGHAFSTSLAMPQ  137 (231)
Q Consensus        72 l~i~D~~G~~~~~~~----~~~--~~~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~-----~~~~~vv~~k~dl~~  137 (231)
                      +.|+||+|....+..    ...  ......-.+||.+.+ ..+.+...+....+....     ..+..++.+|+|-..
T Consensus       218 lVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlDEt~  295 (374)
T PRK14722        218 MVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEAS  295 (374)
T ss_pred             EEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEeccccCC
Confidence            889999997643321    111  112334568999999 666666555555444311     124456678877544

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.83  E-value=0.0053  Score=54.91  Aligned_cols=112  Identities=18%  Similarity=0.219  Sum_probs=65.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceee---EEEEE-----------------EEEEC----------CeEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGV---DFSMK-----------------TVNID----------GKKV   70 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~---~~~~~-----------------~~~~~----------~~~~   70 (231)
                      .=.|++||+.||||||-+-.+...-........+++   |.|.-                 .+-.+          -+.+
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~  282 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDC  282 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcC
Confidence            446899999999999988776643331212222221   11100                 00000          1346


Q ss_pred             EEEEeeCCCccccchh----hhhcccC--CcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          71 KLQIWDTAGQERFRTI----TQSYYRS--ANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        71 ~l~i~D~~G~~~~~~~----~~~~~~~--ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      .+.+.||.|...++..    ...++..  ..-+.||.+.| ..+.+.+.++.+    ..-++..++.+|+|-.
T Consensus       283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f----~~~~i~~~I~TKlDET  351 (407)
T COG1419         283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQF----SLFPIDGLIFTKLDET  351 (407)
T ss_pred             CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHh----ccCCcceeEEEccccc
Confidence            8899999997755433    2333332  34567888888 777777766665    3344555666776643

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=96.83  E-value=0.0042  Score=45.28  Aligned_cols=86  Identities=13%  Similarity=0.040  Sum_probs=54.5

Q ss_pred             cCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--c
Q psy5781          28 GDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--E  105 (231)
Q Consensus        28 G~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--S  105 (231)
                      +..|+|||++...+...--......+.-.|....     . ...+.|.|+++....  .....+..+|.++++.+.+  +
T Consensus         7 ~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~d~~-----~-~~D~IIiDtpp~~~~--~~~~~l~~aD~vlvvv~~~~~s   78 (106)
T cd03111           7 AKGGVGATTLAANLAVALAKEAGRRVLLVDLDLQ-----F-GDDYVVVDLGRSLDE--VSLAALDQADRVFLVTQQDLPS   78 (106)
T ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCcEEEEECCCC-----C-CCCEEEEeCCCCcCH--HHHHHHHHcCeEEEEecCChHH
Confidence            4569999998877753221110122222222211     1 116889999875432  3345678899999999999  8


Q ss_pred             HhhHHHHHHHHHHhcC
Q psy5781         106 YCYQRNWHKQAVTLFD  121 (231)
Q Consensus       106 f~~l~~w~~~i~~~~~  121 (231)
                      ...+..+.+.+++...
T Consensus        79 ~~~~~~~~~~l~~~~~   94 (106)
T cd03111          79 IRNAKRLLELLRVLDY   94 (106)
T ss_pred             HHHHHHHHHHHHHcCC
Confidence            8888888888876543

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.79  E-value=0.0047  Score=56.07  Aligned_cols=114  Identities=14%  Similarity=0.090  Sum_probs=61.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc------CCC----CCCc-----------ccceeeEEEEEEEEEC------------
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS------GDF----VEKT-----------GNTIGVDFSMKTVNID------------   66 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~------~~f----~~~~-----------~pt~~~~~~~~~~~~~------------   66 (231)
                      ...-|+++|.+||||||++..+..      .+.    .+.|           ....+++++......+            
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~  178 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKF  178 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHH
Confidence            456799999999999999988862      110    0111           1112222221110001            


Q ss_pred             -CeEEEEEEeeCCCccccchh----hhhc--ccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          67 -GKKVKLQIWDTAGQERFRTI----TQSY--YRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        67 -~~~~~l~i~D~~G~~~~~~~----~~~~--~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                       ...+.+.|.||+|....+..    ...+  ..+.+-++||.|.+.-.+.....+.+.+   ...+..++.+|+|-.
T Consensus       179 ~~~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~a~~F~~---~~~~~g~IlTKlD~~  252 (429)
T TIGR01425       179 KKENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQAKAFKD---SVDVGSVIITKLDGH  252 (429)
T ss_pred             HhCCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHHHHHHHHh---ccCCcEEEEECccCC
Confidence             12478899999996543221    1111  2356789999998833333333333332   224555677777654

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>KOG1144|consensus

Probab=96.76  E-value=0.0031  Score=59.97  Aligned_cols=84  Identities=19%  Similarity=0.257  Sum_probs=60.4

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC----cccceeeEEEEE----------------EEEECCeEEEEEEee
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK----TGNTIGVDFSMK----------------TVNIDGKKVKLQIWD   76 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~----~~pt~~~~~~~~----------------~~~~~~~~~~l~i~D   76 (231)
                      ++-+--=|+|+|.-..|||-|+-.+-+.....-    ...-+|.+|...                ++.+.    -+.+.|
T Consensus       471 ~~lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvP----g~lvId  546 (1064)
T KOG1144|consen  471 ENLRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVP----GLLVID  546 (1064)
T ss_pred             hhcCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCC----eeEEec
Confidence            344555699999999999999998876443321    112233333221                12222    367899


Q ss_pred             CCCccccchhhhhcccCCcEEEEEEecC
Q psy5781          77 TAGQERFRTITQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        77 ~~G~~~~~~~~~~~~~~ad~vIlV~dit  104 (231)
                      |+|++.|..++......||.+|||.||.
T Consensus       547 tpghEsFtnlRsrgsslC~~aIlvvdIm  574 (1064)
T KOG1144|consen  547 TPGHESFTNLRSRGSSLCDLAILVVDIM  574 (1064)
T ss_pred             CCCchhhhhhhhccccccceEEEEeehh
Confidence            9999999999999999999999999998

>KOG0461|consensus

Probab=96.76  E-value=0.013  Score=51.35  Aligned_cols=88  Identities=17%  Similarity=0.248  Sum_probs=56.8

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHc----CCCCCCccc-----ceeeEEEEEEEEE-----CCeEEEEEEeeCCCccc
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRS----GDFVEKTGN-----TIGVDFSMKTVNI-----DGKKVKLQIWDTAGQER   82 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~----~~f~~~~~p-----t~~~~~~~~~~~~-----~~~~~~l~i~D~~G~~~   82 (231)
                      ..+.++++-++|.-.+|||+|.+++..    ..|.....+     |...-|..-.+..     +++...+.+.|++|+..
T Consensus         3 ~~p~n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHas   82 (522)
T KOG0461|consen    3 SPPSNLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHAS   82 (522)
T ss_pred             CCCceeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHH
Confidence            345669999999999999999999963    234332221     2222222222211     46678889999999875


Q ss_pred             cchhhhhcccCCcEEEEEEecC
Q psy5781          83 FRTITQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        83 ~~~~~~~~~~~ad~vIlV~dit  104 (231)
                      .....-.-..-.|..++|.|+.
T Consensus        83 LIRtiiggaqiiDlm~lviDv~  104 (522)
T KOG0461|consen   83 LIRTIIGGAQIIDLMILVIDVQ  104 (522)
T ss_pred             HHHHHHhhhheeeeeeEEEehh
Confidence            4333233333458899999998

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.74  E-value=0.004  Score=54.73  Aligned_cols=61  Identities=8%  Similarity=-0.093  Sum_probs=40.3

Q ss_pred             EEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          69 KVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+.+.|.||+|..+-...   ....+|.+++|.+..+-+.++.....+.+..     .+++.||.|+..
T Consensus       148 g~d~viieT~Gv~qs~~~---i~~~aD~vlvv~~p~~gd~iq~~k~gi~E~a-----DIiVVNKaDl~~  208 (332)
T PRK09435        148 GYDVILVETVGVGQSETA---VAGMVDFFLLLQLPGAGDELQGIKKGIMELA-----DLIVINKADGDN  208 (332)
T ss_pred             CCCEEEEECCCCccchhH---HHHhCCEEEEEecCCchHHHHHHHhhhhhhh-----heEEeehhcccc
Confidence            467899999986633222   4567999999977556666655444343333     258889998764

>KOG3887|consensus

Probab=96.74  E-value=0.002  Score=53.83  Aligned_cols=98  Identities=15%  Similarity=0.229  Sum_probs=60.7

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEE---ECCeEEEEEEeeCCCccccch---hhhhccc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVN---IDGKKVKLQIWDTAGQERFRT---ITQSYYR   92 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~---~~~~~~~l~i~D~~G~~~~~~---~~~~~~~   92 (231)
                      ..+-+|+++|...+||||+-+-...+--+.+   |...+.. ..+.   +-+.-+.+++||.|||-.+-.   -....++
T Consensus        25 ~~kp~ilLMG~rRsGKsSI~KVVFhkMsPne---TlflEST-ski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~  100 (347)
T KOG3887|consen   25 GMKPRILLMGLRRSGKSSIQKVVFHKMSPNE---TLFLEST-SKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFR  100 (347)
T ss_pred             CCCceEEEEeecccCcchhhheeeeccCCCc---eeEeecc-CcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHh
Confidence            3445699999999999998665554432221   1111111 1111   112446899999999975422   1345688


Q ss_pred             CCcEEEEEEecC--cHhhHHHHHHHHHHhc
Q psy5781          93 SANGVIIEVTSV--EYCYQRNWHKQAVTLF  120 (231)
Q Consensus        93 ~ad~vIlV~dit--Sf~~l~~w~~~i~~~~  120 (231)
                      .+-++|+|.|..  -.+.+.+....+.+..
T Consensus       101 ~~gALifvIDaQddy~eala~L~~~v~ray  130 (347)
T KOG3887|consen  101 GVGALIFVIDAQDDYMEALARLHMTVERAY  130 (347)
T ss_pred             ccCeEEEEEechHHHHHHHHHHHHHhhhee
Confidence            999999999998  4455555555555544

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=96.70  E-value=0.007  Score=47.77  Aligned_cols=66  Identities=17%  Similarity=0.108  Sum_probs=39.0

Q ss_pred             EEEEEEeeCCCcccc-----chhhhh-cccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          69 KVKLQIWDTAGQERF-----RTITQS-YYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~-----~~~~~~-~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+.+.|.|++|...+     ..+... .....+.+++|.|..+......+...+.+..+   ...++.||.|...
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~~~~~~~~~~~~~~---~~~viltk~D~~~  153 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQDAVNQAKAFNEALG---ITGVILTKLDGDA  153 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChHHHHHHHHHHhhCC---CCEEEEECCcCCC
Confidence            356788999987422     111111 11348999999998844444455555544433   4556778877654

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>cd03112 CobW_like The function of this protein family is unkown

Probab=96.70  E-value=0.006  Score=47.77  Aligned_cols=21  Identities=33%  Similarity=0.490  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ++++|..|+|||||+++++..
T Consensus         3 ~~l~G~~GsGKTtl~~~l~~~   23 (158)
T cd03112           3 TVLTGFLGAGKTTLLNHILTE   23 (158)
T ss_pred             EEEEECCCCCHHHHHHHHHhc
Confidence            679999999999999999865

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.69  E-value=0.0051  Score=55.70  Aligned_cols=113  Identities=12%  Similarity=0.038  Sum_probs=62.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCC---CCCc---------c-----------cceeeEEEEEEEEE-------CCeEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDF---VEKT---------G-----------NTIGVDFSMKTVNI-------DGKKV   70 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f---~~~~---------~-----------pt~~~~~~~~~~~~-------~~~~~   70 (231)
                      .-+|.++|++||||||++..+.....   ....         .           ...++.+....-..       .-...
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~~~  270 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELRGK  270 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhcCC
Confidence            35899999999999999987764210   0000         0           00111111000000       00234


Q ss_pred             EEEEeeCCCccccch----hhhhcc--cCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          71 KLQIWDTAGQERFRT----ITQSYY--RSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        71 ~l~i~D~~G~~~~~~----~~~~~~--~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+.+.||+|......    ....+.  ....-.+||.|.+ ..+.+..+....    ....+..++.+|+|-..
T Consensus       271 d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f----~~~~~~~~I~TKlDEt~  340 (420)
T PRK14721        271 HMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAY----QGHGIHGCIITKVDEAA  340 (420)
T ss_pred             CEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHh----cCCCCCEEEEEeeeCCC
Confidence            678999999654221    112221  1234678999999 677776666554    34455567778877544

>KOG2486|consensus

Probab=96.66  E-value=0.0029  Score=53.75  Aligned_cols=111  Identities=14%  Similarity=0.152  Sum_probs=65.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcc-cceeeEEEEEEEEECCeEEEEEEeeCCC----------ccccchh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTG-NTIGVDFSMKTVNIDGKKVKLQIWDTAG----------QERFRTI   86 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~-pt~~~~~~~~~~~~~~~~~~l~i~D~~G----------~~~~~~~   86 (231)
                      .+...+++++|.++|||||||+.++...-..... ++.|.......+.++   -.+.+.|.+|          .+++..+
T Consensus       133 k~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v~---~~~~~vDlPG~~~a~y~~~~~~d~~~~  209 (320)
T KOG2486|consen  133 KDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHVG---KSWYEVDLPGYGRAGYGFELPADWDKF  209 (320)
T ss_pred             CCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeecc---ceEEEEecCCcccccCCccCcchHhHh
Confidence            5677899999999999999999999766544333 244422222333333   4678889998          2345556


Q ss_pred             hhhcccCCc---EEEEEEecC-cHhhH----HHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          87 TQSYYRSAN---GVIIEVTSV-EYCYQ----RNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        87 ~~~~~~~ad---~vIlV~dit-Sf~~l----~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ...|+.+.+   -+++..|.+ .+...    ..|..+      ...+..++.+|+|-..
T Consensus       210 t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge------~~VP~t~vfTK~DK~k  262 (320)
T KOG2486|consen  210 TKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGE------NNVPMTSVFTKCDKQK  262 (320)
T ss_pred             HHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhh------cCCCeEEeeehhhhhh
Confidence            666665543   344455665 33332    344443      2333445566665433

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=96.65  E-value=0.0016  Score=48.00  Aligned_cols=22  Identities=18%  Similarity=0.428  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +|+|.|.+|+||||+.+.+...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999864

...

>PRK08118 topology modulation protein; Reviewed

Probab=96.60  E-value=0.0018  Score=51.22  Aligned_cols=22  Identities=32%  Similarity=0.652  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ||+|+|.+|+|||||.+++...
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            8999999999999999998854

>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=96.57  E-value=0.012  Score=52.81  Aligned_cols=82  Identities=18%  Similarity=0.182  Sum_probs=54.7

Q ss_pred             cceeeEEEEEEEEE-CCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCcHh----------hHHHHHHHHHHhc
Q psy5781          52 NTIGVDFSMKTVNI-DGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYC----------YQRNWHKQAVTLF  120 (231)
Q Consensus        52 pt~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditSf~----------~l~~w~~~i~~~~  120 (231)
                      +|.|+  ....+.+ ++  ..+.++|++|+..-+.-|.+++.+.++||+|.+++.|+          ++.+-+......+
T Consensus       221 ~T~Gi--~e~~f~~~~~--~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~  296 (389)
T PF00503_consen  221 KTTGI--TEIDFNFSGS--RKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESIC  296 (389)
T ss_dssp             --SSE--EEEEEEE-TT--EEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHH
T ss_pred             CCCCe--eEEEEEeecc--cccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHH
Confidence            45552  2234444 44  77899999999988999999999999999999998332          3444444444444


Q ss_pred             C----CcceeeecccccCCCC
Q psy5781         121 D----KYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       121 ~----~~~~~~vv~~k~dl~~  137 (231)
                      .    .....+++.||.|+-.
T Consensus       297 ~~~~~~~~~iil~lnK~D~f~  317 (389)
T PF00503_consen  297 NNPWFKNTPIILFLNKIDLFE  317 (389)
T ss_dssp             TSGGGTTSEEEEEEE-HHHHH
T ss_pred             hCcccccCceEEeeecHHHHH
Confidence            3    3445677888887654

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 ....

>KOG0410|consensus

Probab=96.57  E-value=0.0046  Score=53.73  Aligned_cols=78  Identities=13%  Similarity=0.193  Sum_probs=48.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcc--cceeeEEEEEEEEECCeEEEEEEeeCCCcc---------ccchhhhhcc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTG--NTIGVDFSMKTVNIDGKKVKLQIWDTAGQE---------RFRTITQSYY   91 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~--pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~---------~~~~~~~~~~   91 (231)
                      -|.|+|=.++||||||+.+.......+..  .|..  ...+....... -.+-+-||-|--         .|... -.-.
T Consensus       180 viavVGYTNaGKsTLikaLT~Aal~p~drLFATLD--pT~h~a~Lpsg-~~vlltDTvGFisdLP~~LvaAF~AT-LeeV  255 (410)
T KOG0410|consen  180 VIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLD--PTLHSAHLPSG-NFVLLTDTVGFISDLPIQLVAAFQAT-LEEV  255 (410)
T ss_pred             eEEEEeecCccHHHHHHHHHhhhcCccchhheecc--chhhhccCCCC-cEEEEeechhhhhhCcHHHHHHHHHH-HHHH
Confidence            58899999999999999999544322111  2221  22223333322 345677998832         22222 2234


Q ss_pred             cCCcEEEEEEecC
Q psy5781          92 RSANGVIIEVTSV  104 (231)
Q Consensus        92 ~~ad~vIlV~dit  104 (231)
                      ..+|.++-|.|++
T Consensus       256 aeadlllHvvDiS  268 (410)
T KOG0410|consen  256 AEADLLLHVVDIS  268 (410)
T ss_pred             hhcceEEEEeecC
Confidence            5789999999999

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=96.53  E-value=0.0047  Score=57.25  Aligned_cols=83  Identities=16%  Similarity=0.304  Sum_probs=53.3

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      +.+..+=+.|+|++|.||||||+.++.. |..   .|+. +..-...-+.|+.-++++.+++.  +...+.+ ...-||.
T Consensus        65 d~PPPfIvavvGPpGtGKsTLirSlVrr-~tk---~ti~-~i~GPiTvvsgK~RRiTflEcp~--Dl~~miD-vaKIaDL  136 (1077)
T COG5192          65 DLPPPFIVAVVGPPGTGKSTLIRSLVRR-FTK---QTID-EIRGPITVVSGKTRRITFLECPS--DLHQMID-VAKIADL  136 (1077)
T ss_pred             cCCCCeEEEeecCCCCChhHHHHHHHHH-HHH---hhhh-ccCCceEEeecceeEEEEEeChH--HHHHHHh-HHHhhhe
Confidence            4456778889999999999999888743 222   1111 11111123456778899999983  3333322 3446899


Q ss_pred             EEEEEecC-cHh
Q psy5781          97 VIIEVTSV-EYC  107 (231)
Q Consensus        97 vIlV~dit-Sf~  107 (231)
                      ++|..|-+ -|+
T Consensus       137 VlLlIdgnfGfE  148 (1077)
T COG5192         137 VLLLIDGNFGFE  148 (1077)
T ss_pred             eEEEeccccCce
Confidence            99999998 444

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.49  E-value=0.012  Score=54.63  Aligned_cols=111  Identities=16%  Similarity=0.190  Sum_probs=60.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC---C-----C--CC--Ccc-----------cceeeEEEEEEEEE---------CCe
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG---D-----F--VE--KTG-----------NTIGVDFSMKTVNI---------DGK   68 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~---~-----f--~~--~~~-----------pt~~~~~~~~~~~~---------~~~   68 (231)
                      .-.|+++|..|+||||++..+...   .     .  ..  .|.           ...++.+..  ..-         .-.
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~--a~d~~~L~~aL~~l~  427 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHE--ADSAESLLDLLERLR  427 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEe--cCcHHHHHHHHHHhc
Confidence            357889999999999999888642   1     0  00  000           001111110  000         012


Q ss_pred             EEEEEEeeCCCccccchhhh---hccc--CCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          69 KVKLQIWDTAGQERFRTITQ---SYYR--SANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~~~~---~~~~--~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+.+.|.||+|........-   ..+.  .....+||.+.+ +...+...++.+...    .+..++.+|+|-..
T Consensus       428 ~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAtss~~Dl~eii~~f~~~----~~~gvILTKlDEt~  498 (559)
T PRK12727        428 DYKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANAHFSDLDEVVRRFAHA----KPQGVVLTKLDETG  498 (559)
T ss_pred             cCCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCCChhHHHHHHHHHHhh----CCeEEEEecCcCcc
Confidence            46889999999643221100   0011  123567788888 777766665555432    34557888887643

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.48  E-value=0.0056  Score=52.39  Aligned_cols=65  Identities=12%  Similarity=0.052  Sum_probs=39.0

Q ss_pred             EEEEEEeeCCCccccchhh----h--------hcccCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCC
Q psy5781          69 KVKLQIWDTAGQERFRTIT----Q--------SYYRSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAM  135 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~~~----~--------~~~~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl  135 (231)
                      .+.+.|.||+|....+...    .        ..-...|.++||.|.+ ..+.+. +.....+..   .+..++.+|+|-
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~-~~~~f~~~~---~~~g~IlTKlDe  229 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNALE-QAKVFNEAV---GLTGIILTKLDG  229 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHHH-HHHHHHhhC---CCCEEEEEccCC
Confidence            4788999999975432211    1        1112378999999999 444443 233333322   355677888876


Q ss_pred             CC
Q psy5781         136 PQ  137 (231)
Q Consensus       136 ~~  137 (231)
                      ..
T Consensus       230 ~~  231 (272)
T TIGR00064       230 TA  231 (272)
T ss_pred             CC
Confidence            54

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.47  E-value=0.0083  Score=48.02  Aligned_cols=66  Identities=18%  Similarity=0.130  Sum_probs=38.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEee--CC-CccccchhhhhcccCCcEEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD--TA-GQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D--~~-G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      .+.++|++|+|||||++.+.+-.     .|+.|      .+.+++..+.+..-+  .+ |+.+--.+......+.+.+++
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~-----~p~~G------~i~~~g~~i~~~~q~~~LSgGq~qrv~laral~~~p~lllL   95 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQL-----IPNGD------NDEWDGITPVYKPQYIDLSGGELQRVAIAAALLRNATFYLF   95 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCC-----CCCCc------EEEECCEEEEEEcccCCCCHHHHHHHHHHHHHhcCCCEEEE
Confidence            68899999999999999888542     23344      223344322211111  33 343333455666667766555

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.47  E-value=0.0023  Score=48.51  Aligned_cols=21  Identities=29%  Similarity=0.572  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+++|.+|+|||||++++...
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999843

...

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.46  E-value=0.002  Score=50.39  Aligned_cols=22  Identities=23%  Similarity=0.507  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ||+|.|.+++|||||++.+...
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7999999999999999999855

>PRK07261 topology modulation protein; Provisional

Probab=96.45  E-value=0.0026  Score=50.51  Aligned_cols=22  Identities=27%  Similarity=0.596  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ||+|+|.+|+|||||...+...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7999999999999999998643

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.43  E-value=0.0048  Score=50.48  Aligned_cols=31  Identities=32%  Similarity=0.386  Sum_probs=25.0

Q ss_pred             CCCCCceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        14 ~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .-.++.+..-|+++|++|+|||||++.+...
T Consensus         6 ~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          6 LFNKPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             ccCCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            3445556677899999999999999999754

>KOG0447|consensus

Probab=96.42  E-value=0.021  Score=52.86  Aligned_cols=70  Identities=16%  Similarity=0.217  Sum_probs=49.3

Q ss_pred             EEEEeeCCCc-------------cccchhhhhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCC-cceeeecccccCCC
Q psy5781          71 KLQIWDTAGQ-------------ERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMP  136 (231)
Q Consensus        71 ~l~i~D~~G~-------------~~~~~~~~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~  136 (231)
                      ++-+.|.+|-             +....+...|+.+.+++|||..-.|-+.-+...-++...+++ .+..+.+.+|+|+.
T Consensus       413 RMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDAERSnVTDLVsq~DP~GrRTIfVLTKVDlA  492 (980)
T KOG0447|consen  413 RMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAERSIVTDLVSQMDPHGRRTIFVLTKVDLA  492 (980)
T ss_pred             eeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcchhhhhHHHHHHhcCCCCCeeEEEEeecchh
Confidence            6778899882             234567889999999999998777666555555555555544 34456788888887


Q ss_pred             CCcc
Q psy5781         137 QVRP  140 (231)
Q Consensus       137 ~~~~  140 (231)
                      ..+-
T Consensus       493 Eknl  496 (980)
T KOG0447|consen  493 EKNV  496 (980)
T ss_pred             hhcc
Confidence            6533

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.42  E-value=0.0025  Score=51.11  Aligned_cols=23  Identities=17%  Similarity=0.590  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .||+++|.+|+||||+..++...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            38999999999999999999876

>KOG2484|consensus

Probab=96.37  E-value=0.004  Score=55.30  Aligned_cols=59  Identities=31%  Similarity=0.491  Sum_probs=46.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~   80 (231)
                      -..-+++-|+|-++|||||+||.+...+... .-++.|++...+.+.++.   .|.|.|.+|.
T Consensus       249 lk~sIrvGViG~PNVGKSSvINsL~~~k~C~-vg~~pGvT~smqeV~Ldk---~i~llDsPgi  307 (435)
T KOG2484|consen  249 LKTSIRVGIIGYPNVGKSSVINSLKRRKACN-VGNVPGVTRSMQEVKLDK---KIRLLDSPGI  307 (435)
T ss_pred             cCcceEeeeecCCCCChhHHHHHHHHhcccc-CCCCccchhhhhheeccC---CceeccCCce
Confidence            4567999999999999999999999877533 446666666666677764   4789999984

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=96.27  E-value=0.026  Score=39.04  Aligned_cols=79  Identities=23%  Similarity=0.208  Sum_probs=50.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh-hhhcccCCcEEEEEEe
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI-TQSYYRSANGVIIEVT  102 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~-~~~~~~~ad~vIlV~d  102 (231)
                      +++.|..|+|||++...+...--..      +  +  +...++    .+.|.|+++....... .......+|.++++.+
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~------g--~--~v~~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~   67 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKR------G--K--RVLLID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTT   67 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC------C--C--eEEEEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecC
Confidence            6788999999999998887432111      1  1  112222    6789999876532221 2456668899999999


Q ss_pred             cC--cHhhHHHHHHHH
Q psy5781         103 SV--EYCYQRNWHKQA  116 (231)
Q Consensus       103 it--Sf~~l~~w~~~i  116 (231)
                      ..  +........++.
T Consensus        68 ~~~~~~~~~~~~~~~~   83 (99)
T cd01983          68 PEALAVLGARRLTEVV   83 (99)
T ss_pred             CchhhHHHHHHHHHHH
Confidence            88  666665554433

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=96.24  E-value=0.019  Score=44.12  Aligned_cols=66  Identities=14%  Similarity=0.173  Sum_probs=38.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC-ccccchhhhhcccCCcEEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG-QERFRTITQSYYRSANGVII   99 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G-~~~~~~~~~~~~~~ad~vIl   99 (231)
                      .++++|++|+|||||++.+.+-.     .|+.|      .+.+++...-..+...++ +.+--.+......+.+.+++
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~-----~~~~G------~i~~~~~~~i~~~~~lS~G~~~rv~laral~~~p~illl   94 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGEL-----EPDEG------IVTWGSTVKIGYFEQLSGGEKMRLALAKLLLENPNLLLL   94 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC-----CCCce------EEEECCeEEEEEEccCCHHHHHHHHHHHHHhcCCCEEEE
Confidence            46899999999999999987643     23344      234444321112222444 33333355666667765555

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>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=96.15  E-value=0.0047  Score=45.86  Aligned_cols=21  Identities=29%  Similarity=0.436  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |++.|++|+|||++++.+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            689999999999999999865

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 ....

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.14  E-value=0.0045  Score=51.82  Aligned_cols=21  Identities=24%  Similarity=0.491  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |.+||++|||||||++-+.+=
T Consensus        32 vsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          32 VAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999988753

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=96.09  E-value=0.0088  Score=52.89  Aligned_cols=22  Identities=32%  Similarity=0.537  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      +.++|++||||||+++.+.+=.
T Consensus        34 ~~lLGPSGcGKTTlLR~IAGfe   55 (352)
T COG3842          34 VTLLGPSGCGKTTLLRMIAGFE   55 (352)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6799999999999999998654

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.08  E-value=0.0051  Score=46.37  Aligned_cols=22  Identities=23%  Similarity=0.437  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++|+|.+|+|||||++.+.+.
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~   34 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGL   34 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEEccCCCccccceeeeccc
Confidence            5899999999999999977754

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.08  E-value=0.018  Score=43.86  Aligned_cols=22  Identities=45%  Similarity=0.693  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|++.|+.|+|||+|++.++..
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4889999999999999999865

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=96.07  E-value=0.014  Score=44.53  Aligned_cols=103  Identities=16%  Similarity=0.119  Sum_probs=60.3

Q ss_pred             EEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC
Q psy5781          25 VLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        25 vvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit  104 (231)
                      +.-|.+|+|||++...+...-- ..-..+.-+|...   ......+.+.|+|+++..  .......+..+|.+++|.+.+
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~-~~~~~~~~vd~D~---~~~~~~yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~   77 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALA-KLGKRVLLLDADL---GLANLDYDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE   77 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHH-HCCCcEEEEECCC---CCCCCCCCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC
Confidence            4557789999999877653211 1111122222110   000112678999998743  223356788999999999999


Q ss_pred             --cHhhHHHHHHHHHHhcCCcceeeecccccC
Q psy5781         105 --EYCYQRNWHKQAVTLFDKYKFGHAFSTSLA  134 (231)
Q Consensus       105 --Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~d  134 (231)
                        ++......++.+.+.....+ ..++.|+..
T Consensus        78 ~~s~~~~~~~l~~l~~~~~~~~-~~lVvN~~~  108 (139)
T cd02038          78 PTSITDAYALIKKLAKQLRVLN-FRVVVNRAE  108 (139)
T ss_pred             hhHHHHHHHHHHHHHHhcCCCC-EEEEEeCCC
Confidence              77777666666655443332 335566653

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.05  E-value=0.0052  Score=49.56  Aligned_cols=23  Identities=13%  Similarity=0.247  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .=|+++|++|+|||||+++++..
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            34899999999999999999865

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.04  E-value=0.0066  Score=44.62  Aligned_cols=26  Identities=19%  Similarity=0.216  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV   47 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~   47 (231)
                      -.++++|++|+|||+++..++..-..
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~   28 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGP   28 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCC
Confidence            36899999999999999999866543

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>KOG0066|consensus

Probab=95.97  E-value=0.037  Score=50.29  Aligned_cols=100  Identities=13%  Similarity=0.189  Sum_probs=56.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCC------cccceee----------------EEEEEEEEEC------------
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEK------TGNTIGV----------------DFSMKTVNID------------   66 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~------~~pt~~~----------------~~~~~~~~~~------------   66 (231)
                      .-||++||+.|||||||+.-+++.--+.+      ..-.+|+                +|-.+.+++.            
T Consensus       613 dSRiaIVGPNGVGKSTlLkLL~Gkl~P~~GE~RKnhrL~iG~FdQh~~E~L~~Eetp~EyLqr~FNlpyq~ARK~LG~fG  692 (807)
T KOG0066|consen  613 DSRIAIVGPNGVGKSTLLKLLIGKLDPNDGELRKNHRLRIGWFDQHANEALNGEETPVEYLQRKFNLPYQEARKQLGTFG  692 (807)
T ss_pred             cceeEEECCCCccHHHHHHHHhcCCCCCcchhhccceeeeechhhhhHHhhccccCHHHHHHHhcCCChHHHHHHhhhhh
Confidence            34899999999999999998886532211      1111110                0111111111            


Q ss_pred             --CeEEEEEEeeCCCccccc-hhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhc
Q psy5781          67 --GKKVKLQIWDTAGQERFR-TITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLF  120 (231)
Q Consensus        67 --~~~~~l~i~D~~G~~~~~-~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~  120 (231)
                        ...-.+.|-|.+|...-+ .+....+...|++||==-.+  ..+.|...-+.|+++.
T Consensus       693 L~sHAHTikikdLSGGQKaRValaeLal~~PDvlILDEPTNNLDIESIDALaEAIney~  751 (807)
T KOG0066|consen  693 LASHAHTIKIKDLSGGQKARVALAELALGGPDVLILDEPTNNLDIESIDALAEAINEYN  751 (807)
T ss_pred             hhhccceEeeeecCCcchHHHHHHHHhcCCCCEEEecCCCCCcchhhHHHHHHHHHhcc
Confidence              112367889987655433 45677777888877743222  4555555555555543

>PRK06217 hypothetical protein; Validated

Probab=95.96  E-value=0.0069  Score=48.44  Aligned_cols=23  Identities=17%  Similarity=0.378  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -||+|+|.+|+|||||..++...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999854

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=95.96  E-value=0.0061  Score=46.19  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|+++|++|+|||+|++.+...
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~   22 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAAL   22 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            3799999999999999988754

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.96  E-value=0.0069  Score=48.56  Aligned_cols=22  Identities=27%  Similarity=0.523  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|+++|++|+|||||++.+...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999999754

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.95  E-value=0.0067  Score=49.96  Aligned_cols=21  Identities=33%  Similarity=0.619  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .++++|++|+|||||++++-.
T Consensus        30 vv~iiGpSGSGKSTlLRclN~   50 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNG   50 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            589999999999999998864

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=95.93  E-value=0.0079  Score=40.28  Aligned_cols=21  Identities=24%  Similarity=0.572  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |++.|.+|+|||++.+.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            688999999999999998854

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.93  E-value=0.0053  Score=49.27  Aligned_cols=24  Identities=38%  Similarity=0.631  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      .=+++.|++|||||||++++..+.
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            347899999999999999999765

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.92  E-value=0.0065  Score=49.45  Aligned_cols=22  Identities=32%  Similarity=0.484  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|||||||+|-..+-
T Consensus        33 ~vv~lGpSGcGKTTLLnl~AGf   54 (259)
T COG4525          33 LVVVLGPSGCGKTTLLNLIAGF   54 (259)
T ss_pred             EEEEEcCCCccHHHHHHHHhcC
Confidence            5899999999999999988753

>TIGR00101 ureG urease accessory protein UreG

Probab=95.91  E-value=0.0075  Score=49.16  Aligned_cols=24  Identities=25%  Similarity=0.484  Sum_probs=21.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++|.++|..|+|||||+++++..
T Consensus         1 ~~~i~i~G~~GsGKTTll~~l~~~   24 (199)
T TIGR00101         1 PLKIGVAGPVGSGKTALIEALTRA   24 (199)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            368999999999999999988753

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.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.90  E-value=0.0068  Score=48.08  Aligned_cols=22  Identities=23%  Similarity=0.478  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|+|+|++|+|||||++.+...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4799999999999999998754

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.89  E-value=0.012  Score=49.10  Aligned_cols=28  Identities=29%  Similarity=0.519  Sum_probs=22.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCccccee
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIG   55 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~   55 (231)
                      -|++||++|+|||||++.+.+     -.+|+.|
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng-----l~d~t~G   59 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG-----LVDPTSG   59 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc-----ccCCCcc
Confidence            489999999999999998876     2345555

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=95.89  E-value=0.0094  Score=39.24  Aligned_cols=21  Identities=19%  Similarity=0.480  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.++.|++|+|||||+..+..
T Consensus        25 ~tli~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            389999999999999987753

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=95.88  E-value=0.0068  Score=51.32  Aligned_cols=20  Identities=20%  Similarity=0.444  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      ++++|++|+|||||++.+.+
T Consensus        31 ~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          31 TGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            68999999999999999975

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=95.88  E-value=0.0067  Score=53.34  Aligned_cols=20  Identities=35%  Similarity=0.672  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      ++++|++|||||||++.+.+
T Consensus        32 ~vllGPSGcGKSTlLr~IAG   51 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAG   51 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            79999999999999999975

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.87  E-value=0.0077  Score=46.03  Aligned_cols=21  Identities=38%  Similarity=0.692  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+++|++|+|||||++.+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999854

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=95.83  E-value=0.0086  Score=47.89  Aligned_cols=21  Identities=33%  Similarity=0.407  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      -+++++|++|+|||||++.++
T Consensus        22 ~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          22 VLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            378999999999999999886

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=95.81  E-value=0.019  Score=47.36  Aligned_cols=23  Identities=26%  Similarity=0.455  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      .+.++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          28 ITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            57899999999999999988653

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.81  E-value=0.0082  Score=47.55  Aligned_cols=22  Identities=32%  Similarity=0.555  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|+++|++|+|||||++.+...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4899999999999999999864

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=95.81  E-value=0.0073  Score=44.95  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      =+++.|++|+|||++++++....
T Consensus         6 ~~~i~G~~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen    6 ILVISGPPGSGKTTLIKRLARQL   28 (131)
T ss_dssp             -EEEEE-TTSSHHHHHHHHHHHH
T ss_pred             ccEEEcCCCCCHHHHHHHHHHHh
Confidence            37899999999999999998653

>KOG2485|consensus

Probab=95.77  E-value=0.012  Score=50.89  Aligned_cols=62  Identities=23%  Similarity=0.403  Sum_probs=38.5

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC----cccceeeEEEEEE-EEECCeEEEEEEeeCCCc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK----TGNTIGVDFSMKT-VNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~----~~pt~~~~~~~~~-~~~~~~~~~l~i~D~~G~   80 (231)
                      ....+.+.|+|-|||||||||+..........    .-+..|+...+.. +.+... -.+.+.||+|.
T Consensus       140 ~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~r-p~vy~iDTPGi  206 (335)
T KOG2485|consen  140 LNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHR-PPVYLIDTPGI  206 (335)
T ss_pred             cCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccC-CceEEecCCCc
Confidence            45678999999999999999998764332221    2223333333222 334322 24789999994

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=95.75  E-value=0.0078  Score=47.44  Aligned_cols=23  Identities=26%  Similarity=0.507  Sum_probs=16.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      --++|.|++|+|||+|++++...
T Consensus        25 ~~~ll~G~~G~GKT~ll~~~~~~   47 (185)
T PF13191_consen   25 RNLLLTGESGSGKTSLLRALLDR   47 (185)
T ss_dssp             --EEE-B-TTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            56899999999999999988743

>KOG0780|consensus

Probab=95.73  E-value=0.018  Score=51.22  Aligned_cols=88  Identities=18%  Similarity=0.235  Sum_probs=52.6

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHc--------------CCCCC-------CcccceeeEEEEEEEEEC---------
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRS--------------GDFVE-------KTGNTIGVDFSMKTVNID---------   66 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~--------------~~f~~-------~~~pt~~~~~~~~~~~~~---------   66 (231)
                      ...+.-=|+++|..|+||||.+..|..              +.|..       ..-...+++||....+.+         
T Consensus        97 ~K~kpsVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ygsyte~dpv~ia~egv  176 (483)
T KOG0780|consen   97 KKGKPSVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEGV  176 (483)
T ss_pred             ccCCCcEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCeeEecccccchHHHHHHHH
Confidence            344555689999999999998877642              12211       001122334544322222         


Q ss_pred             ----CeEEEEEEeeCCCcccc-----chhhh-hcccCCcEEEEEEecC
Q psy5781          67 ----GKKVKLQIWDTAGQERF-----RTITQ-SYYRSANGVIIEVTSV  104 (231)
Q Consensus        67 ----~~~~~l~i~D~~G~~~~-----~~~~~-~~~~~ad~vIlV~dit  104 (231)
                          .+.+.+.|.||+|....     ..+.+ .-.-+-|-+|+|.|.+
T Consensus       177 ~~fKke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDas  224 (483)
T KOG0780|consen  177 DRFKKENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDAS  224 (483)
T ss_pred             HHHHhcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEecc
Confidence                35689999999996532     22211 1223579999999999

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=95.72  E-value=0.015  Score=54.25  Aligned_cols=35  Identities=26%  Similarity=0.473  Sum_probs=27.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      +++++|++|+|||||++-+.+-     |.|+.|      .+.++|.
T Consensus       363 ~vaIvG~SGsGKSTLl~lL~g~-----~~p~~G------~I~i~g~  397 (529)
T TIGR02868       363 RVAILGPSGSGKSTLLMLLTGL-----LDPLQG------EVTLDGV  397 (529)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC-----CCCCCc------EEEECCE
Confidence            7899999999999999988743     556666      3456663

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=95.72  E-value=0.0096  Score=49.97  Aligned_cols=26  Identities=31%  Similarity=0.501  Sum_probs=22.7

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ...+|++|+|.+|+|||+|+..++..
T Consensus        11 ~~~fr~viIG~sGSGKT~li~~lL~~   36 (241)
T PF04665_consen   11 KDPFRMVIIGKSGSGKTTLIKSLLYY   36 (241)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHh
Confidence            35689999999999999999988854

This is thought to be an ATPase involved in viral DNA packaging [].

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=95.69  E-value=0.009  Score=49.62  Aligned_cols=22  Identities=23%  Similarity=0.427  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.+-.=
T Consensus        33 ~vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999988743

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=95.68  E-value=0.018  Score=45.88  Aligned_cols=28  Identities=25%  Similarity=0.368  Sum_probs=22.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCccccee
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIG   55 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~   55 (231)
                      .|.+.|++|+|||+|++.++.=     ..|+.|
T Consensus        31 ~iaitGPSG~GKStllk~va~L-----isp~~G   58 (223)
T COG4619          31 FIAITGPSGCGKSTLLKIVASL-----ISPTSG   58 (223)
T ss_pred             eEEEeCCCCccHHHHHHHHHhc-----cCCCCc
Confidence            5889999999999999998843     346666

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=95.68  E-value=0.0099  Score=43.87  Aligned_cols=21  Identities=24%  Similarity=0.362  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+|.|.+||||||+++.+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999988755

...

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=95.66  E-value=0.065  Score=42.39  Aligned_cols=64  Identities=6%  Similarity=-0.079  Sum_probs=45.3

Q ss_pred             eEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          68 KKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        68 ~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      ..+.+.|.|+++...  ......+..+|.++++...+  +...+..+.+.+++..  .+ ..++.|+.+..
T Consensus        91 ~~~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~~~~~~~~~~~~~~l~~~~--~~-~~vV~N~~~~~  156 (179)
T cd03110          91 EGAELIIIDGPPGIG--CPVIASLTGADAALLVTEPTPSGLHDLERAVELVRHFG--IP-VGVVINKYDLN  156 (179)
T ss_pred             cCCCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCCcccHHHHHHHHHHHHHcC--CC-EEEEEeCCCCC
Confidence            457889999986532  13345568899999999999  7888888887776542  22 35777877654

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>PF13173 AAA_14: AAA domain

Probab=95.65  E-value=0.0092  Score=44.82  Aligned_cols=24  Identities=29%  Similarity=0.533  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF   46 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f   46 (231)
                      -+++.|+.+||||+|+++++....
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~   27 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLL   27 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Confidence            378999999999999999997654

>PRK14530 adenylate kinase; Provisional

Probab=95.63  E-value=0.011  Score=48.53  Aligned_cols=21  Identities=24%  Similarity=0.504  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +|+|+|.+|+||||+.+++..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999874

>TIGR00959 ffh signal recognition particle protein

Probab=95.63  E-value=0.031  Score=50.90  Aligned_cols=114  Identities=16%  Similarity=0.100  Sum_probs=61.7

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC-----CCC------CCccc-----------ceeeEEEEEEE-----EE------
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG-----DFV------EKTGN-----------TIGVDFSMKTV-----NI------   65 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~-----~f~------~~~~p-----------t~~~~~~~~~~-----~~------   65 (231)
                      ....-|+++|.+|+||||++-.+...     ...      +.+.|           ..+++++....     .+      
T Consensus        97 ~~p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~  176 (428)
T TIGR00959        97 KPPTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALE  176 (428)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHH
Confidence            34678999999999999997665422     110      11111           11112221100     00      


Q ss_pred             --CCeEEEEEEeeCCCccccch-h---hhh--cccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCC
Q psy5781          66 --DGKKVKLQIWDTAGQERFRT-I---TQS--YYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAM  135 (231)
Q Consensus        66 --~~~~~~l~i~D~~G~~~~~~-~---~~~--~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl  135 (231)
                        ....+.+.|.||+|...... +   ...  .....+.++||.|.++-++...+...+.+..   .+..++.+|+|-
T Consensus       177 ~~~~~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq~~~~~a~~f~~~v---~i~giIlTKlD~  251 (428)
T TIGR00959       177 YAKENGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQDAVNTAKTFNERL---GLTGVVLTKLDG  251 (428)
T ss_pred             HHHhcCCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchHHHHHHHHHHHhhC---CCCEEEEeCccC
Confidence              01236789999999643221 1   111  1235788999999885555555555554333   344556666653

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=95.62  E-value=0.011  Score=44.03  Aligned_cols=24  Identities=29%  Similarity=0.477  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF   46 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f   46 (231)
                      -+++.|++|+|||+|++.+...-.
T Consensus        21 ~v~i~G~~G~GKT~l~~~i~~~~~   44 (151)
T cd00009          21 NLLLYGPPGTGKTTLARAIANELF   44 (151)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhh
Confidence            589999999999999999986643

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>TIGR00235 udk uridine kinase

Probab=95.62  E-value=0.014  Score=47.52  Aligned_cols=26  Identities=23%  Similarity=0.218  Sum_probs=22.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ++...-|.++|.+|+|||||++.+.+
T Consensus         3 ~~~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         3 KPKGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHH
Confidence            34456799999999999999999975

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PF05729 NACHT: NACHT domain

Probab=95.61  E-value=0.011  Score=45.64  Aligned_cols=21  Identities=19%  Similarity=0.482  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ++|.|++|+|||+++.+++..
T Consensus         3 l~I~G~~G~GKStll~~~~~~   23 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQ   23 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            789999999999999998854

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.60  E-value=0.024  Score=46.44  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        39 ~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         39 ALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            5889999999999999999864

>PRK03839 putative kinase; Provisional

Probab=95.60  E-value=0.011  Score=46.93  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +|+++|.+|+||||+.+++...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999988754

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

Probab=95.57  E-value=0.05  Score=46.89  Aligned_cols=115  Identities=13%  Similarity=0.073  Sum_probs=70.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc---CCCC---CCcc--------cceeeEEEEEEEEECCeEEEEEEeeCCCccccch
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS---GDFV---EKTG--------NTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT   85 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~---~~f~---~~~~--------pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~   85 (231)
                      ..++|..+|.-.=|||||...+..   +.+.   ..|.        ..-|+..+...++++-..-.+.-.|++|+.+|-.
T Consensus        11 phVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyahVDcPGHaDYvK   90 (394)
T COG0050          11 PHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYVK   90 (394)
T ss_pred             CeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCCceEEeccCCChHHHHH
Confidence            458999999999999999876642   1111   0111        1123334444555543444567889999998765


Q ss_pred             hhhhcccCCcEEEEEEecC------cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          86 ITQSYYRSANGVIIEVTSV------EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        86 ~~~~~~~~ad~vIlV~dit------Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      ..-.-..+.|+.|||.+.+      +-+++-     +.+ .-.-+.+++..||.|+..+..
T Consensus        91 NMItgAaqmDgAILVVsA~dGpmPqTrEHiL-----lar-qvGvp~ivvflnK~Dmvdd~e  145 (394)
T COG0050          91 NMITGAAQMDGAILVVAATDGPMPQTREHIL-----LAR-QVGVPYIVVFLNKVDMVDDEE  145 (394)
T ss_pred             HHhhhHHhcCccEEEEEcCCCCCCcchhhhh-----hhh-hcCCcEEEEEEecccccCcHH
Confidence            4333445679999999998      333221     111 123345667889999887544

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.56  E-value=0.011  Score=46.88  Aligned_cols=22  Identities=18%  Similarity=0.333  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.|+++|.+|+||||+++++..
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3688999999999999999973

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=95.56  E-value=0.012  Score=43.20  Aligned_cols=20  Identities=35%  Similarity=0.612  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy5781          23 KVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~   42 (231)
                      .++++|++|+|||||++.+.
T Consensus        17 ~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          17 GVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEcCCCCCHHHHHHHhh
Confidence            47999999999999999976

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.55  E-value=0.013  Score=50.02  Aligned_cols=112  Identities=15%  Similarity=0.132  Sum_probs=65.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCC---------------------CcccceeeEEEEEEEE---------E-CCeEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVE---------------------KTGNTIGVDFSMKTVN---------I-DGKKV   70 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~---------------------~~~pt~~~~~~~~~~~---------~-~~~~~   70 (231)
                      -+|+++|.+|+|||+++..+...-...                     .+....+.++....-.         . ....+
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~  155 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARV  155 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCC
Confidence            599999999999999988775321100                     0111122121110000         0 01246


Q ss_pred             EEEEeeCCCccccch--h--hhhcc--cCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          71 KLQIWDTAGQERFRT--I--TQSYY--RSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        71 ~l~i~D~~G~~~~~~--~--~~~~~--~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .+.|.||+|......  +  +..++  ...+-++||.|.+ ..+.+..+.+....    -.+..++.+|+|-..
T Consensus       156 D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~~~~f~~----~~~~~~I~TKlDet~  225 (270)
T PRK06731        156 DYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKD----IHIDGIVFTKFDETA  225 (270)
T ss_pred             CEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHHHHHhCC----CCCCEEEEEeecCCC
Confidence            889999999763221  1  12222  2346789999998 77777777776643    455667788877654

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=95.53  E-value=0.012  Score=45.17  Aligned_cols=22  Identities=23%  Similarity=0.415  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|.|+|..++|||||+..+++.
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~   23 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINE   23 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999865

>PRK13695 putative NTPase; Provisional

Probab=95.52  E-value=0.012  Score=46.50  Aligned_cols=22  Identities=36%  Similarity=0.576  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +||+++|++|+|||||+..+..
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998653

>KOG0448|consensus

Probab=95.52  E-value=0.083  Score=50.12  Aligned_cols=119  Identities=14%  Similarity=0.214  Sum_probs=71.8

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCC-CcccceeeE----------------------------------------
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVE-KTGNTIGVD----------------------------------------   57 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~-~~~pt~~~~----------------------------------------   57 (231)
                      +...||++-|+.+.|||+++|.++.++..+ ...++..+-                                        
T Consensus       107 r~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~  186 (749)
T KOG0448|consen  107 RRHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDL  186 (749)
T ss_pred             hcccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCccccc
Confidence            446799999999999999999998665432 111211100                                        


Q ss_pred             --EEEEEEEECCeE-----EEEEEeeCCCcc---ccchhhhhcccCCcEEEEEEecC-cHhhH-HHHHHHHHHhcCCcce
Q psy5781          58 --FSMKTVNIDGKK-----VKLQIWDTAGQE---RFRTITQSYYRSANGVIIEVTSV-EYCYQ-RNWHKQAVTLFDKYKF  125 (231)
Q Consensus        58 --~~~~~~~~~~~~-----~~l~i~D~~G~~---~~~~~~~~~~~~ad~vIlV~dit-Sf~~l-~~w~~~i~~~~~~~~~  125 (231)
                        .....+.++...     -.+.+.|.+|-.   +...-...+..++|++|||.... .+..- ..++..+.   .+++.
T Consensus       187 ~~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek~Ff~~vs---~~Kpn  263 (749)
T KOG0448|consen  187 GAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEKQFFHKVS---EEKPN  263 (749)
T ss_pred             CcceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHHHHHHHhh---ccCCc
Confidence              001112221111     145677888743   34445677788999999999888 33332 23333333   33566


Q ss_pred             eeecccccCCCCCcc
Q psy5781         126 GHAFSTSLAMPQVRP  140 (231)
Q Consensus       126 ~~vv~~k~dl~~~~~  140 (231)
                      +.++.||.|...+.+
T Consensus       264 iFIlnnkwDasase~  278 (749)
T KOG0448|consen  264 IFILNNKWDASASEP  278 (749)
T ss_pred             EEEEechhhhhcccH
Confidence            778888988776543

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=95.48  E-value=0.013  Score=47.88  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            5799999999999999999864

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PRK10646 ADP-binding protein; Provisional

Probab=95.48  E-value=0.068  Score=41.76  Aligned_cols=22  Identities=36%  Similarity=0.548  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|++-|+=|+|||+|++.++..
T Consensus        30 vi~L~GdLGaGKTtf~rgl~~~   51 (153)
T PRK10646         30 VIYLYGDLGAGKTTFSRGFLQA   51 (153)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999999864

>PRK13949 shikimate kinase; Provisional

Probab=95.44  E-value=0.014  Score=46.25  Aligned_cols=21  Identities=29%  Similarity=0.542  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ||+++|.+|+||||+.+.+..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998764

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=95.43  E-value=0.03  Score=42.15  Aligned_cols=22  Identities=36%  Similarity=0.584  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|++-|+=|+|||+|++.++..
T Consensus        17 vi~L~GdLGaGKTtf~r~l~~~   38 (123)
T PF02367_consen   17 VILLSGDLGAGKTTFVRGLARA   38 (123)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3889999999999999999854

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PRK02496 adk adenylate kinase; Provisional

Probab=95.41  E-value=0.015  Score=46.42  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .||+|+|.+|+||||+...+...
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~~   24 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAEH   24 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999988743

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=95.39  E-value=0.015  Score=47.59  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl   52 (216)
T TIGR00960        31 MVFLVGHSGAGKSTFLKLILGI   52 (216)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999864

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.38  E-value=0.038  Score=46.43  Aligned_cols=22  Identities=27%  Similarity=0.460  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~Gl   56 (254)
T PRK14273         35 ITALIGPSGCGKSTFLRTLNRM   56 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            6789999999999999999864

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=95.38  E-value=0.038  Score=46.59  Aligned_cols=23  Identities=26%  Similarity=0.470  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      .+.++|++|+|||||++.+.+-.
T Consensus        32 ~~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         32 VTAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            58899999999999999998753

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.38  E-value=0.014  Score=47.30  Aligned_cols=22  Identities=32%  Similarity=0.520  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|+++|++|+|||||++.+...
T Consensus         7 ~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          7 LIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4899999999999999998864

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.36  E-value=0.016  Score=47.23  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~   50 (211)
T cd03225          29 FVLIVGPNGSGKSTLLRLLNGL   50 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999999864

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=95.35  E-value=0.035  Score=47.10  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      .++++|++|+|||||++.+.+-.
T Consensus        48 ~~~I~G~nGsGKSTLl~~l~Gl~   70 (267)
T PRK14237         48 ITALIGPSGSGKSTYLRSLNRMN   70 (267)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcc
Confidence            57899999999999999988653

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.35  E-value=0.016  Score=47.08  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6899999999999999998864

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>KOG0464|consensus

Probab=95.33  E-value=0.01  Score=53.15  Aligned_cols=89  Identities=19%  Similarity=0.256  Sum_probs=67.4

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcC--C------CCC--------CcccceeeEEEEEEEEECCeEEEEEEeeCCC
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSG--D------FVE--------KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG   79 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~--~------f~~--------~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G   79 (231)
                      +...+.-+|-++..-.+|||+...|+++-  .      ...        .....-|+......++.|.+.+++++.||+|
T Consensus        32 p~~akirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpg  111 (753)
T KOG0464|consen   32 PAIAKIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPG  111 (753)
T ss_pred             CchhhhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCC
Confidence            34445668889999999999999988631  1      100        0112234445566777788889999999999


Q ss_pred             ccccchhhhhcccCCcEEEEEEecC
Q psy5781          80 QERFRTITQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        80 ~~~~~~~~~~~~~~ad~vIlV~dit  104 (231)
                      +-+|+......++--||++.|||.+
T Consensus       112 hvdf~leverclrvldgavav~das  136 (753)
T KOG0464|consen  112 HVDFRLEVERCLRVLDGAVAVFDAS  136 (753)
T ss_pred             cceEEEEHHHHHHHhcCeEEEEecc
Confidence            9999988899999999999999998

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.33  E-value=0.039  Score=46.31  Aligned_cols=22  Identities=27%  Similarity=0.533  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        32 ~~~l~G~nGsGKSTLl~~l~G~   53 (253)
T PRK14267         32 VFALMGPSGCGKSTLLRTFNRL   53 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5789999999999999988864

>PRK14532 adenylate kinase; Provisional

Probab=95.31  E-value=0.015  Score=46.48  Aligned_cols=22  Identities=23%  Similarity=0.389  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +|+++|.+|+||||+..++...
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~   23 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEE   23 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999999743

>KOG0467|consensus

Probab=95.31  E-value=0.051  Score=52.07  Aligned_cols=110  Identities=17%  Similarity=0.320  Sum_probs=76.3

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCC------------CCC--CcccceeeEEEEEEEEECCeEEEEEEeeCCCccc
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGD------------FVE--KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER   82 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~------------f~~--~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~   82 (231)
                      ..+..-+|+++..-.=|||||+-.++...            |.+  +-..+-|++.....+..-.+.+.+++.|++|+-+
T Consensus         5 ~~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspghvd   84 (887)
T KOG0467|consen    5 GSEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGHVD   84 (887)
T ss_pred             CCCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCccc
Confidence            44566788999999999999998886431            111  1223444444444444444568999999999999


Q ss_pred             cchhhhhcccCCcEEEEEEecC------cHhhHH-HHHHHHHHhcCCcceeeecccccC
Q psy5781          83 FRTITQSYYRSANGVIIEVTSV------EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLA  134 (231)
Q Consensus        83 ~~~~~~~~~~~ad~vIlV~dit------Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~d  134 (231)
                      |.+......+-+|++++..|+.      +..-++ -|.+.+        -.+++.||+|
T Consensus        85 f~sevssas~l~d~alvlvdvvegv~~qt~~vlrq~~~~~~--------~~~lvinkid  135 (887)
T KOG0467|consen   85 FSSEVSSASRLSDGALVLVDVVEGVCSQTYAVLRQAWIEGL--------KPILVINKID  135 (887)
T ss_pred             hhhhhhhhhhhcCCcEEEEeeccccchhHHHHHHHHHHccC--------ceEEEEehhh
Confidence            9999999999999999999998      333332 344433        3457778877

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=95.30  E-value=0.015  Score=46.54  Aligned_cols=22  Identities=23%  Similarity=0.450  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~   41 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGL   41 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999988754

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=95.30  E-value=0.038  Score=44.60  Aligned_cols=22  Identities=18%  Similarity=0.483  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        37 ~~~l~G~nGsGKStLl~~i~Gl   58 (194)
T cd03213          37 LTAIMGPSGAGKSTLLNALAGR   58 (194)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6889999999999999999864

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=95.30  E-value=0.017  Score=46.78  Aligned_cols=22  Identities=23%  Similarity=0.397  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~   47 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLL   47 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999864

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=95.30  E-value=0.013  Score=46.77  Aligned_cols=22  Identities=27%  Similarity=0.533  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ||+|+|.+|+|||++...+...
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998754

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.29  E-value=0.018  Score=47.96  Aligned_cols=25  Identities=32%  Similarity=0.396  Sum_probs=21.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ...||+|+|.+|+||||+..++...
T Consensus         5 ~~mrIvl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          5 GPLKIVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            3478999999999999999998754

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.28  E-value=0.015  Score=46.90  Aligned_cols=21  Identities=29%  Similarity=0.447  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |.+.|++|+|||||++.+..-
T Consensus         2 igi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999998753

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PLN02200 adenylate kinase family protein

Probab=95.26  E-value=0.026  Score=47.21  Aligned_cols=26  Identities=19%  Similarity=0.272  Sum_probs=21.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ....+.|+|+|.+|+||||+..++..
T Consensus        40 ~~~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         40 EKTPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            33457899999999999999998874

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.26  E-value=0.019  Score=46.88  Aligned_cols=27  Identities=19%  Similarity=0.289  Sum_probs=23.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ......|.++|..|+|||||+++++..
T Consensus        19 ~~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        19 KHGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             hcCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            445788999999999999999999754

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=95.26  E-value=0.017  Score=47.87  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~   49 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGL   49 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999854

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=95.25  E-value=0.018  Score=46.88  Aligned_cols=22  Identities=27%  Similarity=0.317  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          28 IFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999964

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK08233 hypothetical protein; Provisional

Probab=95.25  E-value=0.017  Score=45.65  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .-|++.|.+|+|||||.+++...
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            56788899999999999999854

>PRK05480 uridine/cytidine kinase; Provisional

Probab=95.23  E-value=0.019  Score=46.77  Aligned_cols=25  Identities=24%  Similarity=0.282  Sum_probs=22.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ....|.+.|.+|+|||||++.+...
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            5688999999999999999988753

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=95.23  E-value=0.018  Score=47.21  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          28 IFGLLGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998864

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=95.22  E-value=0.016  Score=47.15  Aligned_cols=22  Identities=27%  Similarity=0.360  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCC
Confidence            7899999999999999999854

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10867 signal recognition particle protein; Provisional

Probab=95.21  E-value=0.062  Score=49.02  Aligned_cols=64  Identities=16%  Similarity=0.089  Sum_probs=36.9

Q ss_pred             EEEEEEeeCCCccccch-h---hhh--cccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCC
Q psy5781          69 KVKLQIWDTAGQERFRT-I---TQS--YYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAM  135 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~-~---~~~--~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl  135 (231)
                      .+.+.|.||+|.-.... +   ...  .....+.+++|.|.++-++.....+.+.+..   .+..++.+|.|-
T Consensus       183 ~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq~av~~a~~F~~~~---~i~giIlTKlD~  252 (433)
T PRK10867        183 GYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQDAVNTAKAFNEAL---GLTGVILTKLDG  252 (433)
T ss_pred             CCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHHHHHHHHHHHHhhC---CCCEEEEeCccC
Confidence            36789999999643211 1   011  1125678899999885455555555554322   334455677663

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=95.21  E-value=0.018  Score=47.92  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        30 FVAIIGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6889999999999999988754

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=95.21  E-value=0.019  Score=46.88  Aligned_cols=22  Identities=27%  Similarity=0.449  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        30 ~~~l~G~nGsGKSTLl~~i~Gl   51 (214)
T TIGR02673        30 FLFLTGPSGAGKTTLLKLLYGA   51 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999988754

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=95.21  E-value=0.019  Score=46.82  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          29 FVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999999864

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=95.21  E-value=0.019  Score=46.88  Aligned_cols=22  Identities=27%  Similarity=0.428  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~   49 (213)
T cd03259          28 FLALLGPSGCGKTTLLRLIAGL   49 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999998854

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.21  E-value=0.019  Score=46.28  Aligned_cols=23  Identities=17%  Similarity=0.231  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      .++++|.+|+|||||++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         28 ITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            67999999999999999998753

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=95.20  E-value=0.042  Score=46.65  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        47 ~~~i~G~nGsGKSTLl~~l~Gl   68 (267)
T PRK14235         47 VTAFIGPSGCGKSTFLRCLNRM   68 (267)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5789999999999999999864

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=95.20  E-value=0.019  Score=47.51  Aligned_cols=22  Identities=32%  Similarity=0.283  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl   49 (232)
T cd03218          28 IVGLLGPNGAGKTTTFYMIVGL   49 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999999864

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.19  E-value=0.036  Score=47.62  Aligned_cols=22  Identities=18%  Similarity=0.465  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        35 ~~~i~G~nGsGKSTLl~~L~Gl   56 (286)
T PRK13646         35 YYAIVGQTGSGKSTLIQNINAL   56 (286)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999864

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.19  E-value=0.043  Score=48.24  Aligned_cols=23  Identities=22%  Similarity=0.449  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      +++++|.+|+|||||++.+.+-.
T Consensus       110 ~v~IvG~~GsGKSTLl~~L~g~~  132 (329)
T PRK14257        110 VTAFIGPSGCGKSTFLRNLNQLN  132 (329)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            68999999999999999998653

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=95.19  E-value=0.029  Score=53.99  Aligned_cols=35  Identities=26%  Similarity=0.401  Sum_probs=27.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      ++.++|.+|+|||||++-+++-     |.|+.|      .+.+||.
T Consensus       481 ~vaIvG~sGsGKSTLlklL~gl-----~~p~~G------~I~idg~  515 (686)
T TIGR03797       481 FVAIVGPSGSGKSTLLRLLLGF-----ETPESG------SVFYDGQ  515 (686)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC-----CCCCCC------EEEECCE
Confidence            7899999999999999988854     456666      4556663

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>KOG1487|consensus

Probab=95.18  E-value=0.063  Score=45.52  Aligned_cols=81  Identities=19%  Similarity=0.137  Sum_probs=50.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc----c---chhhhhccc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER----F---RTITQSYYR   92 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----~---~~~~~~~~~   92 (231)
                      .-||-++|=+.||||||+..+.+-.. ...|.-|.- ....-.+.+++  -++++.|.+|.-+    -   ....-...+
T Consensus        59 ~a~vg~vgFPSvGksTl~~~l~g~~s~vasyefttl-~~vpG~~~y~g--aKiqlldlpgiiegakdgkgrg~qviavar  135 (358)
T KOG1487|consen   59 DARVGFVGFPSVGKSTLLSKLTGTFSEVAAYEFTTL-TTVPGVIRYKG--AKIQLLDLPGIIEGAKDGKGRGKQVIAVAR  135 (358)
T ss_pred             ceeeeEEecCccchhhhhhhhcCCCCccccccceeE-EEecceEeccc--cceeeecCcchhcccccCCCCccEEEEEee
Confidence            44899999999999999999885432 122222221 01111222323  5799999998421    1   112334567


Q ss_pred             CCcEEEEEEecC
Q psy5781          93 SANGVIIEVTSV  104 (231)
Q Consensus        93 ~ad~vIlV~dit  104 (231)
                      .|+.+++|.|+.
T Consensus       136 tcnli~~vld~~  147 (358)
T KOG1487|consen  136 TCNLIFIVLDVL  147 (358)
T ss_pred             cccEEEEEeecc
Confidence            899999999998

>PRK14531 adenylate kinase; Provisional

Probab=95.17  E-value=0.019  Score=45.93  Aligned_cols=23  Identities=22%  Similarity=0.437  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+|+++|.+|+||||+..++...
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~   25 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAA   25 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999988754

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=95.17  E-value=0.02  Score=46.69  Aligned_cols=22  Identities=32%  Similarity=0.472  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03262          28 VVVIIGPSGSGKSTLLRCINLL   49 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5799999999999999999864

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=95.16  E-value=0.016  Score=47.14  Aligned_cols=24  Identities=29%  Similarity=0.462  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      --++|.|+.|+|||+|++.+....
T Consensus        21 ~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen   21 QHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             cEEEEEcCCcCCHHHHHHHHHHHh
Confidence            357888999999999999998654

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.15  E-value=0.028  Score=46.76  Aligned_cols=36  Identities=25%  Similarity=0.364  Sum_probs=28.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      -+++|++|+|||||.+.+.+..   .|..|.|      .+.++|+
T Consensus        33 haiMGPNGsGKSTLa~~i~G~p---~Y~Vt~G------~I~~~Ge   68 (251)
T COG0396          33 HAIMGPNGSGKSTLAYTIMGHP---KYEVTEG------EILFDGE   68 (251)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC---CceEecc------eEEECCc
Confidence            4789999999999999999764   5777776      4555664

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.15  E-value=0.048  Score=45.72  Aligned_cols=23  Identities=22%  Similarity=0.473  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      .++++|++|+|||||++.+.+-.
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~Gl~   54 (251)
T PRK14249         32 ITAIIGPSGCGKSTLLRALNRMN   54 (251)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            57899999999999999988653

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=95.14  E-value=0.019  Score=47.18  Aligned_cols=22  Identities=23%  Similarity=0.428  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          33 TLGLVGESGSGKSTLARAILGL   54 (228)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999999864

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.14  E-value=0.046  Score=46.33  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        49 ~~~i~G~nGsGKSTLl~~l~Gl   70 (268)
T PRK14248         49 VTALIGPSGCGKSTFLRSINRM   70 (268)
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            4899999999999999999864

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=95.13  E-value=0.034  Score=49.59  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        21 i~~l~G~sGsGKSTLLr~L~Gl   42 (363)
T TIGR01186        21 IFVIMGLSGSGKSTTVRMLNRL   42 (363)
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            5799999999999999998865

This model describes the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits these transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L.lact

>PHA00729 NTP-binding motif containing protein

Probab=95.13  E-value=0.021  Score=47.47  Aligned_cols=23  Identities=26%  Similarity=0.419  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+|++.|.+|+|||+|..++...
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999998764

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=95.13  E-value=0.02  Score=47.00  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          28 IVALLGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999988754

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=95.12  E-value=0.034  Score=47.09  Aligned_cols=18  Identities=44%  Similarity=0.709  Sum_probs=15.7

Q ss_pred             EEEEcCCCCcHHHHHHHH
Q psy5781          24 VVLIGDCGVGKTCVVHRF   41 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~   41 (231)
                      ++++|++|+||||+++.+
T Consensus        30 ~vliGpSGsGKTTtLkMI   47 (309)
T COG1125          30 LVLIGPSGSGKTTTLKMI   47 (309)
T ss_pred             EEEECCCCCcHHHHHHHH
Confidence            689999999999998654

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=95.12  E-value=0.031  Score=46.73  Aligned_cols=36  Identities=31%  Similarity=0.459  Sum_probs=28.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK   69 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~   69 (231)
                      +|-+||.+|+|||||++-+.+-     +.||.|      .+.++|+-
T Consensus        55 ~vGiiG~NGaGKSTLlkliaGi-----~~Pt~G------~v~v~G~v   90 (249)
T COG1134          55 RVGIIGHNGAGKSTLLKLIAGI-----YKPTSG------KVKVTGKV   90 (249)
T ss_pred             EEEEECCCCCcHHHHHHHHhCc-----cCCCCc------eEEEcceE
Confidence            7899999999999999877643     678888      45556643

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=95.12  E-value=0.048  Score=46.43  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      .+.++|.+|+|||||++.+.+-.
T Consensus        52 ~~~I~G~nGsGKSTLl~~i~Gl~   74 (271)
T PRK14238         52 VTAIIGPSGCGKSTYIKTLNRMV   74 (271)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            68899999999999999998653

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=95.11  E-value=0.021  Score=46.87  Aligned_cols=22  Identities=27%  Similarity=0.536  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        33 ~~~i~G~nGsGKSTLl~~i~G~   54 (221)
T TIGR02211        33 IVAIVGSSGSGKSTLLHLLGGL   54 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999865

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.11  E-value=0.015  Score=45.26  Aligned_cols=21  Identities=29%  Similarity=0.528  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+++|.+|+||||+.+.+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            579999999999999998855

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=95.11  E-value=0.019  Score=47.62  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|.+|+|||||++.+.+-
T Consensus        31 iv~llG~NGaGKTTlLkti~Gl   52 (237)
T COG0410          31 IVALLGRNGAGKTTLLKTIMGL   52 (237)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999864

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=95.11  E-value=0.021  Score=46.91  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~Gl   53 (220)
T cd03293          32 FVALVGPSGCGKSTLLRIIAGL   53 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999998854

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.11  E-value=0.016  Score=47.74  Aligned_cols=19  Identities=32%  Similarity=0.628  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy5781          24 VVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~   42 (231)
                      ..++|++|||||||++.|-
T Consensus        36 TAlIGPSGcGKST~LR~lN   54 (253)
T COG1117          36 TALIGPSGCGKSTLLRCLN   54 (253)
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            5799999999999998875

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=95.10  E-value=0.021  Score=46.75  Aligned_cols=22  Identities=27%  Similarity=0.342  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl   54 (218)
T cd03266          33 VTGLLGPNGAGKTTTLRMLAGL   54 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999998864

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>PF13479 AAA_24: AAA domain

Probab=95.10  E-value=0.017  Score=47.53  Aligned_cols=22  Identities=27%  Similarity=0.436  Sum_probs=20.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHH
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRF   41 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~   41 (231)
                      ..+|++|.|++|+|||+|+..+
T Consensus         2 ~~~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    2 KPIKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             CceEEEEECCCCCCHHHHHHhC
Confidence            4689999999999999999988

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.10  E-value=0.054  Score=45.66  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      .+.++|.+|+|||||++.+.+-.
T Consensus        40 ~~~i~G~nGsGKSTLl~~i~Gl~   62 (258)
T PRK14268         40 VTALIGPSGCGKSTFIRCLNRMN   62 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48899999999999999998643

>COG1101 PhnK ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=95.08  E-value=0.034  Score=45.94  Aligned_cols=22  Identities=27%  Similarity=0.502  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      |.|+|.+|+|||||++.+.+.-
T Consensus        35 vtViGsNGAGKSTlln~iaG~l   56 (263)
T COG1101          35 VTVIGSNGAGKSTLLNAIAGDL   56 (263)
T ss_pred             EEEEcCCCccHHHHHHHhhCcc
Confidence            7899999999999999998663

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=95.08  E-value=0.022  Score=45.22  Aligned_cols=22  Identities=27%  Similarity=0.440  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~   49 (178)
T cd03229          28 IVALLGPSGSGKSTLLRCIAGL   49 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999854

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=95.08  E-value=0.068  Score=41.44  Aligned_cols=88  Identities=19%  Similarity=0.371  Sum_probs=45.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC--CeEEEEEEeeCCCccccchh-hhhcccCCcEEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID--GKKVKLQIWDTAGQERFRTI-TQSYYRSANGVII   99 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~--~~~~~l~i~D~~G~~~~~~~-~~~~~~~ad~vIl   99 (231)
                      =|++-||=|+|||||.+-++..--.......+  +|.....+..  ..-+.+.+|=....++...+ ...|+.. +++++
T Consensus        27 Vv~L~GdLGAGKTtf~rgi~~~Lg~~~~V~SP--TFtlv~~Y~~~~~~lyH~DlYRl~d~ee~~~lg~~e~~~~-~gv~l  103 (149)
T COG0802          27 VVLLSGDLGAGKTTLVRGIAKGLGVDGNVKSP--TFTLVEEYEEGRLPLYHFDLYRLSDPEELDELGLDEYFDG-DGICL  103 (149)
T ss_pred             EEEEEcCCcCChHHHHHHHHHHcCCCCcccCC--CeeeehhhcCCCCcEEEEeeeccCChHHhHhcCHHHHhCC-CcEEE
Confidence            47888999999999999998653322222111  1332222211  22344555555544433322 2223332 55555


Q ss_pred             EEecCcHhhHHHHHHHHHHhcCCc
Q psy5781         100 EVTSVEYCYQRNWHKQAVTLFDKY  123 (231)
Q Consensus       100 V~ditSf~~l~~w~~~i~~~~~~~  123 (231)
                      |          +|=+.+....+..
T Consensus       104 I----------EW~e~~~~~lp~~  117 (149)
T COG0802         104 I----------EWPERLAELLPDA  117 (149)
T ss_pred             E----------ECcchhccCCCCc
Confidence            4          6766666655533

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.07  E-value=0.042  Score=46.91  Aligned_cols=22  Identities=27%  Similarity=0.601  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|.+|+|||||++.+.+-
T Consensus        32 ~~~i~G~NGsGKSTLl~~l~Gl   53 (277)
T PRK13652         32 RIAVIGPNGAGKSTLFRHFNGI   53 (277)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999999864

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=95.07  E-value=0.021  Score=46.82  Aligned_cols=22  Identities=18%  Similarity=0.252  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        15 ~~~l~G~NGsGKSTLlk~i~Gl   36 (213)
T PRK15177         15 HIGILAAPGSGKTTLTRLLCGL   36 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998864

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=95.06  E-value=0.022  Score=47.26  Aligned_cols=22  Identities=23%  Similarity=0.519  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        37 ~~~l~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         37 MMAIVGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5799999999999999999864

>TIGR01351 adk adenylate kinases

Probab=95.06  E-value=0.018  Score=47.08  Aligned_cols=21  Identities=33%  Similarity=0.569  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ||+|+|.+|+||||+..++..
T Consensus         1 rI~i~G~pGsGKsT~a~~La~   21 (210)
T TIGR01351         1 RLVLLGPPGSGKGTQAKRIAE   21 (210)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999874

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.06  E-value=0.023  Score=44.53  Aligned_cols=22  Identities=23%  Similarity=0.419  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~   49 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGL   49 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6789999999999999988865

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.03  E-value=0.023  Score=45.99  Aligned_cols=22  Identities=27%  Similarity=0.332  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        29 ~~~l~G~nGsGKSTLl~~i~G~   50 (200)
T PRK13540         29 LLHLKGSNGAGKTTLLKLIAGL   50 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6899999999999999988764

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=95.02  E-value=0.023  Score=46.31  Aligned_cols=22  Identities=36%  Similarity=0.483  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03301          28 FVVLLGPSGCGKTTTLRMIAGL   49 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988865

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=95.02  E-value=0.023  Score=46.57  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl   51 (220)
T cd03263          30 IFGLLGHNGAGKTTTLKMLTGE   51 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999999864

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=95.02  E-value=0.022  Score=47.26  Aligned_cols=22  Identities=32%  Similarity=0.486  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl   50 (241)
T cd03256          29 FVALIGPSGAGKSTLLRCLNGL   50 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999864

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=95.02  E-value=0.022  Score=48.05  Aligned_cols=22  Identities=27%  Similarity=0.460  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl   50 (255)
T PRK11248         29 LLVVLGPSGCGKTTLLNLIAGF   50 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999864

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.01  E-value=0.027  Score=44.54  Aligned_cols=27  Identities=19%  Similarity=0.235  Sum_probs=22.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .....-|++.|.+|+||||+.+.+...
T Consensus         4 ~~~~~~I~i~G~~GsGKst~a~~l~~~   30 (176)
T PRK05541          4 KPNGYVIWITGLAGSGKTTIAKALYER   30 (176)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            344568999999999999999888643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	231
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		3e-35
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		8e-31
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		2e-28
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		2e-28
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		7e-28
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		8e-28
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		1e-27
4fmc_B	171	Espg-Rab1 Complex Length = 171		1e-27
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		1e-27
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		1e-27
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		4e-27
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		6e-27
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		1e-26
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		1e-26
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		1e-26
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		6e-26
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		7e-26
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		1e-25
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		1e-25
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		3e-25
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		3e-25
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		1e-24
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		1e-24
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		1e-24
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		2e-24
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		2e-24
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		3e-24
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		4e-24
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		4e-24
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		4e-24
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		4e-24
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		7e-24
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		9e-24
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		1e-23
4fmc_F	117	Espg-Rab1 Complex Length = 117		1e-23
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		1e-23
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		1e-23
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		4e-23
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		6e-23
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		7e-23
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		1e-22
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		4e-22
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		1e-21
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		2e-21
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		2e-21
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		2e-21
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		2e-21
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		6e-21
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		6e-21
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		7e-21
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		7e-20
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		1e-19
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		1e-19
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		8e-19
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		1e-18
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		1e-16
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		1e-16
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		1e-16
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-16
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		2e-16
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		2e-16
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		2e-16
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		2e-16
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		2e-16
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		2e-16
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		2e-16
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-16
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		3e-16
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		3e-16
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		3e-16
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		3e-16
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		4e-16
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		4e-16
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		4e-16
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		5e-16
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		7e-16
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		9e-16
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		1e-15
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		1e-15
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		1e-15
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		1e-15
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		2e-15
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		2e-15
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		2e-15
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		3e-15
1vg1_A	185	Gdp-bound Rab7 Length = 185		3e-15
2efc_B	181	Ara7-GdpATVPS9A Length = 181		1e-14
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		2e-14
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		2e-14
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		2e-14
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		5e-14
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		6e-14
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		6e-14
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		6e-14
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		6e-14
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		2e-13
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		2e-13
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		3e-13
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		3e-13
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		3e-13
1byu_A	216	Canine Gdp-Ran Length = 216		3e-13
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		4e-13
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		4e-13
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		5e-13
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		5e-13
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		6e-13
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		1e-12
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		1e-12
2bku_A	177	Kap95p:rangtp Complex Length = 177		2e-12
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		2e-12
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		2e-12
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		2e-12
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		4e-12
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		7e-12
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		8e-12
3icq_B	171	Karyopherin Nuclear State Length = 171		8e-12
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		9e-12
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		3e-10
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		2e-09
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		2e-09
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		3e-09
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		3e-09
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		1e-08
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		1e-08
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		2e-08
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		2e-08
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		2e-08
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		3e-08
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		3e-08
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		4e-08
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		7e-08
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		7e-08
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		1e-07
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		2e-07
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		2e-07
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		2e-07
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		3e-07
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		3e-07
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		5e-07
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		5e-07
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		5e-07
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		5e-07
1s1c_A	183	Crystal Structure Of The Complex Between The Human		5e-07
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		5e-07
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		7e-07
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		7e-07
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		7e-07
1ksg_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 1 Lengt		8e-07
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		8e-07
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		9e-07
1ksh_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Nati		1e-06
3doe_A	192	Complex Of Arl2 And Bart, Crystal Form 1 Length = 1		1e-06
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		2e-06
1mh1_A	186	Small G-Protein Length = 186		2e-06
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		2e-06
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		2e-06
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		2e-06
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		2e-06
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		2e-06
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		2e-06
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		2e-06
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		2e-06
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		2e-06
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		2e-06
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-06
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		2e-06
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		2e-06
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-06
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		2e-06
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		2e-06
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		2e-06
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		2e-06
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		2e-06
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		2e-06
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		2e-06
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		2e-06
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		2e-06
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		2e-06
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		3e-06
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		3e-06
4gok_B	169	The Crystal Structure Of Arl2gppnhp In Complex With		3e-06
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		3e-06
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		3e-06
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		4e-06
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		4e-06
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		4e-06
1r4a_A	165	Crystal Structure Of Gtp-Bound Adp-Ribosylation Fac		4e-06
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		5e-06
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		5e-06
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		5e-06
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		6e-06
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		7e-06
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		7e-06
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		8e-06
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		8e-06
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		9e-06
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		9e-06
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		9e-06
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		1e-05
3o47_A	329	Crystal Structure Of Arfgap1-Arf1 Fusion Protein Le		1e-05
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		1e-05
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		1e-05
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		1e-05
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		1e-05
3aq4_A	184	Molecular Insights Into Plant Cell Proliferation Di		1e-05
1re0_A	164	Structure Of Arf1-Gdp Bound To Sec7 Domain Complexe		2e-05
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		2e-05
1ksj_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Seme		2e-05
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		2e-05
1rrg_A	181	Non-Myristoylated Rat Adp-Ribosylation Factor-1 Com		2e-05
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		2e-05
1hur_A	180	Human Adp-Ribosylation Factor 1 Complexed With Gdp,		2e-05
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		2e-05
2ksq_A	181	The Myristoylated Yeast Arf1 In A Gtp And Bicelle B		2e-05
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		2e-05
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		3e-05
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		3e-05
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		3e-05
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		3e-05
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		4e-05
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		4e-05
2b6h_A	192	Structure Of Human Adp-Ribosylation Factor 5 Length		4e-05
4dcn_A	166	Crystal Structure Analysis Of The Arfaptin2 Bar Dom		5e-05
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		5e-05
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		5e-05
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		5e-05
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		6e-05
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		6e-05
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		6e-05
1upt_A	171	Structure Of A Complex Of The Golgin-245 Grip Domai		9e-05
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		1e-04
1j2j_A	166	Crystal Structure Of Gga1 Gat N-terminal Region In		1e-04
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		1e-04
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		1e-04
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		2e-04
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		2e-04
1zj6_A	187	Crystal Structure Of Human Arl5 Length = 187		2e-04
1z6y_A	179	Structure Of Human Adp-Ribosylation Factor-Like 5 L		2e-04
2h16_A	183	Structure Of Human Adp-Ribosylation Factor-Like 5 (		2e-04
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		2e-04
1yzg_A	179	Structure Of Human Adp-ribosylation Factor-like 8 L		2e-04
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		2e-04
2h17_A	181	Structure Of Human Adp-Ribosylation Factor-Like 5 (		2e-04
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		3e-04
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		3e-04
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		3e-04
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		3e-04
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		3e-04
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		3e-04
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		3e-04
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		3e-04
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		3e-04
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		3e-04
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		3e-04
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		3e-04
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		3e-04
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		3e-04
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		3e-04
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		3e-04
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		4e-04
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		4e-04
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		8e-04

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  144 bits (364), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 64/85 (75%), Positives = 75/85 (88%)
Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
           D+ YDFLFK+VL+GD  VGKTCVV RF++G F E+ G+TIGVDF+MKT+ I GK+VKLQI
Sbjct: 23  DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQI 82
Query: 75  WDTAGQERFRTITQSYYRSANGVII 99
           WDTAGQERFRTITQSYYRSANG I+
Sbjct: 83  WDTAGQERFRTITQSYYRSANGAIL 107

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  130 bits (326), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 60/84 (71%), Positives = 70/84 (83%)
Query: 16  DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
           + YDFLFK+VLIG+ GVGKTC+V RF  G F    G TIGVDF +KTV I+G+KVKLQIW
Sbjct: 21  EDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIW 80
Query: 76  DTAGQERFRTITQSYYRSANGVII 99
           DTAGQERFR+ITQSYYRSAN +I+
Sbjct: 81  DTAGQERFRSITQSYYRSANALIL 104

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score =  122 bits (306), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 58/110 (52%), Positives = 79/110 (71%), Gaps = 7/110 (6%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
            YD+LFK++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK +KLQIWD
Sbjct: 5   EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD 64
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVTLFDKY 123
           TAGQERFRTIT SYYR A+G+I+  +VT  E Y   + W ++     D+Y
Sbjct: 65  TAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQE----IDRY 110

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score =  122 bits (306), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 58/110 (52%), Positives = 79/110 (71%), Gaps = 7/110 (6%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
            YD+LFK++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK +KLQIWD
Sbjct: 5   EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD 64
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVTLFDKY 123
           TAGQERFRTIT SYYR A+G+I+  +VT  E Y   + W ++     D+Y
Sbjct: 65  TAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQE----IDRY 110

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  120 bits (301), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 60/117 (51%), Positives = 81/117 (69%), Gaps = 5/117 (4%)
Query: 9   HPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK 68
            P +  +  YD+LFK++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK
Sbjct: 21  RPXSSXNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGK 80
Query: 69  KVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSVEYCYQRNWHKQAVTLFDKY 123
            +KLQIWDTAGQERFRTIT SYYR A+G+I+  +VT  E     N  KQ +   D+Y
Sbjct: 81  TIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE---SFNNVKQWLQEIDRY 134

>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 =  120 bits (300), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 59/108 (54%), Positives = 78/108 (72%), Gaps = 5/108 (4%)
Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           YD+LFK++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK +KLQIWDT
Sbjct: 13  YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 72
Query: 78  AGQERFRTITQSYYRSANGVII--EVTSVEYCYQRNWHKQAVTLFDKY 123
           AGQERFRTIT SYYR A+G+I+  +VT  E     N  KQ +   D+Y
Sbjct: 73  AGQERFRTITSSYYRGAHGIIVVYDVTDQE---SFNNVKQWLQEIDRY 117

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  119 bits (299), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 59/109 (54%), Positives = 78/109 (71%), Gaps = 5/109 (4%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
            YD+LFK++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK +KLQIWD
Sbjct: 4   EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD 63
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVEYCYQRNWHKQAVTLFDKY 123
           TAGQERFRTIT SYYR A+G+I+  +VT  E     N  KQ +   D+Y
Sbjct: 64  TAGQERFRTITSSYYRGAHGIIVVYDVTDQE---SFNNVKQWLQEIDRY 109

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  119 bits (299), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 59/109 (54%), Positives = 78/109 (71%), Gaps = 5/109 (4%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
            YD+LFK++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK +KLQIWD
Sbjct: 2   EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD 61
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVEYCYQRNWHKQAVTLFDKY 123
           TAGQERFRTIT SYYR A+G+I+  +VT  E     N  KQ +   D+Y
Sbjct: 62  TAGQERFRTITSSYYRGAHGIIVVYDVTDQE---SFNNVKQWLQEIDRY 107

>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 =  119 bits (299), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 59/108 (54%), Positives = 77/108 (71%), Gaps = 5/108 (4%)
Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           YD+LFK++LIGD GVGK C++ RF    + E   +TIGVDF ++T+ +DGK +KLQIWDT
Sbjct: 13  YDYLFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 72
Query: 78  AGQERFRTITQSYYRSANGVII--EVTSVEYCYQRNWHKQAVTLFDKY 123
           AGQERFRTIT SYYR A+G+I+  +VT  E     N  KQ +   D+Y
Sbjct: 73  AGQERFRTITSSYYRGAHGIIVVYDVTDQE---SFNNVKQWLQEIDRY 117

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  119 bits (299), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 59/109 (54%), Positives = 78/109 (71%), Gaps = 5/109 (4%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
            YD+LFK++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK +KLQIWD
Sbjct: 21  EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD 80
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVEYCYQRNWHKQAVTLFDKY 123
           TAGQERFRTIT SYYR A+G+I+  +VT  E     N  KQ +   D+Y
Sbjct: 81  TAGQERFRTITSSYYRGAHGIIVVYDVTDQE---SFNNVKQWLQEIDRY 126

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  117 bits (294), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 59/109 (54%), Positives = 77/109 (70%), Gaps = 5/109 (4%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
            YD LFK++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK +KLQIWD
Sbjct: 2   EYDALFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD 61
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVEYCYQRNWHKQAVTLFDKY 123
           TAGQERFRTIT SYYR A+G+I+  +VT  E     N  KQ +   D+Y
Sbjct: 62  TAGQERFRTITSSYYRGAHGIIVVYDVTDQE---SFNNVKQWLQEIDRY 107

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  117 bits (293), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 54/102 (52%), Positives = 77/102 (75%), Gaps = 3/102 (2%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
           +YD+LFK++LIGD GVGKTCV+ RF    F     +TIG+DF ++T+ +DGK++KLQIWD
Sbjct: 4   TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWD 63
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           TAGQERFRTIT +YYR A G+++  ++T+ + +   RNW + 
Sbjct: 64  TAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRN 105

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  116 bits (291), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/90 (61%), Positives = 70/90 (77%), Gaps = 2/90 (2%)
Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           YD+LFK++LIG+ GVGK+C++ RF    +     +TIGVDF +KTV +DGK VKLQIWDT
Sbjct: 5   YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDT 64
Query: 78  AGQERFRTITQSYYRSANGVII--EVTSVE 105
           AGQERFRTIT SYYR ++G+II  +VT  E
Sbjct: 65  AGQERFRTITSSYYRGSHGIIIVYDVTDQE 94

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  116 bits (290), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/90 (61%), Positives = 70/90 (77%), Gaps = 2/90 (2%)
Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           YD+LFK++LIG+ GVGK+C++ RF    +     +TIGVDF +KTV +DGK VKLQIWDT
Sbjct: 5   YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDT 64
Query: 78  AGQERFRTITQSYYRSANGVII--EVTSVE 105
           AGQERFRTIT SYYR ++G+II  +VT  E
Sbjct: 65  AGQERFRTITSSYYRGSHGIIIVYDVTDQE 94

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  116 bits (290), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/90 (61%), Positives = 70/90 (77%), Gaps = 2/90 (2%)
Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           YD+LFK++LIG+ GVGK+C++ RF    +     +TIGVDF +KTV +DGK VKLQIWDT
Sbjct: 18  YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDT 77
Query: 78  AGQERFRTITQSYYRSANGVII--EVTSVE 105
           AGQERFRTIT SYYR ++G+II  +VT  E
Sbjct: 78  AGQERFRTITSSYYRGSHGIIIVYDVTDQE 107

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  114 bits (284), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 50/83 (60%), Positives = 67/83 (80%)
Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
           YD+LFK++LIGD GVGK+C++ RF    + +   +TIGVDF ++T++++ K VKLQIWD
Sbjct: 5  EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWD 64
Query: 77 TAGQERFRTITQSYYRSANGVII 99
          TAGQERFRTIT SYYR A+G+II
Sbjct: 65 TAGQERFRTITSSYYRGAHGIII 87

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  113 bits (283), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 53/97 (54%), Positives = 74/97 (76%), Gaps = 3/97 (3%)
Query: 19  DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
           D+LFK++LIGD GVGKTCV+ RF    F     +TIG+DF ++T+ +DGK++KLQIWDTA
Sbjct: 4   DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTA 63
Query: 79  GQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNW 112
           GQERFRTIT +YYR A G+++  ++T+ + +   RNW
Sbjct: 64  GQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNW 100

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  112 bits (281), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 54/107 (50%), Positives = 76/107 (71%), Gaps = 3/107 (2%)
Query: 16  DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
           ++YDFLFK ++IG+ G GK+C++H+F    F + + +TIGV+F  K +N+ GK VKLQIW
Sbjct: 6   ETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW 65
Query: 76  DTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVTL 119
           DTAGQERFR++T+SYYR A G ++  ++TS E Y    NW   A  L
Sbjct: 66  DTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARML 112

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  112 bits (281), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 54/107 (50%), Positives = 76/107 (71%), Gaps = 3/107 (2%)
Query: 16  DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
           ++YDFLFK ++IG+ G GK+C++H+F    F + + +TIGV+F  K +N+ GK VKLQIW
Sbjct: 5   ETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW 64
Query: 76  DTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVTL 119
           DTAGQERFR++T+SYYR A G ++  ++TS E Y    NW   A  L
Sbjct: 65  DTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARML 111

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  111 bits (278), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 47/86 (54%), Positives = 67/86 (77%)
Query: 14  QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
           +DD YD+LFKVVLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ +++ +DGK +K Q
Sbjct: 22  RDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQ 81
Query: 74  IWDTAGQERFRTITQSYYRSANGVII 99
           IWDTAGQER+R IT +YYR A G ++
Sbjct: 82  IWDTAGQERYRAITSAYYRGAVGALL 107

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  111 bits (278), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 51/83 (61%), Positives = 65/83 (78%)
Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
          SYD + K++LIGD GVGK+C++ RF    F      TIG+DF +KTV+I+GKKVKLQ+WD
Sbjct: 16 SYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWD 75
Query: 77 TAGQERFRTITQSYYRSANGVII 99
          TAGQERFRTIT +YYR A G+I+
Sbjct: 76 TAGQERFRTITTAYYRGAMGIIL 98

>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 =  109 bits (273), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 53/107 (49%), Positives = 75/107 (70%), Gaps = 3/107 (2%)
Query: 16  DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
           ++YDFLFK ++IG+ G GK+C++H+F    F + + +TIGV+F  K +N+ GK VKLQIW
Sbjct: 3   ETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW 62
Query: 76  DTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVTL 119
           DTAG ERFR++T+SYYR A G ++  ++TS E Y    NW   A  L
Sbjct: 63  DTAGLERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARML 109

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  109 bits (272), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 54/91 (59%), Positives = 68/91 (74%), Gaps = 2/91 (2%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
            YD LFK+++IGD GVGK+ ++ RF    F      TIGVDF ++TV I+G+KVKLQIWD
Sbjct: 5   DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWD 64
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVE 105
           TAGQERFRTIT +YYR  +GVI+  +VTS E
Sbjct: 65  TAGQERFRTITSTYYRGTHGVIVVYDVTSAE 95

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  109 bits (272), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 55/103 (53%), Positives = 73/103 (70%), Gaps = 5/103 (4%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK +KLQIWDTAGQER
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 60
Query: 83  FRTITQSYYRSANGVII--EVTSVEYCYQRNWHKQAVTLFDKY 123
           FRTIT SYYR A+G+I+  +VT  E     N  KQ +   D+Y
Sbjct: 61  FRTITSSYYRGAHGIIVVYDVTDQE---SFNNVKQWLQEIDRY 100

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  108 bits (271), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 46/86 (53%), Positives = 66/86 (76%)
Query: 14  QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
           +DD YD+LFKVVLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ +++ +DGK +K Q
Sbjct: 22  RDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQ 81
Query: 74  IWDTAGQERFRTITQSYYRSANGVII 99
           IWDTAG ER+R IT +YYR A G ++
Sbjct: 82  IWDTAGLERYRAITSAYYRGAVGALL 107

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  108 bits (271), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 46/86 (53%), Positives = 66/86 (76%)
Query: 14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
          +DD YD+LFKVVLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ +++ +DGK +K Q
Sbjct: 4  RDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQ 63
Query: 74 IWDTAGQERFRTITQSYYRSANGVII 99
          IWDTAG ER+R IT +YYR A G ++
Sbjct: 64 IWDTAGLERYRAITSAYYRGAVGALL 89

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  108 bits (269), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 50/81 (61%), Positives = 63/81 (77%)
Query: 19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
          D + K++LIGD GVGK+C++ RF    F      TIG+DF +KTV+I+GKKVKLQIWDTA
Sbjct: 1  DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60
Query: 79 GQERFRTITQSYYRSANGVII 99
          GQERFRTIT +YYR A G+I+
Sbjct: 61 GQERFRTITTAYYRGAMGIIL 81

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  108 bits (269), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 46/83 (55%), Positives = 65/83 (78%)
Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
          SYD+LFKVVLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ +++ +DGK +K QIWD
Sbjct: 16 SYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWD 75
Query: 77 TAGQERFRTITQSYYRSANGVII 99
          TAGQER+R IT +YYR A G ++
Sbjct: 76 TAGQERYRAITSAYYRGAVGALL 98

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  108 bits (269), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 53/104 (50%), Positives = 72/104 (69%), Gaps = 3/104 (2%)
Query: 19  DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
           DFLFK ++IG  G GK+C++H+F    F + + +TIGV+F  + VN+ GK VKLQIWDTA
Sbjct: 23  DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTA 82
Query: 79  GQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVTL 119
           GQERFR++T+SYYR A G ++  ++TS E Y     W   A TL
Sbjct: 83  GQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTL 126

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  107 bits (268), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 50/81 (61%), Positives = 63/81 (77%)
Query: 19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
          D + K++LIGD GVGK+C++ RF    F      TIG+DF +KTV+I+GKKVKLQIWDTA
Sbjct: 1  DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60
Query: 79 GQERFRTITQSYYRSANGVII 99
          GQERFRTIT +YYR A G+I+
Sbjct: 61 GQERFRTITTAYYRGAXGIIL 81

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  107 bits (268), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 46/82 (56%), Positives = 63/82 (76%)
Query: 18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
          YD LFK+VLIGD GVGK+ ++ RF   +F   + +TIGV+F+ +T+ I+GK++K QIWDT
Sbjct: 10 YDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDT 69
Query: 78 AGQERFRTITQSYYRSANGVII 99
          AGQER+R IT +YYR A G +I
Sbjct: 70 AGQERYRAITSAYYRGAVGALI 91

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  107 bits (266), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 47/85 (55%), Positives = 67/85 (78%), Gaps = 1/85 (1%)
Query: 16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKT-GNTIGVDFSMKTVNIDGKKVKLQI 74
          D YD  FKV+L+GD GVGKTC++ RF+ G F+  T  +T+G+DF  K +++DG KVKLQ+
Sbjct: 5  DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQM 64
Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFR++T +YYR A+ +++
Sbjct: 65 WDTAGQERFRSVTHAYYRDAHALLL 89

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  106 bits (265), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 49/81 (60%), Positives = 63/81 (77%)
Query: 19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
          D + K++LIGD GVGK+C++ RF    F      TIG+DF +KTV+I+GKKVKLQ+WDTA
Sbjct: 1  DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTA 60
Query: 79 GQERFRTITQSYYRSANGVII 99
          GQERFRTIT +YYR A G+I+
Sbjct: 61 GQERFRTITTAYYRGAXGIIL 81

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  106 bits (264), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 45/82 (54%), Positives = 64/82 (78%)
Query: 18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
          YD+LFKVVLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ +++ +DGK +K QIWDT
Sbjct: 2  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61
Query: 78 AGQERFRTITQSYYRSANGVII 99
          AGQER+R IT +YYR A G ++
Sbjct: 62 AGQERYRRITSAYYRGAVGALL 83

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score =  106 bits (264), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 54/102 (52%), Positives = 72/102 (70%), Gaps = 5/102 (4%)
Query: 24  VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF 83
           ++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK +KLQIWDTAGQERF
Sbjct: 1   LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERF 60
Query: 84  RTITQSYYRSANGVII--EVTSVEYCYQRNWHKQAVTLFDKY 123
           RTIT SYYR A+G+I+  +VT  E     N  KQ +   D+Y
Sbjct: 61  RTITSSYYRGAHGIIVVYDVTDQE---SFNNVKQWLQEIDRY 99

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  105 bits (263), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 48/79 (60%), Positives = 62/79 (78%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          + K++LIGD GVGK+C++ RF    F      TIG+DF +KTV+I+GKKVKLQ+WDTAGQ
Sbjct: 7  IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQ 66
Query: 81 ERFRTITQSYYRSANGVII 99
          ERFRTIT +YYR A G+I+
Sbjct: 67 ERFRTITTAYYRGAMGIIL 85

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  105 bits (263), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 45/84 (53%), Positives = 64/84 (76%)
Query: 16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
          D YD+LFKVVLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ +++ +DGK +K QIW
Sbjct: 3  DEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW 62
Query: 76 DTAGQERFRTITQSYYRSANGVII 99
          DTAG ER+R IT +YYR A G ++
Sbjct: 63 DTAGLERYRAITSAYYRGAVGALL 86

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  104 bits (259), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 42/83 (50%), Positives = 63/83 (75%)
Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
          +Y ++FK ++IGD GVGK+C++H+F    F+    +TIGV+F  + + + G+K+KLQIWD
Sbjct: 11 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWD 70
Query: 77 TAGQERFRTITQSYYRSANGVII 99
          TAGQERFR +T+SYYR A G ++
Sbjct: 71 TAGQERFRAVTRSYYRGAAGALM 93

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  103 bits (258), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 44/82 (53%), Positives = 64/82 (78%)
Query: 18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
          YD+LFK+VLIGD GVGK+ ++ RF + +F  ++ +TIGV+F+ +T+ ++ KK+K QIWDT
Sbjct: 7  YDYLFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDT 66
Query: 78 AGQERFRTITQSYYRSANGVII 99
          AG ER+R IT +YYR A G +I
Sbjct: 67 AGLERYRAITSAYYRGAVGALI 88

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  103 bits (258), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 44/82 (53%), Positives = 63/82 (76%)
Query: 18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
          YD+LFKVVLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ +++ +DGK +K QIWDT
Sbjct: 2  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61
Query: 78 AGQERFRTITQSYYRSANGVII 99
          AG ER+R IT +YYR A G ++
Sbjct: 62 AGLERYRAITSAYYRGAVGALL 83

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  102 bits (255), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 46/81 (56%), Positives = 61/81 (75%)
Query: 19  DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
           DF  +V++IG  GVGKT ++ RF    F E   +T+GVDF +KTV + GKK++LQIWDTA
Sbjct: 24  DFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTA 83
Query: 79  GQERFRTITQSYYRSANGVII 99
           GQERF +IT +YYRSA G+I+
Sbjct: 84  GQERFNSITSAYYRSAKGIIL 104

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  101 bits (251), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 41/83 (49%), Positives = 62/83 (74%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
           +Y ++FK ++IGD GVGK+C++H+F    F+    +TIGV+F  + + + G+K+KLQIWD
Sbjct: 26  NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWD 85
Query: 77  TAGQERFRTITQSYYRSANGVII 99
           TAGQ RFR +T+SYYR A G ++
Sbjct: 86  TAGQGRFRAVTRSYYRGAAGALM 108

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 42/79 (53%), Positives = 63/79 (79%), Gaps = 1/79 (1%)
Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           +FK+++IGD  VGKTC+ +RF +G F ++T  TIGVDF  + V+IDG+++K+Q+WDTAGQ
Sbjct: 29  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 88
Query: 81  ERFR-TITQSYYRSANGVI 98
           ERFR ++ Q YYR+ + V+
Sbjct: 89  ERFRKSMVQHYYRNVHAVV 107

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 99.4 bits (246), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 42/79 (53%), Positives = 63/79 (79%), Gaps = 1/79 (1%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          +FK+++IGD  VGKTC+ +RF +G F ++T  TIGVDF  + V+IDG+++K+Q+WDTAGQ
Sbjct: 20 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 79
Query: 81 ERFR-TITQSYYRSANGVI 98
          ERFR ++ Q YYR+ + V+
Sbjct: 80 ERFRKSMVQHYYRNVHAVV 98

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 99.4 bits (246), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 45/80 (56%), Positives = 60/80 (75%)
Query: 20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG 79
          +LFK ++IGD GVGK+C++ +F    F      TIGV+F  + VNIDGK++KLQIWDTAG
Sbjct: 20 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 79
Query: 80 QERFRTITQSYYRSANGVII 99
          QE FR+IT+SYYR A G ++
Sbjct: 80 QESFRSITRSYYRGAAGALL 99

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 99.4 bits (246), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 44/83 (53%), Positives = 61/83 (73%)
Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
          +Y +LFK ++IGD GVGK+C++ +F    F      TIGV+F  + + IDGK++KLQIWD
Sbjct: 6  AYAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWD 65
Query: 77 TAGQERFRTITQSYYRSANGVII 99
          TAGQE FR+IT+SYYR A G ++
Sbjct: 66 TAGQESFRSITRSYYRGAAGALL 88

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 44/85 (51%), Positives = 63/85 (74%), Gaps = 1/85 (1%)
Query: 16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK-VKLQI 74
          D YD+LFK+VLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ K++ +   K +K QI
Sbjct: 2  DYYDYLFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQI 61
Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQER+R IT +YYR A G ++
Sbjct: 62 WDTAGQERYRAITSAYYRGAVGALL 86

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 97.4 bits (241), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 54/123 (43%), Positives = 76/123 (61%), Gaps = 11/123 (8%)
Query: 16  DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
           + Y+F+FKVVLIG+ GVGKT ++ RF   +F   +  TIGV+FS +TV +    VK QIW
Sbjct: 5   EDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIW 64
Query: 76  DTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVTLFDKYKFGHAFSTS 132
           DTAG ER+R IT +YYR A G ++  ++T  + Y     W K+   L+D     HA +T 
Sbjct: 65  DTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKE---LYD-----HAEATI 116
Query: 133 LAM 135
           + M
Sbjct: 117 VVM 119

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 97.4 bits (241), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 44/78 (56%), Positives = 58/78 (74%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K+++IG+ GVGK+ ++ RF    F  +   TIGVDF +KT+++DG K KL IWDTAGQE
Sbjct: 16 LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 75
Query: 82 RFRTITQSYYRSANGVII 99
          RFRT+T SYYR A GVI+
Sbjct: 76 RFRTLTPSYYRGAQGVIL 93

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 97.1 bits (240), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 54/123 (43%), Positives = 76/123 (61%), Gaps = 11/123 (8%)
Query: 16  DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
           + Y+F+FKVVLIG+ GVGKT ++ RF   +F   +  TIGV+FS +TV +    VK QIW
Sbjct: 20  EDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIW 79
Query: 76  DTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVTLFDKYKFGHAFSTS 132
           DTAG ER+R IT +YYR A G ++  ++T  + Y     W K+   L+D     HA +T 
Sbjct: 80  DTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKE---LYD-----HAEATI 131
Query: 133 LAM 135
           + M
Sbjct: 132 VVM 134

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 94.0 bits (232), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 45/105 (42%), Positives = 72/105 (68%), Gaps = 3/105 (2%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
           ++D++FK+++IG+  VGKT  + R+    F     +T+G+DF +KT+  + K++KLQIWD
Sbjct: 1   NFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWD 60
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVT 118
           TAGQER+RTIT +YYR A G I+  ++T+ E +   ++W  Q  T
Sbjct: 61  TAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKT 105

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 93.2 bits (230), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 40/78 (51%), Positives = 57/78 (73%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +K+VL GD  VGK+  + R    +F E    T+GVDF MKT+ +DG++  LQ+WDTAGQE
Sbjct: 29  YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQE 88
Query: 82  RFRTITQSYYRSANGVII 99
           RFR+I +SY+R A+GV++
Sbjct: 89  RFRSIAKSYFRKADGVLL 106

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 93.2 bits (230), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 48/113 (42%), Positives = 73/113 (64%), Gaps = 3/113 (2%)
Query: 9   HPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK 68
             N +   ++D++FK+++IG+  VGKT  + R+    F     +T+G+DF +KTV    K
Sbjct: 11  RENLYFQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEK 70
Query: 69  KVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVT 118
           +VKLQIWDTAGQER+RTIT +YYR A G I+  ++T+ E +   ++W  Q  T
Sbjct: 71  RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKT 123

>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 = 90.1 bits (222), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 44/104 (42%), Positives = 69/104 (66%), Gaps = 3/104 (2%)
Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           +D+ FK+++IG+  VGKT  + R+    F     +T+G+DF +KT+  + K++KLQIWDT
Sbjct: 5   FDYXFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDT 64
Query: 78  AGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVT 118
           AG ER+RTIT +YYR A G I+  ++T+ E +   ++W  Q  T
Sbjct: 65  AGLERYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKT 108

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 90.1 bits (222), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 41/81 (50%), Positives = 58/81 (71%)
Query: 19  DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
           D++FK++LIG+  VGKT  + R+    F     +T+G+DF +KTV    K++KLQIWDTA
Sbjct: 20  DYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTA 79
Query: 79  GQERFRTITQSYYRSANGVII 99
           GQER+RTIT +YYR A G ++
Sbjct: 80  GQERYRTITTAYYRGAMGFLL 100

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 82.8 bits (203), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 41/97 (42%), Positives = 61/97 (62%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAGQE
Sbjct: 4   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 63
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ + +   +NW K+
Sbjct: 64  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKE 100

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 82.8 bits (203), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 47/114 (41%), Positives = 68/114 (59%), Gaps = 13/114 (11%)
Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-------- 66
           D  YD+L K++ +GD GVGKT  ++R+    F  K   T+G+DF  K V  D        
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 67  GK--KVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           GK  KV LQ+WDTAG ERFR++T +++R A G ++  ++TS + +   RNW  Q
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQ 118

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 82.8 bits (203), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/97 (43%), Positives = 61/97 (62%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ E +   +NW K+
Sbjct: 68  RYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKE 104

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 82.8 bits (203), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 47/114 (41%), Positives = 68/114 (59%), Gaps = 13/114 (11%)
Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-------- 66
           D  YD+L K++ +GD GVGKT  ++R+    F  K   T+G+DF  K V  D        
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 67  GK--KVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           GK  KV LQ+WDTAG ERFR++T +++R A G ++  ++TS + +   RNW  Q
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQ 118

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 82.8 bits (203), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 42/97 (43%), Positives = 61/97 (62%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ E +   +NW K+
Sbjct: 68  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKE 104

>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 = 82.8 bits (203), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 47/114 (41%), Positives = 68/114 (59%), Gaps = 13/114 (11%)
Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-------- 66
           D  YD+L K++ +GD GVGKT  ++R+    F  K   T+G+DF  K V  D        
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 67  GK--KVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           GK  KV LQ+WDTAG ERFR++T +++R A G ++  ++TS + +   RNW  Q
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQ 118

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 42/97 (43%), Positives = 61/97 (62%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ E +   +NW K+
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKE 103

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 44/112 (39%), Positives = 67/112 (59%), Gaps = 13/112 (11%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK-------- 68
            YD+L K++ +GD GVGKT  ++R+    F  K   T+G+DF  K V  + +        
Sbjct: 21  DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGK 80
Query: 69  --KVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
             KV LQ+WDTAGQERFR++T +++R A G ++  ++TS + +   RNW  Q
Sbjct: 81  AFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQ 132

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 41/104 (39%), Positives = 66/104 (63%), Gaps = 3/104 (2%)
Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           LFKV+L+GD GVGK+ +++R+ +  F  +  +TIGV+F  K + +DG  V +QIWDTAGQ
Sbjct: 9   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 68
Query: 81  ERFRTITQSYYRSANGVIIEVT---SVEYCYQRNWHKQAVTLFD 121
           ERFR++   +YR ++  ++  +   S  +    NW K+ +   D
Sbjct: 69  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYAD 112

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 40/104 (38%), Positives = 66/104 (63%), Gaps = 3/104 (2%)
Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           LFK++L+GD GVGK+ +++R+ +  F  +  +TIGV+F  K + +DG  V +QIWDTAGQ
Sbjct: 11  LFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 70
Query: 81  ERFRTITQSYYRSANGVIIEVT---SVEYCYQRNWHKQAVTLFD 121
           ERFR++   +YR ++  ++  +   S  +    NW K+ +   D
Sbjct: 71  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYAD 114

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 41/104 (39%), Positives = 66/104 (63%), Gaps = 3/104 (2%)
Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           LFKV+L+GD GVGK+ +++R+ +  F  +  +TIGV+F  K + +DG  V +QIWDTAGQ
Sbjct: 7   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 66
Query: 81  ERFRTITQSYYRSANGVIIEVT---SVEYCYQRNWHKQAVTLFD 121
           ERFR++   +YR ++  ++  +   S  +    NW K+ +   D
Sbjct: 67  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYAD 110

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 47/117 (40%), Positives = 69/117 (58%), Gaps = 13/117 (11%)
Query: 12  TFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID----- 66
           +  D  YD+L K++ +GD GVGKT  ++R+    F  K   T+G+DF  K V  D     
Sbjct: 2   SMTDGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGAD 61
Query: 67  ---GK--KVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
              GK  KV LQ+WDTAG ERFR++T +++R A G ++  ++TS + +   RNW  Q
Sbjct: 62  GASGKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQ 118

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 82.0 bits (201), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 35/76 (46%), Positives = 55/76 (72%), Gaps = 1/76 (1%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVK-LQIWDTAG 79
          + KV+++GD GVGKT ++HR+ +  + ++   TIG DF  K V +DG KV  +Q+WDTAG
Sbjct: 8  ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 67
Query: 80 QERFRTITQSYYRSAN 95
          QERF+++  ++YR A+
Sbjct: 68 QERFQSLGVAFYRGAD 83

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 82.0 bits (201), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 43/117 (36%), Positives = 69/117 (58%), Gaps = 13/117 (11%)
Query: 12  TFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI------ 65
           +  D  YD+L K + +GD GVGKT V++++  G F  K   T+G+DF  K V        
Sbjct: 2   SMSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPD 61
Query: 66  ----DGKKVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
                G+++ LQ+WDTAG ERFR++T +++R A G ++  ++T+ + +   RNW  Q
Sbjct: 62  GAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQ 118

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 42/97 (43%), Positives = 61/97 (62%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ E +   +NW K+
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKE 103

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 42/97 (43%), Positives = 61/97 (62%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ E +   +NW K+
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKE 103

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 81.6 bits (200), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 47/103 (45%), Positives = 64/103 (62%), Gaps = 5/103 (4%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
           S  + FKVVL+G+  VGKT +V R+    F +K   T+G  F  K +NI GK+V L IWD
Sbjct: 2   SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWD 61
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVEYCYQ--RNWHKQ 115
           TAGQERF  +   YYR +NG I+  ++T  E  +Q  +NW K+
Sbjct: 62  TAGQERFHALGPIYYRDSNGAILVYDITD-EDSFQKVKNWVKE 103

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 81.3 bits (199), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 42/97 (43%), Positives = 61/97 (62%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ E +   +NW K+
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKE 103

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 81.3 bits (199), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 42/97 (43%), Positives = 61/97 (62%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ E +   +NW K+
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKE 103

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 81.3 bits (199), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 42/97 (43%), Positives = 61/97 (62%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ E +   +NW K+
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKE 103

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 80.5 bits (197), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 35/76 (46%), Positives = 55/76 (72%)
Query: 20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG 79
           L KV+L+GD GVGK+ +++R+ +  F  +  +TIGV+F  + + +DG+ V LQIWDTAG
Sbjct: 6  LLLKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAG 65
Query: 80 QERFRTITQSYYRSAN 95
          QERF+++   +YR A+
Sbjct: 66 QERFKSLRTPFYRGAD 81

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 80.1 bits (196), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 40/97 (41%), Positives = 60/97 (61%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ + +   +NW K+
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKE 102

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 40/97 (41%), Positives = 60/97 (61%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  ++V +D   VK +IWDTAGQE
Sbjct: 9   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIWDTAGQE 68
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ E +   + W K+
Sbjct: 69  RYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKE 105

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 41/97 (42%), Positives = 60/97 (61%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ E +   +NW K+
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKE 102

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 40/97 (41%), Positives = 60/97 (61%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TI   F  +TV +D   VK +IWDTAGQE
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQE 65
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           R+ ++   YYR A   I+  ++T+ + +   +NW K+
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKE 102

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 42/97 (43%), Positives = 59/97 (60%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K+VL+G+  VGK+ +V RF S DF E    TIG  F  + V I+   VK +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63
Query: 82  RFRTITQSYYRSANG--VIIEVTSVE-YCYQRNWHKQ 115
           RF ++   YYR+A    V+ +VT  + +   R+W K+
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKE 100

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 34/79 (43%), Positives = 55/79 (69%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++GD GVGKT +++++ +  F  +   TIG DF  K V +D + V +QIWDTAGQ
Sbjct: 8  LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 81 ERFRTITQSYYRSANGVII 99
          ERF+++  ++YR A+  ++
Sbjct: 68 ERFQSLGVAFYRGADCCVL 86

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 34/79 (43%), Positives = 55/79 (69%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++GD GVGKT +++++ +  F  +   TIG DF  K V +D + V +QIWDTAGQ
Sbjct: 8  LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 81 ERFRTITQSYYRSANGVII 99
          ERF+++  ++YR A+  ++
Sbjct: 68 ERFQSLGVAFYRGADCCVL 86

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/103 (44%), Positives = 63/103 (61%), Gaps = 5/103 (4%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
           S  + FKVVL+G+  VGKT +V R+    F +K   T+   F  K +NI GK+V L IWD
Sbjct: 16  SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWD 75
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVEYCYQ--RNWHKQ 115
           TAGQERF  +   YYR +NG I+  ++T  E  +Q  +NW K+
Sbjct: 76  TAGQERFHALGPIYYRDSNGAILVYDITD-EDSFQKVKNWVKE 117

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 46/103 (44%), Positives = 63/103 (61%), Gaps = 5/103 (4%)
Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
           S  + FKVVL+G+  VGKT +V R+    F +K   T+   F  K +NI GK+V L IWD
Sbjct: 2   SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWD 61
Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVEYCYQ--RNWHKQ 115
           TAGQERF  +   YYR +NG I+  ++T  E  +Q  +NW K+
Sbjct: 62  TAGQERFHALGPIYYRDSNGAILVYDITD-EDSFQKVKNWVKE 103

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 34/79 (43%), Positives = 55/79 (69%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++GD GVGKT +++++ +  F  +   TIG DF  K V +D + V +QIWDTAGQ
Sbjct: 8  LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 81 ERFRTITQSYYRSANGVII 99
          ERF+++  ++YR A+  ++
Sbjct: 68 ERFQSLGVAFYRGADCCVL 86

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 76.6 bits (187), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 36/77 (46%), Positives = 49/77 (63%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+VL+GD G GK+ +V RF    FVE   +TIG  F  +T+ ++   VK +IWDTAGQER
Sbjct: 14 KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQER 73
Query: 83 FRTITQSYYRSANGVII 99
          + ++   YYR A   II
Sbjct: 74 YHSLAPMYYRGAAAAII 90

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 35/78 (44%), Positives = 51/78 (65%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V +G+  VGKT ++ RF    F     +TIG+DF  KT+ +D   V+LQ+WDTAGQE
Sbjct: 2  YKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQE 61
Query: 82 RFRTITQSYYRSANGVII 99
          RFR++  SY R +   I+
Sbjct: 62 RFRSLIPSYIRDSAAAIV 79

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 54/79 (68%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++GD GVGKT +++++ +  F  +   TIG DF  K V +D + V +QIWDTAG 
Sbjct: 8  LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGL 67
Query: 81 ERFRTITQSYYRSANGVII 99
          ERF+++  ++YR A+  ++
Sbjct: 68 ERFQSLGVAFYRGADCCVL 86

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/85 (44%), Positives = 58/85 (68%), Gaps = 2/85 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+V +G+  VGKT ++ RF    F      TIG+DF  KT+ ++ + ++LQ+WDTAGQE
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 66
Query: 82  RFRTITQSYYR-SANGVII-EVTSV 104
           RFR++  SY R SA  V++ ++T+V
Sbjct: 67  RFRSLIPSYIRDSAAAVVVYDITNV 91

>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 = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 36/85 (42%), Positives = 56/85 (65%), Gaps = 2/85 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+V +G+  VGKT ++ RF    F      TIG+DF  KT+ ++ + V+LQ+WDTAGQE
Sbjct: 2   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 61
Query: 82  RFRTITQSYYRSANGVII--EVTSV 104
           RFR++  SY R +   ++  ++T+V
Sbjct: 62  RFRSLIPSYIRDSTVAVVVYDITNV 86

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 74.3 bits (181), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 51/78 (65%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          FK+V +G+  VGKT ++ RF    F      TIG+DF  KT+ ++ + V+LQ+WDTAGQE
Sbjct: 3  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 62
Query: 82 RFRTITQSYYRSANGVII 99
          RFR++  SY R +   ++
Sbjct: 63 RFRSLIPSYIRDSTVAVV 80

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 74.3 bits (181), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 51/78 (65%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K+V++G+  VGK+ ++ R+  G F +    TIGVDF  + + ++ + V+L +WDTAGQE
Sbjct: 6  IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE 65
Query: 82 RFRTITQSYYRSANGVII 99
           F  IT++YYR A   ++
Sbjct: 66 EFDAITKAYYRGAQACVL 83

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 51/78 (65%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          FK+V +G+  VGKT ++ RF    F      TIG+DF  KT+ ++ + V+LQ+WDTAGQE
Sbjct: 15 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 74
Query: 82 RFRTITQSYYRSANGVII 99
          RFR++  SY R +   ++
Sbjct: 75 RFRSLIPSYIRDSTVAVV 92

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 41/97 (42%), Positives = 53/97 (54%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            KV L+GD GVGK+ +V RF    F      TIG  F  KTV    +  K  IWDTAGQE
Sbjct: 6   LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQE 65
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           RFR +   YYR +   II  ++T  E +   +NW ++
Sbjct: 66  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRE 102

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 61/202 (30%), Positives = 95/202 (47%), Gaps = 30/202 (14%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTLFDKYKF---GHAFSTSLAM 135
           +F  +   YY  A   II  +VTS V Y    NWH+  V + +       G+        
Sbjct: 71  KFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK 130
Query: 136 PQVRPCLFHK------FGHASSSAMPF--PQVW--------PCLKFGHAFSTSLAMPQV- 178
            + +  +FH+      +  ++ S   F  P +W        P L+F      +LA P+V 
Sbjct: 131 VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEF--VAXPALAPPEVV 188
Query: 179 -RPCLFHKFGH----ASSSAMP 195
             P L  ++ H    A ++A+P
Sbjct: 189 XDPALAAQYEHDLEVAQTTALP 210

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 61/202 (30%), Positives = 95/202 (47%), Gaps = 30/202 (14%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTLFDKYKF---GHAFSTSLAM 135
           +F  +   YY  A   II  +VTS V Y    NWH+  V + +       G+        
Sbjct: 71  KFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK 130
Query: 136 PQVRPCLFHK------FGHASSSAMPF--PQVW--------PCLKFGHAFSTSLAMPQV- 178
            + +  +FH+      +  ++ S   F  P +W        P L+F      +LA P+V 
Sbjct: 131 VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEF--VAMPALAPPEVV 188
Query: 179 -RPCLFHKFGH----ASSSAMP 195
             P L  ++ H    A ++A+P
Sbjct: 189 MDPALAAQYEHDLEVAQTTALP 210

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 72.0 bits (175), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 37/85 (43%), Positives = 57/85 (67%), Gaps = 2/85 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+V +G+  VGKT ++ RF    F      TIG+DF  KT+ ++ + ++LQ+WDTAG E
Sbjct: 14  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLE 73
Query: 82  RFRTITQSYYR-SANGVII-EVTSV 104
           RFR++  SY R SA  V++ ++T+V
Sbjct: 74  RFRSLIPSYIRDSAAAVVVYDITNV 98

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 72.0 bits (175), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 61/202 (30%), Positives = 95/202 (47%), Gaps = 30/202 (14%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTLFDKYKF---GHAFSTSLAM 135
           +F  +   YY  A   II  +VTS V Y    NWH+  V + +       G+        
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK 135
Query: 136 PQVRPCLFHK------FGHASSSAMPF--PQVW--------PCLKFGHAFSTSLAMPQV- 178
            + +  +FH+      +  ++ S   F  P +W        P L+F      +LA P+V 
Sbjct: 136 VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEF--VAMPALAPPEVV 193
Query: 179 -RPCLFHKFGH----ASSSAMP 195
             P L  ++ H    A ++A+P
Sbjct: 194 MDPALAAQYEHDLEVAQTTALP 215

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 72.0 bits (175), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 61/202 (30%), Positives = 95/202 (47%), Gaps = 30/202 (14%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTLFDKYKF---GHAFSTSLAM 135
           +F  +   YY  A   II  +VTS V Y    NWH+  V + +       G+        
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK 130
Query: 136 PQVRPCLFHK------FGHASSSAMPF--PQVW--------PCLKFGHAFSTSLAMPQV- 178
            + +  +FH+      +  ++ S   F  P +W        P L+F      +LA P+V 
Sbjct: 131 VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEF--VAMPALAPPEVV 188
Query: 179 -RPCLFHKFGH----ASSSAMP 195
             P L  ++ H    A ++A+P
Sbjct: 189 MDPALAAQYEHDLEVAQTTALP 210

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 61/202 (30%), Positives = 95/202 (47%), Gaps = 30/202 (14%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTLFDKYKF---GHAFSTSLAM 135
           +F  +   YY  A   II  +VTS V Y    NWH+  V + +       G+        
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK 130
Query: 136 PQVRPCLFHK------FGHASSSAMPF--PQVW--------PCLKFGHAFSTSLAMPQV- 178
            + +  +FH+      +  ++ S   F  P +W        P L+F      +LA P+V 
Sbjct: 131 VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEF--VAMPALAPPEVV 188
Query: 179 -RPCLFHKFGH----ASSSAMP 195
             P L  ++ H    A ++A+P
Sbjct: 189 MDPALAAQYEHDLEVAQTTALP 210

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 71.2 bits (173), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 35/85 (41%), Positives = 55/85 (64%), Gaps = 2/85 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+V +G+  VGKT ++ RF    F      TIG+DF  KT+ ++ + V+LQ+WDTAG E
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 66
Query: 82  RFRTITQSYYRSANGVII--EVTSV 104
           RFR++  SY R +   ++  ++T+V
Sbjct: 67  RFRSLIPSYIRDSTVAVVVYDITNV 91

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 71.2 bits (173), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 61/202 (30%), Positives = 95/202 (47%), Gaps = 30/202 (14%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTLFDKYKF---GHAFSTSLAM 135
           +F  +   YY  A   II  +VTS V Y    NWH+  V + +       G+        
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK 123
Query: 136 PQVRPCLFHK------FGHASSSAMPF--PQVW--------PCLKFGHAFSTSLAMPQV- 178
            + +  +FH+      +  ++ S   F  P +W        P L+F      +LA P+V 
Sbjct: 124 VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEF--VAMPALAPPEVV 181
Query: 179 -RPCLFHKFGH----ASSSAMP 195
             P L  ++ H    A ++A+P
Sbjct: 182 MDPALAAQYEHDLEVAQTTALP 203

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 71.2 bits (173), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 35/85 (41%), Positives = 55/85 (64%), Gaps = 2/85 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+V +G+  VGKT ++ RF    F      TIG+DF  KT+ ++ + V+LQ+WDTAG E
Sbjct: 17  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 76
Query: 82  RFRTITQSYYRSANGVII--EVTSV 104
           RFR++  SY R +   ++  ++T+V
Sbjct: 77  RFRSLIPSYIRDSTVAVVVYDITNV 101

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 41/101 (40%), Positives = 57/101 (56%), Gaps = 3/101 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTL 119
           +F  +   YY  A   II  +VTS V Y    NWH+  V +
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 111

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 70.9 bits (172), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 60/202 (29%), Positives = 95/202 (47%), Gaps = 30/202 (14%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTLFDKYKF---GHAFSTSLAM 135
           ++  +   YY  A   II  +VTS V Y    NWH+  V + +       G+        
Sbjct: 71  KYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK 130
Query: 136 PQVRPCLFHK------FGHASSSAMPF--PQVW--------PCLKFGHAFSTSLAMPQV- 178
            + +  +FH+      +  ++ S   F  P +W        P L+F      +LA P+V 
Sbjct: 131 VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEF--VAMPALAPPEVV 188
Query: 179 -RPCLFHKFGH----ASSSAMP 195
             P L  ++ H    A ++A+P
Sbjct: 189 MDPALAAQYEHDLEVAQTTALP 210

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score = 70.1 bits (170), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 39/97 (40%), Positives = 52/97 (53%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            KV L+GD GVGK+ ++ RF    F      TIG  F  KTV    +  K  IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66
Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           RFR +   YYR +   II  ++T  E +   +NW ++
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRE 103

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 41/101 (40%), Positives = 57/101 (56%), Gaps = 3/101 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTL 119
           +F  +   YY  A   II  +VTS V Y    NWH+  V +
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 111

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 41/101 (40%), Positives = 57/101 (56%), Gaps = 3/101 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTL 119
           +F  +   YY  A   II  +VTS V Y    NWH+  V +
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 111

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 60/202 (29%), Positives = 94/202 (46%), Gaps = 30/202 (14%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAG E
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 70
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTLFDKYKF---GHAFSTSLAM 135
           +F  +   YY  A   II  +VTS V Y    NWH+  V + +       G+        
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK 130
Query: 136 PQVRPCLFHK------FGHASSSAMPF--PQVW--------PCLKFGHAFSTSLAMPQV- 178
            + +  +FH+      +  ++ S   F  P +W        P L+F      +LA P+V 
Sbjct: 131 VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEF--VAMPALAPPEVV 188
Query: 179 -RPCLFHKFGH----ASSSAMP 195
             P L  ++ H    A ++A+P
Sbjct: 189 MDPALAAQYEHDLEVAQTTALP 210

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 40/101 (39%), Positives = 58/101 (57%), Gaps = 3/101 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   TIGV+    +   +  ++K  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 72
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTL 119
           +F  +   YY +A   II  +VTS + Y    NWH+  V +
Sbjct: 73  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRV 113

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 60/202 (29%), Positives = 94/202 (46%), Gaps = 30/202 (14%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+  +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTLFDKYKF---GHAFSTSLAM 135
           +F  +   YY  A   II  +VTS V Y    NWH+  V + +       G+        
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK 135
Query: 136 PQVRPCLFHK------FGHASSSAMPF--PQVW--------PCLKFGHAFSTSLAMPQV- 178
            + +  +FH+      +  ++ S   F  P +W        P L+F      +LA P+V 
Sbjct: 136 VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEF--VAMPALAPPEVV 193
Query: 179 -RPCLFHKFGH----ASSSAMP 195
             P L  ++ H    A ++A+P
Sbjct: 194 MDPALAAQYEHDLEVAQTTALP 215

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 68.2 bits (165), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 42/97 (43%), Positives = 54/97 (55%), Gaps = 3/97 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            KV L+GD GVGK+ +V RF    F      TIG  F  KTV    +  K  IWDTAGQE
Sbjct: 24  LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 83
Query: 82  RFRTITQSYYR-SANGVII-EVTSVEYCYQ-RNWHKQ 115
           RF ++   YYR SA  VI+ ++T  +  Y  + W K+
Sbjct: 84  RFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKE 120

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 40/101 (39%), Positives = 56/101 (55%), Gaps = 3/101 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 72
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTL 119
           +F  +   YY  A   II  +VTS V Y    NWH+  V +
Sbjct: 73  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 113

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 67.0 bits (162), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 40/101 (39%), Positives = 58/101 (57%), Gaps = 3/101 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   TIGV+    +   +  ++K  +WDTAG E
Sbjct: 6   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 65
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTL 119
           +F  +   YY +A   II  +VTS + Y    NWH+  V +
Sbjct: 66  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRV 106

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 67.0 bits (162), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 40/101 (39%), Positives = 58/101 (57%), Gaps = 3/101 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   TIGV+    +   +  ++K  +WDTAG E
Sbjct: 5   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 64
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTL 119
           +F  +   YY +A   II  +VTS + Y    NWH+  V +
Sbjct: 65  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRV 105

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 67.0 bits (162), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 40/101 (39%), Positives = 56/101 (55%), Gaps = 3/101 (2%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAG E
Sbjct: 7   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 66
Query: 82  RFRTITQSYYRSANGVII--EVTS-VEYCYQRNWHKQAVTL 119
           +F  +   YY  A   II  +VTS V Y    NWH+  V +
Sbjct: 67  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 107

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 62.0 bits (149), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 34/92 (36%), Positives = 52/92 (56%), Gaps = 3/92 (3%)
Query: 19  DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIG-VDFSMKTVNIDGKKVKLQIWDT 77
           +  +K+ LIGD GVGKT  ++R   G F +    T+G V+  +  ++  G  +K  +WDT
Sbjct: 9   ELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDT 68
Query: 78  AGQERFRTITQSYYRSANGVII--EVTSVEYC 107
           AGQE+   +   YY  A+G I+  +VTS   C
Sbjct: 69  AGQEKKAVLKDVYYIGASGAILFFDVTSRITC 100

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 30/76 (39%), Positives = 46/76 (60%), Gaps = 1/76 (1%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++G  GVGK+ +  +F   +FVE    T    +  K V +DG++V++ I DTAGQ
Sbjct: 18 LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 76
Query: 81 ERFRTITQSYYRSANG 96
          E +  I  +Y+RS  G
Sbjct: 77 EDYAAIRDNYFRSGEG 92

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 30/76 (39%), Positives = 46/76 (60%), Gaps = 1/76 (1%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++G  GVGK+ +  +F   +FVE    T    +  K V +DG++V++ I DTAGQ
Sbjct: 6  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 64
Query: 81 ERFRTITQSYYRSANG 96
          E +  I  +Y+RS  G
Sbjct: 65 EDYAAIRDNYFRSGEG 80

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 30/76 (39%), Positives = 46/76 (60%), Gaps = 1/76 (1%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++G  GVGK+ +  +F   +FVE    T    +  K V +DG++V++ I DTAGQ
Sbjct: 4  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 62
Query: 81 ERFRTITQSYYRSANG 96
          E +  I  +Y+RS  G
Sbjct: 63 EDYAAIRDNYFRSGEG 78

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 30/76 (39%), Positives = 46/76 (60%), Gaps = 1/76 (1%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++G  GVGK+ +  +F   +FVE    T    +  K V +DG++V++ I DTAGQ
Sbjct: 14 LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 72
Query: 81 ERFRTITQSYYRSANG 96
          E +  I  +Y+RS  G
Sbjct: 73 EDYAAIRDNYFRSGEG 88

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 30/79 (37%), Positives = 47/79 (59%), Gaps = 1/79 (1%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++G  GVGK+ +  +F   +FVE    T   D   K V +DG++V++ I DTAG 
Sbjct: 3  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPT-KADSYRKKVVLDGEEVQIDILDTAGL 61
Query: 81 ERFRTITQSYYRSANGVII 99
          E +  I  +Y+RS  G ++
Sbjct: 62 EDYAAIRDNYFRSGEGFLL 80

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 30/79 (37%), Positives = 47/79 (59%), Gaps = 1/79 (1%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++G  GVGK+ +  +F   +FVE    T   D   K V +DG++V++ I DTAG 
Sbjct: 7  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPT-KADSYRKKVVLDGEEVQIDILDTAGL 65
Query: 81 ERFRTITQSYYRSANGVII 99
          E +  I  +Y+RS  G ++
Sbjct: 66 EDYAAIRDNYFRSGEGFLL 84

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 29/76 (38%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++G  GVGK+ +  +F   +FVE    T    +  K V +DG++V++ I DTAG 
Sbjct: 6  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 64
Query: 81 ERFRTITQSYYRSANG 96
          E +  I  +Y+RS  G
Sbjct: 65 EDYAAIRDNYFRSGEG 80

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/94 (32%), Positives = 47/94 (50%), Gaps = 1/94 (1%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K V +GD  VGKTC++  +    F      T+  +FS   V +DG  V L +WDTAGQE
Sbjct: 7   IKCVTVGDGAVGKTCMLISYTGNTFPTDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQE 65
Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
            +  +    YR A+  ++  + +      N HK+
Sbjct: 66  DYNRLRPLSYRGADVFLLAFSLISKASYENIHKK 99

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 50/82 (60%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G  G GKT V+++ + G+ +  T  TIG  F+++TV    K +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVI-TTIPTIG--FNVETVQY--KNISFTVWDVGGQD 72
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           R R++ + YYR+  GVI  V S
Sbjct: 73  RIRSLWRHYYRNTEGVIFVVDS 94

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 55.5 bits (132), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 34/105 (32%), Positives = 50/105 (47%), Gaps = 1/105 (0%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K V +GD  VGKTC++  + S  F      T+  +FS   V +DG  V L +WDTAGQE
Sbjct: 7   IKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVV-VDGNTVNLGLWDTAGQE 65
Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFG 126
            +  +    YR A+  I+  + +      N  K+ +     Y  G
Sbjct: 66  DYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPG 110

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 50/82 (60%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G  G GKT V+++ + G+ +  T  TIG  F+++TV    K +   +WD  GQ+
Sbjct: 1   MRILMVGLDGAGKTTVLYKLKLGEVI-TTIPTIG--FNVETVQY--KNISFTVWDVGGQD 55
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           R R++ + YYR+  GVI  V S
Sbjct: 56  RIRSLWRHYYRNTEGVIFVVDS 77

>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2 (Scarf2) Complexed With Gdp-3'p At 1.6a Resolution Length = 181

Iteration: 1
 Score = 55.1 bits (131), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 28/82 (34%), Positives = 50/82 (60%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G  G GKT V+++ + G+ +  T  TIG  F+++TV    K +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVI-TTIPTIG--FNVETVQY--KNISFTVWDVGGQD 72
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           R R++ + YYR+  GVI  + S
Sbjct: 73  RIRSLWRHYYRNTEGVIFVIDS 94

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 53.9 bits (128), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 32/83 (38%), Positives = 48/83 (57%), Gaps = 3/83 (3%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           KVVL+GD G GKT ++  F  G F E    T+  +  M  + + GK V L IWDTAGQ+ 
Sbjct: 36  KVVLVGDGGCGKTSLLMVFADGAFPESYTPTV-FERYMVNLQVKGKPVHLHIWDTAGQDD 94
Query: 83  FRTITQSYYRSANGVII--EVTS 103
           +  +   +Y  A+ +++  +VTS
Sbjct: 95  YDRLRPLFYPDASVLLLCFDVTS 117

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 53.9 bits (128), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 33/105 (31%), Positives = 50/105 (47%), Gaps = 1/105 (0%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K V +GD  VGKTC++  + S  F      T+  +FS   V ++G  V L +WDTAGQE
Sbjct: 9   IKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVV-VNGATVNLGLWDTAGQE 67
Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFG 126
            +  +    YR A+  I+  + +      N  K+ +     Y  G
Sbjct: 68  DYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPG 112

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 29/75 (38%), Positives = 44/75 (58%), Gaps = 1/75 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +F  G FVEK   TI  D   K V +D ++  L+I DTAG E
Sbjct: 6  YKLVVLGSVGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDAQQCMLEILDTAGTE 64
Query: 82 RFRTITQSYYRSANG 96
          +F  +   Y ++  G
Sbjct: 65 QFTAMRDLYMKNGQG 79

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 46/77 (59%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++     G F E    T+  ++ +  V +DG++V+L +WDTAGQE 
Sbjct: 12 KLVIVGDGACGKTCLLIVNSKGQFPEVYVPTVFENY-VADVEVDGRRVELALWDTAGQED 70
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y  +N V+I
Sbjct: 71 YDRLRPLSYPDSNVVLI 87

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++  F    F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 8  KLVIVGDVACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 66
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 67 YDRLRPLSYPDTDVILM 83

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 29/75 (38%), Positives = 44/75 (58%), Gaps = 1/75 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +F  G FVEK   TI  D   K V +D ++  L+I DTAG E
Sbjct: 4  YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDAQQCMLEILDTAGTE 62
Query: 82 RFRTITQSYYRSANG 96
          +F  +   Y ++  G
Sbjct: 63 QFTAMRDLYMKNGQG 77

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 34/115 (29%), Positives = 45/115 (39%), Gaps = 37/115 (32%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK------------- 68
           +K VL+G+  VGK+ +V R     F E T  TIG  F    VN++               
Sbjct: 8   YKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNN 67
Query: 69  ------------------------KVKLQIWDTAGQERFRTITQSYYRSANGVII 99
                                    +K  IWDTAGQER+ +I   YYR A   I+
Sbjct: 68  INSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIV 122

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 46/77 (59%), Gaps = 1/77 (1%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+V++GD   GKTC++  F   +F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 85
Query: 83  FRTITQSYYRSANGVII 99
           +  +    Y   + +++
Sbjct: 86  YDRLRPLSYPDTDVILM 102

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 51.2 bits (121), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++  F    F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 11 KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 69
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 70 YDRLRPLSYPDTDVILM 86

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 51.2 bits (121), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+V++GD   GKTC++  F    F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 85
Query: 83  FRTITQSYYRSANGVII 99
           +  +    Y   + +++
Sbjct: 86  YDRLRPLSYPDTDVILM 102

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score = 51.2 bits (121), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++  F    F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 8  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 66
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 67 YDRLRPLSYPDTDVILM 83

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 51.2 bits (121), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+V++GD   GKTC++  F    F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 85
Query: 83  FRTITQSYYRSANGVII 99
           +  +    Y   + +++
Sbjct: 86  YDRLRPLSYPDTDVILM 102

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score = 51.2 bits (121), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++  F    F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 9  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 68 YDRLRPLSYPDTDVILM 84

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score = 50.8 bits (120), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 29/75 (38%), Positives = 44/75 (58%), Gaps = 1/75 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +F  G FVEK   TI  D   K V +D ++  L+I DTAG E
Sbjct: 4  YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTAGTE 62
Query: 82 RFRTITQSYYRSANG 96
          +F  +   Y ++  G
Sbjct: 63 QFTAMRDLYMKNGQG 77

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 50.8 bits (120), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++  F    F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 10 KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 68
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 69 YDRLRPLSYPDTDVILM 85

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 50.4 bits (119), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++  F    F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 7  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 66 YDRLRPLSYPDTDVILM 82

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score = 50.4 bits (119), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++  F    F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 9  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 68 YDRLRPLSYPDTDVILM 84

>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1 Length = 186

Iteration: 1
 Score = 50.4 bits (119), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 64/124 (51%), Gaps = 9/124 (7%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++ +F +G+ V+    T+G  F++KT+   G   KL IWD  GQ+
Sbjct: 19  LRLLMLGLDNAGKTTILKKF-NGEDVDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQK 73
Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHA----FSTSLAMPQ 137
             R+  ++Y+ S +G+I  V S +    ++  ++  +L  + +   A    F+    +P 
Sbjct: 74  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG 133
Query: 138 VRPC 141
              C
Sbjct: 134 ALSC 137

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score = 50.4 bits (119), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++  F    F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 9  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 68 YDRLRPLSYPDTDVILM 84

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 50.1 bits (118), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 29/74 (39%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V +GD  VGKTC++  + S  F      T+  +FS   V +DG+ V L +WDTAGQE
Sbjct: 10 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVAVDGQIVNLGLWDTAGQE 68
Query: 82 RFRTITQSYYRSAN 95
           +  +    YR A+
Sbjct: 69 DYSRLRPLSYRGAD 82

>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native) Length = 186

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/119 (26%), Positives = 62/119 (52%), Gaps = 5/119 (4%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++ +F +G+ V+    T+G  F++KT+   G   KL IWD  GQ+
Sbjct: 19  LRLLMLGLDNAGKTTILKKF-NGEDVDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQK 73
Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP 140
             R+  ++Y+ S +G+I  V S +    ++  ++  +L  + +   A     A  Q  P
Sbjct: 74  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLP 132

>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1 Length = 192

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/133 (25%), Positives = 69/133 (51%), Gaps = 11/133 (8%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++ +F +G+ ++    T+G  F++KT  ++ +  KL IWD  GQ+
Sbjct: 17  LRLLMLGLDNAGKTTILKKF-NGEDIDTISPTLG--FNIKT--LEHRGFKLNIWDVGGQK 71
Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPC 141
             R+  ++Y+ S +G+I  V S +    ++  ++  +L  + +   A     A  Q  P 
Sbjct: 72  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLP- 130
Query: 142 LFHKFGHASSSAM 154
                G  SS+A+
Sbjct: 131 -----GALSSNAI 138

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVFLI 80

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 6  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 64
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 65 DYDRLRPLSYPQTDVSLI 82

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVSLI 80

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/79 (34%), Positives = 41/79 (51%), Gaps = 1/79 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK-KVKLQIWDTAGQ 80
           K+V++GD   GKT +   F    F ++   TIG+DF ++ + + G   V LQIWD  GQ
Sbjct: 7  LKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQ 66
Query: 81 ERFRTITQSYYRSANGVII 99
               +   Y   A GV++
Sbjct: 67 TIGGKMLDKYIYGAQGVLL 85

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +     FV++   TI  D   K V IDG+   L I DTAGQE
Sbjct: 4  YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQE 62
Query: 82 RFRTITQSYYRSANG 96
           +  +   Y R+  G
Sbjct: 63 EYSAMRDQYMRTGEG 77

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVSLI 80

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 8  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 66
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 67 DYDRLRPLSYPQTDVSLI 84

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVFLI 80

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +     FV++   TI  D   K V IDG+   L I DTAGQE
Sbjct: 4  YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQE 62
Query: 82 RFRTITQSYYRSANG 96
           +  +   Y R+  G
Sbjct: 63 EYSAMRDQYMRTGEG 77

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVFLI 80

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/85 (34%), Positives = 49/85 (57%), Gaps = 3/85 (3%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+ ++G   VGK+ +  +F  G FV+    TI   F+ K + ++G++  LQ+ DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVDTAGQDE 66
Query: 83  FRTITQSYYRSANGVII--EVTSVE 105
           +    Q+Y    NG I+   VTS++
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIK 91

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/85 (34%), Positives = 49/85 (57%), Gaps = 3/85 (3%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+ ++G   VGK+ +  +F  G FV+    TI   F+ K + ++G++  LQ+ DTAGQ+ 
Sbjct: 6   KIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTFT-KLITVNGQEYHLQLVDTAGQDE 64
Query: 83  FRTITQSYYRSANGVII--EVTSVE 105
           +    Q+Y    NG I+   VTS++
Sbjct: 65  YSIFPQTYSIDINGYILVYSVTSIK 89

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +     FV++   TI  D   K V IDG+   L I DTAGQE
Sbjct: 5  YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQE 63
Query: 82 RFRTITQSYYRSANG 96
           +  +   Y R+  G
Sbjct: 64 EYSAMRDQYMRTGEG 78

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVFLI 80

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +     FV++   TI  D   K V IDG+   L I DTAGQE
Sbjct: 5  YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQE 63
Query: 82 RFRTITQSYYRSANG 96
           +  +   Y R+  G
Sbjct: 64 EYSAMRDQYMRTGEG 78

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +     FV++   TI  D   K V IDG+   L I DTAGQE
Sbjct: 4  YKLVVVGARGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQE 62
Query: 82 RFRTITQSYYRSANG 96
           +  +   Y R+  G
Sbjct: 63 EYSAMRDQYMRTGEG 77

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 5  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 63
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 64 DYDRLRPLSYPQTDVFLI 81

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +     FV++   TI  D   K V IDG+   L I DTAGQE
Sbjct: 4  YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQE 62
Query: 82 RFRTITQSYYRSANG 96
           +  +   Y R+  G
Sbjct: 63 EYSAMRDQYMRTGEG 77

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 6  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 64
Query: 82 RFRTITQSYYRSANG 96
           +  +    Y    G
Sbjct: 65 DYDRLRPLSYPQTVG 79

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 14 IKCVVVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 72
Query: 82 RF 83
           +
Sbjct: 73 DY 74

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVFLI 80

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 5  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 63
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 64 DYDRLRPLSYPQTDVFLI 81

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVFLI 80

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 23 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 81
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 82 DYDRLRPLSYPQTDVFLI 99

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 89
Query: 82  RFRTITQSYYRSANGVII 99
            +  +    Y   +  +I
Sbjct: 90  DYDRLRPLSYPQTDVFLI 107

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVFLI 80

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 29/85 (34%), Positives = 49/85 (57%), Gaps = 3/85 (3%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+ ++G   VGK+ +  +F  G FV+    TI   F+ K + ++G++  LQ+ DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVDTAGQDE 66
Query: 83  FRTITQSYYRSANGVII--EVTSVE 105
           +    Q+Y    NG I+   VTS++
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIK 91

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++  F    F      T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 7  KLVIVGDVACGKTCLLIVFSKDQFPAVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 83 F 83
          +
Sbjct: 66 Y 66

>pdb|4GOK|B Chain B, The Crystal Structure Of Arl2gppnhp In Complex With Unc119a Length = 169

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 30/125 (24%), Positives = 65/125 (52%), Gaps = 9/125 (7%)
Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           + +++++G    GKT ++ +F +G+ V+    T+G  F++KT  ++ +  KL IWD  G 
Sbjct: 1   MLRLLMLGLDNAGKTTILKKF-NGEDVDTISPTLG--FNIKT--LEHRGFKLNIWDVGGL 55
Query: 81  ERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHA----FSTSLAMP 136
           +  R+  ++Y+ S +G+I  V S +    ++  ++  +L  + +   A    F+    +P
Sbjct: 56  KSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLP 115
Query: 137 QVRPC 141
               C
Sbjct: 116 GALSC 120

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 29/85 (34%), Positives = 49/85 (57%), Gaps = 3/85 (3%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+ ++G   VGK+ +  +F  G FV+    TI   F+ K + ++G++  LQ+ DTAGQ+ 
Sbjct: 3   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVDTAGQDE 61
Query: 83  FRTITQSYYRSANGVII--EVTSVE 105
           +    Q+Y    NG I+   VTS++
Sbjct: 62  YSIFPQTYSIDINGYILVYSVTSIK 86

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 28/85 (32%), Positives = 46/85 (54%), Gaps = 1/85 (1%)
Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
           D++   L K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +
Sbjct: 149 DEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGL 207
Query: 75  WDTAGQERFRTITQSYYRSANGVII 99
           WDTAG E +  +    Y   +  +I
Sbjct: 208 WDTAGLEDYDRLRPLSYPQTDVFLI 232

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 26/69 (37%), Positives = 41/69 (59%), Gaps = 1/69 (1%)
Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
           D++   L K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +
Sbjct: 149 DEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGL 207
Query: 75  WDTAGQERF 83
           WDTAG E +
Sbjct: 208 WDTAGLEDY 216

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 26/69 (37%), Positives = 41/69 (59%), Gaps = 1/69 (1%)
Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
           D++   L K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +
Sbjct: 149 DEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGL 207
Query: 75  WDTAGQERF 83
           WDTAG E +
Sbjct: 208 WDTAGLEDY 216

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 44/75 (58%), Gaps = 1/75 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +F  G FV++   TI  D   K V +D ++  L+I DTAG E
Sbjct: 4  YKLVVLGSGGVGKSALTVQFVQGIFVDEYDPTIE-DSYRKQVEVDCQQCMLEILDTAGTE 62
Query: 82 RFRTITQSYYRSANG 96
          +F  +   Y ++  G
Sbjct: 63 QFTAMRDLYMKNGQG 77

>pdb|1R4A|A Chain A, Crystal Structure Of Gtp-Bound Adp-Ribosylation Factor Like Protein 1 (Arl1) And Grip Domain Of Golgin245 Complex Length = 165

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G  G GKT +++R + G+ V  T  TIG  F+++TV    K +K Q+WD  GQ 
Sbjct: 3   MRILILGLDGAGKTTILYRLQVGEVV-TTIPTIG--FNVETVTY--KNLKFQVWDLGGQT 57
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
             R   + YY + + VI  V S
Sbjct: 58  SIRPYWRCYYSNTDAVIYVVDS 79

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++       F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 7  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 66 YDRLRPLSYPDTDVILM 82

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++       F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 5  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 63
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 64 YDRLRPLSYPDTDVILM 80

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++       F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 5  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 63
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 64 YDRLRPLSYPDTDVILM 80

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 47.4 bits (111), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++       F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 7  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 65
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 66 YDRLRPLSYPDTDVILM 82

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 47.4 bits (111), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++       F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 7  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 66 YDRLRPLSYPDTDVILM 82

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 47.4 bits (111), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++       F E    T+  ++ +  + +DGK+V+L +WDTAGQE 
Sbjct: 7  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 66 YDRLRPLSYPDTDVILM 82

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 47.0 bits (110), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +D K V L +WDTAGQE
Sbjct: 10 IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDSKPVNLGLWDTAGQE 68
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 69 DYDRLRPLSYPQTDVFLI 86

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 47.0 bits (110), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +D K V L +WDTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDSKPVNLGLWDTAGQE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVFLI 80

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score = 47.0 bits (110), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 28/84 (33%), Positives = 47/84 (55%), Gaps = 5/84 (5%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G  G GKT +++R + G+ V  T  TIG  F+++T++   K +KL +WD  GQ 
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEVV-TTKPTIG--FNVETLSY--KNLKLNVWDLGGQT 73
Query: 82  RFRTITQSYYRSANGVIIEVTSVE 105
             R   + YY     VI  V S +
Sbjct: 74  SIRPYWRCYYADTAAVIFVVDSTD 97

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 47.0 bits (110), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K V++GD  VGKTC++  + +     +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNALPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 89
Query: 82  RFRTITQSYYRSANGVII 99
            +  +    Y   +  +I
Sbjct: 90  DYDRLRPLSYPQTDVFLI 107

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 47.0 bits (110), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGK C++  + +  F  +   T+  ++S   V +DGK V L +WDTAGQE
Sbjct: 11 IKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 69
Query: 82 RF 83
           +
Sbjct: 70 DY 71

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +D K V L +WDTAGQE
Sbjct: 11 IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDSKPVNLGLWDTAGQE 69
Query: 82 RF 83
           +
Sbjct: 70 DY 71

>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein Length = 329

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 48/82 (58%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G+ V  T  TIG  F+++TV    K +   +WD  GQ+
Sbjct: 166 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEY--KNISFTVWDVGGQD 220
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           + R + + Y+++  G+I  V S
Sbjct: 221 KIRPLWRHYFQNTQGLIFVVDS 242

>pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In Trans State Soaked With Calcium Length = 497

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 45/80 (56%), Gaps = 5/80 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G  V  T  T+G  F+++TV    K VK  +WD  GQ+
Sbjct: 323 MRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTY--KNVKFNVWDVGGQD 377
Query: 82  RFRTITQSYYRSANGVIIEV 101
           + R + + YY    G+I  V
Sbjct: 378 KIRPLWRHYYTGTQGLIFVV 397

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAG E
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGLE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVFLI 80

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAG E
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGLE 62
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 63 DYDRLRPLSYPQTDVFLI 80

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAG E
Sbjct: 7  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGLE 65
Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 66 DYDRLRPLSYPQTDVFLI 83

>pdb|3AQ4|A Chain A, Molecular Insights Into Plant Cell Proliferation Disturbance By Agrobacterium Protein 6b Length = 184

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 48/82 (58%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G+ V  T  TIG  F+++TV    K +   +WD  GQ+
Sbjct: 21  MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEY--KNISFTVWDVGGQD 75
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           + R + + Y+++  G+I  V S
Sbjct: 76  KIRPLWRHYFQNTQGLIFVVDS 97

>pdb|1RE0|A Chain A, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With Brefeldin A Length = 164

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 49/82 (59%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G+ V  T  TIG  F+++TV  + K +   +WD  GQ+
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETV--EYKNISFTVWDVGGQD 55
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           + R + + Y+++  G+I  V S
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDS 77

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 29/104 (27%), Positives = 52/104 (50%), Gaps = 1/104 (0%)
Query: 20  FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG 79
            + K V++GD  VGKTC++  + +  F E+   T+  D    +V + GK+  L ++DTAG
Sbjct: 17  LMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAG 75
Query: 80  QERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKY 123
           QE +  +    Y   +  +I  + V     +N  ++ V    +Y
Sbjct: 76  QEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY 119

>pdb|1KSJ|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Semet) Length = 186

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 31/108 (28%), Positives = 56/108 (51%), Gaps = 5/108 (4%)
Query: 33  GKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYR 92
           GKT ++ +F +G+ V+    T+G  F++KT+   G   KL IWD  GQ+  R+  ++Y+ 
Sbjct: 30  GKTTILKKF-NGEDVDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFE 84
Query: 93  SANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP 140
           S +G+I  V S +    ++  ++  +L  + +   A     A  Q  P
Sbjct: 85  STDGLIWVVDSADRQRXQDCQRELQSLLVEERLAGATLLIFANKQDLP 132

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K V++GD  VGKTC++  + +  F  +   T+  ++S   V +DGK V L +WDTAG E
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGLE 89
Query: 82  RFRTITQSYYRSANGVII 99
            +  +    Y   +  +I
Sbjct: 90  DYDRLRPLSYPQTDVFLI 107

>pdb|1RRG|A Chain A, Non-Myristoylated Rat Adp-Ribosylation Factor-1 Complexed With Gdp, Dimeric Crystal Form Length = 181

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 49/82 (59%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G+ V  T  TIG  F+++TV  + K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETV--EYKNISFTVWDVGGQD 72
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           + R + + Y+++  G+I  V S
Sbjct: 73  KIRPLWRHYFQNTQGLIFVVDS 94

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/82 (30%), Positives = 49/82 (59%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G+ V  T  TIG  F+++TV  + K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETV--EYKNICFTVWDVGGQD 72
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           R R + + Y+++  G+I  V S
Sbjct: 73  RIRPLWKHYFQNTQGLIFVVDS 94

>pdb|1HUR|A Chain A, Human Adp-Ribosylation Factor 1 Complexed With Gdp, Full Length = 180

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 49/82 (59%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G+ V  T  TIG  F+++TV  + K +   +WD  GQ+
Sbjct: 17  MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETV--EYKNISFTVWDVGGQD 71
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           + R + + Y+++  G+I  V S
Sbjct: 72  KIRPLWRHYFQNTQGLIFVVDS 93

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 30/101 (29%), Positives = 48/101 (47%), Gaps = 4/101 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            ++ L+G    GKT  V+   SG F E    T+G  F+M+ V      V ++IWD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFSEDMIPTVG--FNMRKVT--KGNVTIKIWDIGGQP 78
Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDK 122
           RFR++ + Y R  N ++  + + +         +   L DK
Sbjct: 79  RFRSMWERYCRGVNAIVYMIDAADREKIEASRNELHNLLDK 119

>pdb|2KSQ|A Chain A, The Myristoylated Yeast Arf1 In A Gtp And Bicelle Bound Conformation Length = 181

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G  G GKT V+++ + G+ +  T  TIG  F+++ V      +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVI-TTIPTIG--FNVECVQY--CNISFTVWDVGGQD 72
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           R R++ + YY +  GVI  V S
Sbjct: 73  RIRSLWRHYYCNTEGVIFVVDS 94

>pdb|3RD1|A Chain A, Structure Of An Adp Ribosylation Factor From Entamoeba Histolytica Hm- 1:imss Bound To Mg-Gdp Length = 178

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G+ V  T  TIG  F+++TV    K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTSILYKLKLGEIV-TTIPTIG--FNVETVEY--KNISFTVWDVGGQD 72
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           + R + + YY++   +I  V S
Sbjct: 73  KIRPLWRHYYQNTQAIIFVVDS 94

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/81 (29%), Positives = 48/81 (59%), Gaps = 5/81 (6%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +++++G    GKT ++++ + G+ V  T  TIG  F+++TV    + +   +WD  GQ++
Sbjct: 19  RILMVGLDAAGKTTILYKVKLGEVV-TTIPTIG--FNVETVEF--RNISFTVWDVGGQDK 73
Query: 83  FRTITQSYYRSANGVIIEVTS 103
            R + + YY + +G+I  V S
Sbjct: 74  IRPLWRHYYSNTDGLIFVVDS 94

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 23/88 (26%), Positives = 47/88 (53%), Gaps = 1/88 (1%)
Query: 12  TFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVK 71
           +  D + +   K+V++GD   GKT ++H F    F E    T+  +++  +  ID ++++
Sbjct: 14  SIMDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIE 72
Query: 72  LQIWDTAGQERFRTITQSYYRSANGVII 99
           L +WDT+G   +  +    Y  ++ V+I
Sbjct: 73  LSLWDTSGSPYYDNVRPLSYPDSDAVLI 100

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 42/74 (56%), Gaps = 1/74 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K VL+GD  VGKT +V  + +  +  +   T   +FS   V++DG+ V+LQ+ DTAGQ+
Sbjct: 21 VKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSA-VVSVDGRPVRLQLCDTAGQD 79
Query: 82 RFRTITQSYYRSAN 95
           F  +    Y + +
Sbjct: 80 EFDKLRPLCYTNTD 93

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 23/77 (29%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKTC++       F E    T+  ++ +  + +DGK+V+L +WDTAG E 
Sbjct: 10 KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGLED 68
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   + +++
Sbjct: 69 YDRLRPLSYPDTDVILM 85

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 23/85 (27%), Positives = 46/85 (54%), Gaps = 1/85 (1%)
Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
           D + +   K+V++GD   GKT ++H F    F E    T+  +++  +  ID ++++L +
Sbjct: 22  DPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSL 80
Query: 75  WDTAGQERFRTITQSYYRSANGVII 99
           WDT+G   +  +    Y  ++ V+I
Sbjct: 81  WDTSGSPYYDNVRPLSYPDSDAVLI 105

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFS--MKTVNIDGKKVKLQIWDTAG 79
            K+V++GD  VGKTC++  F  G+       T+  +FS  MK  N   ++  L +WDTAG
Sbjct: 24  LKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMKYKN---EEFILHLWDTAG 80
Query: 80  QERFRTITQSYYRSANGVII 99
           QE +  +    Y  ++ V++
Sbjct: 81  QEEYDRLRPLSYADSDVVLL 100

>pdb|2B6H|A Chain A, Structure Of Human Adp-Ribosylation Factor 5 Length = 192

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 48/82 (58%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G+ V  T  TIG  F+++TV    K +   +WD  GQ+
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEY--KNICFTVWDVGGQD 84
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           + R + + Y+++  G+I  V S
Sbjct: 85  KIRPLWRHYFQNTQGLIFVVDS 106

>pdb|4DCN|A Chain A, Crystal Structure Analysis Of The Arfaptin2 Bar Domain In Complex With Arl1 Length = 166

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 28/82 (34%), Positives = 46/82 (56%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G  G GKT +++R + G+ V  T  TIG  F+++TV    K +K Q+WD  G  
Sbjct: 5   MRILILGLDGAGKTTILYRLQVGEVV-TTIPTIG--FNVETVTY--KNLKFQVWDLGGLT 59
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
             R   + YY + + VI  V S
Sbjct: 60  SIRPYWRCYYSNTDAVIYVVDS 81

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 45/80 (56%), Gaps = 5/80 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G  V  T  T+G  F+++TV    K VK  +WD  GQ+
Sbjct: 1   MRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTY--KNVKFNVWDVGGQD 55
Query: 82  RFRTITQSYYRSANGVIIEV 101
           + R + + YY    G+I  V
Sbjct: 56  KIRPLWRHYYTGTQGLIFVV 75

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 45/80 (56%), Gaps = 5/80 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G  V  T  T+G  F+++TV    K VK  +WD  GQ+
Sbjct: 1   MRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTY--KNVKFNVWDVGGQD 55
Query: 82  RFRTITQSYYRSANGVIIEV 101
           + R + + YY    G+I  V
Sbjct: 56  KIRPLWRHYYTGTQGLIFVV 75

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 22/77 (28%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKT ++H F    F E    T+  +++  +  ID ++++L +WDT+G   
Sbjct: 9  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLWDTSGSPY 67
Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y  ++ V+I
Sbjct: 68 YDNVRPLSYPDSDAVLI 84

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFS--MKTVNIDGKKVKLQIWDTAG 79
           K+V++GD  VGKTC++  F  G+       T+  +FS  MK  N   ++  L +WDTAG
Sbjct: 23 LKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMKYKN---EEFILHLWDTAG 79
Query: 80 QERFRTITQSYYRSANGVII 99
          QE +  +    Y  ++ V++
Sbjct: 80 QEEYDRLRPLSYADSDVVLL 99

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 45/80 (56%), Gaps = 5/80 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G  V  T  T+G  F+++TV    K VK  +WD  GQ+
Sbjct: 14  MRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVG--FNVETVTY--KNVKFNVWDVGGQD 68
Query: 82  RFRTITQSYYRSANGVIIEV 101
           + R + + YY    G+I  V
Sbjct: 69  KIRPLWRHYYTGTQGLIFVV 88

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 45/80 (56%), Gaps = 5/80 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G  V  T  T+G  F+++TV    K VK  +WD  GQ+
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVG--FNVETVTY--KNVKFNVWDVGGQD 67
Query: 82  RFRTITQSYYRSANGVIIEV 101
           + R + + YY    G+I  V
Sbjct: 68  KIRPLWRHYYTGTQGLIFVV 87

>pdb|1UPT|A Chain A, Structure Of A Complex Of The Golgin-245 Grip Domain With Arl1 Length = 171

Iteration: 1
 Score = 43.5 bits (101), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 46/81 (56%), Gaps = 5/81 (6%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +++++G  G GKT +++R + G+ V  T  TIG  F+++TV    K +K Q+WD  G   
Sbjct: 9   RILILGLDGAGKTTILYRLQVGEVV-TTIPTIG--FNVETVTY--KNLKFQVWDLGGLTS 63
Query: 83  FRTITQSYYRSANGVIIEVTS 103
            R   + YY + + VI  V S
Sbjct: 64  IRPYWRCYYSNTDAVIYVVDS 84

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/96 (32%), Positives = 50/96 (52%), Gaps = 9/96 (9%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           KVV++G   VGKT + H+F  G+F E    T+   +S K V +   +  L + DTAGQ+ 
Sbjct: 26  KVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYS-KIVTLGKDEFHLHLVDTAGQDE 84
Query: 83  FRTITQSYYRSANGVII--EVTS------VEYCYQR 110
           +  +  S+    +G ++   VTS      +E  YQ+
Sbjct: 85  YSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQK 120

>pdb|1J2J|A Chain A, Crystal Structure Of Gga1 Gat N-terminal Region In Complex With Arf1 Gtp Form Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/82 (28%), Positives = 48/82 (58%), Gaps = 5/82 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G+ V  T  TIG  F+++TV  + K +   +WD  G +
Sbjct: 3   MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETV--EYKNISFTVWDVGGLD 57
Query: 82  RFRTITQSYYRSANGVIIEVTS 103
           + R + + Y+++  G+I  V S
Sbjct: 58  KIRPLWRHYFQNTQGLIFVVDS 79

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 4  IKCVVVGDVAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82 RF 83
           +
Sbjct: 63 DY 64

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 26/84 (30%), Positives = 44/84 (52%), Gaps = 4/84 (4%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            ++ L+G    GKT  V+   SG F E    T+G  F+M+   I    V +++WD  GQ 
Sbjct: 32  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMR--KITKGNVTIKLWDIGGQP 87
Query: 82  RFRTITQSYYRSANGVIIEVTSVE 105
           RFR++ + Y R  + ++  V + +
Sbjct: 88  RFRSMWERYCRGVSAIVYMVDAAD 111

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 37/66 (56%), Gaps = 1/66 (1%)
Query: 34 KTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRS 93
          K+ +  +F +G F+EK   TI  DF  K + +D     L+I DTAG E+F ++   Y ++
Sbjct: 16 KSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKN 74
Query: 94 ANGVII 99
            G I+
Sbjct: 75 GQGFIL 80

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 44/79 (55%), Gaps = 5/79 (6%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +++ +G    GKT ++++ + G  V  T  T+G  F+++TV    K VK  +WD  GQ++
Sbjct: 2   RILXLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTY--KNVKFNVWDVGGQDK 56
Query: 83  FRTITQSYYRSANGVIIEV 101
            R + + YY    G+I  V
Sbjct: 57  IRPLWRHYYTGTQGLIFVV 75

>pdb|1ZJ6|A Chain A, Crystal Structure Of Human Arl5 Length = 187

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 5/83 (6%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           KV+++G    GKT ++++F   + V  T  TIG +     +N      +  +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFSMNEVVH-TSPTIGSNVEEIVIN----NTRFLMWDIGGQES 72
Query: 83  FRTITQSYYRSANGVIIEVTSVE 105
            R+   +YY +   VI+ V S +
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTD 95

>pdb|1Z6Y|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 Length = 179

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 5/83 (6%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           KV+++G    GKT ++++F   + V  T  TIG +     +N      +  +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFSMNEVVH-TSPTIGSNVEEIVIN----NTRFLMWDIGGQES 72
Query: 83  FRTITQSYYRSANGVIIEVTSVE 105
            R+   +YY +   VI+ V S +
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTD 95

>pdb|2H16|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) Length = 183

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 5/83 (6%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           KV+++G    GKT ++++F   + V  T  TIG +     +N      +  +WD  GQE 
Sbjct: 24  KVIIVGLDNAGKTTILYQFSMNEVVH-TSPTIGSNVEEIVIN----NTRFLMWDIGGQES 78
Query: 83  FRTITQSYYRSANGVIIEVTSVE 105
            R+   +YY +   VI+ V S +
Sbjct: 79  LRSSWNTYYTNTEFVIVVVDSTD 101

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVXIGGEPYTLGLFDTAGQE 62
Query: 82 RF 83
           +
Sbjct: 63 DY 64

>pdb|1YZG|A Chain A, Structure Of Human Adp-ribosylation Factor-like 8 Length = 179

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 5/83 (6%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           KV+++G    GKT ++++F   + V  T  TIG +     V    K     +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFLMNEVVH-TSPTIGSNVEEIVV----KNTHFLMWDIGGQES 72
Query: 83  FRTITQSYYRSANGVIIEVTSVE 105
            R+   +YY +   +I+ V S++
Sbjct: 73  LRSSWNTYYSNTEFIILVVDSID 95

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 29/101 (28%), Positives = 48/101 (47%), Gaps = 4/101 (3%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            ++ L+G    GKT  V+   SG F E    T+G  F+M+   I    V +++WD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMR--KITKGNVTIKLWDIGGQP 78
Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDK 122
           RFR++ + Y R  + ++  V + +         +   L DK
Sbjct: 79  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDK 119

>pdb|2H17|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) (Casp Target) Length = 181

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 5/83 (6%)
Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           KV+++G    GKT ++++F   + V  T  TIG +     +N      +  +WD  GQE 
Sbjct: 23  KVIIVGLDNAGKTTILYQFSMNEVVH-TSPTIGSNVEEIVIN----NTRFLMWDIGGQES 77
Query: 83  FRTITQSYYRSANGVIIEVTSVE 105
            R+   +YY +   VI+ V S +
Sbjct: 78  LRSSWNTYYTNTEFVIVVVDSTD 100

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 14 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 72
Query: 82 RF 83
           +
Sbjct: 73 DY 74

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82 RF 83
           +
Sbjct: 63 DY 64

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 6  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 64
Query: 82 RF 83
           +
Sbjct: 65 DY 66

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 7  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 65
Query: 82 RF 83
           +
Sbjct: 66 DY 67

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 7  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 65
Query: 82 RF 83
           +
Sbjct: 66 DY 67

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 5  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 63
Query: 82 RF 83
           +
Sbjct: 64 DY 65

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82 RF 83
           +
Sbjct: 63 DY 64

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 11 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 69
Query: 82 RF 83
           +
Sbjct: 70 DY 71

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82 RF 83
           +
Sbjct: 63 DY 64

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82 RF 83
           +
Sbjct: 63 DY 64

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82 RF 83
           +
Sbjct: 63 DY 64

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/80 (30%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G  V  T  T+G  F+++TV    K VK  +WD  G +
Sbjct: 3   MRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTY--KNVKFNVWDVGGLD 57
Query: 82  RFRTITQSYYRSANGVIIEV 101
           + R + + YY    G+I  V
Sbjct: 58  KIRPLWRHYYTGTQGLIFVV 77

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/80 (30%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G  V  T  T+G  F+++TV    K VK  +WD  G +
Sbjct: 4   MRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTY--KNVKFNVWDVGGLD 58
Query: 82  RFRTITQSYYRSANGVIIEV 101
           + R + + YY    G+I  V
Sbjct: 59  KIRPLWRHYYTGTQGLIFVV 78

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82 RF 83
           +
Sbjct: 63 DY 64

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 8  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 66
Query: 82 RF 83
           +
Sbjct: 67 DY 68

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82 RF 83
           +
Sbjct: 63 DY 64

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L ++DTAGQE
Sbjct: 6  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 64
Query: 82 RF 83
           +
Sbjct: 65 DY 66

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 24/80 (30%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G  V  T  T+G  F+++TV    K VK  +WD  G +
Sbjct: 14  MRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVG--FNVETVTY--KNVKFNVWDVGGLD 68
Query: 82  RFRTITQSYYRSANGVIIEV 101
           + R + + YY    G+I  V
Sbjct: 69  KIRPLWRHYYTGTQGLIFVV 88

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 40.4 bits (93), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F  +   T+  ++++ TV I G+   L + DTAGQE
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLRDTAGQE 62
Query: 82 RF 83
           +
Sbjct: 63 DY 64

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	231
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	9e-57
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	1e-56
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	8e-56
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	3e-55
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	3e-55
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	3e-55
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	3e-55
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	4e-55
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	4e-55
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	4e-55
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	4e-55
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	5e-55
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	6e-55
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	8e-55
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	1e-54
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	2e-54
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	2e-54
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	2e-54
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	2e-54
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	2e-54
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	2e-54
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	3e-54
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	4e-54
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	8e-54
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	2e-53
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	2e-53
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	1e-52
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-52
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	1e-52
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	3e-52
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	4e-52
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	2e-51
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	2e-51
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	3e-51
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	6e-51
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	2e-50
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	6e-50
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	6e-50
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	2e-49
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	6e-49
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	7e-49
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	7e-49
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	2e-44
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	1e-42
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	2e-40
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	2e-39
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	8e-38
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	8e-38
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-37
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	1e-36
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	2e-36
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	2e-36
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	7e-36
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	2e-35
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	4e-35
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	4e-35
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	5e-35
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	7e-35
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	1e-34
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	3e-34
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	1e-33
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	1e-33
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	5e-33
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	5e-32
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	3e-30
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	4e-30
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	5e-30
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	8e-30
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	2e-29
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	4e-29
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	1e-24
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	1e-21
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	2e-21
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	3e-20
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	4e-20
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	4e-20
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	5e-20
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	7e-20
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	1e-19
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	1e-19
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	4e-19
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	1e-18
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	1e-18
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	1e-15
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	4e-15
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	5e-15
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	4e-14
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	5e-14
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	6e-14
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	8e-14
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	1e-13
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	1e-13
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	2e-13
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	3e-13
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	7e-13
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	1e-12
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	2e-12
2fh5_B	214	SR-beta, signal recognition particle receptor beta	9e-12
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	3e-10
2ged_A	193	SR-beta, signal recognition particle receptor beta	3e-10
1nrj_B	218	SR-beta, signal recognition particle receptor beta	1e-09
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	1e-09
3llu_A	196	RAS-related GTP-binding protein C; structural geno	2e-09
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	5e-09
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	3e-08
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	1e-07

>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 =  177 bits (452), Expect = 9e-57
 Identities = 47/118 (39%), Positives = 72/118 (61%), Gaps = 3/118 (2%)

Query: 2   SSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMK 61
           SS   + H +       D++FK++LIG+  VGKT  + R+    F     +T+G+DF +K
Sbjct: 3   SSHHHHHHSSGLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVK 62

Query: 62  TVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQA 116
           TV    K++KLQIWDTAGQER+RTIT +YYR A G ++  ++ + E +   ++W  Q 
Sbjct: 63  TVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQI 120

>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 =  177 bits (451), Expect = 1e-56
 Identities = 49/99 (49%), Positives = 67/99 (67%)

Query: 1  MSSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSM 60
          M SS  + H ++       +LFK ++IGD GVGK+C++ +F    F      TIGV+F  
Sbjct: 1  MGSSHHHHHHSSGLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGA 60

Query: 61 KTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
          + VNIDGK++KLQIWDTAGQE FR+IT+SYYR A G ++
Sbjct: 61 RMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALL 99

>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 =  175 bits (447), Expect = 8e-56
 Identities = 64/104 (61%), Positives = 77/104 (74%), Gaps = 5/104 (4%)

Query: 1   MSSSLTNDHPNT-----FQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIG 55
           M SS  + H ++        + YDFLFK+VLIG+ GVGKTC+V RF  G F    G TIG
Sbjct: 1   MGSSHHHHHHSSGLVPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIG 60

Query: 56  VDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
           VDF +KTV I+G+KVKLQIWDTAGQERFR+ITQSYYRSAN +I+
Sbjct: 61  VDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALIL 104

>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 =  174 bits (443), Expect = 3e-55
 Identities = 52/98 (53%), Positives = 71/98 (72%)

Query: 2   SSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMK 61
            +      P +  +  YD+LFK++LIGD GVGK+C++ RF    + E   +TIGVDF ++
Sbjct: 14  ENLYFQGRPMSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIR 73

Query: 62  TVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
           T+ +DGK +KLQIWDTAGQERFRTIT SYYR A+G+I+
Sbjct: 74  TIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIV 111

>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 =  174 bits (443), Expect = 3e-55
 Identities = 48/103 (46%), Positives = 66/103 (64%), Gaps = 4/103 (3%)

Query: 1   MSSSLTNDHPNTFQ----DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGV 56
           M SS  + H ++       + Y+F+FKVVLIG+ GVGKT ++ RF   +F   +  TIGV
Sbjct: 1   MGSSHHHHHHSSGLVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGV 60

Query: 57  DFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
           +FS +TV +    VK QIWDTAG ER+R IT +YYR A G ++
Sbjct: 61  EFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALL 103

>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 =  174 bits (443), Expect = 3e-55
 Identities = 64/86 (74%), Positives = 75/86 (87%)

Query: 14  QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
            D+ YDFLFK+VL+GD  VGKTCVV RF++G F E+ G+TIGVDF+MKT+ I GK+VKLQ
Sbjct: 22  PDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQ 81

Query: 74  IWDTAGQERFRTITQSYYRSANGVII 99
           IWDTAGQERFRTITQSYYRSANG I+
Sbjct: 82  IWDTAGQERFRTITQSYYRSANGAIL 107

>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 =  173 bits (442), Expect = 3e-55
 Identities = 46/85 (54%), Positives = 66/85 (77%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
           ++YDFLFK ++IG+ G GK+C++H+F    F + + +TIGV+F  K +N+ GK VKLQI
Sbjct: 4  SETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQI 63

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFR++T+SYYR A G ++
Sbjct: 64 WDTAGQERFRSVTRSYYRGAAGALL 88

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  173 bits (441), Expect = 4e-55
 Identities = 55/105 (52%), Positives = 72/105 (68%), Gaps = 3/105 (2%)

Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
              YD LFK+++IGD GVGK+ ++ RF    F      TIGVDF ++TV I+G+KVKLQI
Sbjct: 3   ARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQI 62

Query: 75  WDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQA 116
           WDTAGQERFRTIT +YYR  +GVI+  +VTS E +   + W  + 
Sbjct: 63  WDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEI 107

>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 =  173 bits (441), Expect = 4e-55
 Identities = 42/86 (48%), Positives = 63/86 (73%)

Query: 14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
             +Y ++FK ++IGD GVGK+C++H+F    F+    +TIGV+F  + + + G+K+KLQ
Sbjct: 8  APYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQ 67

Query: 74 IWDTAGQERFRTITQSYYRSANGVII 99
          IWDTAGQERFR +T+SYYR A G ++
Sbjct: 68 IWDTAGQERFRAVTRSYYRGAAGALM 93

>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 =  173 bits (442), Expect = 4e-55
 Identities = 48/121 (39%), Positives = 74/121 (61%), Gaps = 5/121 (4%)

Query: 1   MSSSLTND--HPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDF 58
           M     +     N +   ++D++FK+++IG+  VGKT  + R+    F     +T+G+DF
Sbjct: 1   MHHHHHHSSGRENLYFQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDF 60

Query: 59  SMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
            +KTV    K+VKLQIWDTAGQER+RTIT +YYR A G I+  ++T+ E +   ++W  Q
Sbjct: 61  KVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQ 120

Query: 116 A 116
            
Sbjct: 121 I 121

>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 =  173 bits (442), Expect = 4e-55
 Identities = 49/103 (47%), Positives = 69/103 (66%), Gaps = 4/103 (3%)

Query: 1   MSSSLTNDHPNTFQ----DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGV 56
           M SS  + H ++          DFLFK ++IG  G GK+C++H+F    F + + +TIGV
Sbjct: 1   MGSSHHHHHHSSGLVPRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGV 60

Query: 57  DFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
           +F  + VN+ GK VKLQIWDTAGQERFR++T+SYYR A G ++
Sbjct: 61  EFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALL 103

>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 =  173 bits (440), Expect = 5e-55
 Identities = 44/98 (44%), Positives = 67/98 (68%), Gaps = 1/98 (1%)

Query: 3  SSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKT 62
              + H +     S   +FK+++IGD  VGKTC+ +RF +G F ++T  TIGVDF  + 
Sbjct: 2  GHHHHHHGSLVPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERA 61

Query: 63 VNIDGKKVKLQIWDTAGQERFR-TITQSYYRSANGVII 99
          V+IDG+++K+Q+WDTAGQERFR ++ Q YYR+ + V+ 
Sbjct: 62 VDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVF 99

>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 =  173 bits (440), Expect = 6e-55
 Identities = 46/86 (53%), Positives = 66/86 (76%)

Query: 14  QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
           +DD YD+LFKVVLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ +++ +DGK +K Q
Sbjct: 22  RDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQ 81

Query: 74  IWDTAGQERFRTITQSYYRSANGVII 99
           IWDTAG ER+R IT +YYR A G ++
Sbjct: 82  IWDTAGLERYRAITSAYYRGAVGALL 107

>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 =  173 bits (441), Expect = 8e-55
 Identities = 43/105 (40%), Positives = 69/105 (65%), Gaps = 3/105 (2%)

Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
              +D++FK+++IG+  VGKT  + R+    F     +T+G+DF +KT+  + K++KLQI
Sbjct: 2   SHMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQI 61

Query: 75  WDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQA 116
           WDTAG ER+RTIT +YYR A G I+  ++T+ E +   ++W  Q 
Sbjct: 62  WDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 106

>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 =  172 bits (439), Expect = 1e-54
 Identities = 45/86 (52%), Positives = 60/86 (69%)

Query: 14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
           D+      K+++IG+ GVGK+ ++ RF    F  +   TIGVDF +KT+++DG K KL 
Sbjct: 8  MDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLA 67

Query: 74 IWDTAGQERFRTITQSYYRSANGVII 99
          IWDTAGQERFRT+T SYYR A GVI+
Sbjct: 68 IWDTAGQERFRTLTPSYYRGAQGVIL 93

>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 =  171 bits (437), Expect = 2e-54
 Identities = 50/85 (58%), Positives = 67/85 (78%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
            +YD+LFK++LIGD GVGKTCV+ RF    F     +TIG+DF ++T+ +DGK++KLQI
Sbjct: 2  AKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQI 61

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFRTIT +YYR A G+++
Sbjct: 62 WDTAGQERFRTITTAYYRGAMGIML 86

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  172 bits (438), Expect = 2e-54
 Identities = 51/85 (60%), Positives = 68/85 (80%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
          +  YD+LFK++LIGD GVGK+C++ RF    + E   +TIGVDF ++T+ +DGK +KLQI
Sbjct: 10 NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 69

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFRTIT SYYR A+G+I+
Sbjct: 70 WDTAGQERFRTITSSYYRGAHGIIV 94

>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 =  172 bits (438), Expect = 2e-54
 Identities = 52/85 (61%), Positives = 67/85 (78%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
          +  YD+LFK++LIG+ GVGK+C++ RF    +     +TIGVDF +KTV +DGK VKLQI
Sbjct: 2  NSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQI 61

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFRTIT SYYR ++G+II
Sbjct: 62 WDTAGQERFRTITSSYYRGSHGIII 86

>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 =  171 bits (435), Expect = 2e-54
 Identities = 41/83 (49%), Positives = 53/83 (63%)

Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
          S  + FKVVL+G+  VGKT +V R+    F +K   T+G  F  K +NI GK+V L IWD
Sbjct: 2  SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWD 61

Query: 77 TAGQERFRTITQSYYRSANGVII 99
          TAGQERF  +   YYR +NG I+
Sbjct: 62 TAGQERFHALGPIYYRDSNGAIL 84

>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 =  172 bits (437), Expect = 2e-54
 Identities = 46/85 (54%), Positives = 61/85 (71%)

Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
               DF  +V++IG  GVGKT ++ RF    F E   +T+GVDF +KTV + GKK++LQI
Sbjct: 20  PRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQI 79

Query: 75  WDTAGQERFRTITQSYYRSANGVII 99
           WDTAGQERF +IT +YYRSA G+I+
Sbjct: 80  WDTAGQERFNSITSAYYRSAKGIIL 104

>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 =  172 bits (437), Expect = 2e-54
 Identities = 42/98 (42%), Positives = 61/98 (62%)

Query: 2   SSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMK 61
             S       + +  S    +K+VL GD  VGK+  + R    +F E    T+GVDF MK
Sbjct: 9   HHSSGLVPRGSAKSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMK 68

Query: 62  TVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
           T+ +DG++  LQ+WDTAGQERFR+I +SY+R A+GV++
Sbjct: 69  TLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLL 106

>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 =  171 bits (435), Expect = 3e-54
 Identities = 47/86 (54%), Positives = 67/86 (77%), Gaps = 1/86 (1%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKT-GNTIGVDFSMKTVNIDGKKVKLQ 73
           D YD  FKV+L+GD GVGKTC++ RF+ G F+  T  +T+G+DF  K +++DG KVKLQ
Sbjct: 4  VDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQ 63

Query: 74 IWDTAGQERFRTITQSYYRSANGVII 99
          +WDTAGQERFR++T +YYR A+ +++
Sbjct: 64 MWDTAGQERFRSVTHAYYRDAHALLL 89

>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 =  172 bits (437), Expect = 4e-54
 Identities = 51/85 (60%), Positives = 65/85 (76%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
            SYD + K++LIGD GVGK+C++ RF    F      TIG+DF +KTV+I+GKKVKLQ+
Sbjct: 14 GKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQL 73

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFRTIT +YYR A G+I+
Sbjct: 74 WDTAGQERFRTITTAYYRGAMGIIL 98

>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 =  169 bits (431), Expect = 8e-54
 Identities = 31/82 (37%), Positives = 52/82 (63%)

Query: 18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           +   K+V++G+  VGK+ ++ R+  G F +    TIGVDF  + + ++ + V+L +WDT
Sbjct: 2  SEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDT 61

Query: 78 AGQERFRTITQSYYRSANGVII 99
          AGQE F  IT++YYR A   ++
Sbjct: 62 AGQEEFDAITKAYYRGAQACVL 83

>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 =  170 bits (433), Expect = 2e-53
 Identities = 46/86 (53%), Positives = 63/86 (73%)

Query: 14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
              YD LFK+VLIGD GVGK+ ++ RF   +F   + +TIGV+F+ +T+ I+GK++K Q
Sbjct: 6  YGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQ 65

Query: 74 IWDTAGQERFRTITQSYYRSANGVII 99
          IWDTAGQER+R IT +YYR A G +I
Sbjct: 66 IWDTAGQERYRAITSAYYRGAVGALI 91

>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 =  169 bits (431), Expect = 2e-53
 Identities = 45/82 (54%), Positives = 64/82 (78%)

Query: 18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
          YD+LFKVVLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ +++ +DGK +K QIWDT
Sbjct: 2  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61

Query: 78 AGQERFRTITQSYYRSANGVII 99
          AGQER+R IT +YYR A G ++
Sbjct: 62 AGQERYRRITSAYYRGAVGALL 83

>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 =  167 bits (425), Expect = 1e-52
 Identities = 36/84 (42%), Positives = 50/84 (59%)

Query: 16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
           +     K+VL+GD G GK+ +V RF    FVE   +TIG  F  +T+ ++   VK +IW
Sbjct: 7  GNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIW 66

Query: 76 DTAGQERFRTITQSYYRSANGVII 99
          DTAGQER+ ++   YYR A   II
Sbjct: 67 DTAGQERYHSLAPMYYRGAAAAII 90

>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 =  168 bits (428), Expect = 1e-52
 Identities = 40/107 (37%), Positives = 55/107 (51%), Gaps = 3/107 (2%)

Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
                  FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +
Sbjct: 9   QGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNV 68

Query: 75  WDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVT 118
           WDTAGQE+F  +   YY  A   II  +VTS   Y    NWH+  V 
Sbjct: 69  WDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR 115

>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 =  166 bits (423), Expect = 1e-52
 Identities = 50/81 (61%), Positives = 63/81 (77%)

Query: 19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
          D + K++LIGD GVGK+C++ RF    F      TIG+DF +KTV+I+GKKVKLQIWDTA
Sbjct: 1  DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60

Query: 79 GQERFRTITQSYYRSANGVII 99
          GQERFRTIT +YYR A G+I+
Sbjct: 61 GQERFRTITTAYYRGAMGIIL 81

>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 =  165 bits (421), Expect = 3e-52
 Identities = 36/83 (43%), Positives = 57/83 (68%)

Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
              LFKV+L+GD GVGK+ +++R+ +  F  +  +TIGV+F  K + +DG  V +QIWD
Sbjct: 3  GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWD 62

Query: 77 TAGQERFRTITQSYYRSANGVII 99
          TAGQERFR++   +YR ++  ++
Sbjct: 63 TAGQERFRSLRTPFYRGSDCCLL 85

>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 =  167 bits (424), Expect = 4e-52
 Identities = 34/109 (31%), Positives = 54/109 (49%), Gaps = 4/109 (3%)

Query: 14  QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGV-DFSMKTVNIDGKKVKL 72
             +  +  +K+ LIGD GVGKT  ++R   G F +    T+G  +  +  ++  G  +K 
Sbjct: 4   SMERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKF 63

Query: 73  QIWDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQAVT 118
            +WDTAGQE+   +   YY  A+G I+  +VTS         W K+   
Sbjct: 64  NVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQA 112

>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 =  164 bits (417), Expect = 2e-51
 Identities = 37/98 (37%), Positives = 46/98 (46%)

Query: 2   SSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMK 61
           S    +         S     KV L+GD GVGK+ +V RF    F      TIG  F  K
Sbjct: 4   SHHHHHHSSGLVPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTK 63

Query: 62  TVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
           TV    +  K  IWDTAGQERF ++   YYR +   +I
Sbjct: 64  TVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVI 101

>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 =  164 bits (417), Expect = 2e-51
 Identities = 43/115 (37%), Positives = 68/115 (59%), Gaps = 13/115 (11%)

Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-------- 66
           D  YD+L K + +GD GVGKT V++++  G F  K   T+G+DF  K V           
Sbjct: 5   DGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAV 64

Query: 67  --GKKVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQA 116
             G+++ LQ+WDTAG ERFR++T +++R A G ++  ++T+ + +   RNW  Q 
Sbjct: 65  GRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQL 119

>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 =  164 bits (418), Expect = 3e-51
 Identities = 48/133 (36%), Positives = 74/133 (55%), Gaps = 17/133 (12%)

Query: 1   MSSSLTNDHPNTFQ----DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGV 56
           M SS  + H ++         YD+L K++ +GD GVGKT  ++R+    F  K   T+G+
Sbjct: 1   MGSSHHHHHHSSGLVPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGI 60

Query: 57  DFSMKTVNIDGK----------KVKLQIWDTAGQERFRTITQSYYRSANGVII--EVTSV 104
           DF  K V  + +          KV LQ+WDTAGQERFR++T +++R A G ++  ++TS 
Sbjct: 61  DFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQ 120

Query: 105 E-YCYQRNWHKQA 116
           + +   RNW  Q 
Sbjct: 121 QSFLNVRNWMSQL 133

>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 =  163 bits (415), Expect = 6e-51
 Identities = 34/84 (40%), Positives = 55/84 (65%)

Query: 16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIW 75
               L KV+++GD GVGKT +++++ +  F  +   TIG DF  K V +D + V +QIW
Sbjct: 3  SRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIW 62

Query: 76 DTAGQERFRTITQSYYRSANGVII 99
          DTAGQERF+++  ++YR A+  ++
Sbjct: 63 DTAGQERFQSLGVAFYRGADCCVL 86

>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 =  161 bits (409), Expect = 2e-50
 Identities = 28/84 (33%), Positives = 43/84 (51%), Gaps = 1/84 (1%)

Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK-KVKLQIW 75
          S+    K+V++GD   GKT +   F    F ++   TIG+DF ++ + + G   V LQIW
Sbjct: 2  SHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIW 61

Query: 76 DTAGQERFRTITQSYYRSANGVII 99
          D  GQ     +   Y   A GV++
Sbjct: 62 DIGGQTIGGKMLDKYIYGAQGVLL 85

>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 =  160 bits (406), Expect = 6e-50
 Identities = 34/85 (40%), Positives = 52/85 (61%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
            +    FK+V +G+  VGKT ++ RF    F      TIG+DF  KT+ ++ + V+LQ+
Sbjct: 8  FGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQL 67

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAGQERFR++  SY R +   ++
Sbjct: 68 WDTAGQERFRSLIPSYIRDSTVAVV 92

>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 =  161 bits (409), Expect = 6e-50
 Identities = 33/85 (38%), Positives = 51/85 (60%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
            +    FK+V +G+  VGKT ++ RF    F      TIG+DF  KT+ ++ + V+LQ+
Sbjct: 10 FGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQL 69

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
          WDTAG ERFR++  SY R +   ++
Sbjct: 70 WDTAGLERFRSLIPSYIRDSTVAVV 94

>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 =  158 bits (402), Expect = 2e-49
 Identities = 35/78 (44%), Positives = 42/78 (53%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           KV L+GD GVGK+ ++ RF    F      TIG  F  KTV    +  K  IWDTAG E
Sbjct: 7  LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66

Query: 82 RFRTITQSYYRSANGVII 99
          RFR +   YYR +   II
Sbjct: 67 RFRALAPMYYRGSAAAII 84

>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 =  157 bits (400), Expect = 6e-49
 Identities = 37/104 (35%), Positives = 65/104 (62%), Gaps = 4/104 (3%)

Query: 16  DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK-VKLQI 74
                + KV+++GD GVGKT ++HR+ +  + ++   TIG DF  K V +DG K   +Q+
Sbjct: 3   SRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQV 62

Query: 75  WDTAGQERFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           WDTAGQERF+++  ++YR A+  ++  +VT+   +   ++W  +
Sbjct: 63  WDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDE 106

>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 =  157 bits (399), Expect = 7e-49
 Identities = 37/78 (47%), Positives = 50/78 (64%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAGQE
Sbjct: 7  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66

Query: 82 RFRTITQSYYRSANGVII 99
          R+ ++   YYR A   I+
Sbjct: 67 RYHSLAPMYYRGAQAAIV 84

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  158 bits (402), Expect = 7e-49
 Identities = 21/89 (23%), Positives = 42/89 (47%), Gaps = 4/89 (4%)

Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRF--RSGDFVEKTGNTIGVDFSMKTVNIDGKKVKL 72
           D +     KV ++G+  VGK+ ++  F  +   F++    T GV+  +  V I    V +
Sbjct: 14  DITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSV 73

Query: 73  QIW--DTAGQERFRTITQSYYRSANGVII 99
           +++  DTAG + ++     Y+      I+
Sbjct: 74  ELFLLDTAGSDLYKEQISQYWNGVYYAIL 102

>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 =  146 bits (369), Expect = 2e-44
 Identities = 41/97 (42%), Positives = 59/97 (60%), Gaps = 3/97 (3%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K+VL+G+  VGK+ +V RF S DF E    TIG  F  + V I+   VK +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63

Query: 82  RFRTITQSYYRSANGVII--EVTSVE-YCYQRNWHKQ 115
           RF ++   YYR+A   ++  +VT  + +   R+W K+
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKE 100

>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 =  141 bits (358), Expect = 1e-42
 Identities = 19/103 (18%), Positives = 43/103 (41%), Gaps = 9/103 (8%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGN--TIGVDFSMKTVNIDGKK---VKLQIWD 76
            K++++G+ G GKT ++ +       +      T+G+D     + I  K+   + L +WD
Sbjct: 3   MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62

Query: 77  TAGQERFRTITQSYYRSANGVII--EVTSVEYCYQ--RNWHKQ 115
            AG+E F +    +       +   +++  +      + W   
Sbjct: 63  FAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFN 105

>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 =  136 bits (344), Expect = 2e-40
 Identities = 19/91 (20%), Positives = 38/91 (41%), Gaps = 1/91 (1%)

Query: 10  PNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK 69
            N +     D +FKV+L+G+ GVGK+ +   F               D   + + +D ++
Sbjct: 12  ENLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEE 71

Query: 70  VKLQIWDTAGQERFR-TITQSYYRSANGVII 99
           V L ++D   Q      +     ++ +  +I
Sbjct: 72  VTLVVYDIWEQGDAGGWLRDHCLQTGDAFLI 102

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  134 bits (339), Expect = 2e-39
 Identities = 36/140 (25%), Positives = 52/140 (37%), Gaps = 40/140 (28%)

Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVK----- 71
                +K VL+G+  VGK+ +V R     F E T  TIG  F    VN++   +K     
Sbjct: 3   EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNN 62

Query: 72  --------------------------------LQIWDTAGQERFRTITQSYYRSANGVII 99
                                             IWDTAGQER+ +I   YYR A   I+
Sbjct: 63  EKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIV 122

Query: 100 --EVTSVE-YCYQRNWHKQA 116
             ++++       + W  Q 
Sbjct: 123 VFDISNSNTLDRAKTWVNQL 142

>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 =  129 bits (326), Expect = 8e-38
 Identities = 30/85 (35%), Positives = 48/85 (56%), Gaps = 1/85 (1%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
            +   L KV+++G  GVGK+ +  +F   +FVE    T    +  K V +DG++V++ I
Sbjct: 12 SQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDI 70

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
           DTAGQE +  I  +Y+RS  G + 
Sbjct: 71 LDTAGQEDYAAIRDNYFRSGEGFLC 95

>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 =  130 bits (328), Expect = 8e-38
 Identities = 30/86 (34%), Positives = 49/86 (56%), Gaps = 1/86 (1%)

Query: 14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQ 73
          +  +   L KV+++G  GVGK+ +  +F   +FVE    T    +  K V +DG++V++ 
Sbjct: 7  KGQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQID 65

Query: 74 IWDTAGQERFRTITQSYYRSANGVII 99
          I DTAGQE +  I  +Y+RS  G + 
Sbjct: 66 ILDTAGQEDYAAIRDNYFRSGEGFLC 91

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  127 bits (322), Expect = 2e-37
 Identities = 17/80 (21%), Positives = 35/80 (43%), Gaps = 1/80 (1%)

Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          +FKV+L+G+ GVGK+ +   F               D   + + +D ++V L ++D   Q
Sbjct: 2  VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61

Query: 81 ERFR-TITQSYYRSANGVII 99
                +     ++ +  +I
Sbjct: 62 GDAGGWLQDHCLQTGDAFLI 81

>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 =  126 bits (318), Expect = 1e-36
 Identities = 29/85 (34%), Positives = 44/85 (51%), Gaps = 1/85 (1%)

Query: 15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
          D       K+V++G  GVGK+ +  +F    FV     TI  D   K  ++DG   +L I
Sbjct: 3  DPPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDI 61

Query: 75 WDTAGQERFRTITQSYYRSANGVII 99
           DTAGQE F  + + Y R+ +G ++
Sbjct: 62 LDTAGQEEFGAMREQYMRAGHGFLL 86

>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 =  126 bits (318), Expect = 2e-36
 Identities = 26/89 (29%), Positives = 41/89 (46%), Gaps = 3/89 (3%)

Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
                ++VV+ G  GVGK+ +V RF  G F +    TI   +  + ++ D     LQI D
Sbjct: 4   EQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITD 62

Query: 77  TAGQERFRTITQSYYRSANGVII--EVTS 103
           T G  +F  + +      +  I+   VTS
Sbjct: 63  TTGSHQFPAMQRLSISKGHAFILVFSVTS 91

>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 =  124 bits (315), Expect = 2e-36
 Identities = 30/79 (37%), Positives = 47/79 (59%), Gaps = 1/79 (1%)

Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          L KV+++G  GVGK+ +  +F   +FVE    T    +  K V +DG++V++ I DTAGQ
Sbjct: 4  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQ 62

Query: 81 ERFRTITQSYYRSANGVII 99
          E +  I  +Y+RS  G + 
Sbjct: 63 EDYAAIRDNYFRSGEGFLC 81

>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 =  123 bits (312), Expect = 7e-36
 Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          ++V + G  GVGK+ +V RF  G F E    T+   +  + ++ D     LQI DT G  
Sbjct: 4  YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSH 62

Query: 82 RFRTITQSYYRSANGVII 99
          +F  + +      +  I+
Sbjct: 63 QFPAMQRLSISKGHAFIL 80

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  123 bits (312), Expect = 2e-35
 Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 1/90 (1%)

Query: 10  PNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK 69
              FQ        KVV++G   VGKT + H+F  G+F E    T+   +S K V +   +
Sbjct: 13  NLYFQGMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYS-KIVTLGKDE 71

Query: 70  VKLQIWDTAGQERFRTITQSYYRSANGVII 99
             L + DTAGQ+ +  +  S+    +G ++
Sbjct: 72  FHLHLVDTAGQDEYSILPYSFIIGVHGYVL 101

>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 =  121 bits (307), Expect = 4e-35
 Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +     FV++   TI   +  K V IDG+   L I DTAGQE
Sbjct: 4  YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62

Query: 82 RFRTITQSYYRSANGVII 99
           +  +   Y R+  G + 
Sbjct: 63 EYSAMRDQYMRTGEGFLC 80

>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 =  121 bits (307), Expect = 4e-35
 Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 3/84 (3%)

Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           ++KV+L+G  GVGK+ +   F  G          G  +  +++ +DG++  L ++D   Q
Sbjct: 2   VYKVLLLGAPGVGKSALARIF-GGVEDGPEAEAAGHTYD-RSIVVDGEEASLMVYDIWEQ 59

Query: 81  ERFRTITQSYYRSANGVIIEVTSV 104
           +  R +        +  +I V SV
Sbjct: 60  DGGRWLPGHCMAMGDAYVI-VYSV 82

>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 =  121 bits (306), Expect = 5e-35
 Identities = 28/78 (35%), Positives = 45/78 (57%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +F  G FVEK   TI   +  K V +D ++  L+I DTAG E
Sbjct: 4  YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTE 62

Query: 82 RFRTITQSYYRSANGVII 99
          +F  +   Y ++  G  +
Sbjct: 63 QFTAMRDLYMKNGQGFAL 80

>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 =  121 bits (306), Expect = 7e-35
 Identities = 29/83 (34%), Positives = 45/83 (54%), Gaps = 1/83 (1%)

Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
               +K+V++GD GVGK+ +  +F    FV+    TI  D  +K   ID +   L + D
Sbjct: 14 ENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTEIDNQWAILDVLD 72

Query: 77 TAGQERFRTITQSYYRSANGVII 99
          TAGQE F  + + Y R+ +G +I
Sbjct: 73 TAGQEEFSAMREQYMRTGDGFLI 95

>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 =  120 bits (304), Expect = 1e-34
 Identities = 29/89 (32%), Positives = 47/89 (52%), Gaps = 3/89 (3%)

Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
                 K+ ++G   VGK+ +  +F  G FV+    TI   F+ K + ++G++  LQ+ D
Sbjct: 2   PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVD 60

Query: 77  TAGQERFRTITQSYYRSANGVII--EVTS 103
           TAGQ+ +    Q+Y    NG I+   VTS
Sbjct: 61  TAGQDEYSIFPQTYSIDINGYILVYSVTS 89

>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 =  120 bits (302), Expect = 3e-34
 Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +     FV++   TI   +  K V IDG+   L I DTAGQE
Sbjct: 5  YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63

Query: 82 RFRTITQSYYRSANGVII 99
           +  +   Y R+  G + 
Sbjct: 64 EYSAMRDQYMRTGEGFLC 81

>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 =  117 bits (297), Expect = 1e-33
 Identities = 30/78 (38%), Positives = 47/78 (60%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +KVV++G  GVGK+ +  +F +G F+EK   TI  DF  K + +D     L+I DTAG E
Sbjct: 4  YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 82 RFRTITQSYYRSANGVII 99
          +F ++   Y ++  G I+
Sbjct: 63 QFASMRDLYIKNGQGFIL 80

>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 =  118 bits (299), Expect = 1e-33
 Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          +K+V++G  GVGK+ +  +     FV++   TI   +  K V IDG+   L I DTAGQE
Sbjct: 22 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 80

Query: 82 RFRTITQSYYRSANGVII 99
           +  +   Y R+  G + 
Sbjct: 81 EYSAMRDQYMRTGEGFLC 98

>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 =  116 bits (293), Expect = 5e-33
 Identities = 25/86 (29%), Positives = 42/86 (48%), Gaps = 4/86 (4%)

Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           L++VVL+GD GVGKT +   F      +     +G D   +T+ +DG+   L + DT   
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEA 62

Query: 81  ERFRTIT--QSYYRSANGVIIEVTSV 104
           E+       +S  +  +  +I V S+
Sbjct: 63  EKLDKSWSQESCLQGGSAYVI-VYSI 87

>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 =  114 bits (288), Expect = 5e-32
 Identities = 27/103 (26%), Positives = 44/103 (42%), Gaps = 3/103 (2%)

Query: 2   SSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMK 61
           S          FQ  +     K+ + G  GVGK+ +V RF +  F+ +   T+   +   
Sbjct: 9   SGVDLGTENLYFQSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-H 67

Query: 62  TVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV 104
              ID + V ++I DTAGQE        + R   G ++ V  +
Sbjct: 68  QATIDDEVVSMEILDTAGQEDTIQREG-HMRWGEGFVL-VYDI 108

>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 =  109 bits (275), Expect = 3e-30
 Identities = 18/79 (22%), Positives = 36/79 (45%), Gaps = 7/79 (8%)

Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
            ++ ++GD   GK+ ++HRF +G +      T    +  K + +DG+   + I + AG 
Sbjct: 7  ELRLGVLGDARSGKSSLIHRFLTGSYQVLE-KTESEQYK-KEMLVDGQTHLVLIREEAGA 64

Query: 81 ERFRTITQSYYRSANGVII 99
             +     +   A+ VI 
Sbjct: 65 PDAK-----FSGWADAVIF 78

>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 =  110 bits (276), Expect = 4e-30
 Identities = 22/95 (23%), Positives = 45/95 (47%), Gaps = 9/95 (9%)

Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRS--GDFVEKTGNTIGVDFSMKTVNIDGKK--- 69
            +S +  ++VVLIG+ GVGK+ + + F              +G D   +T+ +DG+    
Sbjct: 31  SESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMVDGESATI 89

Query: 70  VKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV 104
           + L +W+  G+  +  +     +  +  +I V S+
Sbjct: 90  ILLDMWENKGENEW--LHDHCMQVGDAYLI-VYSI 121

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  115 bits (290), Expect = 5e-30
 Identities = 21/94 (22%), Positives = 36/94 (38%), Gaps = 8/94 (8%)

Query: 14  QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTV--------NI 65
           +   +    KV LIGD   GKT ++ +     F  K   T G++   K          + 
Sbjct: 34  EALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDD 93

Query: 66  DGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
           + K+     WD  GQE      Q +   ++  ++
Sbjct: 94  ELKECLFHFWDFGGQEIMHASHQFFMTRSSVYML 127

>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 =  108 bits (273), Expect = 8e-30
 Identities = 21/93 (22%), Positives = 44/93 (47%), Gaps = 7/93 (7%)

Query: 16  DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKK---VK 71
           +     ++VVLIG+ GVGK+ + + F       +     +G D   +T+ +DG+    + 
Sbjct: 1   EFGMTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIIL 60

Query: 72  LQIWDTAGQERFRTITQSYYRSANGVIIEVTSV 104
           L +W+  G+  +  +     +  +  +I V S+
Sbjct: 61  LDMWENKGENEW--LHDHCMQVGDAYLI-VYSI 90

>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 =  108 bits (271), Expect = 2e-29
 Identities = 16/78 (20%), Positives = 36/78 (46%), Gaps = 2/78 (2%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            + ++G  G GK+ +  +F +  F+ +    +   +S     +D + V L++ DTA  +
Sbjct: 22 VNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYS-SEETVDHQPVHLRVMDTADLD 80

Query: 82 RFRTITQSYYRSANGVII 99
            R   + Y   A+  ++
Sbjct: 81 TPRNCER-YLNWAHAFLV 97

>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 =  106 bits (268), Expect = 4e-29
 Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 8/84 (9%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            KV ++G+   GK+ +VHR+ +G +V++  +  G  F  K + +DG+   L I D  G  
Sbjct: 21  LKVGIVGNLSSGKSALVHRYLTGTYVQEE-SPEGGRFK-KEIVVDGQSYLLLIRDEGGPP 78

Query: 82  RFRTITQSYYRSANGVIIEVTSVE 105
             +     +    + V+  V S+E
Sbjct: 79  ELQ-----FAAWVDAVVF-VFSLE 96

>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 = 95.1 bits (237), Expect = 1e-24
 Identities = 24/99 (24%), Positives = 49/99 (49%), Gaps = 1/99 (1%)

Query: 1   MSSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSM 60
              + ++ +    + ++     K+V++GD  VGKTC++  F  G+       T+  +FS 
Sbjct: 3   AMLAFSDMNTGAGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS- 61

Query: 61  KTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
             +    ++  L +WDTAGQE +  +    Y  ++ V++
Sbjct: 62  HVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLL 100

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score = 87.9 bits (218), Expect = 1e-21
 Identities = 28/78 (35%), Positives = 44/78 (56%), Gaps = 1/78 (1%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            KVVL+GD G GKT ++  F  G F E    T+   + +  + + GK V L IWDTAGQ+
Sbjct: 35  VKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVN-LQVKGKPVHLHIWDTAGQD 93

Query: 82  RFRTITQSYYRSANGVII 99
            +  +   +Y  A+ +++
Sbjct: 94  DYDRLRPLFYPDASVLLL 111

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C Length = 182

 Score = 86.7 bits (215), Expect = 2e-21
 Identities = 29/78 (37%), Positives = 42/78 (53%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V +GD  VGKTC++  + S  F      T+  +FS   V ++G  V L +WDTAGQE
Sbjct: 9  IKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSA-NVVVNGATVNLGLWDTAGQE 67

Query: 82 RFRTITQSYYRSANGVII 99
           +  +    YR A+  I+
Sbjct: 68 DYNRLRPLSYRGADVFIL 85

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score = 83.6 bits (207), Expect = 3e-20
 Identities = 22/77 (28%), Positives = 43/77 (55%), Gaps = 1/77 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K+V++GD   GKT ++H F    F E    T+  +++  +  ID ++++L +WDT+G   
Sbjct: 9  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLWDTSGSPY 67

Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y  ++ V+I
Sbjct: 68 YDNVRPLSYPDSDAVLI 84

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A* Length = 214

 Score = 84.2 bits (208), Expect = 4e-20
 Identities = 21/99 (21%), Positives = 44/99 (44%), Gaps = 1/99 (1%)

Query: 1   MSSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSM 60
            SS   N +             K+VL+GD   GKT ++       + E    T+  +++ 
Sbjct: 7   HSSGRENLYFQGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA 66

Query: 61  KTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
             +  + ++V+L +WDT+G   +  +    Y  ++ V++
Sbjct: 67  -CLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLL 104

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score = 83.7 bits (207), Expect = 4e-20
 Identities = 27/78 (34%), Positives = 41/78 (52%), Gaps = 1/78 (1%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K V++GD  VGKTC++  + +  F  +   T+  D     V +DGK V L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 89

Query: 82  RFRTITQSYYRSANGVII 99
            +  +    Y   +  +I
Sbjct: 90  DYDRLRPLSYPQTDVFLI 107

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ... Length = 186

 Score = 82.9 bits (205), Expect = 5e-20
 Identities = 27/77 (35%), Positives = 41/77 (53%), Gaps = 1/77 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K V++GD  VGKTC++  + +  F  +   T+  D     V +DGK V L +WDTAGQE 
Sbjct: 7  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 65

Query: 83 FRTITQSYYRSANGVII 99
          +  +    Y   +  +I
Sbjct: 66 YDRLRPLSYPQTDVSLI 82

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score = 83.3 bits (206), Expect = 7e-20
 Identities = 23/85 (27%), Positives = 46/85 (54%), Gaps = 1/85 (1%)

Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
           D + +   K+V++GD   GKT ++H F    F E    T+  +++  +  ID ++++L +
Sbjct: 22  DPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSL 80

Query: 75  WDTAGQERFRTITQSYYRSANGVII 99
           WDT+G   +  +    Y  ++ V+I
Sbjct: 81  WDTSGSPYYDNVRPLSYPDSDAVLI 105

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 207

 Score = 82.9 bits (205), Expect = 1e-19
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+V++GD   GKTC++  F   +F E    T+  ++    + +DGK+V+L +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVAD-IEVDGKQVELALWDTAGQED 85

Query: 83  FRTITQSYYRSANGVII 99
           +  +    Y   + +++
Sbjct: 86  YDRLRPLSYPDTDVILM 102

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score = 82.4 bits (204), Expect = 1e-19
 Identities = 29/78 (37%), Positives = 43/78 (55%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V +GD  VGKTC++  + S  F      T+  +FS   V +DG+ V L +WDTAGQE
Sbjct: 10 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVAVDGQIVNLGLWDTAGQE 68

Query: 82 RFRTITQSYYRSANGVII 99
           +  +    YR A+  ++
Sbjct: 69 DYSRLRPLSYRGADIFVL 86

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ... Length = 201

 Score = 80.9 bits (200), Expect = 4e-19
 Identities = 25/77 (32%), Positives = 44/77 (57%), Gaps = 1/77 (1%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+V++GD   GKTC++  F    F E    T+  +  +  + +DGK+V+L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVDGKQVELALWDTAGQED 85

Query: 83  FRTITQSYYRSANGVII 99
           +  +    Y   + +++
Sbjct: 86  YDRLRPLSYPDTDVILM 102

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 79.8 bits (197), Expect = 1e-18
 Identities = 25/77 (32%), Positives = 42/77 (54%), Gaps = 1/77 (1%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          K VL+GD  VGKT +V  + +  +  +   T   D     V++DG+ V+LQ+ DTAGQ+ 
Sbjct: 22 KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAVVSVDGRPVRLQLCDTAGQDE 80

Query: 83 FRTITQSYYRSANGVII 99
          F  +    Y + +  ++
Sbjct: 81 FDKLRPLCYTNTDIFLL 97

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score = 79.5 bits (196), Expect = 1e-18
 Identities = 25/78 (32%), Positives = 42/78 (53%), Gaps = 1/78 (1%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           K V++GD  VGKTC++  + +  F E+   T+  D    +V + GK+  L ++DTAGQE
Sbjct: 19 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQE 77

Query: 82 RFRTITQSYYRSANGVII 99
           +  +    Y   +  +I
Sbjct: 78 DYDRLRPLSYPMTDVFLI 95

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A* Length = 188

 Score = 71.1 bits (175), Expect = 1e-15
 Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 6/78 (7%)

Query: 22 FKVVLIG-DCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           ++ L+G     GKT  V+   SG F E    T+G  F+M+ +      V +++WD  GQ
Sbjct: 23 MELTLVGLQ-YSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITK--GNVTIKLWDIGGQ 77

Query: 81 ERFRTITQSYYRSANGVI 98
           RFR++ + Y R  + ++
Sbjct: 78 PRFRSMWERYCRGVSAIV 95

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 70.2 bits (172), Expect = 4e-15
 Identities = 18/89 (20%), Positives = 32/89 (35%), Gaps = 11/89 (12%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGN----------TIGVDFSMKTV-NIDGKKV 70
           FK+V  G    GKT  +    S     + G           T+  DF    +  + G K 
Sbjct: 15  FKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKT 74

Query: 71  KLQIWDTAGQERFRTITQSYYRSANGVII 99
           +  ++   GQ  +    +   R  +G++ 
Sbjct: 75  RFHLYTVPGQVFYNASRKLILRGVDGIVF 103

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A* Length = 171

 Score = 69.1 bits (170), Expect = 5e-15
 Identities = 26/77 (33%), Positives = 44/77 (57%), Gaps = 5/77 (6%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +++++G  G GKT +++R + G+ V  T  TIG  F+++TV    K +K Q+WD  G  
Sbjct: 8  MRILILGLDGAGKTTILYRLQVGEVVT-TIPTIG--FNVETVTY--KNLKFQVWDLGGLT 62

Query: 82 RFRTITQSYYRSANGVI 98
            R   + YY + + VI
Sbjct: 63 SIRPYWRCYYSNTDAVI 79

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 67.3 bits (165), Expect = 4e-14
 Identities = 26/77 (33%), Positives = 44/77 (57%), Gaps = 5/77 (6%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +++++G  G GKT +++R + G+ V  T  TIG  F+++T++   K +KL +WD  GQ 
Sbjct: 19 LRILILGLDGAGKTTILYRLQIGEVVT-TKPTIG--FNVETLSY--KNLKLNVWDLGGQT 73

Query: 82 RFRTITQSYYRSANGVI 98
            R   + YY     VI
Sbjct: 74 SIRPYWRCYYADTAAVI 90

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ... Length = 164

 Score = 66.4 bits (163), Expect = 5e-14
 Identities = 22/76 (28%), Positives = 46/76 (60%), Gaps = 5/76 (6%)

Query: 23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
          +++++G    GKT ++++ + G+ V  T  TIG  F+++TV    K +   +WD  GQ++
Sbjct: 2  RILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEY--KNISFTVWDVGGQDK 56

Query: 83 FRTITQSYYRSANGVI 98
           R + + Y+++  G+I
Sbjct: 57 IRPLWRHYFQNTQGLI 72

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 66.9 bits (164), Expect = 6e-14
 Identities = 22/77 (28%), Positives = 40/77 (51%), Gaps = 5/77 (6%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +V+++G    GKT +++R   GD V  T  T+G   +++T+    K +  ++WD  GQ 
Sbjct: 23 IRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVG--VNLETLQY--KNISFEVWDLGGQT 77

Query: 82 RFRTITQSYYRSANGVI 98
            R   + Y+   + VI
Sbjct: 78 GVRPYWRCYFSDTDAVI 94

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A* Length = 181

 Score = 66.5 bits (163), Expect = 8e-14
 Identities = 23/78 (29%), Positives = 41/78 (52%), Gaps = 7/78 (8%)

Query: 22 FKVVLIG-DCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           +++L+G D   GKT ++ +  S D       T G  F++K+V    +  KL +WD  GQ
Sbjct: 17 VRILLLGLD-NAGKTTLLKQLASEDISH-ITPTQG--FNIKSVQS--QGFKLNVWDIGGQ 70

Query: 81 ERFRTITQSYYRSANGVI 98
           + R   +SY+ + + +I
Sbjct: 71 RKIRPYWRSYFENTDILI 88

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A* Length = 186

 Score = 66.1 bits (162), Expect = 1e-13
 Identities = 23/77 (29%), Positives = 43/77 (55%), Gaps = 5/77 (6%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +++++G    GKT ++ +F   D       T+G  F++KT+    +  KL IWD  GQ+
Sbjct: 19 LRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLG--FNIKTLEH--RGFKLNIWDVGGQK 73

Query: 82 RFRTITQSYYRSANGVI 98
            R+  ++Y+ S +G+I
Sbjct: 74 SLRSYWRNYFESTDGLI 90

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A* Length = 181

 Score = 65.7 bits (161), Expect = 1e-13
 Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 5/77 (6%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           KV+++G    GKT ++++F   + V  T  TIG   +++ + I     +  +WD  GQE
Sbjct: 22 HKVIIVGLDNAGKTTILYQFSMNEVVH-TSPTIG--SNVEEIVI--NNTRFLMWDIGGQE 76

Query: 82 RFRTITQSYYRSANGVI 98
            R+   +YY +   VI
Sbjct: 77 SLRSSWNTYYTNTEFVI 93

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 65.0 bits (159), Expect = 2e-13
 Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 5/77 (6%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           KV+++G    GKT ++++F   + V  T  TIG   +++ + I     +  +WD  GQE
Sbjct: 17 HKVIIVGLDNAGKTTILYQFSMNEVVH-TSPTIG--SNVEEIVI--NNTRFLMWDIGGQE 71

Query: 82 RFRTITQSYYRSANGVI 98
            R+   +YY +   VI
Sbjct: 72 SLRSSWNTYYTNTEFVI 88

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B* Length = 190

 Score = 64.9 bits (159), Expect = 3e-13
 Identities = 16/77 (20%), Positives = 34/77 (44%), Gaps = 7/77 (9%)

Query: 23 KVVLIG-DCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          K++ +G D   GKT ++H  ++         T     + + + I    +K   +D  G  
Sbjct: 25 KLLFLGLD-NAGKTTLLHMLKNDRLAT-LQPTWH--PTSEELAI--GNIKFTTFDLGGHI 78

Query: 82 RFRTITQSYYRSANGVI 98
          + R + + Y+   NG++
Sbjct: 79 QARRLWKDYFPEVNGIV 95

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 63.8 bits (156), Expect = 7e-13
 Identities = 19/79 (24%), Positives = 39/79 (49%), Gaps = 7/79 (8%)

Query: 22 FKVVLIG-DCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG 79
            V+ +G D   GKT ++++ +  +   +    TIG  FS++        +   ++D +G
Sbjct: 22 VHVLCLGLD-NSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKS--SSLSFTVFDMSG 76

Query: 80 QERFRTITQSYYRSANGVI 98
          Q R+R + + YY+    +I
Sbjct: 77 QGRYRNLWEHYYKEGQAII 95

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A* Length = 192

 Score = 63.1 bits (154), Expect = 1e-12
 Identities = 22/77 (28%), Positives = 46/77 (59%), Gaps = 5/77 (6%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G+ V  T  TIG  F+++TV    K +   +WD  GQ+
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEY--KNICFTVWDVGGQD 84

Query: 82  RFRTITQSYYRSANGVI 98
           + R + + Y+++  G+I
Sbjct: 85  KIRPLWRHYFQNTQGLI 101

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A* Length = 198

 Score = 63.1 bits (154), Expect = 2e-12
 Identities = 16/77 (20%), Positives = 35/77 (45%), Gaps = 7/77 (9%)

Query: 23 KVVLIG-DCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          K+V +G D   GKT ++H  +     +    T+    + + + I    +    +D  G  
Sbjct: 27 KLVFLGLD-NAGKTTLLHMLKDDRLGQ-HVPTLH--PTSEELTI--AGMTFTTFDLGGHI 80

Query: 82 RFRTITQSYYRSANGVI 98
          + R + ++Y  + NG++
Sbjct: 81 QARRVWKNYLPAINGIV 97

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2 Length = 214

 Score = 61.3 bits (149), Expect = 9e-12
 Identities = 25/101 (24%), Positives = 41/101 (40%), Gaps = 7/101 (6%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI-DGKKVKLQIWDTAGQE 81
            V+ +G C  GKT +  R  +G + + T  +I    S     + + +   L + D  G E
Sbjct: 9   AVLFVGLCDSGKTLLFVRLLTGQYRD-TQTSIT--DSSAIYKVNNNRGNSLTLIDLPGHE 65

Query: 82  RFR-TITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFD 121
             R  +   +  SA  V+  V S    +QR     A  L+ 
Sbjct: 66  SLRFQLLDRFKSSARAVVFVVDSAA--FQREVKDVAEFLYQ 104

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 56.7 bits (137), Expect = 3e-10
 Identities = 11/80 (13%), Positives = 26/80 (32%), Gaps = 10/80 (12%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
            +++ G    GKT ++    +      T  +      +   +       + + D  G  +
Sbjct: 50  SIIIAGPQNSGKTSLLTLLTTDSVRP-TVVSQE---PLSAADY--DGSGVTLVDFPGHVK 103

Query: 83  FRTITQSYYRS----ANGVI 98
            R     Y ++      G+I
Sbjct: 104 LRYKLSDYLKTRAKFVKGLI 123

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 218

 Score = 55.5 bits (134), Expect = 1e-09
 Identities = 11/79 (13%), Positives = 26/79 (32%), Gaps = 10/79 (12%)

Query: 24 VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF 83
          +++ G    GKT ++    +      T  +      +   +       + + D  G  + 
Sbjct: 15 IIIAGPQNSGKTSLLTLLTTDSVRP-TVVSQE---PLSAADY--DGSGVTLVDFPGHVKL 68

Query: 84 RTITQSYYRSA----NGVI 98
          R     Y ++      G+I
Sbjct: 69 RYKLSDYLKTRAKFVKGLI 87

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 56.4 bits (136), Expect = 1e-09
 Identities = 26/97 (26%), Positives = 51/97 (52%), Gaps = 5/97 (5%)

Query: 2   SSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMK 61
           SS   N  P   +        +++++G    GKT ++++ + G+ V  T  TIG  F+++
Sbjct: 146 SSPAQNWTPPQPRGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVE 202

Query: 62  TVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI 98
           TV    K +   +WD  GQ++ R + + Y+++  G+I
Sbjct: 203 TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLI 237

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 54.2 bits (130), Expect = 2e-09
 Identities = 18/83 (21%), Positives = 31/83 (37%), Gaps = 11/83 (13%)

Query: 23  KVVLIGDCGVGKTC----VVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
           +++L+G    GK+     V H+    +      +T         ++     V  QIWD  
Sbjct: 22  RILLMGLRRSGKSSIQKVVFHKMSPNE-TLFLESTNK--IYKDDISNSSF-VNFQIWDFP 77

Query: 79  GQERFRTIT---QSYYRSANGVI 98
           GQ  F   T   +  +R    +I
Sbjct: 78  GQMDFFDPTFDYEMIFRGTGALI 100

>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 = 54.2 bits (130), Expect = 5e-09
 Identities = 22/98 (22%), Positives = 34/98 (34%), Gaps = 25/98 (25%)

Query: 28  GDCGVGKTCVVHRFRSG---DFVEKTGNTIG-VDFSMKTVNID--------------GKK 69
           G CG+GK+C+ +RF      +F     + +   DF  + VN D                +
Sbjct: 35  GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94

Query: 70  VKLQIW-------DTAGQERFRTITQSYYRSANGVIIE 100
            K+ I        D   Q    T  Q Y + A    + 
Sbjct: 95  CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLA 132

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 52.3 bits (125), Expect = 3e-08
 Identities = 21/103 (20%), Positives = 37/103 (35%), Gaps = 17/103 (16%)

Query: 23  KVVLIGDCGVGKTC----VVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
           K++L+G  G GK+     +   + + D   + G TI V+     +   G  + L +WD  
Sbjct: 5   KLLLMGRSGSGKSSMRSIIFSNYSAFD-TRRLGATIDVEH--SHLRFLGN-MTLNLWDCG 60

Query: 79  GQERF-----RTITQSYYRSANGVIIEVTSVEYCYQRNWHKQA 116
           GQ+ F            ++    +I     V         K  
Sbjct: 61  GQDVFMENYFTKQKDHIFQMVQVLIH----VFDVESTEVLKDI 99

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Length = 332

 Score = 50.4 bits (120), Expect = 1e-07
 Identities = 28/99 (28%), Positives = 45/99 (45%), Gaps = 1/99 (1%)

Query: 1   MSSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSM 60
               +         D++   L K V++GD  VGKTC++  + +  F  +   T+  D   
Sbjct: 135 REGVMLIKKTAENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYS 193

Query: 61  KTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII 99
             V +DGK V L +WDTAG E +  +    Y   +  +I
Sbjct: 194 ANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLI 232

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	231
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.94
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.94
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.94
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.94
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.94
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.94
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.94
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.93
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.93
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.93
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.93
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.93
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.93
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.93
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.93
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.93
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.93
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.93
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.93
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.93
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.93
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.92
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.92
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.92
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.92
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.92
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.92
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.92
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.92
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.92
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.92
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.92
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.92
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.92
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.92
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.92
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.92
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.92
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.92
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.92
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.92
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.92
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.91
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.91
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.91
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.91
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.91
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.91
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.91
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.91
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.91
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.91
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.9
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.9
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.9
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.9
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.9
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.9
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.9
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.9
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.9
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.9
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.9
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.9
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.9
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.9
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.9
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.9
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.9
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.9
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.89
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.89
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.89
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.89
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.89
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.89
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.89
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.89
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.89
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.89
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.89
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.88
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.88
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.88
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.87
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.87
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.86
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.86
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.86
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.86
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.86
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.86
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.86
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.76
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.85
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.85
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.84
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.84
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.84
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.83
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.83
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.83
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.83
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.81
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.81
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.81
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.8
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.8
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.79
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.76
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.75
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.74
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.74
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.74
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.73
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.72
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.72
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.72
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.69
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.69
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.68
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.68
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.67
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.63
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.63
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.62
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.62
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.61
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.61
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.6
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.59
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.59
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.58
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.58
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.57
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.54
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.53
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.53
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.51
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.5
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.48
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.47
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.47
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.47
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.47
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.46
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.46
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.45
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.45
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.45
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.45
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.43
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.42
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.41
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.39
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.39
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.39
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.39
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.39
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.38
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.38
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.37
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.35
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.35
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.34
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.33
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.33
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.33
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.33
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.32
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.31
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.3
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.3
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.29
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.28
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.27
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.27
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.26
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.24
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.23
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.22
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.21
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.21
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.18
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.18
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.17
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.15
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.15
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.13
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.13
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.06
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.04
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.01
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	98.94
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.92
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	98.78
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	98.76
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.61
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.61
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	98.48
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	98.47
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.35
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.29
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	98.19
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.19
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.16
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	98.1
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.05
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.01
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	98.0
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.84
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	97.68
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	97.65
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.55
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.51
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	97.5
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.49
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.48
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	97.18
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.65
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.59
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	96.57
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.55
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.46
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.39
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.35
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	96.32
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.32
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.27
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.24
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.24
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.2
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.2
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.16
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.12
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.11
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.05
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.03
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.99
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.99
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.98
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.87
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.85
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.81
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.81
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.79
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.78
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.76
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.74
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.74
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.74
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.72
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.71
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.67
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.67
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.66
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.65
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.64
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	95.64
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.63
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.62
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.61
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.6
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.56
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.53
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.52
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.51
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.5
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.47
1g6h_A	257	High-affinity branched-chain amino acid transport	95.47
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.47
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.47
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.47
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	95.46
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	95.45
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.45
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.45
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.45
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.43
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.43
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.42
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.42
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.41
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.41
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.41
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.4
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.39
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.38
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.38
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	95.38
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.38
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.36
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.34
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.34
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.33
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.31
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.3
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.29
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.29
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.28
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.27
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.25
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	95.25
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.24
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	95.24
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.23
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.18
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.18
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.18
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.17
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.17
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.16
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.15
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	95.14
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.13
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.11
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.1
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.1
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.1
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.1
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.09
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.09
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.97
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.96
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.95
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	94.94
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.93
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	94.93
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.91
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	94.9
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.89
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	94.86
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.85
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.84
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	94.84
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	94.84
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.81
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.8
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.8
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	94.79
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	94.78
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	94.76
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.75
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.74
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.74
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.73
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	94.73
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	94.72
1via_A	175	Shikimate kinase; structural genomics, transferase	94.71
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	94.7
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.67
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	94.66
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.66
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.64
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.63
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	94.63
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.6
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.57
3bos_A	242	Putative DNA replication factor; P-loop containing	94.57
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	94.55
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	94.52
2cvh_A	220	DNA repair and recombination protein RADB; filamen	94.47
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	94.47
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	94.46
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.46
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	94.44
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.42
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.42
2chg_A	226	Replication factor C small subunit; DNA-binding pr	94.4
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.38
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.37
2vli_A	183	Antibiotic resistance protein; transferase, tunica	94.37
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.36
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.35
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	94.35
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	94.34
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	94.32
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.32
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	94.32
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	94.31
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	94.3
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.3
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	94.27
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	94.25
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.22
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	94.22
2og2_A	359	Putative signal recognition particle receptor; nuc	94.18
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.14
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.13
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.12
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.11
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	94.09
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	94.09
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	94.05
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	94.04
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.02
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	93.98
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	93.98
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.98
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	93.97
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.95
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	93.94
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	93.92
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	93.89
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	93.81
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	93.8
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	93.8
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	93.74
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.73
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	93.65
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	93.64
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.62
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	93.57
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	93.57
1p9r_A	418	General secretion pathway protein E; bacterial typ	93.56
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	93.54
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	93.52
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	93.51
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	93.43
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	93.39
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	93.38
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	93.36
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	93.34
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	93.32
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	93.3
2fna_A	357	Conserved hypothetical protein; structural genomic	93.3
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.26
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	93.2
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	93.19
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	93.13
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	93.06
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	93.06
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	93.05
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	93.0
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.0
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	92.95
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	92.94
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	92.83
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	92.77
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	92.73
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	92.68
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	92.68
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	92.66
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	92.61
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	92.57
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	92.53
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	92.52
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	92.48
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	92.48
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	92.47
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	92.43
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	92.39
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	92.38
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	92.38
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	92.32
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	92.31
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	92.22
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	92.22
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	92.2
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	92.19
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	92.15
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	92.15
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	92.11
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	92.09
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	92.09
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	92.07
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	92.07
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	91.97
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	91.94
1tue_A	212	Replication protein E1; helicase, replication, E1E	91.94
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	91.89
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	91.88
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	91.86
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	91.77
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	91.66
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	91.66
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	91.59
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	91.59
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	91.58
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	91.56
3co5_A	143	Putative two-component system transcriptional RES	91.54
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	91.52
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	91.48
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	91.47
2qgz_A	308	Helicase loader, putative primosome component; str	91.44
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	91.38
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	91.3
2r44_A	331	Uncharacterized protein; putative ATPase, structur	91.25
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	91.24
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	91.24
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	91.24
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	91.22
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	91.22
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	91.21
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	91.18
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	91.1
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	91.06
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	91.04
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	91.03

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=1.1e-32  Score=226.57  Aligned_cols=156  Identities=24%  Similarity=0.376  Sum_probs=129.7

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      +.+.|||+|||++|||||||++||+.+.|...|.||++.++..+.+.+++..+.++||||+|+++|+.+++.|+++++++
T Consensus        10 P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~   89 (216)
T 4dkx_A           10 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAA   89 (216)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEE
T ss_pred             CCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEE
Confidence            44679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      ++|||++   ||+++..|+..+.+......+++++|||.|+...+.....+.. .+...+..+.|+++  ..|++++|..
T Consensus        90 ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~F~~  169 (216)
T 4dkx_A           90 VVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRR  169 (216)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHH
T ss_pred             EEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHHHHH
Confidence            9999999   9999999999999998888889999999999887765554443 66677777888877  7789999987


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       170 i~  171 (216)
T 4dkx_A          170 VA  171 (216)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.94  E-value=2.7e-26  Score=183.32  Aligned_cols=173  Identities=32%  Similarity=0.491  Sum_probs=132.6

Q ss_pred             CCCCCCCCCCCCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc
Q psy5781           1 MSSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus         1 ~s~~~~~~~~~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~   80 (231)
                      |-+|+.--++...........+||+|+|++|||||||+++|+++.+...+.+|++.++..+.+.+++..+.+.|||++|+
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~   80 (191)
T 2a5j_A            1 MGSSHHHHHHSSGLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQ   80 (191)
T ss_dssp             ---------CCCCCCCTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTG
T ss_pred             CCccccccccccccccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCc
Confidence            34455555666667778889999999999999999999999999998888999998888888999999999999999999


Q ss_pred             cccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCc
Q psy5781          81 ERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPF  156 (231)
Q Consensus        81 ~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~  156 (231)
                      +.+..++..+++++|++|+|||++   +++.+..|+.++.+......+.++++||.|+...+.....+.. .+...+..+
T Consensus        81 ~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~  160 (191)
T 2a5j_A           81 ESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIF  160 (191)
T ss_dssp             GGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEE
T ss_pred             hhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEE
Confidence            999999999999999999999999   8999999999999887777788899999999765443222222 344445556


Q ss_pred             ccccc--ccchhhhhhhhc
Q psy5781         157 PQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       157 ~ev~~--~~nv~e~f~~~~  173 (231)
                      .+++.  ..|++++|...+
T Consensus       161 ~~~Sa~~~~gi~~l~~~l~  179 (191)
T 2a5j_A          161 METSAKTACNVEEAFINTA  179 (191)
T ss_dssp             EEECTTTCTTHHHHHHHHH
T ss_pred             EEEeCCCCCCHHHHHHHHH
Confidence            66655  567777776644

>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=99.94  E-value=4.5e-26  Score=184.57  Aligned_cols=160  Identities=40%  Similarity=0.650  Sum_probs=133.5

Q ss_pred             CCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccC
Q psy5781          14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRS   93 (231)
Q Consensus        14 ~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~   93 (231)
                      .++.+++.+||+++|++|||||||+++|+++.+...+.+|++.++..+.+.+++..+.+.|||++|++++..++..++++
T Consensus        19 ~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~   98 (201)
T 2ew1_A           19 SMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRS   98 (201)
T ss_dssp             ---CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTT
T ss_pred             CccccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhc
Confidence            35567889999999999999999999999999998899999999998999999999999999999999999999999999


Q ss_pred             CcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhh
Q psy5781          94 ANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGH  167 (231)
Q Consensus        94 ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e  167 (231)
                      +|++|+|||++   +|+.+..|+.++.+......+.++++||.|+...+.....+.. .+...+..+.+++.  ..|+++
T Consensus        99 ~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~  178 (201)
T 2ew1_A           99 ANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEK  178 (201)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            99999999999   9999999999999887777778899999999765443222222 34445566667665  567888


Q ss_pred             hhhhhc
Q psy5781         168 AFSTSL  173 (231)
Q Consensus       168 ~f~~~~  173 (231)
                      +|...+
T Consensus       179 l~~~l~  184 (201)
T 2ew1_A          179 LFLDLA  184 (201)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            877654

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.94  E-value=5.4e-26  Score=183.54  Aligned_cols=159  Identities=43%  Similarity=0.697  Sum_probs=122.6

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      .++.++.+||+|+|++|||||||+++|+++.|...+.+|++.++..+.+.+++..+.+.|||++|++++..++..+++++
T Consensus        23 ~~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  102 (201)
T 2hup_A           23 DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSA  102 (201)
T ss_dssp             ---CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTC
T ss_pred             ccccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhC
Confidence            45567889999999999999999999999999888999999889888999999999999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCC-Ccccccc--ccchhh
Q psy5781          95 NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAM-PFPQVWP--CLKFGH  167 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~-~~~ev~~--~~nv~e  167 (231)
                      |++|+|||++   +|+.+..|+.++.+......+.++++||.|+...+.....+.. .+...+. .+.+++.  ..|+++
T Consensus       103 d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~  182 (201)
T 2hup_A          103 NGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEE  182 (201)
T ss_dssp             SEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHHH
Confidence            9999999999   8999999999999887777778899999999765443322222 3444454 5566655  567888


Q ss_pred             hhhhhc
Q psy5781         168 AFSTSL  173 (231)
Q Consensus       168 ~f~~~~  173 (231)
                      +|...+
T Consensus       183 l~~~l~  188 (201)
T 2hup_A          183 AFLRVA  188 (201)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            887654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.94  E-value=1.8e-25  Score=178.34  Aligned_cols=163  Identities=36%  Similarity=0.624  Sum_probs=137.5

Q ss_pred             CCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhc
Q psy5781          11 NTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSY   90 (231)
Q Consensus        11 ~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~   90 (231)
                      ++.+....+..+||+++|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||++|++.+..++..+
T Consensus         6 ~~~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   85 (196)
T 3tkl_A            6 MSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY   85 (196)
T ss_dssp             -----CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHH
T ss_pred             hhhcCcccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHH
Confidence            34445566789999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccc
Q psy5781          91 YRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLK  164 (231)
Q Consensus        91 ~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~n  164 (231)
                      ++.+|++|+|||++   +++.+..|+..+.+......+.++++||.|+...+........ .+...+.++.+++.  ..|
T Consensus        86 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g  165 (196)
T 3tkl_A           86 YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATN  165 (196)
T ss_dssp             HTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTT
T ss_pred             HhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCC
Confidence            99999999999999   8999999999999988878888899999999876554332222 45566677777766  667


Q ss_pred             hhhhhhhhc
Q psy5781         165 FGHAFSTSL  173 (231)
Q Consensus       165 v~e~f~~~~  173 (231)
                      ++++|...+
T Consensus       166 v~~l~~~l~  174 (196)
T 3tkl_A          166 VEQSFMTMA  174 (196)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888887765

>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=99.94  E-value=7e-26  Score=180.83  Aligned_cols=173  Identities=34%  Similarity=0.535  Sum_probs=130.5

Q ss_pred             CCCCCCCCCCCCCC----CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEee
Q psy5781           1 MSSSLTNDHPNTFQ----DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD   76 (231)
Q Consensus         1 ~s~~~~~~~~~~~~----~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D   76 (231)
                      |+|+...+++++.+    .+++++.+||+|+|++|||||||+++|+++.+...+.+|++.++..+.+.+++..+.+.|||
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D   80 (193)
T 2oil_A            1 MGSSHHHHHHSSGLVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWD   80 (193)
T ss_dssp             -------------------CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEE
T ss_pred             CCCcccccccccccccccccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEe
Confidence            45555554443333    44567889999999999999999999999999988999999999888899999999999999


Q ss_pred             CCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhc
Q psy5781          77 TAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSS  152 (231)
Q Consensus        77 ~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~  152 (231)
                      ++|++++..++..+++++|++|+|||++   +++.+..|+..+........+.++++||.|+...+........ .....
T Consensus        81 t~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~  160 (193)
T 2oil_A           81 TAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENN  160 (193)
T ss_dssp             ESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHT
T ss_pred             CCCchhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHHHc
Confidence            9999999999999999999999999999   8899999999998877667778899999999765443222222 33344


Q ss_pred             CCCcccccc--ccchhhhhhhhc
Q psy5781         153 AMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       153 ~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      +..+.+++.  ..|++++|...+
T Consensus       161 ~~~~~~~Sa~~~~gi~~l~~~l~  183 (193)
T 2oil_A          161 GLLFLETSALDSTNVELAFETVL  183 (193)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHH
Confidence            555555555  456777776543

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.94  E-value=3.5e-26  Score=180.75  Aligned_cols=158  Identities=37%  Similarity=0.612  Sum_probs=105.8

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      ++.++.+||+++|++|||||||+++|+++.+...+.||++.++....+.+++..+.+.|||++|++++..++..+++++|
T Consensus         3 ~~~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   82 (183)
T 2fu5_C            3 KTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAM   82 (183)
T ss_dssp             CCCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCS
T ss_pred             cccCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCC
Confidence            34678899999999999999999999999998889999999998888999999999999999999999999999999999


Q ss_pred             EEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          96 GVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        96 ~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      ++|+|||++   +|+.+..|+.++.+......+.++++||.|+...+.....+.. .+...+.++.+++.  ..|++++|
T Consensus        83 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  162 (183)
T 2fu5_C           83 GIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAF  162 (183)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHH
Confidence            999999999   8999999999999887777788899999999765543322222 34444555666655  56777777


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       163 ~~l~  166 (183)
T 2fu5_C          163 FTLA  166 (183)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=99.94  E-value=1.7e-25  Score=178.12  Aligned_cols=163  Identities=29%  Similarity=0.465  Sum_probs=133.2

Q ss_pred             CCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhc
Q psy5781          11 NTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSY   90 (231)
Q Consensus        11 ~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~   90 (231)
                      ........++.+||+|+|++|||||||+++|+++.+...+.++++.++....+..++..+.+.|||++|++.+..++..+
T Consensus        12 ~~~~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   91 (189)
T 2gf9_A           12 SGLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAY   91 (189)
T ss_dssp             --CCCTTCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGG
T ss_pred             cCCCCcccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHh
Confidence            33334556788999999999999999999999999988899999988888888889999999999999999999999999


Q ss_pred             ccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccc
Q psy5781          91 YRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLK  164 (231)
Q Consensus        91 ~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~n  164 (231)
                      ++.+|++|+|||++   +++.+..|+..+.+......+.++++||.|+...+........ .+...+..+.+++.  ..|
T Consensus        92 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g  171 (189)
T 2gf9_A           92 YRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENIN  171 (189)
T ss_dssp             GTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBS
T ss_pred             ccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCC
Confidence            99999999999998   8999999999998887677778899999999765443222221 34445555666655  556


Q ss_pred             hhhhhhhhc
Q psy5781         165 FGHAFSTSL  173 (231)
Q Consensus       165 v~e~f~~~~  173 (231)
                      ++++|...+
T Consensus       172 i~~l~~~l~  180 (189)
T 2gf9_A          172 VKQVFERLV  180 (189)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776544

>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=99.93  E-value=3.5e-25  Score=178.71  Aligned_cols=157  Identities=39%  Similarity=0.651  Sum_probs=133.1

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      +.++.+||+|+|++|||||||+++|.++.+...+.++++.++....+.+++..+.+.|||++|++.+..++..+++.+|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (206)
T 2bcg_Y            4 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHG   83 (206)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCE
Confidence            46788999999999999999999999999999999999999988899999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +|+|||++   +++.+..|+.++........+.++++||.|+...+........ .+...+.++.+++.  ..|++++|.
T Consensus        84 vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  163 (206)
T 2bcg_Y           84 IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFL  163 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999   8999999999999888777778899999999875543222222 34455666666665  567777776


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       164 ~l~  166 (206)
T 2bcg_Y          164 TMA  166 (206)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.93  E-value=6.9e-26  Score=182.62  Aligned_cols=173  Identities=35%  Similarity=0.544  Sum_probs=119.9

Q ss_pred             CCCCCCCCCCCCCC----CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEee
Q psy5781           1 MSSSLTNDHPNTFQ----DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD   76 (231)
Q Consensus         1 ~s~~~~~~~~~~~~----~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D   76 (231)
                      ||||-..++++..+    .++.++.+||+|+|++|||||||+++|+++.+...+.+|++.++....+.+++..+.+.|||
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D   80 (200)
T 2o52_A            1 MGSSHHHHHHSSGLVPRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWD   80 (200)
T ss_dssp             ---------------------CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEEC
T ss_pred             CCccccccccccccccccccccCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEc
Confidence            55555555444333    44467889999999999999999999999999888999999889888899999999999999


Q ss_pred             CCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhc
Q psy5781          77 TAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSS  152 (231)
Q Consensus        77 ~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~  152 (231)
                      ++|++.+..++..+++.+|++|+|||++   +++.+..|+.++........+.++++||.|+...+.....+.. .+...
T Consensus        81 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~  160 (200)
T 2o52_A           81 TAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQEN  160 (200)
T ss_dssp             CTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHT
T ss_pred             CCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHHHHHHHHHc
Confidence            9999999999999999999999999999   9999999999998887777778899999999755443222222 34445


Q ss_pred             CCCcccccc--ccchhhhhhhhc
Q psy5781         153 AMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       153 ~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      +..+.+++.  ..|++++|...+
T Consensus       161 ~~~~~~~SA~~g~gi~~l~~~l~  183 (200)
T 2o52_A          161 ELMFLETSALTGENVEEAFLKCA  183 (200)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHH
Confidence            555666655  567777776654

>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=99.93  E-value=3e-25  Score=175.59  Aligned_cols=159  Identities=36%  Similarity=0.618  Sum_probs=132.5

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      +++.++.+||+++|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||++|++.+..++..+++++
T Consensus         4 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   83 (186)
T 2bme_A            4 SETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGA   83 (186)
T ss_dssp             CCCCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTC
T ss_pred             ccccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcC
Confidence            34567889999999999999999999999999988999999899888999999999999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhh
Q psy5781          95 NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      |++|+|||++   +++.+..|+.++........+.++++||.|+...+.....+.. .+...+..+.+++.  ..|++++
T Consensus        84 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  163 (186)
T 2bme_A           84 AGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEA  163 (186)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHH
Confidence            9999999999   9999999999998887777788899999999755443322222 34445555666655  5567777


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |...+
T Consensus       164 ~~~l~  168 (186)
T 2bme_A          164 FVQCA  168 (186)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76654

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.93  E-value=3.6e-25  Score=173.52  Aligned_cols=158  Identities=32%  Similarity=0.609  Sum_probs=131.9

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      ...++.+||+|+|++|||||||+++|+++.+...+.+|.+.++..+.+.+++..+.+.|||++|++++..++..+++++|
T Consensus        10 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   89 (179)
T 1z0f_A           10 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAA   89 (179)
T ss_dssp             -CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCS
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCC
Confidence            44678899999999999999999999999999889999998888888899999999999999999999999999999999


Q ss_pred             EEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          96 GVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        96 ~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      ++|+|||++   +++.+..|+.++........+.++++||.|+...+.....+.. .....+.++.+++.  ..|++++|
T Consensus        90 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  169 (179)
T 1z0f_A           90 GALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAF  169 (179)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            999999999   8999999999999888777788899999999765443322222 34445556666655  56777777


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       170 ~~l~  173 (179)
T 1z0f_A          170 LEAA  173 (179)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.93  E-value=7.4e-25  Score=173.09  Aligned_cols=165  Identities=21%  Similarity=0.321  Sum_probs=131.1

Q ss_pred             CCCCCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhh
Q psy5781           8 DHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTIT   87 (231)
Q Consensus         8 ~~~~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~   87 (231)
                      ++.++.+.......+||+++|++|||||||+++|+++.+...+.+|++..+ ...+.+++..+.+.|||++|++++..++
T Consensus         5 s~~~~~~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   83 (183)
T 3kkq_A            5 SMATSAVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMR   83 (183)
T ss_dssp             ---------CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSH
T ss_pred             ccccccCCccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHH
Confidence            344455555677889999999999999999999999999999999998666 6788889999999999999999999999


Q ss_pred             hhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCccccccc
Q psy5781          88 QSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWPC  162 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~~  162 (231)
                      ..+++++|++|+|||++   +|+.+..|+..+.+... ...+.++++||.|+...+.....+.. .+...+.++.+++..
T Consensus        84 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~  163 (183)
T 3kkq_A           84 EQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAK  163 (183)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCS
T ss_pred             HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccC
Confidence            99999999999999999   99999999999987654 45557799999999775554333332 455666777777754


Q ss_pred             ---cchhhhhhhhc
Q psy5781         163 ---LKFGHAFSTSL  173 (231)
Q Consensus       163 ---~nv~e~f~~~~  173 (231)
                         .|++++|...+
T Consensus       164 ~~~~~v~~l~~~l~  177 (183)
T 3kkq_A          164 DPPLNVDKTFHDLV  177 (183)
T ss_dssp             SSCBSHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHH
Confidence               57888887654

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.93  E-value=4.3e-25  Score=171.88  Aligned_cols=157  Identities=31%  Similarity=0.461  Sum_probs=123.0

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      +.++.+||+++|++|||||||+++|+++.+...+.+|++.++....+.+++..+.+.|||++|++++..++..+++++|+
T Consensus         2 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~   81 (170)
T 1z08_A            2 SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNG   81 (170)
T ss_dssp             --CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSE
T ss_pred             CCCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCE
Confidence            34678999999999999999999999999988899999988888888899999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +++|||++   +++.+..|+..+........+.++++||.|+...+.....+.. .+...+.++.+++.  ..|++++|.
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  161 (170)
T 1z08_A           82 AILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFL  161 (170)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Confidence            99999999   8999999999998887777778899999999765443322222 34444555556655  556777776


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       162 ~l~  164 (170)
T 1z08_A          162 DLC  164 (170)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=99.93  E-value=2.9e-25  Score=177.11  Aligned_cols=160  Identities=15%  Similarity=0.166  Sum_probs=122.8

Q ss_pred             CCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcc
Q psy5781          12 TFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYY   91 (231)
Q Consensus        12 ~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~   91 (231)
                      ..........+||+++|++|||||||+++|+++.|...+.+|++.++ ...+.+++..+.+.|||++|++++..+ ..++
T Consensus        12 ~~~~~~~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~   89 (187)
T 3c5c_A           12 ENLYFQGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYL   89 (187)
T ss_dssp             --------CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHH
T ss_pred             hhHHhCCCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHH
Confidence            33344456789999999999999999999999999999999999666 456788999999999999999998875 6799


Q ss_pred             cCCcEEEEEEecC---cHhhHHHHHHHHHHhcC---CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc---
Q psy5781          92 RSANGVIIEVTSV---EYCYQRNWHKQAVTLFD---KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP---  161 (231)
Q Consensus        92 ~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~---~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~---  161 (231)
                      +++|++|+|||++   +|+++..|+.++.+...   ...+.++++||.|+...+.....+.. .+...+..+.+++.   
T Consensus        90 ~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~  169 (187)
T 3c5c_A           90 NWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLD  169 (187)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSC
T ss_pred             hhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCc
Confidence            9999999999999   99999999999988753   45667899999999765544333222 45555667777776   


Q ss_pred             ccchhhhhhhhc
Q psy5781         162 CLKFGHAFSTSL  173 (231)
Q Consensus       162 ~~nv~e~f~~~~  173 (231)
                      ..|++++|...+
T Consensus       170 g~gv~~lf~~l~  181 (187)
T 3c5c_A          170 FEHVQHVFHEAV  181 (187)
T ss_dssp             SHHHHHHHHHHH
T ss_pred             cccHHHHHHHHH
Confidence            357888887654

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.93  E-value=2.3e-26  Score=183.68  Aligned_cols=162  Identities=32%  Similarity=0.494  Sum_probs=136.0

Q ss_pred             CCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcc
Q psy5781          12 TFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYY   91 (231)
Q Consensus        12 ~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~   91 (231)
                      ....++.++.+||+|+|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||++|++.+..++..++
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            33455678899999999999999999999999999999999999889988899888889999999999999999999999


Q ss_pred             cCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccch
Q psy5781          92 RSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKF  165 (231)
Q Consensus        92 ~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv  165 (231)
                      +++|++|+|||++   +++.+..|+..+........+.++++||.|+...+........ .+...+..+.+++.  ..|+
T Consensus        94 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  173 (191)
T 3dz8_A           94 RGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISV  173 (191)
T ss_dssp             TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSH
T ss_pred             ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCCH
Confidence            9999999999999   9999999999999988777788899999999765543332222 44555666666665  5678


Q ss_pred             hhhhhhhc
Q psy5781         166 GHAFSTSL  173 (231)
Q Consensus       166 ~e~f~~~~  173 (231)
                      +++|...+
T Consensus       174 ~~l~~~l~  181 (191)
T 3dz8_A          174 RQAFERLV  181 (191)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88877654

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.93  E-value=4e-25  Score=181.07  Aligned_cols=157  Identities=34%  Similarity=0.586  Sum_probs=124.2

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      ..+..+||+|+|++|||||||+++|+++.+...+.+|++.++....+.+++..+.+.|||++|++++..++..+++.+|+
T Consensus         9 ~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   88 (223)
T 3cpj_B            9 DYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVG   88 (223)
T ss_dssp             -CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCE
T ss_pred             CCCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCE
Confidence            45778999999999999999999999999998899999999988889999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +|+|||++   +|+.+..|+.++........+.++++||.|+...+.....+.. .+...+..+.+++.  ..|++++|.
T Consensus        89 vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  168 (223)
T 3cpj_B           89 ALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFE  168 (223)
T ss_dssp             EEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999   9999999999998887767778899999999765443222222 34455566666665  567888886


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       169 ~l~  171 (223)
T 3cpj_B          169 ELI  171 (223)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.93  E-value=5.6e-26  Score=182.76  Aligned_cols=165  Identities=36%  Similarity=0.637  Sum_probs=132.7

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhh
Q psy5781          10 PNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQS   89 (231)
Q Consensus        10 ~~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~   89 (231)
                      +++.+....++.+||+|+|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||++|++++..++..
T Consensus        22 pm~~~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~  101 (199)
T 3l0i_B           22 PMSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSS  101 (199)
T ss_dssp             ---CC-CCCSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC
T ss_pred             cccccCcccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHH
Confidence            46666667788999999999999999999999999999888999998999899999999999999999999999999999


Q ss_pred             cccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--cc
Q psy5781          90 YYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CL  163 (231)
Q Consensus        90 ~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~  163 (231)
                      +++++|++|+|||++   +|+.+..|+..+........+.++++||.|+...+........ .+...+.++.+++.  ..
T Consensus       102 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~  181 (199)
T 3l0i_B          102 YYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNAT  181 (199)
T ss_dssp             --CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---H
T ss_pred             HhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCC
Confidence            999999999999999   9999999999998887777888899999999766554332222 55666777777776  67


Q ss_pred             chhhhhhhhcc
Q psy5781         164 KFGHAFSTSLA  174 (231)
Q Consensus       164 nv~e~f~~~~~  174 (231)
                      |++++|...+.
T Consensus       182 gv~~l~~~l~~  192 (199)
T 3l0i_B          182 NVEQSFMTMAA  192 (199)
T ss_dssp             HHHHHHHHHTT
T ss_pred             CHHHHHHHHHH
Confidence            88888887664

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.93  E-value=1.1e-24  Score=171.15  Aligned_cols=159  Identities=35%  Similarity=0.550  Sum_probs=126.7

Q ss_pred             CCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccC
Q psy5781          14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRS   93 (231)
Q Consensus        14 ~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~   93 (231)
                      +..+.+..+||+++|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||++|++.+..++..+++.
T Consensus         2 m~~~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   81 (181)
T 3tw8_B            2 MARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRG   81 (181)
T ss_dssp             ----CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTT
T ss_pred             CccccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhcc
Confidence            34567789999999999999999999999999988899999999998999999999999999999999999999999999


Q ss_pred             CcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhh
Q psy5781          94 ANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGH  167 (231)
Q Consensus        94 ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e  167 (231)
                      +|++|+|||++   +++.+..|+..+.+..+ ..+.++++||.|+...+........ .+...+.++.+++.  ..|+++
T Consensus        82 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  160 (181)
T 3tw8_B           82 THGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEE  160 (181)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHHHCT-TSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHH
Confidence            99999999999   99999999999988665 4556689999998765543322222 44445566666665  567777


Q ss_pred             hhhhhc
Q psy5781         168 AFSTSL  173 (231)
Q Consensus       168 ~f~~~~  173 (231)
                      +|....
T Consensus       161 l~~~l~  166 (181)
T 3tw8_B          161 MFNCIT  166 (181)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776544

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.93  E-value=3.3e-25  Score=177.44  Aligned_cols=163  Identities=33%  Similarity=0.498  Sum_probs=123.8

Q ss_pred             CCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhc
Q psy5781          11 NTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSY   90 (231)
Q Consensus        11 ~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~   90 (231)
                      .....+..+..+||+|+|++|||||||+++|+++.+...+.+|++.++....+.+++..+.+.|||++|++++..++..+
T Consensus        16 ~~~~p~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~   95 (192)
T 2il1_A           16 PRGSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAY   95 (192)
T ss_dssp             ------CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHH
T ss_pred             CCCCCcccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHH
Confidence            33445567789999999999999999999999999988899999999998999999999999999999999999999999


Q ss_pred             ccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhh-cCCCcccccc--cc
Q psy5781          91 YRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASS-SAMPFPQVWP--CL  163 (231)
Q Consensus        91 ~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~-~~~~~~ev~~--~~  163 (231)
                      ++++|++|+|||++   +++.+..|+..+........+.++++||.|+...+.....+.. .+.. .+..+.+++.  ..
T Consensus        96 ~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~  175 (192)
T 2il1_A           96 YRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNF  175 (192)
T ss_dssp             HHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTB
T ss_pred             hcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCC
Confidence            99999999999999   9999999999998888777888899999999765543322222 2322 2445555555  55


Q ss_pred             chhhhhhhhc
Q psy5781         164 KFGHAFSTSL  173 (231)
Q Consensus       164 nv~e~f~~~~  173 (231)
                      |++++|...+
T Consensus       176 gi~~l~~~l~  185 (192)
T 2il1_A          176 NVDEIFLKLV  185 (192)
T ss_dssp             SHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            7777776543

>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=99.93  E-value=1.5e-24  Score=174.39  Aligned_cols=157  Identities=30%  Similarity=0.495  Sum_probs=128.0

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      ..++.+||+|+|++|||||||+++|+++.+...+.+|++.++....+.+++..+.+.|||++|++.+..++..+++++|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (203)
T 1zbd_A            4 MFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMG   83 (203)
T ss_dssp             SCSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSE
T ss_pred             ccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCE
Confidence            45678999999999999999999999999988899999999988888999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +|+|||++   +++.+..|+..+........+.++++||.|+...+........ .+...+.++.+++.  ..|++++|.
T Consensus        84 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  163 (203)
T 1zbd_A           84 FILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFE  163 (203)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHH
Confidence            99999999   8999999999998887677778899999999765443222111 33333444555544  445666665


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       164 ~l~  166 (203)
T 1zbd_A          164 RLV  166 (203)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=99.93  E-value=8.8e-25  Score=174.03  Aligned_cols=160  Identities=31%  Similarity=0.509  Sum_probs=130.0

Q ss_pred             CCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc-hhhhhccc
Q psy5781          14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR-TITQSYYR   92 (231)
Q Consensus        14 ~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~-~~~~~~~~   92 (231)
                      ........+||+|+|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||++|++++. .++..+++
T Consensus        13 ~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   92 (189)
T 1z06_A           13 PRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYR   92 (189)
T ss_dssp             ------CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHT
T ss_pred             CCCCCCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhc
Confidence            33445678999999999999999999999999998899999999988899999999999999999999998 88999999


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--c---
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--C---  162 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~---  162 (231)
                      ++|++|+|||++   +++.+..|+.++.+.. ....+.++++||.|+...+........ .+...+.++.+++.  .   
T Consensus        93 ~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~  172 (189)
T 1z06_A           93 NVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDN  172 (189)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGG
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcc
Confidence            999999999999   8999999999998886 445667899999999765443322222 44555667777776  3   


Q ss_pred             cchhhhhhhhc
Q psy5781         163 LKFGHAFSTSL  173 (231)
Q Consensus       163 ~nv~e~f~~~~  173 (231)
                      .|++++|...+
T Consensus       173 ~~i~~l~~~l~  183 (189)
T 1z06_A          173 DHVEAIFMTLA  183 (189)
T ss_dssp             SCHHHHHHHHC
T ss_pred             cCHHHHHHHHH
Confidence            67888887765

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.92  E-value=8.2e-25  Score=174.95  Aligned_cols=159  Identities=26%  Similarity=0.369  Sum_probs=131.6

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      .+..++.+||+|+|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||++|++++..++..+++.+
T Consensus        17 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   96 (192)
T 2fg5_A           17 RGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGS   96 (192)
T ss_dssp             ----CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTC
T ss_pred             ccccCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccC
Confidence            44567889999999999999999999999999888999999998888888888899999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhh
Q psy5781          95 NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      |++|+|||++   +++.+..|+.++.+......+.++++||.|+...+.....+.. .+...+.++.+++.  ..|++++
T Consensus        97 d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  176 (192)
T 2fg5_A           97 AAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEEL  176 (192)
T ss_dssp             SEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHH
T ss_pred             CEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHH
Confidence            9999999998   8999999999999887777788899999999754443222222 44455556666665  5678888


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |....
T Consensus       177 ~~~l~  181 (192)
T 2fg5_A          177 FQGIS  181 (192)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87765

>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=99.92  E-value=1.8e-24  Score=170.14  Aligned_cols=157  Identities=26%  Similarity=0.402  Sum_probs=131.4

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .+...+||+++|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||++|++++..++..+++.+|+
T Consensus         8 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   87 (181)
T 2efe_B            8 NKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAA   87 (181)
T ss_dssp             --CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSE
T ss_pred             CCccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCE
Confidence            45678999999999999999999999999998889999988888888999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +|+|||++   +++.+..|+..+.+......+.++++||.|+...+.....+.. .....+.++.+++.  ..|++++|.
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  167 (181)
T 2efe_B           88 AIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFY  167 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHH
Confidence            99999999   8999999999999887777778899999999765543322222 34445556666665  567888887


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       168 ~l~  170 (181)
T 2efe_B          168 EIA  170 (181)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            755

>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=99.92  E-value=2.3e-24  Score=169.41  Aligned_cols=158  Identities=34%  Similarity=0.578  Sum_probs=123.4

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      +..+..+||+++|++|||||||+++|+++.+. ..+.+|++.++....+.+++..+.+.|||++|++.+..++..+++++
T Consensus         5 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~   84 (180)
T 2g6b_A            5 DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDA   84 (180)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGC
T ss_pred             ccCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCC
Confidence            45678899999999999999999999999885 56889999888888888999999999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhh
Q psy5781          95 NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      |++|+|||++   +++.+..|+.++........+.++++||.|+...+........ .+...+.++.+++.  ..|++++
T Consensus        85 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  164 (180)
T 2g6b_A           85 HALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLA  164 (180)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            9999999999   8999999999999888777788899999999865443222222 34444556666665  5677777


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |...+
T Consensus       165 ~~~l~  169 (180)
T 2g6b_A          165 FTAIA  169 (180)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76654

>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=99.92  E-value=5.3e-25  Score=179.58  Aligned_cols=161  Identities=15%  Similarity=0.221  Sum_probs=123.2

Q ss_pred             CCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhc
Q psy5781          11 NTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSY   90 (231)
Q Consensus        11 ~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~   90 (231)
                      +....+.....+||+|+|++|||||||+++|+++.|...+.||++.++ ...+.+++..+.+.|||++|++++..++..+
T Consensus        17 q~~~~~~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~   95 (214)
T 3q3j_B           17 QGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLC   95 (214)
T ss_dssp             ----------CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGG
T ss_pred             hccCCCCccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHH
Confidence            334445566789999999999999999999999999999999999766 4677788889999999999999999999999


Q ss_pred             ccCCcEEEEEEecC---cHhh-HHHHHHHHHHhcCCcceeeecccccCCCCC------------ccccccch-hhhhhcC
Q psy5781          91 YRSANGVIIEVTSV---EYCY-QRNWHKQAVTLFDKYKFGHAFSTSLAMPQV------------RPCLFHKF-GHASSSA  153 (231)
Q Consensus        91 ~~~ad~vIlV~dit---Sf~~-l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~------------~~~~~~~~-~~s~~~~  153 (231)
                      ++++|++|+|||++   +|++ +..|+..+.+... ..+.++++||.|+..+            +.....+. ..+...+
T Consensus        96 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~  174 (214)
T 3q3j_B           96 YSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLG  174 (214)
T ss_dssp             CTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCT-TSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHT
T ss_pred             cCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcC
Confidence            99999999999999   8998 6899999988764 5566789999999753            22222222 2455556


Q ss_pred             C-Ccccccc--ccc-hhhhhhhhc
Q psy5781         154 M-PFPQVWP--CLK-FGHAFSTSL  173 (231)
Q Consensus       154 ~-~~~ev~~--~~n-v~e~f~~~~  173 (231)
                      . .+.+++.  ..| ++++|...+
T Consensus       175 ~~~~~e~SA~~g~g~v~~lf~~l~  198 (214)
T 3q3j_B          175 AEIYLEGSAFTSEKSIHSIFRTAS  198 (214)
T ss_dssp             CSEEEECCTTTCHHHHHHHHHHHH
T ss_pred             CCEEEEeccCCCcccHHHHHHHHH
Confidence            5 6777776  456 888887765

>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=99.92  E-value=3.2e-25  Score=178.43  Aligned_cols=163  Identities=13%  Similarity=0.108  Sum_probs=124.2

Q ss_pred             CCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch-hhhh
Q psy5781          11 NTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT-ITQS   89 (231)
Q Consensus        11 ~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~-~~~~   89 (231)
                      ..+........+||+++|++|||||||+++|++..+...+.|+.+.++....+.+++..+.+.|||++|++.+.. ++..
T Consensus        13 ~~~~~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~   92 (195)
T 3cbq_A           13 NLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDH   92 (195)
T ss_dssp             ---------CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHH
T ss_pred             cccCCCCCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHH
Confidence            334444566789999999999999999999986554434556666677778888999999999999999998765 7888


Q ss_pred             cccCCcEEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--c
Q psy5781          90 YYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--C  162 (231)
Q Consensus        90 ~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~  162 (231)
                      |++.+|++|+|||++   +|+++..|+.++..... ...+.++++||.|+...+.....+.. .+...+..+.+++.  .
T Consensus        93 ~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~  172 (195)
T 3cbq_A           93 CLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALH  172 (195)
T ss_dssp             HHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTT
T ss_pred             hhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCC
Confidence            999999999999999   99999999999988765 35667899999999876554333322 44455566777776  6


Q ss_pred             cchhhhhhhhc
Q psy5781         163 LKFGHAFSTSL  173 (231)
Q Consensus       163 ~nv~e~f~~~~  173 (231)
                      .|++++|...+
T Consensus       173 ~~v~~lf~~l~  183 (195)
T 3cbq_A          173 HNTRELFEGAV  183 (195)
T ss_dssp             BSHHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            67888887765

>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=99.92  E-value=1.4e-24  Score=168.60  Aligned_cols=156  Identities=29%  Similarity=0.465  Sum_probs=130.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      +...+||+++|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.+||++|++++..++..+++++|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1r2q_A            3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAA   82 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEE
Confidence            45789999999999999999999999999988999999888888899999999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      |+|||++   +++.+..|+.++.+......+.++++||.|+...+.....+.. .....+..+.+++.  ..|++++|..
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~  162 (170)
T 1r2q_A           83 IVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMA  162 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            9999999   8999999999998887777778899999998765443222222 34445555666655  5677887776


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       163 i~  164 (170)
T 1r2q_A          163 IA  164 (170)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.92  E-value=1.1e-24  Score=170.71  Aligned_cols=157  Identities=25%  Similarity=0.375  Sum_probs=130.6

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .+...+||+++|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||++|++.+..++..+++++|+
T Consensus        10 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   89 (179)
T 2y8e_A           10 NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTV   89 (179)
T ss_dssp             --CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSE
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCE
Confidence            34567999999999999999999999999999899999999998999999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +|+|||++   +++.+..|+..+........+.++++||.|+...+.....+.. .....+.++.+++.  ..|++++|.
T Consensus        90 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  169 (179)
T 2y8e_A           90 AVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFR  169 (179)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999998   8999999999998887777778899999999765543322222 34444555666665  567888777


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ...
T Consensus       170 ~l~  172 (179)
T 2y8e_A          170 RVA  172 (179)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.92  E-value=2.4e-24  Score=167.40  Aligned_cols=156  Identities=28%  Similarity=0.385  Sum_probs=130.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ..+.+||+++|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.+||++|++.+..++..+++++|++
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~   82 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAA   82 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEE
Confidence            45679999999999999999999999999998999999999888899999999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      |+|||++   +++.+..|+..+.+......+.++++||.|+...+........ .....+..+.+++.  ..|++++|..
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  162 (170)
T 1z0j_A           83 IIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIE  162 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHH
Confidence            9999999   8999999999999887777778899999999765443222222 34445555666665  5677777766


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      ..
T Consensus       163 i~  164 (170)
T 1z0j_A          163 IS  164 (170)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=99.92  E-value=3.6e-24  Score=167.87  Aligned_cols=156  Identities=28%  Similarity=0.512  Sum_probs=124.2

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .+...+||+++|++|||||||+++++++.+...+.|+++.++....+.+++..+.+.|||++|++++..++..+++++|+
T Consensus         3 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   82 (177)
T 1wms_A            3 GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDC   82 (177)
T ss_dssp             CCEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSE
T ss_pred             CccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCE
Confidence            45678999999999999999999999999998899999999988899999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCccccccchh-hhh-hcCCCcccccc--ccch
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVRPCLFHKFG-HAS-SSAMPFPQVWP--CLKF  165 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~-~~~~~~~ev~~--~~nv  165 (231)
                      +++|||++   +++.+..|+.++.....    ...+.++++||.|+.. +.....+.. .+. ..+.++.+++.  ..|+
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (177)
T 1wms_A           83 CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNV  161 (177)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCcccc-cccCHHHHHHHHHhcCCceEEEEeCCCCCCH
Confidence            99999999   89999999999988765    5566789999999973 222222221 222 34455666665  5677


Q ss_pred             hhhhhhhc
Q psy5781         166 GHAFSTSL  173 (231)
Q Consensus       166 ~e~f~~~~  173 (231)
                      +++|...+
T Consensus       162 ~~l~~~l~  169 (177)
T 1wms_A          162 AAAFEEAV  169 (177)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77776543

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.92  E-value=4.7e-25  Score=177.32  Aligned_cols=159  Identities=30%  Similarity=0.405  Sum_probs=115.5

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      .......+||+|+|++|||||||+++|+++.+...+.+|++.++....+.+++..+.+.|||++|++++..++..+++++
T Consensus        22 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  101 (199)
T 2p5s_A           22 SFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKA  101 (199)
T ss_dssp             ------CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHC
T ss_pred             CcCcCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhC
Confidence            44566789999999999999999999999999888999999888888999999999999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC------Cccccccc-hhhhhhcCCCcccccc--c
Q psy5781          95 NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ------VRPCLFHK-FGHASSSAMPFPQVWP--C  162 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~------~~~~~~~~-~~~s~~~~~~~~ev~~--~  162 (231)
                      |++|+|||++   +++.+..|+..+.+......+.++++||.|+..      .+...... ...+...+.++.+++.  .
T Consensus       102 d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g  181 (199)
T 2p5s_A          102 DGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDG  181 (199)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTC
T ss_pred             CEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCC
Confidence            9999999999   899999999999888777777889999999862      22211111 1134444556666665  5


Q ss_pred             cchhhhhhhhc
Q psy5781         163 LKFGHAFSTSL  173 (231)
Q Consensus       163 ~nv~e~f~~~~  173 (231)
                      .|++++|...+
T Consensus       182 ~gv~el~~~l~  192 (199)
T 2p5s_A          182 SNIVEAVLHLA  192 (199)
T ss_dssp             TTHHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            67777776654

>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=99.92  E-value=1.6e-24  Score=172.53  Aligned_cols=161  Identities=34%  Similarity=0.521  Sum_probs=128.2

Q ss_pred             CCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhccc
Q psy5781          13 FQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYR   92 (231)
Q Consensus        13 ~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~   92 (231)
                      .+..+....+||+|+|++|||||||+++|+++.+...+.+|++.++....+.+++..+.+.|||++|++.+..++..+++
T Consensus         7 ~~~~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~   86 (195)
T 1x3s_A            7 GMDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYR   86 (195)
T ss_dssp             --CTTEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHT
T ss_pred             CcccCCCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhc
Confidence            34445667899999999999999999999999999899999999998889999999999999999999999999999999


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchh
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFG  166 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~  166 (231)
                      .+|++|+|||++   +++.+..|+.++.+... ...+.++++||.|+.................+..+.+++.  ..|++
T Consensus        87 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  166 (195)
T 1x3s_A           87 GAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFARKHSMLFIEASAKTCDGVQ  166 (195)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCCSCHHHHHHHHHHTTCEEEECCTTTCTTHH
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcccccCHHHHHHHHHHcCCEEEEecCCCCCCHH
Confidence            999999999999   89999999999987664 4556778999999954221111111234444555555555  55677


Q ss_pred             hhhhhhc
Q psy5781         167 HAFSTSL  173 (231)
Q Consensus       167 e~f~~~~  173 (231)
                      ++|...+
T Consensus       167 ~l~~~l~  173 (195)
T 1x3s_A          167 CAFEELV  173 (195)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776654

>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=99.92  E-value=2.4e-24  Score=169.83  Aligned_cols=155  Identities=21%  Similarity=0.266  Sum_probs=128.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||+++|+++.+...+.+|.+..+ ...+.+++..+.+.|||++|++++..++..+++.+|++
T Consensus         3 ~~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   81 (181)
T 3t5g_A            3 QSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGY   81 (181)
T ss_dssp             CEEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEE
Confidence            34689999999999999999999999999999999999776 67888899999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      ++|||++   +++.+..|+.++.+.... ..+.++++||.|+...+.....+.. .+...+.++.+++.  ..|++++|.
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~  161 (181)
T 3t5g_A           82 ILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFR  161 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHH
Confidence            9999999   999999999999877653 5567899999999765554333332 55566667777766  567888887


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       162 ~l~  164 (181)
T 3t5g_A          162 RII  164 (181)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            765

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.92  E-value=3.9e-25  Score=173.60  Aligned_cols=156  Identities=21%  Similarity=0.292  Sum_probs=126.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECC-eEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDG-KKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~-~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      ..+.+||+++|++|||||||+++|+++.+...+.||++.++....+.+++ ..+.+.|||++|++.+..++..+++++|+
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   82 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQG   82 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCE
Confidence            45679999999999999999999999999888889999888888888876 68999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcC---CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFD---KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGH  167 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~---~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e  167 (231)
                      +|+|||++   +++.+..|+.++.+...   ..+..++++||.|+...+.....+.. .....+.++.+++.  ..|+++
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  162 (178)
T 2hxs_A           83 VLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFL  162 (178)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHH
Confidence            99999999   89999999999987654   34446789999999765443222221 34444556666665  567777


Q ss_pred             hhhhhc
Q psy5781         168 AFSTSL  173 (231)
Q Consensus       168 ~f~~~~  173 (231)
                      +|...+
T Consensus       163 l~~~l~  168 (178)
T 2hxs_A          163 CFQKVA  168 (178)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776654

>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=99.92  E-value=1.5e-24  Score=168.67  Aligned_cols=154  Identities=37%  Similarity=0.535  Sum_probs=121.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.+||+++|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||++|++.+..++..+++++|++|+
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEE
Confidence            56999999999999999999999999988899999988888888889889999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |||++   +++.+..|+..+.+......+.++++||.|+.............+...+.++.+++.  ..|++++|....
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  160 (170)
T 1g16_A           82 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA  160 (170)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCCcCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            99999   899999999999988877778889999999943222111111234445566666665  567788776654

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.92  E-value=3.4e-24  Score=166.36  Aligned_cols=154  Identities=29%  Similarity=0.424  Sum_probs=127.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+++|++|||||||+++|+++.+...+.|+++.++....+.+++..+.+.+||++|++.+..++..+++++|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEE
Confidence            46899999999999999999999999988899999998888889999999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC---ccccccch-hhhhhcCCCcccccc--ccchhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV---RPCLFHKF-GHASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~---~~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      |||++   +++.+..|+.++.+......+.++++||.|+...   +....... ..+...+.++.+++.  ..|++++|.
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  161 (170)
T 1ek0_A           82 VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFL  161 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHH
T ss_pred             EEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999   8999999999999888777778899999998754   22211111 133444555666655  567788777


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ...
T Consensus       162 ~l~  164 (170)
T 1ek0_A          162 GIG  164 (170)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=99.92  E-value=4.3e-24  Score=169.36  Aligned_cols=158  Identities=28%  Similarity=0.469  Sum_probs=128.4

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEE-EEEEEECCe---------EEEEEEeeCCCccccch
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFS-MKTVNIDGK---------KVKLQIWDTAGQERFRT   85 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~---------~~~l~i~D~~G~~~~~~   85 (231)
                      .+.++.+||+|+|++|||||||+++|+++.+...+.+|++.++. .+.+.+++.         .+.+.|||++|++.+..
T Consensus         6 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   85 (195)
T 3bc1_A            6 GDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRS   85 (195)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHH
T ss_pred             cccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHH
Confidence            35678899999999999999999999999998889999998887 667777765         78999999999999999


Q ss_pred             hhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCccccc
Q psy5781          86 ITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVW  160 (231)
Q Consensus        86 ~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~  160 (231)
                      ++..+++++|++|+|||++   +++.+..|+..+..... ...+.++++||.|+...+........ .....+.++.+++
T Consensus        86 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  165 (195)
T 3bc1_A           86 LTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETS  165 (195)
T ss_dssp             HHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECC
T ss_pred             HHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCCEEEEE
Confidence            9999999999999999998   89999999999988776 55667899999999765443222222 3444455666666


Q ss_pred             c--ccchhhhhhhhc
Q psy5781         161 P--CLKFGHAFSTSL  173 (231)
Q Consensus       161 ~--~~nv~e~f~~~~  173 (231)
                      .  ..|++++|...+
T Consensus       166 a~~~~~v~~l~~~l~  180 (195)
T 3bc1_A          166 AANGTNISHAIEMLL  180 (195)
T ss_dssp             TTTCTTHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHH
Confidence            5  556777776644

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.92  E-value=2.8e-24  Score=171.23  Aligned_cols=158  Identities=16%  Similarity=0.193  Sum_probs=119.2

Q ss_pred             CCCCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhh
Q psy5781           9 HPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQ   88 (231)
Q Consensus         9 ~~~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~   88 (231)
                      ++...........+||+++|++|||||||+++|+++.|...+.||.+ ++ .+.+.+++..+.+.||||+|++.+.    
T Consensus         8 ~~~~~~~~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~~-~~-~~~~~~~~~~~~l~i~Dt~G~~~~~----   81 (184)
T 3ihw_A            8 SSGRENLYFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEGG-RF-KKEIVVDGQSYLLLIRDEGGPPELQ----   81 (184)
T ss_dssp             --------CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTCE-EE-EEEEEETTEEEEEEEEECSSSCCHH----
T ss_pred             CCCCCCCCCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCcc-eE-EEEEEECCEEEEEEEEECCCChhhh----
Confidence            33444445567789999999999999999999999999998999854 44 4888999999999999999998876    


Q ss_pred             hcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCC--Cccccccchh-hhhhcC-CCccccc
Q psy5781          89 SYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQ--VRPCLFHKFG-HASSSA-MPFPQVW  160 (231)
Q Consensus        89 ~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~--~~~~~~~~~~-~s~~~~-~~~~ev~  160 (231)
                       +++++|++++|||++   +|+++..|+.++.+... ...+.++++||.|+..  .+.....+.. .+...+ ..+.+++
T Consensus        82 -~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  160 (184)
T 3ihw_A           82 -FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETC  160 (184)
T ss_dssp             -HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEB
T ss_pred             -eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEec
Confidence             788999999999999   89999999999988764 4556778999999842  2222222222 344443 5666766


Q ss_pred             c--ccchhhhhhhhc
Q psy5781         161 P--CLKFGHAFSTSL  173 (231)
Q Consensus       161 ~--~~nv~e~f~~~~  173 (231)
                      .  ..|++++|...+
T Consensus       161 a~~~~gv~~lf~~l~  175 (184)
T 3ihw_A          161 ATYGLNVERVFQDVA  175 (184)
T ss_dssp             TTTTBTHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHH
Confidence            6  567888887654

>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=99.92  E-value=3.1e-24  Score=168.49  Aligned_cols=156  Identities=21%  Similarity=0.293  Sum_probs=126.7

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .....+||+++|++|||||||+++|+++.+...+.+|++.++. ..+.+++..+.+.|||++|++++..++..+++++|+
T Consensus         5 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   83 (181)
T 2fn4_A            5 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHG   83 (181)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCE
Confidence            3456799999999999999999999999999999999997665 778889989999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      +++|||++   +++.+..|+.++.+.. ....+.++++||.|+...+........ .+...+..+.+++.  ..|++++|
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~  163 (181)
T 2fn4_A           84 FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAF  163 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Confidence            99999999   8899999999996554 456667899999999765543322222 34444555666665  56778877


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ....
T Consensus       164 ~~l~  167 (181)
T 2fn4_A          164 EQLV  167 (181)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>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=99.92  E-value=7.5e-25  Score=178.10  Aligned_cols=163  Identities=30%  Similarity=0.466  Sum_probs=128.7

Q ss_pred             CCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe----------EEEEEEeeCCCc
Q psy5781          11 NTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK----------KVKLQIWDTAGQ   80 (231)
Q Consensus        11 ~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~----------~~~l~i~D~~G~   80 (231)
                      .+-..++.++.+||+|+|++|||||||+++|+++.+...+.+|++.++..+.+.+++.          .+.+.|||++|+
T Consensus        15 ~~~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~   94 (217)
T 2f7s_A           15 VPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ   94 (217)
T ss_dssp             ------CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESH
T ss_pred             CcCcCCCcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCc
Confidence            3344556788999999999999999999999999998889999999888888888776          789999999999


Q ss_pred             cccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCC
Q psy5781          81 ERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMP  155 (231)
Q Consensus        81 ~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~  155 (231)
                      +++..++..+++.+|++|+|||++   +++.+..|+.++..... ...+.++++||.|+...+........ .+...+..
T Consensus        95 ~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~  174 (217)
T 2f7s_A           95 ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIP  174 (217)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCC
T ss_pred             HhHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCCc
Confidence            999999999999999999999999   88999999988876554 55667899999999765443222222 44455666


Q ss_pred             cccccc--ccchhhhhhhhc
Q psy5781         156 FPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       156 ~~ev~~--~~nv~e~f~~~~  173 (231)
                      +.+++.  ..|++++|...+
T Consensus       175 ~~~~Sa~~g~gi~~l~~~l~  194 (217)
T 2f7s_A          175 YFETSAATGQNVEKAVETLL  194 (217)
T ss_dssp             EEEEBTTTTBTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            777665  567788877655

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.92  E-value=6.1e-24  Score=169.84  Aligned_cols=159  Identities=18%  Similarity=0.284  Sum_probs=124.2

Q ss_pred             CCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhccc
Q psy5781          13 FQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYR   92 (231)
Q Consensus        13 ~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~   92 (231)
                      .........+||+++|++|||||||+++|+++.+...+.||++.++. ..+.+++..+.+.|||++|++++..++..+++
T Consensus        15 ~~~~~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~   93 (194)
T 3reg_A           15 GKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQEEYDRLRPLSYA   93 (194)
T ss_dssp             ------CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEEECCSGGGTTTGGGGCT
T ss_pred             ccccccceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEECCCcHHHHHHhHhhcc
Confidence            33455678899999999999999999999999999999999996665 56788999999999999999999999999999


Q ss_pred             CCcEEEEEEecC---cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCC--ccccccchh-hhhhcCCC-cccccc--c
Q psy5781          93 SANGVIIEVTSV---EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQV--RPCLFHKFG-HASSSAMP-FPQVWP--C  162 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~--~~~~~~~~~-~s~~~~~~-~~ev~~--~  162 (231)
                      ++|++|+|||++   +|+.+ ..|+..+.+... ..+.++++||.|+...  +.....+.. .+...+.. +.+++.  .
T Consensus        94 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  172 (194)
T 3reg_A           94 DSDVVLLCFAVNNRTSFDNISTKWEPEIKHYID-TAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAK  172 (194)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-TSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTT
T ss_pred             CCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCC
Confidence            999999999999   88887 789998887654 4566789999998753  222222221 34444554 666665  6


Q ss_pred             cchhhhhhhhc
Q psy5781         163 LKFGHAFSTSL  173 (231)
Q Consensus       163 ~nv~e~f~~~~  173 (231)
                      .|++++|...+
T Consensus       173 ~gi~~l~~~l~  183 (194)
T 3reg_A          173 IGLNEVFEKSV  183 (194)
T ss_dssp             BSHHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            67888887654

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.92  E-value=2.7e-24  Score=166.85  Aligned_cols=153  Identities=24%  Similarity=0.430  Sum_probs=124.8

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ++.+||+++|++|||||||+++++++.+...+.+|++.++....+.+++..+.+.|||++|++++..++..+++.+|+++
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   82 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACV   82 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEE
Confidence            46799999999999999999999999999999999998898889999998999999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      +|||++   +++.+..|+..+.... ...+.++++||.|+...+.....+.. .....+.++.+++.  ..|++++|...
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  161 (168)
T 1z2a_A           83 LVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYL  161 (168)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Confidence            999999   8999999999998877 45567789999998765443222221 33444555555554  45666666554

>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=99.91  E-value=6.8e-24  Score=170.69  Aligned_cols=156  Identities=25%  Similarity=0.460  Sum_probs=125.1

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .+...+||+|+|++|||||||+++|+++.+...+.+|++.++....+.+++..+.+.|||++|++.+..++..+++++|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (207)
T 1vg8_A            4 RKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADC   83 (207)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSE
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcE
Confidence            45678999999999999999999999999999999999999998888899889999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCccccccchh-hhh-hcCCCcccccc--ccch
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVRPCLFHKFG-HAS-SSAMPFPQVWP--CLKF  165 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~-~~~~~~~ev~~--~~nv  165 (231)
                      +|+|||++   +++.+..|+.++.....    ...+.++++||.|+... ........ ... ..+.++.+++.  ..|+
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi  162 (207)
T 1vg8_A           84 CVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR-QVATKRAQAWCYSKNNIPYFETSAKEAINV  162 (207)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCC-CSCHHHHHHHHHHTTSCCEEECBTTTTBSH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCccc-ccCHHHHHHHHHhcCCceEEEEeCCCCCCH
Confidence            99999998   89999999999988764    45567899999999732 22111111 222 34455666655  5677


Q ss_pred             hhhhhhhc
Q psy5781         166 GHAFSTSL  173 (231)
Q Consensus       166 ~e~f~~~~  173 (231)
                      +++|...+
T Consensus       163 ~~l~~~l~  170 (207)
T 1vg8_A          163 EQAFQTIA  170 (207)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77776654

>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=99.91  E-value=3.2e-24  Score=175.42  Aligned_cols=157  Identities=15%  Similarity=0.136  Sum_probs=119.5

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcC--CCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc-cchhhhhccc
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSG--DFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER-FRTITQSYYR   92 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~-~~~~~~~~~~   92 (231)
                      ......+||+|||++|||||||+++|++.  .|...+ ++++.+++.+.+.+++..+.+.+|||+|++. +..+.+.|++
T Consensus        32 ~~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~  110 (211)
T 2g3y_A           32 ESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQ  110 (211)
T ss_dssp             ---CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCC
T ss_pred             ccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHh
Confidence            45567899999999999999999999964  345544 4577788888889999999999999999887 5667888999


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccch
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKF  165 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv  165 (231)
                      .+|++|+|||++   ||+.+..|...+.+.. ....+.++++||.|+...+.....+.. .+...+..+.++++  ..|+
T Consensus       111 ~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v  190 (211)
T 2g3y_A          111 VGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNV  190 (211)
T ss_dssp             CCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSH
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCH
Confidence            999999999999   9999999999887653 345667899999999765543332222 33444556666666  6788


Q ss_pred             hhhhhhhc
Q psy5781         166 GHAFSTSL  173 (231)
Q Consensus       166 ~e~f~~~~  173 (231)
                      +++|...+
T Consensus       191 ~elf~~l~  198 (211)
T 2g3y_A          191 KELFEGIV  198 (211)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887765

>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=99.91  E-value=6.7e-24  Score=171.46  Aligned_cols=158  Identities=38%  Similarity=0.581  Sum_probs=126.5

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      ....+..+||+|+|++|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||++|++.+..++..+++.+
T Consensus        14 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   93 (213)
T 3cph_A           14 GKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGA   93 (213)
T ss_dssp             ------CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTC
T ss_pred             CCCCCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccC
Confidence            34456789999999999999999999999999888999999899888999999999999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccc-hhhhhhcCCCcccccc--ccchhhh
Q psy5781          95 NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHK-FGHASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~-~~~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      |++|+|||++   +++.+..|+..+........+.++++||.|+.. +...... ...+...+.++.+++.  ..|++++
T Consensus        94 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  172 (213)
T 3cph_A           94 MGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEI  172 (213)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCSS-CCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcc-cccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            9999999999   899999999999988877778889999999943 2221111 1134444556666655  5567777


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |...+
T Consensus       173 ~~~l~  177 (213)
T 3cph_A          173 FFTLA  177 (213)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76654

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.91  E-value=5.5e-24  Score=172.67  Aligned_cols=157  Identities=17%  Similarity=0.292  Sum_probs=122.2

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      .......+||+++|++|||||||+++|+++.|...+.||++.++ ...+.+++..+.+.|||++|++.|..++..+++++
T Consensus        22 ~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  100 (205)
T 1gwn_A           22 DPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDS  100 (205)
T ss_dssp             -----CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTC
T ss_pred             CcccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCC
Confidence            34467889999999999999999999999999999999998666 46677888899999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCC------------ccccccchh-hhhhcC-CCc
Q psy5781          95 NGVIIEVTSV---EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQV------------RPCLFHKFG-HASSSA-MPF  156 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~------------~~~~~~~~~-~s~~~~-~~~  156 (231)
                      |++|+|||++   +|+++ ..|+.++.+... ..+.++++||.|+..+            +.....+.. .+...+ ..+
T Consensus       101 d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  179 (205)
T 1gwn_A          101 DAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATY  179 (205)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEE
Confidence            9999999999   89998 799999988764 4567799999999743            122111111 333333 466


Q ss_pred             cccccc---cchhhhhhhhc
Q psy5781         157 PQVWPC---LKFGHAFSTSL  173 (231)
Q Consensus       157 ~ev~~~---~nv~e~f~~~~  173 (231)
                      .+++..   .|++++|...+
T Consensus       180 ~e~SAk~~~~gv~~lf~~l~  199 (205)
T 1gwn_A          180 IECSALQSENSVRDIFHVAT  199 (205)
T ss_dssp             EECCTTTCHHHHHHHHHHHH
T ss_pred             EEeeeccCCcCHHHHHHHHH
Confidence            777763   46888886643

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.91  E-value=3.1e-24  Score=172.81  Aligned_cols=156  Identities=19%  Similarity=0.204  Sum_probs=121.9

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .....+||+|+|++|||||||+++|+++.+...+.+|.+..+ ...+.+++..+.+.|||++|++++..++..+++.+|+
T Consensus        20 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   98 (201)
T 3oes_A           20 PLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHG   98 (201)
T ss_dssp             ---CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCE
T ss_pred             CCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCE
Confidence            345789999999999999999999999999999999998666 5667777788999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      +|+|||++   +++.+..|+..+.+.... ..+.++++||.|+...+.....+.. .+...+..+.+++.  ..|++++|
T Consensus        99 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~  178 (201)
T 3oes_A           99 YVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIF  178 (201)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHHHH
Confidence            99999999   899999999999876543 4557799999999765544332222 45556667777766  56788888


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       179 ~~l~  182 (201)
T 3oes_A          179 TKVI  182 (201)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7755

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.91  E-value=1.3e-23  Score=167.79  Aligned_cols=155  Identities=19%  Similarity=0.290  Sum_probs=122.0

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .....+||+++|++|||||||+++|+++.|...+.||++..+ ...+.+++..+.+.|||++|++++..++..+++++|+
T Consensus        14 ~~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   92 (194)
T 2atx_A           14 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDV   92 (194)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCE
Confidence            345789999999999999999999999999999999998655 4667788889999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCc------------cccccchh-hhhhcCC-Cccc
Q psy5781          97 VIIEVTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVR------------PCLFHKFG-HASSSAM-PFPQ  158 (231)
Q Consensus        97 vIlV~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~------------~~~~~~~~-~s~~~~~-~~~e  158 (231)
                      +|+|||++   +|+.+. .|+..+.+..+ ..+.++++||.|+....            .....+.. .+...+. .+.+
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  171 (194)
T 2atx_A           93 FLICFSVVNPASFQNVKEEWVPELKEYAP-NVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVE  171 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEE
Confidence            99999999   899987 89999988755 45677999999997642            11111111 2333333 5556


Q ss_pred             ccc--ccchhhhhhhhc
Q psy5781         159 VWP--CLKFGHAFSTSL  173 (231)
Q Consensus       159 v~~--~~nv~e~f~~~~  173 (231)
                      ++.  ..|++++|...+
T Consensus       172 ~Sa~~g~gi~~l~~~l~  188 (194)
T 2atx_A          172 CSALTQKGLKTVFDEAI  188 (194)
T ss_dssp             CCTTTCTTHHHHHHHHH
T ss_pred             eeCCCCCCHHHHHHHHH
Confidence            655  556777776543

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.91  E-value=6.7e-24  Score=166.67  Aligned_cols=157  Identities=24%  Similarity=0.438  Sum_probs=112.2

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC-CeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-GKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      .....+||+++|++|||||||+++++++.+...+.|+++.++....+.++ +..+.+.|||++|++.+..++..+++.+|
T Consensus         4 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   83 (182)
T 1ky3_A            4 RKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGAD   83 (182)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCC
T ss_pred             ccCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCC
Confidence            35678999999999999999999999999999999999988888888887 66789999999999999999999999999


Q ss_pred             EEEEEEecC---cHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCccc-cccchh-hhh-hcCCCcccccc--cc
Q psy5781          96 GVIIEVTSV---EYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVRPC-LFHKFG-HAS-SSAMPFPQVWP--CL  163 (231)
Q Consensus        96 ~vIlV~dit---Sf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~~~-~~~~~~-~s~-~~~~~~~ev~~--~~  163 (231)
                      ++|+|||++   +++.+..|+.++.....    ...+.++++||.|+...... ...+.. .+. ..+.++.+++.  ..
T Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~  163 (182)
T 1ky3_A           84 CCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAI  163 (182)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTB
T ss_pred             EEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCC
Confidence            999999999   89999999999988764    55667899999999643322 111111 222 34455666655  56


Q ss_pred             chhhhhhhhc
Q psy5781         164 KFGHAFSTSL  173 (231)
Q Consensus       164 nv~e~f~~~~  173 (231)
                      |++++|...+
T Consensus       164 gi~~l~~~l~  173 (182)
T 1ky3_A          164 NVDTAFEEIA  173 (182)
T ss_dssp             SHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            7777776653

>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=99.91  E-value=1.2e-23  Score=163.65  Aligned_cols=153  Identities=13%  Similarity=0.106  Sum_probs=111.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch-hhhhcccCCcEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT-ITQSYYRSANGVII   99 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~-~~~~~~~~ad~vIl   99 (231)
                      .+||+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|++++.. ++..+++++|++++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~   81 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLI   81 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEE
Confidence            68999999999999999999998887776667777778888889999999999999999998876 78888999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |||++   +++.+..|+.++.+.... ..+.++++||.|+...+........ .+...+.++.+++.  ..|++++|...
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  161 (169)
T 3q85_A           82 VFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGA  161 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHHH
Confidence            99999   899999999999887763 5667799999999765544333332 45555666677666  56788887765


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       162 ~  162 (169)
T 3q85_A          162 V  162 (169)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.91  E-value=2.3e-23  Score=166.05  Aligned_cols=154  Identities=26%  Similarity=0.379  Sum_probs=123.0

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeE---------------------------
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK---------------------------   69 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~---------------------------   69 (231)
                      ++++.+||+|+|++|||||||+++|+++.+...+.+|++.++....+.+++..                           
T Consensus         3 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (208)
T 3clv_A            3 EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQ   82 (208)
T ss_dssp             CCCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC-----------------------------
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCccccccccccccccccccccccccccccc
Confidence            34567999999999999999999999999999999999988888888887765                           


Q ss_pred             ----------EEEEEeeCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          70 ----------VKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        70 ----------~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                                +.+.|||++|++.+..++..+++.+|++|+|||++   +++.+..|+.++.+...  .+.++++||.| .
T Consensus        83 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~--~piilv~NK~D-~  159 (208)
T 3clv_A           83 HNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN--YIIILVANKID-K  159 (208)
T ss_dssp             --CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--CEEEEEEECTT-C
T ss_pred             cccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC--CcEEEEEECCC-c
Confidence                      89999999999999999999999999999999999   88999999999988765  66789999999 3


Q ss_pred             CCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         137 QVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       137 ~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ..+.....+.. .....+.++.+++.  ..|++++|...+
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  199 (208)
T 3clv_A          160 NKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLA  199 (208)
T ss_dssp             C-CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHH
T ss_pred             ccccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHH
Confidence            33333222222 34445555666655  556777776543

>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=99.91  E-value=5.9e-24  Score=173.53  Aligned_cols=157  Identities=25%  Similarity=0.401  Sum_probs=129.3

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      .......+||+++|++|||||||+++|+.+.+...+.++++.++....+.+++..+.+.|||++|++.+..++..+++++
T Consensus         9 ~~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   88 (221)
T 3gj0_A            9 QGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQA   88 (221)
T ss_dssp             TTCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTC
T ss_pred             CCCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcC
Confidence            44566789999999999999999999998988888999999999988899999999999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhh
Q psy5781          95 NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      |++|+|||++   +++.+..|+..+.+... ..+.++++||.|+....... .........+..+.+++.  ..|++++|
T Consensus        89 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  166 (221)
T 3gj0_A           89 QCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRKVKA-KSIVFHRKKNLQYYDISAKSNYNFEKPF  166 (221)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHHHST-TCCEEEEEECTTSSSCSSCG-GGCCHHHHHTCEEEECBGGGTBTTTHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECCccccccccH-HHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            9999999999   99999999999998765 44567999999997644321 222234445556666655  56777777


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       167 ~~l~  170 (221)
T 3gj0_A          167 LWLA  170 (221)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=99.90  E-value=1.5e-23  Score=164.82  Aligned_cols=148  Identities=17%  Similarity=0.149  Sum_probs=113.8

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||+++|+++.|.. +.||++. .+.+.+.+++..+.+.|||++|+++     ..|++++|++|
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~i   77 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESE-QYKKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVI   77 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSS-EEEEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcce-eEEEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEE
Confidence            457999999999999999999999999987 8899984 4467888899999999999999986     46788999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcC---CcceeeecccccCCC--CCccccccchh-hhhhc-CCCcccccc--ccchh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFD---KYKFGHAFSTSLAMP--QVRPCLFHKFG-HASSS-AMPFPQVWP--CLKFG  166 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~---~~~~~~vv~~k~dl~--~~~~~~~~~~~-~s~~~-~~~~~ev~~--~~nv~  166 (231)
                      +|||++   +|+++..|+..+.....   ...+.++++||.|+.  ..+.....+.. .+... +.++.+++.  ..|++
T Consensus        78 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  157 (178)
T 2iwr_A           78 FVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVD  157 (178)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHH
Confidence            999999   89999998777766644   456788999999984  22332222222 22222 455666665  56778


Q ss_pred             hhhhhhc
Q psy5781         167 HAFSTSL  173 (231)
Q Consensus       167 e~f~~~~  173 (231)
                      ++|...+
T Consensus       158 ~lf~~l~  164 (178)
T 2iwr_A          158 RVFQEVA  164 (178)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8877654

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.90  E-value=2.8e-24  Score=172.76  Aligned_cols=155  Identities=18%  Similarity=0.276  Sum_probs=89.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC--CCCCCcccceeeEEEEEEEEECCe--EEEEEEeeCCCccccchhhhhcccC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG--DFVEKTGNTIGVDFSMKTVNIDGK--KVKLQIWDTAGQERFRTITQSYYRS   93 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~~~~pt~~~~~~~~~~~~~~~--~~~l~i~D~~G~~~~~~~~~~~~~~   93 (231)
                      ....+||+|+|++|||||||+++|+++  .+...+.+|++.++....+.+++.  .+.+.|||++|++++..++..++++
T Consensus        17 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   96 (208)
T 2yc2_C           17 ATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNG   96 (208)
T ss_dssp             EEEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhh
Confidence            357899999999999999999999998  888889999998888888999887  8999999999999999999999999


Q ss_pred             CcEEEEEEecC---cHhhHHHHHHHHHHhcC---CcceeeecccccCCCC-Cccccccchh-hhhhcCCCcccccc---c
Q psy5781          94 ANGVIIEVTSV---EYCYQRNWHKQAVTLFD---KYKFGHAFSTSLAMPQ-VRPCLFHKFG-HASSSAMPFPQVWP---C  162 (231)
Q Consensus        94 ad~vIlV~dit---Sf~~l~~w~~~i~~~~~---~~~~~~vv~~k~dl~~-~~~~~~~~~~-~s~~~~~~~~ev~~---~  162 (231)
                      +|++|+|||++   +|+.+..|+.++.....   ...+.++++||.|+.. .+.....+.. .....+..+.+++.   .
T Consensus        97 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~  176 (208)
T 2yc2_C           97 VYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPG  176 (208)
T ss_dssp             CCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC----
T ss_pred             CcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCC
Confidence            99999999999   89999999999999887   6777889999999976 4443222221 33344445555544   2


Q ss_pred             cchhhhhhhh
Q psy5781         163 LKFGHAFSTS  172 (231)
Q Consensus       163 ~nv~e~f~~~  172 (231)
                      .|++++|...
T Consensus       177 ~gi~~l~~~i  186 (208)
T 2yc2_C          177 KDADAPFLSI  186 (208)
T ss_dssp             ---CHHHHHH
T ss_pred             cCHHHHHHHH
Confidence            3566666554

>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=99.90  E-value=1.9e-23  Score=164.70  Aligned_cols=157  Identities=22%  Similarity=0.343  Sum_probs=123.5

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      ......+||+++|++|||||||+++|+++.+...+.+|.+..+ ...+.+++..+.+.|||++|++++..++..+++.+|
T Consensus        13 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   91 (187)
T 2a9k_A           13 QNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGE   91 (187)
T ss_dssp             ----CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCS
T ss_pred             CCCCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCC
Confidence            3345679999999999999999999999999999999998555 466788888899999999999999999999999999


Q ss_pred             EEEEEEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhh
Q psy5781          96 GVIIEVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        96 ~vIlV~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      ++++|||++   +++.+..|+.++.+.... ..+.++++||.|+...+.....+.. .....+.++.+++.  ..|++++
T Consensus        92 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  171 (187)
T 2a9k_A           92 GFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKV  171 (187)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHH
Confidence            999999999   889999999999888763 5567799999998765443222222 34444555555555  4567777


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |....
T Consensus       172 ~~~l~  176 (187)
T 2a9k_A          172 FFDLM  176 (187)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76543

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.90  E-value=1.9e-23  Score=167.63  Aligned_cols=121  Identities=23%  Similarity=0.314  Sum_probs=96.3

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      .......+||+++|++|||||||+++|+++.|...+.||++..+ ...+.+++..+.+.|||++|++++..++..+++++
T Consensus        14 ~~~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   92 (201)
T 2q3h_A           14 GGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNT   92 (201)
T ss_dssp             ------CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTC
T ss_pred             CCCCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCC
Confidence            34466789999999999999999999999999999999998554 56778899999999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          95 NGVIIEVTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |++|+|||++   +|+++. .|+..+....+ ..+.++++||.|+..
T Consensus        93 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~  138 (201)
T 2q3h_A           93 DIFLLCFSVVSPSSFQNVSEKWVPEIRCHCP-KAPIILVGTQSDLRE  138 (201)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHCS-SSCEEEEEECGGGGG
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEECHhhhh
Confidence            9999999999   889986 79999988765 455678999999875

>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=99.90  E-value=2.6e-23  Score=166.96  Aligned_cols=156  Identities=22%  Similarity=0.345  Sum_probs=124.2

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .....+||+|+|++|||||||+++|+++.+...+.+|.+..+ ...+.+++..+.+.|||++|++++..++..+++.+|+
T Consensus        10 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   88 (206)
T 2bov_A           10 NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEG   88 (206)
T ss_dssp             -CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCE
Confidence            345679999999999999999999999999999999998555 4677888989999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      +++|||++   +++.+..|+..+.+... ...+.++++||.|+...+.....+.. .+...+.++.+++.  ..|++++|
T Consensus        89 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  168 (206)
T 2bov_A           89 FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVF  168 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHH
Confidence            99999999   89999999999988765 35567799999999765443222222 33334445555554  45677776


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       169 ~~l~  172 (206)
T 2bov_A          169 FDLM  172 (206)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6544

>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=99.90  E-value=2.2e-23  Score=165.42  Aligned_cols=154  Identities=17%  Similarity=0.287  Sum_probs=121.7

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||+++|+++.|...+.||++.++ ...+.+++..+.+.|||++|++.|..++..+++++|++
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   82 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   82 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEE
Confidence            45679999999999999999999999999988999998665 46677888899999999999999999999999999999


Q ss_pred             EEEEecC---cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCC------------ccccccchh-hhhhcC-CCcccc
Q psy5781          98 IIEVTSV---EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQV------------RPCLFHKFG-HASSSA-MPFPQV  159 (231)
Q Consensus        98 IlV~dit---Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~------------~~~~~~~~~-~s~~~~-~~~~ev  159 (231)
                      |+|||++   +|+++ ..|+.++.+..+ ..+.++++||.|+..+            +.....+.. .+...+ ..+.++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~  161 (184)
T 1m7b_A           83 LICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIEC  161 (184)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCT-TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEe
Confidence            9999999   89998 789999987764 4567799999999753            222212111 333333 466777


Q ss_pred             ccc---cchhhhhhhhc
Q psy5781         160 WPC---LKFGHAFSTSL  173 (231)
Q Consensus       160 ~~~---~nv~e~f~~~~  173 (231)
                      +..   .|++++|...+
T Consensus       162 Sa~~~~~gi~~l~~~i~  178 (184)
T 1m7b_A          162 SALQSENSVRDIFHVAT  178 (184)
T ss_dssp             BTTTBHHHHHHHHHHHH
T ss_pred             eecCCCcCHHHHHHHHH
Confidence            663   46888886654

>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=99.90  E-value=6.1e-23  Score=163.15  Aligned_cols=164  Identities=23%  Similarity=0.269  Sum_probs=112.4

Q ss_pred             CCCCCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhh
Q psy5781           8 DHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTIT   87 (231)
Q Consensus         8 ~~~~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~   87 (231)
                      +++...........+||+++|++|||||||+++|+++.+...+.+|.+..+ ...+.+++..+.+.|||++|++++..++
T Consensus         8 ~~~~~~~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   86 (190)
T 3con_A            8 SSGRENLYFQGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMR   86 (190)
T ss_dssp             -----------CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC--------
T ss_pred             ccccccccccccceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEEECCChHHHHHHH
Confidence            333333333445679999999999999999999999999888889887544 4677888889999999999999999999


Q ss_pred             hhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccc-hhhhhhcCCCcccccc-
Q psy5781          88 QSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHK-FGHASSSAMPFPQVWP-  161 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~-~~~s~~~~~~~~ev~~-  161 (231)
                      ..+++.+|++++|||++   +++.+..|+..+..... ...+.++++||.|+... .....+ .......+.++.+++. 
T Consensus        87 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~Sa~  165 (190)
T 3con_A           87 DQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPTR-TVDTKQAHELAKSYGIPFIETSAK  165 (190)
T ss_dssp             ---CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCC-CSCHHHHHHHHHHHTCCEEECCTT
T ss_pred             HHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCcc-cCCHHHHHHHHHHcCCeEEEEeCC
Confidence            99999999999999999   88999999999988765 34567799999998752 211111 1134445556666665 


Q ss_pred             -ccchhhhhhhhc
Q psy5781         162 -CLKFGHAFSTSL  173 (231)
Q Consensus       162 -~~nv~e~f~~~~  173 (231)
                       ..|++++|...+
T Consensus       166 ~~~gi~~l~~~l~  178 (190)
T 3con_A          166 TRQGVEDAFYTLV  178 (190)
T ss_dssp             TCTTHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence             556777776654

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.90  E-value=8.9e-24  Score=171.14  Aligned_cols=153  Identities=22%  Similarity=0.317  Sum_probs=119.8

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||+++|+++.|...+.||++..+ ...+.+++..+.+.|||++|++++..++..+++++|++|
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   85 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFV   85 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEE
Confidence            4679999999999999999999999999999999998555 466778888999999999999999999999999999999


Q ss_pred             EEEecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCccc--------cccch-hhhhhcCC-Ccccccc--c
Q psy5781          99 IEVTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRPC--------LFHKF-GHASSSAM-PFPQVWP--C  162 (231)
Q Consensus        99 lV~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~--------~~~~~-~~s~~~~~-~~~ev~~--~  162 (231)
                      +|||++   +|+++. .|+..+....+ ..+.++++||.|+...+..        ...+. ..+...+. .+.+++.  .
T Consensus        86 lv~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g  164 (212)
T 2j0v_A           86 LAFSLISKASYENVLKKWMPELRRFAP-NVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQ  164 (212)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCT-TCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTTC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCCC
Confidence            999999   888886 89999988765 5567799999998664321        11111 12333342 5566655  5


Q ss_pred             cchhhhhhhhc
Q psy5781         163 LKFGHAFSTSL  173 (231)
Q Consensus       163 ~nv~e~f~~~~  173 (231)
                      .|++++|...+
T Consensus       165 ~gi~~l~~~l~  175 (212)
T 2j0v_A          165 QNVKAVFDTAI  175 (212)
T ss_dssp             TTHHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            67777776654

>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=99.90  E-value=3.1e-23  Score=160.67  Aligned_cols=153  Identities=22%  Similarity=0.295  Sum_probs=122.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+++|++|||||||+++|+++.+...+.+|.+..+. ..+.+++..+.+.+||++|++++..++..+++++|++++
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   80 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEE-EEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            3689999999999999999999999999999999986554 667788889999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhc-CCCcccccc--ccchhhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSS-AMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~-~~~~~ev~~--~~nv~e~f~~  171 (231)
                      |||++   +++.+..|+..+.+... ...+.++++||.|+...+........ .+... +.++.+++.  ..|++++|..
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (167)
T 1c1y_A           81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYD  160 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHH
Confidence            99999   88999999999988654 45567799999999765443222222 22232 455566655  5567777765


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       161 l~  162 (167)
T 1c1y_A          161 LV  162 (167)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=99.90  E-value=3.5e-23  Score=159.98  Aligned_cols=153  Identities=24%  Similarity=0.327  Sum_probs=123.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+++|++|||||||+++++++.+...+.+|.+. .....+.+++..+.+.|||++|++++..++..+++++|++++
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~   80 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCE-EEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcce-eEEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEE
Confidence            3589999999999999999999999999889999884 446778889999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |||++   +++.+..|+.++.+... ...+.++++||.|+...+........ .+...+.++.+++.  ..|++++|...
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  160 (167)
T 1kao_A           81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEI  160 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHHH
Confidence            99999   88999999999988765 45667899999998765443222222 34445666666666  45677777654


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       161 ~  161 (167)
T 1kao_A          161 V  161 (167)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.90  E-value=4.1e-23  Score=161.33  Aligned_cols=153  Identities=18%  Similarity=0.188  Sum_probs=112.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc--cchhhhhcccCCcEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER--FRTITQSYYRSANGV   97 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~--~~~~~~~~~~~ad~v   97 (231)
                      +.+||+++|++|||||||+++|.++.+...+ ++.+.+++.+.+.+++..+.+.+||++|++.  +..+...+++.+|++
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~   81 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAY   81 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-----C-CCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEE
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCcccc-CccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEE
Confidence            5799999999999999999999998876544 5677778888889999999999999999987  667788999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      ++|||++   +|+.+..|+..+.+... ...+.++++||.|+...+.....+.. .+...+.++.+++.  ..|++++|.
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  161 (175)
T 2nzj_A           82 VIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFE  161 (175)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHH
Confidence            9999999   89999999999987643 35567899999999876554332222 33444556666665  567888876


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       162 ~l~  164 (175)
T 2nzj_A          162 GVV  164 (175)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=99.90  E-value=3.7e-23  Score=159.98  Aligned_cols=153  Identities=22%  Similarity=0.363  Sum_probs=120.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+++|++|||||||+++++++.+...+.+|.+..+ ...+.+++..+.+.|||++|++++..++..+++.+|++++
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEE
Confidence            369999999999999999999999999888999998555 4567788889999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |||++   +++.+..|+.++.+... ...+.++++||.|+...+.....+.. .....+.++.+++.  ..|++++|...
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  161 (168)
T 1u8z_A           82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDL  161 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHH
Confidence            99999   88999999999988776 35667899999999765443322222 33344455555554  55677777654


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       162 ~  162 (168)
T 1u8z_A          162 M  162 (168)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.90  E-value=9.1e-23  Score=164.27  Aligned_cols=119  Identities=23%  Similarity=0.365  Sum_probs=105.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||+++|.++.+...+.||++.++. ..+.+++..+.+.|||++|++++..++..+++++|++
T Consensus        22 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  100 (201)
T 2gco_A           22 AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVI  100 (201)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEE
Confidence            356799999999999999999999999999999999987665 4578888899999999999999999999999999999


Q ss_pred             EEEEecC---cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          98 IIEVTSV---EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        98 IlV~dit---Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      |+|||++   +++.+ ..|+..+.+..+ ..+.++++||.|+...
T Consensus       101 i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~  144 (201)
T 2gco_A          101 LMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRQD  144 (201)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECGGGTTC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEecHHhhcC
Confidence            9999999   88888 689988887654 4556799999998764

>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=99.90  E-value=3.5e-23  Score=165.80  Aligned_cols=154  Identities=19%  Similarity=0.184  Sum_probs=123.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||+++|+++.+...+.+|++.++ ...+.+++..+.+.|||++|++. ..++..+++.+|++
T Consensus        25 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~i  102 (196)
T 2atv_A           25 KSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGF  102 (196)
T ss_dssp             --CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEE
Confidence            45679999999999999999999999999999999998655 46678899999999999999988 77889999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--cc-chhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CL-KFGHAF  169 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~-nv~e~f  169 (231)
                      |+|||++   +++.+..|+..+.+... ...+.++++||.|+...+.....+.. .+...+.++.+++.  .. |++++|
T Consensus       103 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~l~  182 (196)
T 2atv_A          103 VLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIF  182 (196)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHHHH
Confidence            9999999   89999999999988764 45667899999999765443222222 34444556666665  55 777777


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       183 ~~l~  186 (196)
T 2atv_A          183 YELC  186 (196)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=99.90  E-value=1e-22  Score=161.05  Aligned_cols=154  Identities=25%  Similarity=0.314  Sum_probs=121.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||+++|+++.+...+.+|.+ +.....+.+++..+.+.|||++|++.+..++..+++.+|+++
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i   80 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   80 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCC-EEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCch-heEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEE
Confidence            3579999999999999999999999999998999987 555577888999999999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      +|||++   +++.+..|+..+.+... ...+.++++||.|+.............+...+.++.+++.  ..|++++|...
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  160 (189)
T 4dsu_A           81 CVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTL  160 (189)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            999999   89999999999988665 3556778999999974332211112244455566666665  55677777654


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       161 ~  161 (189)
T 4dsu_A          161 V  161 (189)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.90  E-value=1.5e-23  Score=170.56  Aligned_cols=159  Identities=23%  Similarity=0.335  Sum_probs=123.8

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC-CeEEEEEEeeCCCccccchhhhhcccC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-GKKVKLQIWDTAGQERFRTITQSYYRS   93 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~   93 (231)
                      +......+||+++|++|||||||+++|+++.+...+.+|.+.++....+..+ +..+.+.|||++|++.+..++..++++
T Consensus         5 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   84 (218)
T 4djt_A            5 MERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIG   84 (218)
T ss_dssp             -----CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTT
T ss_pred             cccccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhc
Confidence            3456678999999999999999999999999988889999877766665554 445899999999999999999999999


Q ss_pred             CcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccch-hhhhhcCCCcccccc--ccchhh
Q psy5781          94 ANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKF-GHASSSAMPFPQVWP--CLKFGH  167 (231)
Q Consensus        94 ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~-~~s~~~~~~~~ev~~--~~nv~e  167 (231)
                      +|++|+|||++   +++++..|+..+........+.++++||.|+...+....... ......+..+.+++.  ..|+++
T Consensus        85 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~  164 (218)
T 4djt_A           85 ASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGL  164 (218)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTH
T ss_pred             CCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHH
Confidence            99999999999   999999999999999888788889999999976544322222 134445555666655  567777


Q ss_pred             hhhhhc
Q psy5781         168 AFSTSL  173 (231)
Q Consensus       168 ~f~~~~  173 (231)
                      +|...+
T Consensus       165 l~~~l~  170 (218)
T 4djt_A          165 PFLHLA  170 (218)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776654

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.90  E-value=4.7e-23  Score=164.59  Aligned_cols=161  Identities=16%  Similarity=0.186  Sum_probs=112.2

Q ss_pred             CCCCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCC-CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhh
Q psy5781           9 HPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVE-KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTIT   87 (231)
Q Consensus         9 ~~~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~-~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~   87 (231)
                      ++.+.........+||+|+|++|||||||+++|+++.+.. .+.||++.  ....+..  ..+.+.||||+|++++..++
T Consensus         5 ~~~~~~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~--~~~~~~~--~~~~~~i~Dt~G~~~~~~~~   80 (199)
T 4bas_A            5 HHHHHHMGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGY--NVETFEK--GRVAFTVFDMGGAKKFRGLW   80 (199)
T ss_dssp             -----------CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSE--EEEEEEE--TTEEEEEEEECCSGGGGGGG
T ss_pred             ccccccccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccce--eEEEEEe--CCEEEEEEECCCCHhHHHHH
Confidence            3344455667788999999999999999999999999988 88999984  3344443  45889999999999999999


Q ss_pred             hhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcC--------CcceeeecccccCCCCCccccccchhhh-----hh
Q psy5781          88 QSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFD--------KYKFGHAFSTSLAMPQVRPCLFHKFGHA-----SS  151 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~--------~~~~~~vv~~k~dl~~~~~~~~~~~~~s-----~~  151 (231)
                      ..+++++|++|+|||++   +|+.+..|+..+.+...        ...+.++++||.|+..............     ..
T Consensus        81 ~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~  160 (199)
T 4bas_A           81 ETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTAAELVEILDLTTLMGD  160 (199)
T ss_dssp             GGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCHHHHHHHHTHHHHHTT
T ss_pred             HHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCHHHHHHHhcchhhccC
Confidence            99999999999999999   89999999988876532        2566789999999987643211111100     22


Q ss_pred             cCCCcccccc--ccchhhhhhhhc
Q psy5781         152 SAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       152 ~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      .+..+.+++.  ..|++++|...+
T Consensus       161 ~~~~~~~~Sa~~g~gv~~l~~~l~  184 (199)
T 4bas_A          161 HPFVIFASNGLKGTGVHEGFSWLQ  184 (199)
T ss_dssp             SCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             CeeEEEEeeCCCccCHHHHHHHHH
Confidence            3334445544  567777777654

>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=99.90  E-value=4.3e-23  Score=168.03  Aligned_cols=154  Identities=22%  Similarity=0.326  Sum_probs=100.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||+++|+++.+...+.||++..+ ...+.+++..+.+.|||++|++++..++..+++++|++
T Consensus        31 ~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  109 (214)
T 2j1l_A           31 GVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVL  109 (214)
T ss_dssp             -CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC---------------CEEEE
T ss_pred             CcceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEE
Confidence            34679999999999999999999999999888999997544 56778899999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCcc------------ccccch-hhhhhcCC-Ccccc
Q psy5781          98 IIEVTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRP------------CLFHKF-GHASSSAM-PFPQV  159 (231)
Q Consensus        98 IlV~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~------------~~~~~~-~~s~~~~~-~~~ev  159 (231)
                      |+|||++   +|+.+. .|+..+.+... ..+.++++||.|+.....            ....+. ..+...+. .+.++
T Consensus       110 i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  188 (214)
T 2j1l_A          110 LLCFDVTSPNSFDNIFNRWYPEVNHFCK-KVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLEC  188 (214)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCS-SCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEe
Confidence            9999999   899986 79999987764 455679999999976531            111111 12333443 55566


Q ss_pred             cc--ccchhhhhhhhc
Q psy5781         160 WP--CLKFGHAFSTSL  173 (231)
Q Consensus       160 ~~--~~nv~e~f~~~~  173 (231)
                      +.  ..|++++|...+
T Consensus       189 SA~~g~gi~el~~~l~  204 (214)
T 2j1l_A          189 SARLHDNVHAVFQEAA  204 (214)
T ss_dssp             BTTTTBSHHHHHHHHH
T ss_pred             cCCCCCCHHHHHHHHH
Confidence            55  567777776644

>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=99.89  E-value=1.3e-23  Score=167.20  Aligned_cols=156  Identities=15%  Similarity=0.119  Sum_probs=117.5

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC-----------cccceeeEEEEEEE-EECCeEEEEEEeeCCCccc
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK-----------TGNTIGVDFSMKTV-NIDGKKVKLQIWDTAGQER   82 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~-----------~~pt~~~~~~~~~~-~~~~~~~~l~i~D~~G~~~   82 (231)
                      .......+||+++|++|||||||+ +++.+.+...           +.||++.++....+ .+++..+.+.||||+|+++
T Consensus         8 ~~~~~~~~ki~vvG~~~~GKssL~-~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~   86 (198)
T 3t1o_A            8 FANREINFKIVYYGPGLSGKTTNL-KWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVF   86 (198)
T ss_dssp             TTTTEEEEEEEEECSTTSSHHHHH-HHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCS
T ss_pred             hhccccccEEEEECCCCCCHHHHH-HHHHhhccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHH
Confidence            345678999999999999999999 5666666665           45688877776666 6788899999999999999


Q ss_pred             cchhhhhcccCCcEEEEEEecC---------cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcC
Q psy5781          83 FRTITQSYYRSANGVIIEVTSV---------EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSA  153 (231)
Q Consensus        83 ~~~~~~~~~~~ad~vIlV~dit---------Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~  153 (231)
                      +..++..+++++|++|+|||++         +|+.+..|+.++. ......+.++++||.|+....... .........+
T Consensus        87 ~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~-~~~~~~piilv~NK~Dl~~~~~~~-~~~~~~~~~~  164 (198)
T 3t1o_A           87 YNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYG-LTLDDVPIVIQVNKRDLPDALPVE-MVRAVVDPEG  164 (198)
T ss_dssp             CSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTT-CCTTSSCEEEEEECTTSTTCCCHH-HHHHHHCTTC
T ss_pred             HHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhc-cccCCCCEEEEEEchhcccccCHH-HHHHHHHhcC
Confidence            9999999999999999999997         6667778887773 233556677999999997642211 1111344445


Q ss_pred             C-Ccccccc--ccchhhhhhhhc
Q psy5781         154 M-PFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       154 ~-~~~ev~~--~~nv~e~f~~~~  173 (231)
                      . .+.+++.  ..|++++|...+
T Consensus       165 ~~~~~~~Sa~~~~gv~~l~~~l~  187 (198)
T 3t1o_A          165 KFPVLEAVATEGKGVFETLKEVS  187 (198)
T ss_dssp             CSCEEECBGGGTBTHHHHHHHHH
T ss_pred             CceEEEEecCCCcCHHHHHHHHH
Confidence            5 6666665  567888876654

>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=99.89  E-value=7.9e-23  Score=163.97  Aligned_cols=154  Identities=14%  Similarity=0.127  Sum_probs=116.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHc--CCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc-cchhhhhcccCCc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRS--GDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER-FRTITQSYYRSAN   95 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~--~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~-~~~~~~~~~~~ad   95 (231)
                      ...+||+++|++|||||||+++|++  ..|...+ ++++.+++.+.+.+++..+.+.+||++|++. ++.++..|++.+|
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~   82 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGD   82 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCC
Confidence            4579999999999999999999995  3455544 4466678788889999999999999999876 5667888999999


Q ss_pred             EEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhh
Q psy5781          96 GVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        96 ~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      ++++|||++   ||+.+..|+..+.+... ...+.++++||.|+..++.....+.. .+...+..+.++++  ..|++++
T Consensus        83 ~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~l  162 (192)
T 2cjw_A           83 AYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKEL  162 (192)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHHH
Confidence            999999999   99999999998887643 45667899999999765544333222 23344455666766  6788888


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |...+
T Consensus       163 f~~l~  167 (192)
T 2cjw_A          163 FEGIV  167 (192)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87765

>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=99.89  E-value=1.2e-22  Score=160.20  Aligned_cols=117  Identities=26%  Similarity=0.403  Sum_probs=104.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+++|++|||||||+++|+++.+...+.+|++..+ ...+.+++..+.+.|||++|++++..++..+++.+|++|+
T Consensus         4 ~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   82 (186)
T 1mh1_A            4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLI   82 (186)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEE
Confidence            579999999999999999999999999998999998544 5667889999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781         100 EVTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       100 V~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      |||++   +++.+. .|+..+.+..+ ..+.++++||.|+...
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~  124 (186)
T 1mh1_A           83 CFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDD  124 (186)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHST-TSCEEEEEECHHHHTC
T ss_pred             EEECCChhhHHHHHHHHHHHHHHhCC-CCCEEEEeEccccccc
Confidence            99999   888887 79999988765 5566799999998654

>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=99.89  E-value=1.7e-22  Score=161.80  Aligned_cols=158  Identities=35%  Similarity=0.602  Sum_probs=124.4

Q ss_pred             CCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCC
Q psy5781          15 DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSA   94 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~a   94 (231)
                      ..+.+..+||+++|++|||||||++++++..+...+.||++.++....+.+++..+.+.+||++|++++..++..+++.+
T Consensus        23 ~~~~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~  102 (191)
T 1oix_A           23 DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGA  102 (191)
T ss_dssp             -CCCSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTC
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcC
Confidence            44567789999999999999999999999999989999999999989999999999999999999999999999999999


Q ss_pred             cEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhh
Q psy5781          95 NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        95 d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      +++++|||++   +++++..|+.++.+.........++++|.|+...+........ .+...+..+.+++.  ..+++++
T Consensus       103 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l  182 (191)
T 1oix_A          103 VGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAA  182 (191)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            9999999998   8889999999887766666677889999998764432222111 23333334444333  3455555


Q ss_pred             hhhh
Q psy5781         169 FSTS  172 (231)
Q Consensus       169 f~~~  172 (231)
                      |...
T Consensus       183 ~~~l  186 (191)
T 1oix_A          183 FQTI  186 (191)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

>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=99.89  E-value=1.3e-22  Score=162.05  Aligned_cols=156  Identities=19%  Similarity=0.167  Sum_probs=122.8

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .....+||+++|++|||||||+++|+++.+...+.+|++..+. ..+..++..+.+.|||++|++++..++..+++.+|+
T Consensus         4 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   82 (199)
T 2gf0_A            4 EQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHA   82 (199)
T ss_dssp             -CCCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEE-EEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSE
T ss_pred             cCCCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCcccccee-EEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCE
Confidence            3456799999999999999999999999998888999985543 566778889999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      +|+|||++   +++.+..|+..+.+...  ...+.++++||.|+.............+...+..+.+++.  ..|++++|
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  162 (199)
T 2gf0_A           83 FILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQREVDTREAQAVAQEWKCAFMETSAKMNYNVKELF  162 (199)
T ss_dssp             EEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSSCSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCccccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Confidence            99999999   88899899988887664  3556789999999975222111111134444555666665  56788888


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       163 ~~l~  166 (199)
T 2gf0_A          163 QELL  166 (199)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7765

>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=99.89  E-value=1.4e-22  Score=163.93  Aligned_cols=119  Identities=22%  Similarity=0.356  Sum_probs=98.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||+++|+++.+...+.||++.++. ..+.+++..+.+.|||++|++++..++..+++++|++
T Consensus        22 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~  100 (207)
T 2fv8_A           22 SMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVI  100 (207)
T ss_dssp             GSEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEE
T ss_pred             cccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEE
Confidence            456799999999999999999999999999889999986665 4478888899999999999999999999999999999


Q ss_pred             EEEEecC---cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          98 IIEVTSV---EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        98 IlV~dit---Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      |+|||++   +++.+ ..|+..+....+ ..+.++++||.|+...
T Consensus       101 i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~  144 (207)
T 2fv8_A          101 LMCFSVDSPDSLENIPEKWVPEVKHFCP-NVPIILVANKKDLRSD  144 (207)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECGGGGGC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhhhcc
Confidence            9999999   88888 689998887654 4556799999998654

>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=99.89  E-value=1.4e-22  Score=157.22  Aligned_cols=151  Identities=15%  Similarity=0.149  Sum_probs=98.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|.+..+. .+.++.+..+ ...+.+++..+.+.+||++|++.+..++..+++.+|++++|
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   79 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC---------------CCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccce-EEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEE
Confidence            589999999999999999999976654 3556776544 46778899999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   +|+.+..|+.++.+... ...+.++++||.|+...+........ .+...+.++.+++.  ..|++++|....
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  159 (166)
T 3q72_A           80 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV  159 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHHH
Confidence            9999   99999999999987643 45567799999999876554333322 44455566666665  567788776654

>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=99.89  E-value=3.4e-22  Score=160.66  Aligned_cols=155  Identities=35%  Similarity=0.589  Sum_probs=121.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ++.+||+++|++|||||||++++++..+...+.||++.++....+.++|..+.+.+||++|++.++.++..+++.+++++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i   82 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   82 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEE
Confidence            56799999999999999999999999998889999998898889999999999999999999999989999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      +|||++   +++++..|+.++...........++++|.|+...+........ .+...+..+.+++.  ..+++++|...
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~~l  162 (199)
T 2f9l_A           83 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNI  162 (199)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            999999   8999999999887766566677899999999764433222211 33333444444433  44566666554


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       163 ~  163 (199)
T 2f9l_A          163 L  163 (199)
T ss_dssp             H
T ss_pred             H
Confidence            3

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.89  E-value=1.2e-22  Score=164.09  Aligned_cols=120  Identities=26%  Similarity=0.375  Sum_probs=103.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||+++|+++.+...+.+|++ +.....+.+++..+.+.|||++|++++..++..+++++|++
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  105 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVF  105 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSE-EEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeec-ceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEE
Confidence            45679999999999999999999999999999999997 45567778888999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          98 IIEVTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        98 IlV~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      |+|||++   +++.+. .|+..+.... ...+.++++||.|+....
T Consensus       106 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~  150 (204)
T 4gzl_A          106 LICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDK  150 (204)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccch
Confidence            9999999   899986 8999998876 455677999999987643

>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=99.89  E-value=4.3e-22  Score=153.41  Aligned_cols=152  Identities=23%  Similarity=0.289  Sum_probs=121.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++++++.+...+.++.+.. ....+..++..+.+.+||++|++++..++..+++.+|++++|
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDS-YRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceE-EEEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEE
Confidence            5899999999999999999999999988888998744 456778888899999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   +++.+..|+..+.+.... ..+.++++||.|+.................+.++.+++.  ..|++++|...+
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  160 (166)
T 2ce2_X           82 FAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV  160 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhhcccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Confidence            9999   889999999999887653 556779999999876222111112234445556666665  556777776543

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.89  E-value=2.3e-22  Score=156.22  Aligned_cols=154  Identities=18%  Similarity=0.177  Sum_probs=122.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+++|++|||||||+++++++.+...+.+|++..+. ..+..++..+.+.+||++|++++..++..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   80 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEE-EEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEE-EEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEE
Confidence            3689999999999999999999999998888899885553 566778888999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      |||++   +++.+..|+..+.+...  ...+.++++||.|+...+........ .....+.++.+++.  ..|++++|..
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (172)
T 2erx_A           81 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQE  160 (172)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHHH
Confidence            99999   88899999998887754  34567799999998765443222211 33444555566655  5678888877


Q ss_pred             hcc
Q psy5781         172 SLA  174 (231)
Q Consensus       172 ~~~  174 (231)
                      .+.
T Consensus       161 l~~  163 (172)
T 2erx_A          161 LLN  163 (172)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>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=99.88  E-value=1.2e-23  Score=165.52  Aligned_cols=153  Identities=22%  Similarity=0.311  Sum_probs=103.8

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .+.+||+++|++|||||||+++|+.+.+...+.||++..+. ..+.+++..+.+.|||++|++++..++..+++++|+++
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   84 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFI   84 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEE
Confidence            45699999999999999999999999999889999985543 44566777889999999999999999999999999999


Q ss_pred             EEEecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCccc----------cccc-hhhhhhcCC-Ccccccc-
Q psy5781          99 IEVTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVRPC----------LFHK-FGHASSSAM-PFPQVWP-  161 (231)
Q Consensus        99 lV~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~----------~~~~-~~~s~~~~~-~~~ev~~-  161 (231)
                      +|||++   +++++. .|+..+.+... ..+.++++||.|+...+..          ...+ ...+...+. .+.+++. 
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~  163 (182)
T 3bwd_D           85 LAFSLISKASYENVSKKWIPELKHYAP-GVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSK  163 (182)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCT-TCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECC
Confidence            999998   888987 79999988765 5567799999998665431          1111 113333443 5556655 


Q ss_pred             -ccchhhhhhhhc
Q psy5781         162 -CLKFGHAFSTSL  173 (231)
Q Consensus       162 -~~nv~e~f~~~~  173 (231)
                       ..|++++|...+
T Consensus       164 ~~~gi~~l~~~l~  176 (182)
T 3bwd_D          164 SQENVKGVFDAAI  176 (182)
T ss_dssp             TCTTHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence             567777776543

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.88  E-value=1.4e-22  Score=160.26  Aligned_cols=124  Identities=21%  Similarity=0.278  Sum_probs=98.0

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhh
Q psy5781          10 PNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQS   89 (231)
Q Consensus        10 ~~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~   89 (231)
                      +.........+.+||+++|++|||||||+++|+++.+ ..+.+|++..  ...+.+++  +.+.|||++|++++..++..
T Consensus        10 ~~~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~   84 (181)
T 2h17_A           10 HSSGLVPRGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSN--VEEIVINN--TRFLMWDIGGQESLRSSWNT   84 (181)
T ss_dssp             -----------CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSS--CEEEEETT--EEEEEEEESSSGGGTCGGGG
T ss_pred             ccCCccCCCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCcee--eEEEEECC--EEEEEEECCCCHhHHHHHHH
Confidence            3444455566789999999999999999999999988 6678888844  35666666  88999999999999999999


Q ss_pred             cccCCcEEEEEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCC
Q psy5781          90 YYRSANGVIIEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        90 ~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~  138 (231)
                      +++++|++|+|||++   +++.+..|+..+.+.. ....+.++++||.|+...
T Consensus        85 ~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  137 (181)
T 2h17_A           85 YYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC  137 (181)
T ss_dssp             GGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC
Confidence            999999999999999   7999999998887653 345667899999999764

>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=99.88  E-value=2.9e-22  Score=159.55  Aligned_cols=122  Identities=20%  Similarity=0.309  Sum_probs=100.9

Q ss_pred             CCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhccc
Q psy5781          13 FQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYR   92 (231)
Q Consensus        13 ~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~   92 (231)
                      .........+||+|+|++|||||||+++|+++.+...+.||++.++.  .+..+  .+.+.|||++|++++..++..+++
T Consensus        14 ~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~   89 (188)
T 1zd9_A           14 LVPRGSKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKG--NVTIKLWDIGGQPRFRSMWERYCR   89 (188)
T ss_dssp             -----CCEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEET--TEEEEEEEECCSHHHHTTHHHHHT
T ss_pred             ccccCCCCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEE--EEEeC--CEEEEEEECCCCHhHHHHHHHHHc
Confidence            33444567899999999999999999999999998889999996654  34444  478999999999999999999999


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCC
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~  138 (231)
                      ++|++|+|||++   +++.+..|+.++.+... ...+.++++||.|+...
T Consensus        90 ~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  139 (188)
T 1zd9_A           90 GVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA  139 (188)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccC
Confidence            999999999998   88899899888876432 45667899999999764

>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=99.87  E-value=1e-22  Score=161.73  Aligned_cols=118  Identities=18%  Similarity=0.286  Sum_probs=90.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC--CCCCCcccceeeEEEEEEEEE---CCeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG--DFVEKTGNTIGVDFSMKTVNI---DGKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~--~f~~~~~pt~~~~~~~~~~~~---~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      .+||+++|++|||||||+++|++.  .+...+.+|++.++..+.+.+   ++..+.+.+||++|+++|..+++.|+++++
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRA   81 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCc
Confidence            489999999999999999999984  677778899998887766654   346789999999999999999999999999


Q ss_pred             EEEEEEecC----cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          96 GVIIEVTSV----EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        96 ~vIlV~dit----Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      ++++|||++    +++.+..|+.++..... ..+.++++||.|+...+
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~  128 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKARAS-SSPVILVGTHLDVSDEK  128 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHHCT-TCEEEEEEECGGGCCHH
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhhCC-CCcEEEEEECCCcccch
Confidence            999999998    68899999999977653 45677889999987644

>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=99.87  E-value=4.6e-22  Score=158.33  Aligned_cols=121  Identities=17%  Similarity=0.299  Sum_probs=99.9

Q ss_pred             CCCCCceeeEEEEEcCCCCcHHHHHHHHHcCC-CCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhccc
Q psy5781          14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGD-FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYR   92 (231)
Q Consensus        14 ~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~-f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~   92 (231)
                      ........+||+++|++|||||||+++|+++. +...+.+|++  +....+.+++  +.+.|||++|++++..++..+++
T Consensus        14 ~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~   89 (190)
T 2h57_A           14 LVPRGSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYK   89 (190)
T ss_dssp             -------CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSS--CEEEEEEECCSTTTGGGGGGGGG
T ss_pred             cccCCCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECC--EEEEEEECCCCHHHHHHHHHHHh
Confidence            34445678999999999999999999999887 6777889998  5556677765  78999999999999999999999


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhcC---CcceeeecccccCCCCC
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLFD---KYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~---~~~~~~vv~~k~dl~~~  138 (231)
                      ++|++|+|||++   +++.+..|+..+.+...   ...+.++++||.|+...
T Consensus        90 ~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  141 (190)
T 2h57_A           90 EGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDA  141 (190)
T ss_dssp             GCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTC
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccC
Confidence            999999999999   79999999998877654   45667899999999764

>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=99.86  E-value=2.9e-21  Score=152.86  Aligned_cols=116  Identities=25%  Similarity=0.422  Sum_probs=99.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||+++++++. ...+.||++  +....+.+++  +.+.||||+|++++..++..+++++|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~--~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   90 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLI   90 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSS--EEEEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCc--cceEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            567999999999999999999999888 777889998  4445666665  78999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCc
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~  139 (231)
                      +|||++   +++.+..|+.++.+... ...+.++++||.|+....
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  135 (186)
T 1ksh_A           91 WVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL  135 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCC
Confidence            999999   79999999988876532 456678999999997653

>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=99.86  E-value=1.2e-21  Score=155.57  Aligned_cols=150  Identities=18%  Similarity=0.208  Sum_probs=110.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||+++|+++.+. .+.||++  +....+.+++  +.+.|||++|++++..++..+++++|++|
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   88 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIG--SNVEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVI   88 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSC--SSCEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCc--cceEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            45799999999999999999999999887 6788988  4445666765  88999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCCccccccchhh----hhhcCCCcccccc--ccchhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQVRPCLFHKFGH----ASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~~~~~~~~~~~----s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      +|||++   +|+.+..|+.++.+.. ....+.++++||.|+.............    ....+..+.+++.  ..|++++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l  168 (187)
T 1zj6_A           89 VVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQG  168 (187)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCCCCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHHHH
Confidence            999999   7999999999987754 2456678999999997632211100000    1112234445554  5678888


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |...+
T Consensus       169 ~~~l~  173 (187)
T 1zj6_A          169 LEWMM  173 (187)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87655

>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=99.86  E-value=1.5e-21  Score=150.99  Aligned_cols=112  Identities=23%  Similarity=0.456  Sum_probs=94.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|+++.|.. +.||++  +....+..+  .+.+.|||++|+++++.++..+++++|++++||
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~--~~~~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   75 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSS--CCEEEEECS--SCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCc--eeEEEEEEC--CEEEEEEEcCCChhhHHHHHHHhccCCEEEEEE
Confidence            699999999999999999999988875 678888  334445544  478999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCC
Q psy5781         102 TSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~  138 (231)
                      |++   +|+.+..|+.++.+.. ....+.++++||.|+...
T Consensus        76 d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  116 (164)
T 1r8s_A           76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA  116 (164)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             ECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCC
Confidence            999   7899989998886643 345667899999999764

>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=99.86  E-value=6.6e-21  Score=148.19  Aligned_cols=116  Identities=25%  Similarity=0.389  Sum_probs=98.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||+++|.++.+.. +.||++.  ....+.+++  +.+.+||++|++.+..++..+++++|+++
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~-~~~t~~~--~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   79 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVVT-TIPTIGF--NVETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVI   79 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSSE--EEEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCcc--ceEEEEECC--EEEEEEECCCChhhhHHHHHHhccCCEEE
Confidence            356999999999999999999999998864 7788874  445666664  78999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCc
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~  139 (231)
                      +|||++   +|+.+..|+..+.+... ...+.++++||.|+....
T Consensus        80 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  124 (171)
T 1upt_A           80 YVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAM  124 (171)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCC
Confidence            999999   78999888888766543 456678999999997653

>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=99.86  E-value=4.5e-21  Score=153.21  Aligned_cols=114  Identities=17%  Similarity=0.239  Sum_probs=97.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .+.+||+++|++|||||||+++|.++.+. .+.||++.  ....+.+++  +.+.+||++|++.++.++..+++++|++|
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~--~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   95 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHP--TSEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIV   95 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSC--EEEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCC--CeEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEE
Confidence            45689999999999999999999998875 47888885  346777777  88999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCC
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~  137 (231)
                      +|||++   +|+++..|+.++.+.. ....+.++++||.|+..
T Consensus        96 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  138 (190)
T 1m2o_B           96 FLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN  138 (190)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT
T ss_pred             EEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC
Confidence            999999   8999999999987653 34566789999999976

>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=99.86  E-value=1.6e-21  Score=156.94  Aligned_cols=114  Identities=17%  Similarity=0.206  Sum_probs=90.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .+.+||+++|++|||||||+++|.++.+. .+.||++.+  ...+.+++  +.+.+|||+|+++++.++..|++++|+++
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   97 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   97 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS--CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCce--eEEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEE
Confidence            34689999999999999999999998875 478888854  45677777  88999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCC
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~  137 (231)
                      +|||++   +|+++..|+.++.+.. ....+.++++||.|+..
T Consensus        98 ~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  140 (198)
T 1f6b_A           98 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE  140 (198)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc
Confidence            999999   8999999999887653 34566789999999975

>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=99.86  E-value=1.6e-21  Score=154.52  Aligned_cols=150  Identities=19%  Similarity=0.236  Sum_probs=110.9

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||+++|.++.+ ..+.||+|  +....+.+++  +.+.+||++|++.++.++..+++++|+++
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g--~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   88 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQG--FNIKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCC-EEEEEETT--EEEEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCC-CcccCcCC--eEEEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            4579999999999999999999998865 45788888  4455667764  78999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCCccccccchhh----hhhcCCCcccccc--ccchhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQVRPCLFHKFGH----ASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~~~~~~~~~~~----s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      +|||++   +|+.+..|+.++.+.. ....+.++++||.|+.............    ....+..+.++++  ..|++++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l  168 (181)
T 1fzq_A           89 YVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDG  168 (181)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCCHHHHHHHhCchhccCCceEEEEccCCCCCCHHHH
Confidence            999999   7889988988875543 3456678999999997654311000000    0111223444444  5677777


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |...+
T Consensus       169 ~~~l~  173 (181)
T 1fzq_A          169 MNWVC  173 (181)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76654

>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=99.76  E-value=4.4e-23  Score=166.23  Aligned_cols=119  Identities=26%  Similarity=0.395  Sum_probs=104.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||+++|+++.+...+.+|++..+ ...+.+++..+.+.|||++|++++..++..+++++|++
T Consensus        27 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~i  105 (204)
T 3th5_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVF  105 (204)
Confidence            45779999999999999999999999999888899987444 46667788889999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          98 IIEVTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        98 IlV~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      |+|||++   +++.+. .|+..+..... ..+.++++||.|+...
T Consensus       106 ilv~D~~~~~s~~~~~~~~~~~l~~~~~-~~piilv~NK~Dl~~~  149 (204)
T 3th5_A          106 LICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDD  149 (204)
Confidence            9999998   899886 89988877655 5567799999999764

>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=99.85  E-value=4e-21  Score=153.80  Aligned_cols=116  Identities=22%  Similarity=0.406  Sum_probs=92.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||+++|+.+.+.. +.||++  +....+..++  +.+.|||++|++++..++..+++++|++
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~i  100 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEYKN--ICFTVWDVGGQDKIRPLWRHYFQNTQGL  100 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCSSCCEE-EEEETT--EEEEEEEETT--EEEEEEECC-----CTTHHHHHHTCCEE
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHhCCccc-cCCcCc--eeEEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEE
Confidence            3567999999999999999999999988874 678887  4445566654  8899999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCC
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~  138 (231)
                      |+|||++   +++.+..|+.++.+.. ....+.++++||.|+...
T Consensus       101 ilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~  145 (192)
T 2b6h_A          101 IFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNA  145 (192)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCC
Confidence            9999999   7888889988886543 245667899999999764

>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=99.85  E-value=1.1e-20  Score=162.49  Aligned_cols=118  Identities=26%  Similarity=0.406  Sum_probs=104.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||+++|+++.+...+.+|++..+ ...+.+++..+.+.|||++|++.+..++..+++++|++|
T Consensus       153 ~~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i  231 (332)
T 2wkq_A          153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFL  231 (332)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEE
T ss_pred             cceeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEE
Confidence            3458999999999999999999999999999999998544 567788999999999999999999999999999999999


Q ss_pred             EEEecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          99 IEVTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        99 lV~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +|||++   +|+.+. .|+..+..... ..+.++++||.|+...
T Consensus       232 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~  274 (332)
T 2wkq_A          232 ICFSLVSPASFHHVRAKWYPEVRHHCP-NTPIILVGTKLDLRDD  274 (332)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCT-TSCEEEEEECHHHHTC
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhhCC-CCcEEEEEEchhcccc
Confidence            999999   888887 79999988765 5567799999998653

>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=99.84  E-value=5.6e-21  Score=150.54  Aligned_cols=115  Identities=24%  Similarity=0.382  Sum_probs=94.7

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||+++++++.+ ..+.||++  +....+.+++  +.+.+||++|++.+..++..+++++|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   90 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIG--FNVETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVI   90 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTT--CCEEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCc--cceEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            5679999999999999999999998888 56788888  4445666665  88999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCC
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~  138 (231)
                      +|||++   +++.+..|+.++.+.. ....+.++++||.|+...
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  134 (183)
T 1moz_A           91 FVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA  134 (183)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC
Confidence            999998   8899999988887654 355667899999999764

>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=99.84  E-value=1.7e-21  Score=156.18  Aligned_cols=124  Identities=16%  Similarity=0.107  Sum_probs=84.9

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEE--E-CCeEEEEEEeeCCCccccchh
Q psy5781          10 PNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVN--I-DGKKVKLQIWDTAGQERFRTI   86 (231)
Q Consensus        10 ~~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~--~-~~~~~~l~i~D~~G~~~~~~~   86 (231)
                      +...+.....+.+||+++|++|||||||++++.++ +...  ++++.++....+.  + ++..+.+.|||++|+++|...
T Consensus         9 ~~~~~~~~~~~~~ki~~vG~~~vGKTsLi~~l~~~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   85 (196)
T 3llu_A            9 SGRENLYFQGSKPRILLMGLRRSGKSSIQKVVFHK-MSPN--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDP   85 (196)
T ss_dssp             -----------CCEEEEEESTTSSHHHHHHHHHSC-CCGG--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCT
T ss_pred             CCCCCCcccCcceEEEEECCCCCCHHHHHHHHHhc-CCCc--ceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhh
Confidence            34444556778899999999999999999977754 4443  4555444443333  3 366789999999999998877


Q ss_pred             h---hhcccCCcEEEEEEecC--cHhhHH---HHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          87 T---QSYYRSANGVIIEVTSV--EYCYQR---NWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        87 ~---~~~~~~ad~vIlV~dit--Sf~~l~---~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .   ..+++++|++|+|||++  +++.+.   .|+.++.. .....+.++++||.|+..
T Consensus        86 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~-~~~~~piilv~nK~Dl~~  143 (196)
T 3llu_A           86 TFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYK-VNPDMNFEVFIHKVDGLS  143 (196)
T ss_dssp             TCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHH-HCTTCEEEEEEECGGGSC
T ss_pred             hhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHh-cCCCCcEEEEEeccccCc
Confidence            6   89999999999999999  344444   55555433 334566779999999865

>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=99.84  E-value=1.4e-20  Score=146.78  Aligned_cols=148  Identities=11%  Similarity=0.047  Sum_probs=107.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc------hhhhhccc--
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR------TITQSYYR--   92 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~------~~~~~~~~--   92 (231)
                      .+||+++|++|||||||+++|++..+...+.|+...+.....+.+++  ..+.+|||+|++.+.      .+...|++  
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   80 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINE   80 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcC
Confidence            58999999999999999999998877655556665566666677766  579999999998775      34566775  


Q ss_pred             CCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhh
Q psy5781          93 SANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        93 ~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      ++|++++|||+++++....|+.++.+   ...+.++++||.|+...+.........+...+.++.++++  ..|++++|.
T Consensus        81 ~~~~~i~v~D~~~~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~v~~l~~  157 (165)
T 2wji_A           81 KPDLVVNIVDATALERNLYLTLQLME---MGANLLLALNKMDLAKSLGIEIDVDKLEKILGVKVVPLSAAKKMGIEELKK  157 (165)
T ss_dssp             CCSEEEEEEETTCHHHHHHHHHHHHH---TTCCEEEEEECHHHHHHTTCCCCHHHHHHHHTSCEEECBGGGTBSHHHHHH
T ss_pred             CCCEEEEEecCCchhHhHHHHHHHHh---cCCCEEEEEEchHhccccChhhHHHHHHHHhCCCEEEEEcCCCCCHHHHHH
Confidence            89999999999988888889888865   2456779999999865433222222244455566767766  667888887


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       158 ~l~  160 (165)
T 2wji_A          158 AIS  160 (165)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.83  E-value=2.5e-21  Score=167.38  Aligned_cols=145  Identities=13%  Similarity=0.050  Sum_probs=102.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCC---CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch---hhhhcccCCcE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVE---KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT---ITQSYYRSANG   96 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~---~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~---~~~~~~~~ad~   96 (231)
                      ||+++|++|||||||++++.++.+..   .+.||+|.++..    ++ ..++++||||+||++|+.   .++.|++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----FS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----EC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----Ec-cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            79999999999999999988664433   367999977753    23 348999999999999974   46899999999


Q ss_pred             EEEEEecC-cH-hhHHHH---HHHHHHhcCCcceeeecccccCCCCCc-------cccccchh-hhhh----cCCCcccc
Q psy5781          97 VIIEVTSV-EY-CYQRNW---HKQAVTLFDKYKFGHAFSTSLAMPQVR-------PCLFHKFG-HASS----SAMPFPQV  159 (231)
Q Consensus        97 vIlV~dit-Sf-~~l~~w---~~~i~~~~~~~~~~~vv~~k~dl~~~~-------~~~~~~~~-~s~~----~~~~~~ev  159 (231)
                      +|+|||++ .+ +.+..|   ++++.+.. +..+..+++||.|+....       .....+.. .+..    .+..+.|.
T Consensus        76 ~IlV~Ditd~~~~~~~~l~~~l~~~~~~~-~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eT  154 (331)
T 3r7w_B           76 LVYVIDSQDEYINAITNLAMIIEYAYKVN-PSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLT  154 (331)
T ss_dssp             EEEECCCSSCTTHHHHHHHHHHHHHHHHC-TTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECC
T ss_pred             EEEEEECCchHHHHHHHHHHHHHHHhhcC-CCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEe
Confidence            99999999 33 333333   44444433 355677899999997642       11111111 2222    34556666


Q ss_pred             cc-ccchhhhhhhhc
Q psy5781         160 WP-CLKFGHAFSTSL  173 (231)
Q Consensus       160 ~~-~~nv~e~f~~~~  173 (231)
                      +. ..|+.++|+..+
T Consensus       155 SAkd~nV~eAFs~iv  169 (331)
T 3r7w_B          155 SIFDHSIYEAFSRIV  169 (331)
T ss_dssp             CSSSSHHHHHHHHHH
T ss_pred             ccCCCcHHHHHHHHH
Confidence            55 568999998876

>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=99.83  E-value=9.7e-21  Score=153.38  Aligned_cols=119  Identities=15%  Similarity=0.192  Sum_probs=90.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe-EEEEEEeeCCCccccch-hhhhcccCCc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK-KVKLQIWDTAGQERFRT-ITQSYYRSAN   95 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~-~~~l~i~D~~G~~~~~~-~~~~~~~~ad   95 (231)
                      ....+||+++|++|||||||+++|+++.|...+.++. .++.  .+.+++. .+.+.||||+|++++.. ++..|++.+|
T Consensus         4 ~~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   80 (214)
T 2fh5_B            4 KSSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSIT-DSSA--IYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSAR   80 (214)
T ss_dssp             ----CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCCS-CEEE--EEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEE
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCcccccCCcc-eeeE--EEEecCCCccEEEEEECCCChhHHHHHHHHHHhhCC
Confidence            4567999999999999999999999999988886555 3444  3666644 68899999999999988 8899999999


Q ss_pred             EEEEEEecCc----HhhHHH-HHHHHHHh--cCCcceeeecccccCCCCCc
Q psy5781          96 GVIIEVTSVE----YCYQRN-WHKQAVTL--FDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        96 ~vIlV~ditS----f~~l~~-w~~~i~~~--~~~~~~~~vv~~k~dl~~~~  139 (231)
                      ++|+|||+++    +..+.. |...+...  .....+.++++||.|+....
T Consensus        81 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  131 (214)
T 2fh5_B           81 AVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  131 (214)
T ss_dssp             EEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             EEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcc
Confidence            9999999983    334444 44444332  23456788999999997654

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.83  E-value=1e-21  Score=164.69  Aligned_cols=157  Identities=18%  Similarity=0.233  Sum_probs=114.5

Q ss_pred             CCCCceeeEEEEEcCC---------CCcHHHHHHHHHc---CCCCCCcccce-eeEEEEEEEE--------------ECC
Q psy5781          15 DDSYDFLFKVVLIGDC---------GVGKTCVVHRFRS---GDFVEKTGNTI-GVDFSMKTVN--------------IDG   67 (231)
Q Consensus        15 ~~~~~~~~kIvvlG~~---------~vGKTSLl~~~~~---~~f~~~~~pt~-~~~~~~~~~~--------------~~~   67 (231)
                      .......+||+|+|++         |||||||+++|++   +.|...+.||+ +.++..+.+.              +++
T Consensus        13 ~~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~   92 (255)
T 3c5h_A           13 NLYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDC   92 (255)
T ss_dssp             TSSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC------
T ss_pred             CCCCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCC
Confidence            3345677999999999         9999999999999   66777788876 5555433322              567


Q ss_pred             eEEEEEEee-----------------------CCCccccchhhhhccc---------------------CCcEEEEEEec
Q psy5781          68 KKVKLQIWD-----------------------TAGQERFRTITQSYYR---------------------SANGVIIEVTS  103 (231)
Q Consensus        68 ~~~~l~i~D-----------------------~~G~~~~~~~~~~~~~---------------------~ad~vIlV~di  103 (231)
                      ..+.+.|||                       ++|+++|..++..|++                     ++|++|+|||+
T Consensus        93 ~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~  172 (255)
T 3c5h_A           93 VECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDV  172 (255)
T ss_dssp             ---CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEEC
T ss_pred             cEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEEC
Confidence            889999999                       7788888888888988                     79999999999


Q ss_pred             C-----cHhhHHHHHHHHHHh-cCCcceeeecccccCCCCCccccccchh-hhhh-cCCCcccccc--ccchhhhhhhhc
Q psy5781         104 V-----EYCYQRNWHKQAVTL-FDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASS-SAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       104 t-----Sf~~l~~w~~~i~~~-~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~-~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      +     ||+.+..|+.++.+. .....+.++++||.|+...+..  .+.. .+.. .+..+.+++.  ..|++++|...+
T Consensus       173 t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~  250 (255)
T 3c5h_A          173 SRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTLV  250 (255)
T ss_dssp             BC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHHH
T ss_pred             CCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHHH
Confidence            7     788899999999876 3456677899999998654432  1111 2222 2556667765  567888887654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.83  E-value=1e-20  Score=150.23  Aligned_cols=115  Identities=23%  Similarity=0.399  Sum_probs=97.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ...+||+++|++|||||||++++..+.+.. +.||++  +....+..++  +.+.+|||+|++++..++..+++++|++|
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   94 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVG--VNLETLQYKN--ISFEVWDLGGQTGVRPYWRCYFSDTDAVI   94 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTT--CCEEEEEETT--EEEEEEEECCSSSSCCCCSSSSTTCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCc--eEEEEEEECC--EEEEEEECCCCHhHHHHHHHHhhcCCEEE
Confidence            467999999999999999999999888765 678887  4445566664  78999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCC
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~  138 (231)
                      +|||++   +++.+..|+.++.+... ...+.++++||.|+...
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  138 (189)
T 2x77_A           95 YVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDA  138 (189)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTC
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCC
Confidence            999999   78988888888766432 45667899999999765

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.81  E-value=5.8e-20  Score=159.59  Aligned_cols=151  Identities=16%  Similarity=0.228  Sum_probs=105.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+|+|++|||||||+++|.++.+... .||++..+.  .+..++  +.+.||||+|++.+..++..+++.+|++
T Consensus       162 ~~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~~--~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~ad~v  236 (329)
T 3o47_A          162 GKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNVE--TVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGL  236 (329)
T ss_dssp             -CCSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEEE--EEEETT--EEEEEEECC-----CCSHHHHHTTEEEE
T ss_pred             ccCcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEEE--EEecCc--EEEEEEECCCCHhHHHHHHHHhccCCEE
Confidence            44678999999999999999999999988764 478875543  444444  7899999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchhh----hhhcCCCcccccc--ccchhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFGH----ASSSAMPFPQVWP--CLKFGH  167 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~~----s~~~~~~~~ev~~--~~nv~e  167 (231)
                      |+|||++   +|+.+..|+.++.+... ...+.++++||.|+.............    ....+.++.+++.  ..|+++
T Consensus       237 ilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~e  316 (329)
T 3o47_A          237 IFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYE  316 (329)
T ss_dssp             EEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHH
T ss_pred             EEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccCHHHHHHHhchhhhhcCCCEEEEEECCCCcCHHH
Confidence            9999998   89999888877765443 456678999999998654311111000    0111122344444  567788


Q ss_pred             hhhhhc
Q psy5781         168 AFSTSL  173 (231)
Q Consensus       168 ~f~~~~  173 (231)
                      +|...+
T Consensus       317 l~~~l~  322 (329)
T 3o47_A          317 GLDWLS  322 (329)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            777654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.81  E-value=9e-20  Score=144.32  Aligned_cols=149  Identities=11%  Similarity=0.040  Sum_probs=113.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc------hhhhhccc-
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR------TITQSYYR-   92 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~------~~~~~~~~-   92 (231)
                      +.+||+++|++|||||||+++|++..+...+.|++..+.....+..++  ..+.+|||+|++.+.      .++..|++ 
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   83 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIIN   83 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHhc
Confidence            569999999999999999999998776555667666667767777766  789999999998774      45666775 


Q ss_pred             -CCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhh
Q psy5781          93 -SANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        93 -~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                       .++++++|+|.++++.+..|+.++.+   ...+.++++||.|+...+.........+...+.++.+++.  ..|++++|
T Consensus        84 ~~~~~~i~v~d~~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~  160 (188)
T 2wjg_A           84 EKPDLVVNIVDATALERNLYLTLQLME---MGANLLLALNKMDLAKSLGIEIDVDKLEKILGVKVVPLSAAKKMGIEELK  160 (188)
T ss_dssp             HCCSEEEEEEEGGGHHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTTCCCCHHHHHHHHTSCEEECBGGGTBSHHHHH
T ss_pred             cCCCEEEEEecchhHHHHHHHHHHHHh---cCCCEEEEEEhhhccccccchHHHHHHHHHhCCCeEEEEecCCCCHHHHH
Confidence             49999999999999999999988865   3455678899999865433222222245555667777776  56788888


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       161 ~~i~  164 (188)
T 2wjg_A          161 KAIS  164 (188)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7765

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.80  E-value=1.6e-19  Score=141.40  Aligned_cols=118  Identities=18%  Similarity=0.170  Sum_probs=94.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      ....+||+++|++|||||||+++|+++.+...+.+++..++....+.+++.  .+.||||+|++.+..++..++..+|++
T Consensus         5 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~d~~   82 (178)
T 2lkc_A            5 VERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDK--KITFLDTPGHEAFTTMRARGAQVTDIV   82 (178)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTE--EEEESCCCSSSSSSCSCCSSCCCCCEE
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCc--eEEEEECCCCHHHHHHHHHHHhhCCEE
Confidence            356789999999999999999999999998887777776676677778774  577999999999999999999999999


Q ss_pred             EEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          98 IIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        98 IlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      |+|||++.. ....+++.+........+.++++||.|+...
T Consensus        83 i~v~d~~~~-~~~~~~~~l~~~~~~~~p~ilv~nK~Dl~~~  122 (178)
T 2lkc_A           83 ILVVAADDG-VMPQTVEAINHAKAANVPIIVAINKMDKPEA  122 (178)
T ss_dssp             EEEEETTCC-CCHHHHHHHHHHGGGSCCEEEEEETTTSSCS
T ss_pred             EEEEECCCC-CcHHHHHHHHHHHhCCCCEEEEEECccCCcC
Confidence            999999821 1123333444444456668899999999764

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.80  E-value=1.5e-19  Score=155.49  Aligned_cols=151  Identities=19%  Similarity=0.197  Sum_probs=109.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcC--CCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCcccc-----chhhhhcc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSG--DFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF-----RTITQSYY   91 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~--~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~-----~~~~~~~~   91 (231)
                      ..+||+++|++|||||||+++|+++  .+. ..+.+|++.++.  .+.+++ .+.+.|||++|++.+     ..++..++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~--~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~   78 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHS--HLRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIF   78 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEE--EEEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEE--EEEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHh
Confidence            4689999999999999999999987  333 356788886665  344544 589999999999988     77889999


Q ss_pred             cCCcEEEEEEecC---cHhhHHHHHHHHHHhc--CCcceeeecccccCCCC--Ccc----ccccch-hhhhhcC---CCc
Q psy5781          92 RSANGVIIEVTSV---EYCYQRNWHKQAVTLF--DKYKFGHAFSTSLAMPQ--VRP----CLFHKF-GHASSSA---MPF  156 (231)
Q Consensus        92 ~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~--~~~~~~~vv~~k~dl~~--~~~----~~~~~~-~~s~~~~---~~~  156 (231)
                      +++|++|+|||++   +|+++..|...+....  ....+.++++||.|+..  .+.    ....+. ..+...+   .++
T Consensus        79 ~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~  158 (307)
T 3r7w_A           79 QMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIG  158 (307)
T ss_dssp             TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEE
T ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEE
Confidence            9999999999999   8999987766655443  33566779999999986  332    111111 1344443   455


Q ss_pred             ccccc-ccchhhhhhhhc
Q psy5781         157 PQVWP-CLKFGHAFSTSL  173 (231)
Q Consensus       157 ~ev~~-~~nv~e~f~~~~  173 (231)
                      .+++. ..++.++|...+
T Consensus       159 ~~tSa~~~~i~e~~~~iv  176 (307)
T 3r7w_A          159 FPTSIWDESLYKAWSQIV  176 (307)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EEeeecCChHHHHHHHHH
Confidence            55554 456777776654

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.79  E-value=8.9e-20  Score=167.88  Aligned_cols=156  Identities=17%  Similarity=0.135  Sum_probs=110.1

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEE------EEE--CCeEEEEEEeeCCCccccchhhh
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKT------VNI--DGKKVKLQIWDTAGQERFRTITQ   88 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~------~~~--~~~~~~l~i~D~~G~~~~~~~~~   88 (231)
                      .....+||+++|++|||||||+++++++.|...+.||++.++..+.      +.+  ++..+.+.|||++|++.+..++.
T Consensus        37 ~~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~  116 (535)
T 3dpu_A           37 VHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQ  116 (535)
T ss_dssp             BCCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCH
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHH
Confidence            3567799999999999999999999999999999999997776442      122  34468899999999999999999


Q ss_pred             hcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccch
Q psy5781          89 SYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKF  165 (231)
Q Consensus        89 ~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv  165 (231)
                      .+++++|++|+|||+++++.+..|+.++....++ .+.++++||.|+...+........ .....+.++.++++  ..|+
T Consensus       117 ~~l~~~d~ii~V~D~s~~~~~~~~~~~l~~~~~~-~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gi  195 (535)
T 3dpu_A          117 FFMTRSSVYMLLLDSRTDSNKHYWLRHIEKYGGK-SPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGV  195 (535)
T ss_dssp             HHHHSSEEEEEEECGGGGGGHHHHHHHHHHHSSS-CCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC-----C
T ss_pred             HHccCCcEEEEEEeCCCchhHHHHHHHHHHhCCC-CCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcccCH
Confidence            9999999999999999889999999999988754 456699999999765543222221 33344455666655  5567


Q ss_pred             hhhhhhhc
Q psy5781         166 GHAFSTSL  173 (231)
Q Consensus       166 ~e~f~~~~  173 (231)
                      +++|...+
T Consensus       196 ~eL~~~l~  203 (535)
T 3dpu_A          196 ESIAKSLK  203 (535)
T ss_dssp             TTHHHHHH
T ss_pred             HHHHHHHH
Confidence            77776654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.76  E-value=8e-18  Score=129.35  Aligned_cols=144  Identities=15%  Similarity=0.084  Sum_probs=95.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc-------cchhhhhcccC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER-------FRTITQSYYRS   93 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~-------~~~~~~~~~~~   93 (231)
                      .||+++|++|||||||++++.++.+. ....++...+.....+..++.  .+.|||++|+..       +...+..+++.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSGDKWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSSSSCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCccchHHHHHHHHHHHHHh
Confidence            69999999999999999999988753 222333334556666777764  788999999887       34456778999


Q ss_pred             CcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCC-Ccccccc--ccchhhhh
Q psy5781          94 ANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAM-PFPQVWP--CLKFGHAF  169 (231)
Q Consensus        94 ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~-~~~ev~~--~~nv~e~f  169 (231)
                      +|++|+|||++ .+.....|+.++.+.  ...+.++++||.|+..... ....  .. +.+. .+.+++.  ..|++++|
T Consensus        80 ~~~~i~v~d~~~~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~-~~~~--~~-~~~~~~~~~~Sa~~~~gv~~l~  153 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQADYEVAEYLRR--KGKPVILVATKVDDPKHEL-YLGP--LY-GLGFGDPIPTSSEHARGLEELL  153 (161)
T ss_dssp             CSEEEEEEESSSCCCHHHHHHHHHHHH--HTCCEEEEEECCCSGGGGG-GCGG--GG-GGSSCSCEECBTTTTBSHHHHH
T ss_pred             CCEEEEEEECCCcccHhHHHHHHHHHh--cCCCEEEEEECcccccchH-hHHH--HH-hCCCCCeEEEecccCCChHHHH
Confidence            99999999999 455554444444333  3455779999999976521 1111  12 3333 5566655  56777777


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ....
T Consensus       154 ~~l~  157 (161)
T 2dyk_A          154 EAIW  157 (161)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>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=99.75  E-value=2.8e-18  Score=134.91  Aligned_cols=114  Identities=18%  Similarity=0.163  Sum_probs=86.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh--------hhh
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI--------TQS   89 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~--------~~~   89 (231)
                      ..+||+++|++|||||||+++|++..+  ...+ ++...++....+.+++.  .+.+|||+|++++...        ...
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~-~~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~   79 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDI-AGTTRDVLREHIHIDGM--PLHIIDTAGLREASDEVERIGIERAWQ   79 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSS-TTCCCSCEEEEEEETTE--EEEEEECCCCSCCSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCC-CCceeceeeEEEEECCe--EEEEEECCCcccchhHHHHHHHHHHHH
Confidence            357999999999999999999998764  2333 33334566677888874  4789999998753211        124


Q ss_pred             cccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          90 YYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        90 ~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +++.+|++++|||++   +++ ...|+.++.+......+.++++||.|+..
T Consensus        80 ~~~~ad~~i~v~D~~~~~s~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  129 (172)
T 2gj8_A           80 EIEQADRVLFMVDGTTTDAVD-PAEIWPEFIARLPAKLPITVVRNKADITG  129 (172)
T ss_dssp             HHHTCSEEEEEEETTTCCCCS-HHHHCHHHHHHSCTTCCEEEEEECHHHHC
T ss_pred             HHHhCCEEEEEEECCCCCCHH-HHHHHHHHHHhcccCCCEEEEEECccCCc
Confidence            688999999999998   666 45788888877666677889999999854

>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=99.74  E-value=3.7e-18  Score=135.74  Aligned_cols=149  Identities=13%  Similarity=0.028  Sum_probs=93.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC----------ccccchhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG----------QERFRTIT   87 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G----------~~~~~~~~   87 (231)
                      ....+||+|+|++|||||||+++++++.|...+.++.+.+.......+++   .+.||||+|          ++.+..++
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~   96 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMI   96 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHH
Confidence            45679999999999999999999999988777778877655555555554   589999999          78888888


Q ss_pred             hhcccCC---cEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhh----hcCCCcc
Q psy5781          88 QSYYRSA---NGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHAS----SSAMPFP  157 (231)
Q Consensus        88 ~~~~~~a---d~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~----~~~~~~~  157 (231)
                      ..+++.+   |++++|||++   ++.... +.+.+..   ...+.++++||.|+...............    ..+..+.
T Consensus        97 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  172 (195)
T 1svi_A           97 ETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELI  172 (195)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEEE
T ss_pred             HHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCceE
Confidence            8888877   9999999998   555432 2222222   44567799999999765432211111111    1233444


Q ss_pred             cccc--ccchhhhhhhhc
Q psy5781         158 QVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       158 ev~~--~~nv~e~f~~~~  173 (231)
                      +++.  ..|++++|....
T Consensus       173 ~~Sa~~~~gv~~l~~~l~  190 (195)
T 1svi_A          173 LFSSETKKGKDEAWGAIK  190 (195)
T ss_dssp             ECCTTTCTTHHHHHHHHH
T ss_pred             EEEccCCCCHHHHHHHHH
Confidence            5544  556777776543

>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=99.74  E-value=2.3e-18  Score=139.69  Aligned_cols=115  Identities=13%  Similarity=0.203  Sum_probs=94.0

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCC---CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccC
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVE---KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRS   93 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~---~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~   93 (231)
                      .....+||+++|++|||||||+++|+++.+..   .+.|+++.++         ..+.+.|||++|++.++..+..|++.
T Consensus         8 ~~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~   78 (218)
T 1nrj_B            8 QKSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKT   78 (218)
T ss_dssp             --CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEEEECCCCGGGTHHHHHHHHH
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEEEECCCcHHHHHHHHHHHHh
Confidence            35577999999999999999999999988755   3556665333         34678999999999999888888887


Q ss_pred             ----CcEEEEEEecC----cHhhHHHHHHHHHHhc----CCcceeeecccccCCCCCcc
Q psy5781          94 ----ANGVIIEVTSV----EYCYQRNWHKQAVTLF----DKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        94 ----ad~vIlV~dit----Sf~~l~~w~~~i~~~~----~~~~~~~vv~~k~dl~~~~~  140 (231)
                          +|++|+|||++    +++.+..|+.++....    ....+.++++||.|+...+.
T Consensus        79 ~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  137 (218)
T 1nrj_B           79 RAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  137 (218)
T ss_dssp             HGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             ccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCC
Confidence                89999999997    8888989998887653    35667889999999987654

>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=99.74  E-value=1.3e-17  Score=136.67  Aligned_cols=152  Identities=13%  Similarity=0.061  Sum_probs=94.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc------cc----cchhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ------ER----FRTIT   87 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~------~~----~~~~~   87 (231)
                      ....+||+|+|++|||||||+++|+++.+.....+....+.....+..++  +.+.||||+|+      +.    +.. .
T Consensus        26 ~~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~-~  102 (228)
T 2qu8_A           26 NPHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL--NKYQIIDTPGLLDRAFENRNTIEMTT-I  102 (228)
T ss_dssp             CTTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT--EEEEEEECTTTTTSCGGGCCHHHHHH-H
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC--CeEEEEECCCCcCcccchhhhHHHHH-H
Confidence            35679999999999999999999999887532222222233333444444  67999999998      33    222 2


Q ss_pred             hhcccCCcEEEEEEecC---cHh--hHHHHHHHHHHhcCCcceeeecccccCCCCCccccccc---h-hhhhhcC--CCc
Q psy5781          88 QSYYRSANGVIIEVTSV---EYC--YQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHK---F-GHASSSA--MPF  156 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit---Sf~--~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~---~-~~s~~~~--~~~  156 (231)
                      ..++..+|++|+|||++   +|+  ....|+..+.... ...+.++++||.|+...+......   . ......+  ..+
T Consensus       103 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (228)
T 2qu8_A          103 TALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVF-SNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKF  181 (228)
T ss_dssp             HHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC--CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEE
T ss_pred             HHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhh-cCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceE
Confidence            34578899999999999   554  2235555554432 255677999999997654432211   1 1222232  345


Q ss_pred             ccccc--ccchhhhhhhhc
Q psy5781         157 PQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       157 ~ev~~--~~nv~e~f~~~~  173 (231)
                      .+++.  ..|++++|...+
T Consensus       182 ~~~SA~~g~gi~~l~~~l~  200 (228)
T 2qu8_A          182 SSFSTLTGVGVEQAKITAC  200 (228)
T ss_dssp             EECCTTTCTTHHHHHHHHH
T ss_pred             EEEecccCCCHHHHHHHHH
Confidence            55555  556777776654

>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=99.73  E-value=1.1e-17  Score=140.58  Aligned_cols=150  Identities=15%  Similarity=0.092  Sum_probs=109.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch------hhhhcc-
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT------ITQSYY-   91 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~------~~~~~~-   91 (231)
                      .+.+||+++|++|||||||+++|++..+.....|.+..+.....+..++  ..+.|||++|+..+..      +...|+ 
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~e~v~~~~~~   80 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG--YTINLIDLPGTYSLGYSSIDEKIARDYLL   80 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSSCCSSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC--eEEEEEECCCcCccCCCCHHHHHHHHHHh
Confidence            4679999999999999999999998776543445444445444555544  7899999999987764      335566 


Q ss_pred             -cCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhh
Q psy5781          92 -RSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        92 -~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                       ..+|++++|+|.+++++...|...+.+.   ..+.++++||.|+...+.........+...+.++.+++.  ..|++++
T Consensus        81 ~~~~d~ii~V~D~t~~~~~~~~~~~l~~~---~~pvilv~NK~Dl~~~~~i~~~~~~l~~~lg~~vi~~SA~~g~gi~el  157 (258)
T 3a1s_A           81 KGDADLVILVADSVNPEQSLYLLLEILEM---EKKVILAMTAIDEAKKTGMKIDRYELQKHLGIPVVFTSSVTGEGLEEL  157 (258)
T ss_dssp             HSCCSEEEEEEETTSCHHHHHHHHHHHTT---TCCEEEEEECHHHHHHTTCCBCHHHHHHHHCSCEEECCTTTCTTHHHH
T ss_pred             hcCCCEEEEEeCCCchhhHHHHHHHHHhc---CCCEEEEEECcCCCCccchHHHHHHHHHHcCCCEEEEEeeCCcCHHHH
Confidence             5899999999999777766777777553   456779999999865444333333356677778877776  6678888


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |....
T Consensus       158 ~~~i~  162 (258)
T 3a1s_A          158 KEKIV  162 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87654

>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=99.72  E-value=4.7e-18  Score=134.29  Aligned_cols=145  Identities=14%  Similarity=0.124  Sum_probs=99.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC-----------ccccchhhhh
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG-----------QERFRTITQS   89 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G-----------~~~~~~~~~~   89 (231)
                      .+||+++|++|||||||+++|+++.+...+.|++.  +....+..+    .+.+||++|           ++.+..++..
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t--~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   74 (190)
T 2cxx_A            1 MATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVT--RKIIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVH   74 (190)
T ss_dssp             -CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCT--TSCEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCcCCccCCCCCcc--ceeEEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHH
Confidence            37999999999999999999999998877777664  333344444    589999999           7778888888


Q ss_pred             cccC-CcEEEEEEecC---cHhhH-HHHHHH--------HHH-hcCCcceeeecccccCCCCCccccccchhhhhhcCCC
Q psy5781          90 YYRS-ANGVIIEVTSV---EYCYQ-RNWHKQ--------AVT-LFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMP  155 (231)
Q Consensus        90 ~~~~-ad~vIlV~dit---Sf~~l-~~w~~~--------i~~-~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~  155 (231)
                      |++. ++++++||+++   +++++ ..|...        +.+ ......+.++++||.|+.......  ....+...+.+
T Consensus        75 ~~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~  152 (190)
T 2cxx_A           75 FIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNVQEV--INFLAEKFEVP  152 (190)
T ss_dssp             HHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCHHHH--HHHHHHHHTCC
T ss_pred             HHHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcHHHH--HHHHHHHhhhh
Confidence            8877 77666666655   88887 678753        323 233456678999999998754111  11134444443


Q ss_pred             c-------ccccc--ccchhhhhhhhc
Q psy5781         156 F-------PQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       156 ~-------~ev~~--~~nv~e~f~~~~  173 (231)
                      +       .+++.  ..|++++|...+
T Consensus       153 ~~~~~~~~~~~Sa~~~~~v~~l~~~l~  179 (190)
T 2cxx_A          153 LSEIDKVFIPISAKFGDNIERLKNRIF  179 (190)
T ss_dssp             GGGHHHHEEECCTTTCTTHHHHHHHHH
T ss_pred             hhccCCcEEEEecCCCCCHHHHHHHHH
Confidence            2       34443  556777776544

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.72  E-value=8.6e-18  Score=142.28  Aligned_cols=147  Identities=13%  Similarity=0.082  Sum_probs=106.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc------hhhhhccc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR------TITQSYYR   92 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~------~~~~~~~~   92 (231)
                      ..+||+++|++|||||||+++|++..+ ...+ |  |.++..+...++. .+.+.||||+|+..+.      .+.+.|+.
T Consensus         2 ~~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~-p--g~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~   77 (272)
T 3b1v_A            2 SMTEIALIGNPNSGKTSLFNLITGHNQRVGNW-P--GVTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLL   77 (272)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHCCCCCCCSS-S--CCCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCC-C--CCcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHh
Confidence            358999999999999999999998753 3333 3  3333334445555 5789999999998775      45667776


Q ss_pred             --CCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhh
Q psy5781          93 --SANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        93 --~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~  168 (231)
                        ++|++|+|||+++.++...|...+.+   ...+.++++||.|+...+.........+...+.++.+++.  ..|++++
T Consensus        78 ~~~~d~vi~V~D~t~~e~~~~~~~~l~~---~~~p~ilv~NK~Dl~~~~~~~~~~~~l~~~lg~~vi~~SA~~g~gi~el  154 (272)
T 3b1v_A           78 SQRADSILNVVDATNLERNLYLTTQLIE---TGIPVTIALNMIDVLDGQGKKINVDKLSYHLGVPVVATSALKQTGVDQV  154 (272)
T ss_dssp             TTCCSEEEEEEEGGGHHHHHHHHHHHHH---TCSCEEEEEECHHHHHHTTCCCCHHHHHHHHTSCEEECBTTTTBSHHHH
T ss_pred             cCCCCEEEEEecCCchHhHHHHHHHHHh---cCCCEEEEEEChhhCCcCCcHHHHHHHHHHcCCCEEEEEccCCCCHHHH
Confidence              69999999999977777778777765   3456778999999865433322223355666777777776  6778888


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |...+
T Consensus       155 ~~~i~  159 (272)
T 3b1v_A          155 VKKAA  159 (272)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87765

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.72  E-value=3.7e-18  Score=135.66  Aligned_cols=114  Identities=13%  Similarity=0.199  Sum_probs=86.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCC---CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccC-
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVE---KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRS-   93 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~---~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~-   93 (231)
                      ....+||+++|++|||||||++++.++.+..   .+.|+.+.++         ..+.+.+||++|++.+...+..+++. 
T Consensus        45 ~~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~~  115 (193)
T 2ged_A           45 GSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKTR  115 (193)
T ss_dssp             -CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------CC---------CCTTCSEEEETTCCBSSCCHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeeee---------cCCeEEEEECCCCchHHHHHHHHHHhh
Confidence            3567999999999999999999999987654   2334433222         34678999999999988888888776 


Q ss_pred             ---CcEEEEEEecC----cHhhHHHHHHHHHHhc----CCcceeeecccccCCCCCcc
Q psy5781          94 ---ANGVIIEVTSV----EYCYQRNWHKQAVTLF----DKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        94 ---ad~vIlV~dit----Sf~~l~~w~~~i~~~~----~~~~~~~vv~~k~dl~~~~~  140 (231)
                         +|++|+|||++    +++.+..|+.++....    ....+.++++||.|+.....
T Consensus       116 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  173 (193)
T 2ged_A          116 AKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  173 (193)
T ss_dssp             GGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             cccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCC
Confidence               89999999997    7778888888876653    34667889999999986544

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.69  E-value=5.9e-17  Score=128.27  Aligned_cols=147  Identities=12%  Similarity=0.107  Sum_probs=97.7

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC----------ccccchh
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG----------QERFRTI   86 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G----------~~~~~~~   86 (231)
                      .....+||+++|++|||||||+++|+++.+ ..+.++.+.+........+.   .+.+|||+|          ++.+..+
T Consensus        19 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~~~~~   94 (195)
T 3pqc_A           19 PPPLKGEVAFVGRSNVGKSSLLNALFNRKI-AFVSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERMLWKRL   94 (195)
T ss_dssp             CCCTTCEEEEEEBTTSSHHHHHHHHHTSCC-SCCCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHcCcc-ccccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHHHHHH
Confidence            345678999999999999999999998874 44566666544444444443   477999999          7778888


Q ss_pred             hhhcccCC---cEEEEEEecC-----cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccc--cchh-hhhh-cCC
Q psy5781          87 TQSYYRSA---NGVIIEVTSV-----EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLF--HKFG-HASS-SAM  154 (231)
Q Consensus        87 ~~~~~~~a---d~vIlV~dit-----Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~--~~~~-~s~~-~~~  154 (231)
                      +..|++.+   |++++|+|.+     ....+..|+...      ..+.++++||.|+........  .... .... ...
T Consensus        95 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~------~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  168 (195)
T 3pqc_A           95 VEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL------NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGEY  168 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT------TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCCS
T ss_pred             HHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc------CCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCCC
Confidence            88888877   9999999988     223333454433      456778999999875332111  1111 1111 223


Q ss_pred             Ccccccc--ccchhhhhhhhc
Q psy5781         155 PFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       155 ~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ++.+++.  ..|++++|....
T Consensus       169 ~~~~~Sa~~~~gv~~l~~~l~  189 (195)
T 3pqc_A          169 TIIPTSSVTGEGISELLDLIS  189 (195)
T ss_dssp             CEEECCTTTCTTHHHHHHHHH
T ss_pred             ceEEEecCCCCCHHHHHHHHH
Confidence            5555554  567777776543

>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=99.69  E-value=7.7e-17  Score=135.91  Aligned_cols=150  Identities=11%  Similarity=0.017  Sum_probs=110.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch------hhhhcc--
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT------ITQSYY--   91 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~------~~~~~~--   91 (231)
                      +.+||+++|++|||||||++++++..+.....|++..+.....+..++  ..+.|||++|+..+..      +...|+  
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~   79 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYRE--KEFLVVDLPGIYSLTAHSIDELIARNFILD   79 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETT--EEEEEEECCCCSCCCSSCHHHHHHHHHHHT
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECC--ceEEEEeCCCccccccCCHHHHHHHHhhhc
Confidence            368999999999999999999999887555667676677777777776  4589999999987765      566666  


Q ss_pred             cCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhh
Q psy5781          92 RSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        92 ~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      .++|++|+|+|.+.++....|...+.+..  ..+.++++||.|+...+.........+...+.++.+++.  ..|+++.|
T Consensus        80 ~~~d~vi~v~D~~~~~~~~~~~~~~~~~~--~~p~ilv~NK~Dl~~~~~~~~~~~~l~~~lg~~~~~~Sa~~g~gi~~l~  157 (271)
T 3k53_A           80 GNADVIVDIVDSTCLMRNLFLTLELFEME--VKNIILVLNKFDLLKKKGAKIDIKKMRKELGVPVIPTNAKKGEGVEELK  157 (271)
T ss_dssp             TCCSEEEEEEEGGGHHHHHHHHHHHHHTT--CCSEEEEEECHHHHHHHTCCCCHHHHHHHHSSCEEECBGGGTBTHHHHH
T ss_pred             cCCcEEEEEecCCcchhhHHHHHHHHhcC--CCCEEEEEEChhcCcccccHHHHHHHHHHcCCcEEEEEeCCCCCHHHHH
Confidence            68999999999997666666666665532  155778999999765443333333356666777777765  55677777


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ....
T Consensus       158 ~~i~  161 (271)
T 3k53_A          158 RMIA  161 (271)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=99.68  E-value=7.6e-17  Score=135.26  Aligned_cols=149  Identities=11%  Similarity=0.023  Sum_probs=109.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch----------hhhhcc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT----------ITQSYY   91 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~----------~~~~~~   91 (231)
                      .||+++|++|||||||++++++..+.....|++..+.....+..++.  .+.||||+|...+..          +...|+
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~   79 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH--LIEITDLPGVYSLVANAEGISQDEQIAAQSV   79 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE--EEEEEECCCCSSCC------CHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe--EEEEEeCCCcccccccccCCCHHHHHHHHHH
Confidence            48999999999999999999988765444566666677777777774  789999999887653          566777


Q ss_pred             --cCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhh
Q psy5781          92 --RSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGH  167 (231)
Q Consensus        92 --~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e  167 (231)
                        +++|++|+|+|.+..+....|...+.   ....+.++++||.|+...+.........+...+.++.+++.  ..|+++
T Consensus        80 ~~~~~d~vi~VvDas~~~~~~~l~~~l~---~~~~pvilv~NK~Dl~~~~~~~~~~~~l~~~lg~~vi~~SA~~g~gi~e  156 (256)
T 3iby_A           80 IDLEYDCIINVIDACHLERHLYLTSQLF---ELGKPVVVALNMMDIAEHRGISIDTEKLESLLGCSVIPIQAHKNIGIPA  156 (256)
T ss_dssp             HHSCCSEEEEEEEGGGHHHHHHHHHHHT---TSCSCEEEEEECHHHHHHTTCEECHHHHHHHHCSCEEECBGGGTBSHHH
T ss_pred             hhCCCCEEEEEeeCCCchhHHHHHHHHH---HcCCCEEEEEEChhcCCcCCcHHHHHHHHHHcCCCEEEEECCCCCCHHH
Confidence              89999999999996554444444443   23566778999999866544333333356667778877776  678899


Q ss_pred             hhhhhccC
Q psy5781         168 AFSTSLAM  175 (231)
Q Consensus       168 ~f~~~~~~  175 (231)
                      .|......
T Consensus       157 l~~~i~~~  164 (256)
T 3iby_A          157 LQQSLLHC  164 (256)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHhh
Confidence            88887644

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.68  E-value=7.5e-17  Score=136.47  Aligned_cols=149  Identities=13%  Similarity=0.023  Sum_probs=108.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch----------hhhhc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT----------ITQSY   90 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~----------~~~~~   90 (231)
                      .++|+++|.+|||||||++++++..+.....|.+..+.....+..++  ..+.||||+|+..+..          +...|
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~   80 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD--HQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS--CEEEEEECCCCSCSCC----CCHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC--CceEEEECcCCCccccccccCCHHHHHHHHH
Confidence            58999999999999999999998876544455555566666666665  4678899999887662          23344


Q ss_pred             c--cCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchh
Q psy5781          91 Y--RSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFG  166 (231)
Q Consensus        91 ~--~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~  166 (231)
                      +  +.+|++|+|+|.+.++....|...+.+.   ..+.++++||.|+...+.........+...+.++.+++.  ..|++
T Consensus        81 ~~~~~~d~ii~VvD~~~~~~~~~~~~~l~~~---~~p~ivv~NK~Dl~~~~~~~~~~~~l~~~lg~~~i~~SA~~g~gi~  157 (274)
T 3i8s_A           81 ILSGDADLLINVVDASNLERNLYLTLQLLEL---GIPCIVALNMLDIAEKQNIRIEIDALSARLGCPVIPLVSTRGRGIE  157 (274)
T ss_dssp             HHHTCCSEEEEEEEGGGHHHHHHHHHHHHHH---TCCEEEEEECHHHHHHTTEEECHHHHHHHHTSCEEECCCGGGHHHH
T ss_pred             HhhcCCCEEEEEecCCChHHHHHHHHHHHhc---CCCEEEEEECccchhhhhHHHHHHHHHHhcCCCEEEEEcCCCCCHH
Confidence            3  7999999999999766666666666554   456778999999865444333333356667777877776  67788


Q ss_pred             hhhhhhcc
Q psy5781         167 HAFSTSLA  174 (231)
Q Consensus       167 e~f~~~~~  174 (231)
                      +.|.....
T Consensus       158 el~~~i~~  165 (274)
T 3i8s_A          158 ALKLAIDR  165 (274)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHH
Confidence            88877653

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.67  E-value=7.2e-17  Score=144.39  Aligned_cols=167  Identities=14%  Similarity=0.030  Sum_probs=103.8

Q ss_pred             CCCCCCCCCCCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCc
Q psy5781           2 SSSLTNDHPNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus         2 s~~~~~~~~~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~   80 (231)
                      ++++..+..|+.+.......+||+++|+.|+|||||+++|++..+. ....+....+.....+.+++. ..+.||||+|+
T Consensus        15 ~h~lee~~~msm~~~~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~-~~l~liDTpG~   93 (423)
T 3qq5_A           15 SHMLEDPRRYTMRLPDAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI-GPVTLVDTPGL   93 (423)
T ss_dssp             ---------CCCCC---CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT-EEEEEEECSST
T ss_pred             cccccchhhCccccCCCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC-CeEEEEECcCC
Confidence            3444445555544445667899999999999999999999988763 222233333455566666654 37899999999


Q ss_pred             cccchh-------hhhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcC
Q psy5781          81 ERFRTI-------TQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSA  153 (231)
Q Consensus        81 ~~~~~~-------~~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~  153 (231)
                      .++..+       ...+++.+|++|+|||++..+....|+..+.+.   ..+.++++||.|+....... .........+
T Consensus        94 ~d~~~l~~~~~~~~~~~l~~aD~vllVvD~~~~~~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~~-~~~~l~~~~g  169 (423)
T 3qq5_A           94 DDVGELGRLRVEKARRVFYRADCGILVTDSAPTPYEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAEE-LKGLYESRYE  169 (423)
T ss_dssp             TCCCTTCCCCHHHHHHHHTSCSEEEEECSSSCCHHHHHHHHHHHHT---TCCEEEECCCCTTTTCCCTH-HHHHSSCCTT
T ss_pred             CcccchhHHHHHHHHHHHhcCCEEEEEEeCCChHHHHHHHHHHHhc---CCCEEEEEeCcCCCCccHHH-HHHHHHHHcC
Confidence            877655       345788999999999997445556788887765   45677999999998765431 1111333445


Q ss_pred             CCcccccc--ccchhhhhhhhc
Q psy5781         154 MPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       154 ~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      .++.+++.  ..|++++|....
T Consensus       170 ~~v~~vSAktg~gI~eL~~~L~  191 (423)
T 3qq5_A          170 AKVLLVSALQKKGFDDIGKTIS  191 (423)
T ss_dssp             CCCCCCSSCCTTSTTTHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            55666655  457777776654

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.63  E-value=1e-15  Score=126.38  Aligned_cols=121  Identities=13%  Similarity=0.162  Sum_probs=80.5

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCccc--ceeeEEEEEEEEECCeEEEEEEeeCCC-----------cccc
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGN--TIGVDFSMKTVNIDGKKVKLQIWDTAG-----------QERF   83 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~p--t~~~~~~~~~~~~~~~~~~l~i~D~~G-----------~~~~   83 (231)
                      .....+||+++|++|||||||++++++..+.....+  ++..+.....+.+++  ..+.||||+|           ++.+
T Consensus        25 ~~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~liDTpG~~~~~~~~~~~~~~~  102 (239)
T 3lxx_A           25 PRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE--TELVVVDTPGIFDTEVPNAETSKEI  102 (239)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT--EEEEEEECCSCC-----CHHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC--ceEEEEECCCccCCCCCHHHHHHHH
Confidence            345689999999999999999999999887655544  333344445566666  5689999999           3345


Q ss_pred             chhhhhcccCCcEEEEEEecCcHh-hHHHHHHHHHHhcCC--cceeeecccccCCCCCc
Q psy5781          84 RTITQSYYRSANGVIIEVTSVEYC-YQRNWHKQAVTLFDK--YKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        84 ~~~~~~~~~~ad~vIlV~ditSf~-~l~~w~~~i~~~~~~--~~~~~vv~~k~dl~~~~  139 (231)
                      ......+++.+|++|+|+|++.+. ....|+..+.+.+..  ..+.++++||.|+....
T Consensus       103 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~  161 (239)
T 3lxx_A          103 IRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGERARSFMILIFTRKDDLGDT  161 (239)
T ss_dssp             HHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHHHGGGEEEEEECGGGC---
T ss_pred             HHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhhccceEEEEEeCCccCCcc
Confidence            555666778899999999998221 234555555544432  23567889999876543

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.63  E-value=9.1e-17  Score=130.52  Aligned_cols=119  Identities=13%  Similarity=0.140  Sum_probs=82.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEEC-CeEEEEEEeeCCC----------ccccchh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNID-GKKVKLQIWDTAG----------QERFRTI   86 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~-~~~~~l~i~D~~G----------~~~~~~~   86 (231)
                      ....+||+|+|+.|||||||+++|+++.+.....++.+.........+. .....+.||||+|          ++.+..+
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~  105 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQL  105 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHH
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHH
Confidence            3457899999999999999999999887433333333333333334443 3346789999999          4555666


Q ss_pred             hhhcccC---CcEEEEEEecC-cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          87 TQSYYRS---ANGVIIEVTSV-EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        87 ~~~~~~~---ad~vIlV~dit-Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      ...|++.   +|++|+|+|.+ .+... ..|+..+.+   ...+.++++||.|+....
T Consensus       106 ~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~  160 (223)
T 4dhe_A          106 LSSYLQTRPQLCGMILMMDARRPLTELDRRMIEWFAP---TGKPIHSLLTKCDKLTRQ  160 (223)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHGG---GCCCEEEEEECGGGSCHH
T ss_pred             HHHHHhcCcCcCEEEEEEeCCCCCCHHHHHHHHHHHh---cCCCEEEEEeccccCChh
Confidence            7777776   78899999999 33333 345555543   445677899999987643

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.62  E-value=3.9e-15  Score=124.91  Aligned_cols=117  Identities=15%  Similarity=0.085  Sum_probs=86.9

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhccc----
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYR----   92 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~----   92 (231)
                      ...+||+++|+.|||||||+++|+++.+  ...+.++. .......+..++  ..+.||||+|+.++......+++    
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t-~~~~~~~~~~~~--~~l~liDTpG~~~~~~~~~~~~~~i~~  110 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEG-LRPVMVSRTMGG--FTINIIDTPGLVEAGYVNHQALELIKG  110 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-C-CCCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcc-eeeEEEEEEECC--eeEEEEECCCCCCcccchHHHHHHHHH
Confidence            3579999999999999999999998874  33343332 234444555666  58999999999887665555444    


Q ss_pred             -----CCcEEEEEEecC--cHhhH-HHHHHHHHHhcCCcc--eeeecccccCCCCC
Q psy5781          93 -----SANGVIIEVTSV--EYCYQ-RNWHKQAVTLFDKYK--FGHAFSTSLAMPQV  138 (231)
Q Consensus        93 -----~ad~vIlV~dit--Sf~~l-~~w~~~i~~~~~~~~--~~~vv~~k~dl~~~  138 (231)
                           .+|++++|+|++  .+... ..|++.+.+.+....  +.++++||.|+...
T Consensus       111 ~l~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~  166 (262)
T 3def_A          111 FLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPP  166 (262)
T ss_dssp             HTTTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCS
T ss_pred             HHhcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCC
Confidence                 789999999998  56555 488988888776543  56788999998643

>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=99.61  E-value=1.9e-15  Score=129.96  Aligned_cols=152  Identities=11%  Similarity=0.048  Sum_probs=101.2

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCC--CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc----------
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVE--KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR----------   84 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~--~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~----------   84 (231)
                      .+...-.|+++|.+|||||||++++++..+..  ....|.. +........+ ....+.||||+|+.++.          
T Consensus         6 ~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~-~~~~~~~~~~-~~~~i~lvDTPG~~~~~~~~~l~~~~~   83 (308)
T 3iev_A            6 HHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTR-MRVLGVKNIP-NEAQIIFLDTPGIYEPKKSDVLGHSMV   83 (308)
T ss_dssp             -CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCC-SCEEEEEEET-TTEEEEEEECCCCCCCCTTCHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCcee-eEEEEEEecC-CCCeEEEEECcCCCccccchhHHHHHH
Confidence            45567899999999999999999999987642  2222221 2222233333 14778999999986544          


Q ss_pred             hhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcC--CCccc
Q psy5781          85 TITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSA--MPFPQ  158 (231)
Q Consensus        85 ~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~--~~~~e  158 (231)
                      .....+++.+|++++|+|++   +++....|++.+.+   ...+.++++||.|+............ .....+  ..+..
T Consensus        84 ~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~---~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~  160 (308)
T 3iev_A           84 EIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKP---LNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVP  160 (308)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGG---GCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEE
T ss_pred             HHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHh---cCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEE
Confidence            56678899999999999999   78888888887765   34567789999998732221111111 223322  34444


Q ss_pred             ccc--ccchhhhhhhhc
Q psy5781         159 VWP--CLKFGHAFSTSL  173 (231)
Q Consensus       159 v~~--~~nv~e~f~~~~  173 (231)
                      ++.  ..|++++|...+
T Consensus       161 vSA~~g~gv~~L~~~l~  177 (308)
T 3iev_A          161 ISALKGANLDELVKTIL  177 (308)
T ss_dssp             CBTTTTBSHHHHHHHHH
T ss_pred             EeCCCCCCHHHHHHHHH
Confidence            444  567888887765

>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=99.61  E-value=9.7e-16  Score=139.07  Aligned_cols=147  Identities=10%  Similarity=-0.045  Sum_probs=81.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhh--------hh
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTIT--------QS   89 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~--------~~   89 (231)
                      ..+||+++|.+|||||||+++|++...  ...+ |....+.....+.+++  +.+.||||+|+.++...+        ..
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~-~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~  308 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHM-PGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRM  308 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC-------------------CEEEEETT--EEEEEEC--------------------C
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccCCC-CCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHh
Confidence            358999999999999999999998753  3333 3333466667777877  679999999998765443        44


Q ss_pred             cccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccc
Q psy5781          90 YYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLK  164 (231)
Q Consensus        90 ~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~n  164 (231)
                      +++.+|++|+|||++   +++++..+..-+....  ..+.++++||.|+........  .........++.+++.  ..|
T Consensus       309 ~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~--~~piIvV~NK~Dl~~~~~~~~--~~l~~~~~~~~i~vSAktg~G  384 (476)
T 3gee_A          309 KMAEADLILYLLDLGTERLDDELTEIRELKAAHP--AAKFLTVANKLDRAANADALI--RAIADGTGTEVIGISALNGDG  384 (476)
T ss_dssp             CCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT--TSEEEEEEECTTSCTTTHHHH--HHHHHHHTSCEEECBTTTTBS
T ss_pred             hcccCCEEEEEEECCCCcchhhhHHHHHHHHhcC--CCCEEEEEECcCCCCccchhH--HHHHhcCCCceEEEEECCCCC
Confidence            789999999999999   7765444443333322  466779999999987654321  0011111123344443  455


Q ss_pred             hhhhhhhhc
Q psy5781         165 FGHAFSTSL  173 (231)
Q Consensus       165 v~e~f~~~~  173 (231)
                      +++.|....
T Consensus       385 I~eL~~~i~  393 (476)
T 3gee_A          385 IDTLKQHMG  393 (476)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            666665544

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.60  E-value=1.8e-15  Score=135.90  Aligned_cols=116  Identities=16%  Similarity=0.108  Sum_probs=83.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCC--CCcccceeeEEEEEEEEECCeEEEEEEeeCCCc----------cccch
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFV--EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ----------ERFRT   85 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~----------~~~~~   85 (231)
                      .+..+||+++|++|||||||+++++++.+.  ..+ +....+.....+..++.  .+.||||+|+          +.|..
T Consensus       172 ~~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~-~gtT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~  248 (436)
T 2hjg_A          172 NEEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNV-AGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSV  248 (436)
T ss_dssp             CTTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC----------CCEEEEETTE--EEEETTHHHHTCBTTBCCCCSHHHH
T ss_pred             cccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCC-CCceeeeeEEEEEECCe--EEEEEECCCcCcCccccchHHHHHH
Confidence            345799999999999999999999988763  333 33334555567777774  4899999998          44554


Q ss_pred             hhh-hcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          86 ITQ-SYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        86 ~~~-~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      ++. .+++.+|++|+|||++   ++++. .|...+.+   .....++++||.|+.....
T Consensus       249 ~~~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~  303 (436)
T 2hjg_A          249 LRALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVDKDE  303 (436)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSCCCT
T ss_pred             HHHHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCCcch
Confidence            443 4788999999999999   66665 57766653   3566789999999876443

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.59  E-value=9.5e-15  Score=121.94  Aligned_cols=118  Identities=14%  Similarity=0.138  Sum_probs=80.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCC-CCCCcccc-eeeEEEEEEEEECCeEEEEEEeeCCCccccch----------
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGD-FVEKTGNT-IGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT----------   85 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~-f~~~~~pt-~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~----------   85 (231)
                      ....+||+|+|.+|||||||++++++.. +...+.++ +..+.....+..++  ..+.||||+|...+..          
T Consensus        19 ~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~~~~~~~~~~i~   96 (260)
T 2xtp_A           19 SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWKDHCEALYKEVQ   96 (260)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSSCCCHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCCCCHHHHHHHHH
Confidence            4567999999999999999999999876 56555554 33344445556666  5689999999865432          


Q ss_pred             -hhhhcccCCcEEEEEEecCcHhhHH-HHHHHHHHhcC---CcceeeecccccCCCC
Q psy5781          86 -ITQSYYRSANGVIIEVTSVEYCYQR-NWHKQAVTLFD---KYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        86 -~~~~~~~~ad~vIlV~ditSf~~l~-~w~~~i~~~~~---~~~~~~vv~~k~dl~~  137 (231)
                       ....+++.+|++|+|||++.+.... .+...+.+...   ..++++++.||.|+..
T Consensus        97 ~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~  153 (260)
T 2xtp_A           97 RCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNG  153 (260)
T ss_dssp             HHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTT
T ss_pred             HHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCC
Confidence             2234778999999999998443333 23344444433   2344555556999874

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.59  E-value=4e-15  Score=125.27  Aligned_cols=118  Identities=16%  Similarity=0.052  Sum_probs=83.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCC--CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhh-------h
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFV--EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQ-------S   89 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~-------~   89 (231)
                      ...+||+++|.+|||||||++++++..+.  ..+.++.   .....+.++.....+.||||+|..++..+..       .
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t---~~~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~  113 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEG---PRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKS  113 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCC---SSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcc---eeeEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHH
Confidence            35799999999999999999999987753  2222222   2222233333347899999999876643322       1


Q ss_pred             --cccCCcEEEEEEecC--cHhhH-HHHHHHHHHhcCCc--ceeeecccccCCCCCc
Q psy5781          90 --YYRSANGVIIEVTSV--EYCYQ-RNWHKQAVTLFDKY--KFGHAFSTSLAMPQVR  139 (231)
Q Consensus        90 --~~~~ad~vIlV~dit--Sf~~l-~~w~~~i~~~~~~~--~~~~vv~~k~dl~~~~  139 (231)
                        ..+.+|++++|||++  ++... ..|++.+.+.+...  ...++++||.|+....
T Consensus       114 ~~~~~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~  170 (270)
T 1h65_A          114 FLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPD  170 (270)
T ss_dssp             HTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGG
T ss_pred             HhhcCCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcC
Confidence              234799999999998  66655 48888888776654  4677899999986543

>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=99.58  E-value=2.6e-15  Score=135.55  Aligned_cols=118  Identities=14%  Similarity=0.126  Sum_probs=84.5

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCC-CCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC----------ccccchh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGD-FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG----------QERFRTI   86 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~-f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G----------~~~~~~~   86 (231)
                      ....+||+++|++|||||||+++|++.. +.....++...+.....+..++.  .+.||||+|          ++.|..+
T Consensus       192 ~~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~  269 (456)
T 4dcu_A          192 NEEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVL  269 (456)
T ss_dssp             CTTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHH
T ss_pred             ccccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHH
Confidence            4567999999999999999999999764 22223333334555566777774  789999999          6777776


Q ss_pred             hh-hcccCCcEEEEEEecC-cHh-hHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          87 TQ-SYYRSANGVIIEVTSV-EYC-YQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        87 ~~-~~~~~ad~vIlV~dit-Sf~-~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      +. .+++.+|++|+|+|.+ .+. ....|...+.+   .....++++||.|+...+.
T Consensus       270 ~~~~~~~~ad~~llviD~~~~~~~~~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~  323 (456)
T 4dcu_A          270 RALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHE---AGKAVVIVVNKWDAVDKDE  323 (456)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHH---TTCEEEEEEECGGGSCCCS
T ss_pred             HHHHHHhhCCEEEEEEeCCCCcCHHHHHHHHHHHH---cCCCEEEEEEChhcCCCch
Confidence            55 4789999999999999 433 33456655554   3466778999999876544

>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=99.58  E-value=1.9e-14  Score=123.30  Aligned_cols=149  Identities=11%  Similarity=-0.009  Sum_probs=95.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCC--CcccceeeEEEEEEEEECCeEEEEEEeeCCCccc--------cchhhh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVE--KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER--------FRTITQ   88 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~--~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~--------~~~~~~   88 (231)
                      .+..+|+++|.+|||||||++++++.++..  ....|.. +.....+..+  ...+.||||+|..+        +.....
T Consensus         5 ~~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr-~~i~~i~~~~--~~~l~l~DTpG~~~~~~~l~~~~~~~~~   81 (301)
T 1wf3_A            5 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTR-KRLRGILTEG--RRQIVFVDTPGLHKPMDALGEFMDQEVY   81 (301)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCC-SCEEEEEEET--TEEEEEEECCCCCCCCSHHHHHHHHHHH
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCcee-EEEEEEEEeC--CcEEEEecCccccchhhHHHHHHHHHHH
Confidence            456789999999999999999999987742  2222332 2221222333  47899999999876        445567


Q ss_pred             hcccCCcEEEEEEecC-cHhhHHHHH-HHHHHhcCCcceeeecccccCCCCCccccccchhhhhhc--CCCcccccc--c
Q psy5781          89 SYYRSANGVIIEVTSV-EYCYQRNWH-KQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSS--AMPFPQVWP--C  162 (231)
Q Consensus        89 ~~~~~ad~vIlV~dit-Sf~~l~~w~-~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~--~~~~~ev~~--~  162 (231)
                      .+++.+|++++|||++ .+.....|+ +.+.+.. ...+.++++||.|+...... ..  ......  ..++..+++  .
T Consensus        82 ~~l~~ad~il~VvD~~~~~~~~~~~i~~~l~~~~-~~~p~ilV~NK~Dl~~~~~~-~~--~~~~~~~~~~~~~~iSA~~g  157 (301)
T 1wf3_A           82 EALADVNAVVWVVDLRHPPTPEDELVARALKPLV-GKVPILLVGNKLDAAKYPEE-AM--KAYHELLPEAEPRMLSALDE  157 (301)
T ss_dssp             HHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGT-TTSCEEEEEECGGGCSSHHH-HH--HHHHHTSTTSEEEECCTTCH
T ss_pred             HHHhcCCEEEEEEECCCCCChHHHHHHHHHHhhc-CCCCEEEEEECcccCCchHH-HH--HHHHHhcCcCcEEEEeCCCC
Confidence            7899999999999998 444445665 4444432 35667799999998754320 01  111111  111233333  4


Q ss_pred             cchhhhhhhhcc
Q psy5781         163 LKFGHAFSTSLA  174 (231)
Q Consensus       163 ~nv~e~f~~~~~  174 (231)
                      .|++++|.....
T Consensus       158 ~gv~~l~~~l~~  169 (301)
T 1wf3_A          158 RQVAELKADLLA  169 (301)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHH
Confidence            678888877663

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.57  E-value=5.9e-15  Score=132.66  Aligned_cols=112  Identities=16%  Similarity=0.143  Sum_probs=73.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc---------cchhhhhcc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER---------FRTITQSYY   91 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~---------~~~~~~~~~   91 (231)
                      -+|+++|.+|||||||+++|++++.. ....|.+..+.....+.+++.  .+.||||+|++.         +......++
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   79 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGK--TFKLVDTCGVFDNPQDIISQKMKEVTLNMI   79 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTE--EEEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCe--EEEEEECCCccccccchHHHHHHHHHHHHH
Confidence            37999999999999999999987642 122333334555667777774  578999999764         334567789


Q ss_pred             cCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          92 RSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        92 ~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +.+|++|+|||++ .+.....|+.++.+.  ...+.++++||.|+..
T Consensus        80 ~~ad~il~V~D~~~~~~~~d~~i~~~l~~--~~~p~ilv~NK~D~~~  124 (439)
T 1mky_A           80 READLVLFVVDGKRGITKEDESLADFLRK--STVDTILVANKAENLR  124 (439)
T ss_dssp             TTCSEEEEEEETTTCCCHHHHHHHHHHHH--HTCCEEEEEESCCSHH
T ss_pred             HhCCEEEEEEECCCCCCHHHHHHHHHHHH--cCCCEEEEEeCCCCcc
Confidence            9999999999998 333333333332222  2455779999999853

>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=99.54  E-value=2e-15  Score=136.30  Aligned_cols=117  Identities=15%  Similarity=0.079  Sum_probs=80.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCC--------ccccchhhhhc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG--------QERFRTITQSY   90 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G--------~~~~~~~~~~~   90 (231)
                      ....+|+++|.+|||||||+++++++++. ...++.|.+.......++.....+.||||+|        ++++......+
T Consensus        21 m~~~~V~lvG~~nvGKSTL~n~l~~~~~~-~v~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~   99 (456)
T 4dcu_A           21 MGKPVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIA   99 (456)
T ss_dssp             --CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCc-ccCCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhh
Confidence            34679999999999999999999988764 2445566555555555555556899999999        77788888999


Q ss_pred             ccCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          91 YRSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        91 ~~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ++.+|++|+|+|.+ .+.....|+.++.+.  ..++.++++||.|+...
T Consensus       100 ~~~ad~il~VvD~~~~~~~~d~~l~~~l~~--~~~pvilV~NK~D~~~~  146 (456)
T 4dcu_A          100 MDEADVIIFMVNGREGVTAADEEVAKILYR--TKKPVVLAVNKLDNTEM  146 (456)
T ss_dssp             HHHCSEEEEEEESSSCSCHHHHHHHHHHTT--CCSCEEEEEECC-----
T ss_pred             HhhCCEEEEEEeCCCCCChHHHHHHHHHHH--cCCCEEEEEECccchhh
Confidence            99999999999998 666666666555432  45667789999998754

>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=99.53  E-value=2.5e-14  Score=123.80  Aligned_cols=83  Identities=12%  Similarity=0.102  Sum_probs=60.2

Q ss_pred             cceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC-------------cHhhHHHHHHHHHH
Q psy5781          52 NTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-------------EYCYQRNWHKQAVT  118 (231)
Q Consensus        52 pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-------------Sf~~l~~w~~~i~~  118 (231)
                      ||+|+  ....+.+++  +.++|||++||+.++.+|..|+++++++|+|||++             +++....|+..+.+
T Consensus       153 ~TiGi--~~~~~~~~~--v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~  228 (327)
T 3ohm_A          153 PTTGI--IEYPFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIIT  228 (327)
T ss_dssp             CCCSE--EEEEEEETT--EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHT
T ss_pred             ceeeE--EEEEEEeec--eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhh
Confidence            55663  334555554  88999999999999999999999999999999764             34444445555443


Q ss_pred             hc-CCcceeeecccccCCCCC
Q psy5781         119 LF-DKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       119 ~~-~~~~~~~vv~~k~dl~~~  138 (231)
                      .. ....+.++++||.|+...
T Consensus       229 ~~~~~~~~iiL~~NK~DL~~~  249 (327)
T 3ohm_A          229 YPWFQNSSVILFLNKKDLLEE  249 (327)
T ss_dssp             SGGGTTCEEEEEEECHHHHHH
T ss_pred             hhccCCceEEEEEECchhhhh
Confidence            22 244567899999998653

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.53  E-value=1e-14  Score=131.03  Aligned_cols=115  Identities=16%  Similarity=0.116  Sum_probs=71.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc--------ccchhhhhccc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE--------RFRTITQSYYR   92 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~--------~~~~~~~~~~~   92 (231)
                      ..+|+++|.+|||||||+++|++.++. .+.++.|.+.......+......+.||||+|++        .+...+..+++
T Consensus         3 ~~~V~ivG~~nvGKStL~n~l~~~~~~-~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   81 (436)
T 2hjg_A            3 KPVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMD   81 (436)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHEEEECC------------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            369999999999999999999987653 244555554443333443334679999999985        56667788999


Q ss_pred             CCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          93 SANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        93 ~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .+|++|+|+|++ .......|+.++.+  ....+.++++||.|+...
T Consensus        82 ~ad~il~vvD~~~~~~~~d~~~~~~l~--~~~~pvilv~NK~D~~~~  126 (436)
T 2hjg_A           82 EADVIIFMVNGREGVTAADEEVAKILY--RTKKPVVLAVNKLDNTEM  126 (436)
T ss_dssp             HCSEEEEEEETTTCSCHHHHHHHHHHT--TCCSCEEEEEECCCC---
T ss_pred             hCCEEEEEEeCCCCCCHHHHHHHHHHH--HcCCCEEEEEECccCccc
Confidence            999999999998 32333344444332  245667899999998754

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.51  E-value=1.4e-13  Score=120.50  Aligned_cols=149  Identities=11%  Similarity=-0.015  Sum_probs=98.5

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCC-Ccc-cceeeEEEEEEEEECCeEEEEEEeeCCCccccc---------hhh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVE-KTG-NTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR---------TIT   87 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~-~~~-pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~---------~~~   87 (231)
                      ...++|+++|.+|||||||++++++..+.. .+. .|..  .....+..++  ..+.+|||+|.....         ...
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~--~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~  240 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRG--INVGQFEDGY--FRYQIIDTPGLLDRPISERNEIEKQAI  240 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSC--EEEEEEEETT--EEEEEEECTTTSSSCSTTSCHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeec--eeEEEEEecC--ceEEEEeCCCccccchhhhhHHHHHHH
Confidence            456899999999999999999999876432 121 2222  3333334443  678999999985432         112


Q ss_pred             hhcccCCcEEEEEEecC-----cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc-
Q psy5781          88 QSYYRSANGVIIEVTSV-----EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP-  161 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit-----Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~-  161 (231)
                      ..+...+|++++|+|++     +++....|+.++..... ..+.++++||.|+....... .........+.++.+++. 
T Consensus       241 ~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~-~~piilV~NK~Dl~~~~~~~-~~~~~~~~~~~~~~~iSA~  318 (357)
T 2e87_A          241 LALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-DLPFLVVINKIDVADEENIK-RLEKFVKEKGLNPIKISAL  318 (357)
T ss_dssp             HGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT-TSCEEEEECCTTTCCHHHHH-HHHHHHHHTTCCCEECBTT
T ss_pred             HHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC-CCCEEEEEECcccCChHHHH-HHHHHHHhcCCCeEEEeCC
Confidence            23455799999999987     57788899999988765 56677999999997643210 001122234455666663 


Q ss_pred             -ccchhhhhhhhc
Q psy5781         162 -CLKFGHAFSTSL  173 (231)
Q Consensus       162 -~~nv~e~f~~~~  173 (231)
                       ..|++++|....
T Consensus       319 ~g~gi~~l~~~i~  331 (357)
T 2e87_A          319 KGTGIDLVKEEII  331 (357)
T ss_dssp             TTBTHHHHHHHHH
T ss_pred             CCcCHHHHHHHHH
Confidence             566777766543

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.50  E-value=1.2e-14  Score=131.35  Aligned_cols=112  Identities=16%  Similarity=0.196  Sum_probs=73.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh--------hhh
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI--------TQS   89 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~--------~~~   89 (231)
                      ..+||+++|.+|||||||++++++..+  ...+ ++...++....+.+++  ..+.||||+|..++...        ...
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~-~gtT~d~~~~~i~~~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~  299 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDL-PGTTRDVVESQLVVGG--IPVQVLDTAGIRETSDQVEKIGVERSRQ  299 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCC-TTCCHHHHHHEEEETT--EEEEECC--------------------C
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCC-CCeeEEEEEEEEEECC--EEEEEEECCccccchhHHHHHHHHHHhh
Confidence            458999999999999999999998654  3333 4443455556677777  56799999998665433        234


Q ss_pred             cccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          90 YYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        90 ~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      +++.+|++++|||.+   +.+. ..|++.+..     .+.++++||.|+.....
T Consensus       300 ~~~~aD~vl~VvD~s~~~~~~~-~~i~~~l~~-----~piivV~NK~Dl~~~~~  347 (462)
T 3geh_A          300 AANTADLVLLTIDAATGWTTGD-QEIYEQVKH-----RPLILVMNKIDLVEKQL  347 (462)
T ss_dssp             CCCSCSEEEEEEETTTCSCHHH-HHHHHHHTT-----SCEEEEEECTTSSCGGG
T ss_pred             hhhcCCEEEEEeccCCCCCHHH-HHHHHhccC-----CcEEEEEECCCCCcchh
Confidence            788999999999999   3332 455555532     46778999999876543

>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=99.48  E-value=3.5e-13  Score=119.78  Aligned_cols=149  Identities=13%  Similarity=0.063  Sum_probs=99.4

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEE------------------------CCeEEEE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI------------------------DGKKVKL   72 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~------------------------~~~~~~l   72 (231)
                      .+...+||+++|+.++|||||+++|++......    .+  +...++..                        ......+
T Consensus         4 ~~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~----~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (403)
T 3sjy_A            4 KVQPEVNIGVVGHVDHGKTTLVQAITGIWTSKK----LG--YAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRI   77 (403)
T ss_dssp             CCCCCCEEEEECSTTSSHHHHHHHHHSCCCCSS----SE--EEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEE
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHHHhCcccccc----cC--ccccceeeccccccccceecccccccccccccccccceE
Confidence            455679999999999999999999997543321    11  11111100                        1123789


Q ss_pred             EEeeCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhh
Q psy5781          73 QIWDTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHA  149 (231)
Q Consensus        73 ~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s  149 (231)
                      .||||+|+++|......++..+|++|+|+|.+   ++....+|+..+.....  +..++++||.|+...........+..
T Consensus        78 ~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~--~~iivviNK~Dl~~~~~~~~~~~~i~  155 (403)
T 3sjy_A           78 SFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGV--KNLIIVQNKVDVVSKEEALSQYRQIK  155 (403)
T ss_dssp             EEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTC--CCEEEEEECGGGSCHHHHHHHHHHHH
T ss_pred             EEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCC--CCEEEEEECccccchHHHHHHHHHHH
Confidence            99999999999999999999999999999999   47788888877655432  34678999999876432111111111


Q ss_pred             hh------cCCCcccccc--ccchhhhhhhhc
Q psy5781         150 SS------SAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       150 ~~------~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ..      ...++..++.  ..|+++.+....
T Consensus       156 ~~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~  187 (403)
T 3sjy_A          156 QFTKGTWAENVPIIPVSALHKINIDSLIEGIE  187 (403)
T ss_dssp             HHHTTSTTTTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             HHHHhhCCCCCEEEEEECCCCcChHHHHHHHH
Confidence            11      1334455544  567777777654

>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=99.47  E-value=2.2e-14  Score=125.59  Aligned_cols=70  Identities=10%  Similarity=0.037  Sum_probs=55.9

Q ss_pred             eEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC-------------cHhhHHHHHHHHHHhc-CCcceeeeccccc
Q psy5781          68 KKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-------------EYCYQRNWHKQAVTLF-DKYKFGHAFSTSL  133 (231)
Q Consensus        68 ~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-------------Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~  133 (231)
                      +.+.++||||+||+.++.+|..|+++++++|+|||++             +|+++..|++.+.+.. ....++++++||.
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            6799999999999999999999999999999999984             5666667777776543 2456678999999


Q ss_pred             CCCC
Q psy5781         134 AMPQ  137 (231)
Q Consensus       134 dl~~  137 (231)
                      |+..
T Consensus       261 DL~~  264 (354)
T 2xtz_A          261 DIFE  264 (354)
T ss_dssp             HHHH
T ss_pred             chhh
Confidence            9854

>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=99.47  E-value=5.8e-14  Score=127.54  Aligned_cols=109  Identities=20%  Similarity=0.222  Sum_probs=81.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc-ccch--------hhhh
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE-RFRT--------ITQS   89 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~-~~~~--------~~~~   89 (231)
                      .+||+++|.+|||||||++++++..+  ..++..|. .++....+.+++  ..+.||||+|.. ++..        ....
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT-~d~~~~~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~  319 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTT-RDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQ  319 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCS-SCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCee-eeeEEEEEecCC--eEEEEEECCCccccchhhHHHHHHHHHHH
Confidence            38999999999999999999998753  44444443 356667778877  568999999987 6542        2356


Q ss_pred             cccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          90 YYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        90 ~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +++.+|++|+|||++   +++..+-| +.+     ...+.++++||.|+...
T Consensus       320 ~~~~aD~vl~VvD~s~~~s~~~~~il-~~l-----~~~piivV~NK~DL~~~  365 (482)
T 1xzp_A          320 EIEKADIVLFVLDASSPLDEEDRKIL-ERI-----KNKRYLVVINKVDVVEK  365 (482)
T ss_dssp             HHHHCSEEEEEEETTSCCCHHHHHHH-HHH-----TTSSEEEEEEECSSCCC
T ss_pred             HhhcccEEEEEecCCCCCCHHHHHHH-HHh-----cCCCEEEEEECcccccc
Confidence            789999999999998   66554322 222     24567799999999653

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.47  E-value=2e-13  Score=122.73  Aligned_cols=118  Identities=14%  Similarity=0.090  Sum_probs=82.5

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCC-------------------------------CCCCcccceeeEEEEEEEEEC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGD-------------------------------FVEKTGNTIGVDFSMKTVNID   66 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~-------------------------------f~~~~~pt~~~~~~~~~~~~~   66 (231)
                      ....++|+++|..++|||||+++|+...                               +..+..+.+..+.....+..+
T Consensus        14 ~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~   93 (439)
T 3j2k_7           14 KKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETE   93 (439)
T ss_pred             CCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecC
Confidence            4567999999999999999999995431                               111222334444444445554


Q ss_pred             CeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--c----HhhHHHHHHHHHHhcCCcce-eeecccccCCCC
Q psy5781          67 GKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--E----YCYQRNWHKQAVTLFDKYKF-GHAFSTSLAMPQ  137 (231)
Q Consensus        67 ~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--S----f~~l~~w~~~i~~~~~~~~~-~~vv~~k~dl~~  137 (231)
                      +  ..+.||||+|+++|......+++.+|++|||+|.+  -    |+....+.+.+......... .++++||.|+..
T Consensus        94 ~--~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~~  169 (439)
T 3j2k_7           94 K--KHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPT  169 (439)
T ss_pred             C--eEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCcc
Confidence            4  68999999999999998899999999999999998  2    22223444444433333333 678899999853

>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=99.47  E-value=1.2e-13  Score=120.05  Aligned_cols=82  Identities=15%  Similarity=0.136  Sum_probs=60.6

Q ss_pred             cceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC-------------cHhhHHHHHHHHHH
Q psy5781          52 NTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-------------EYCYQRNWHKQAVT  118 (231)
Q Consensus        52 pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-------------Sf~~l~~w~~~i~~  118 (231)
                      +|+|+..  ..+.++  .+.++|||++||+.++.+|..|+++++++|+|||++             ++++...|+..+.+
T Consensus       147 ~TiGi~~--~~~~~~--~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~  222 (340)
T 4fid_A          147 KTTGIHE--YDFVVK--DIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMT  222 (340)
T ss_dssp             CCCSCEE--EEEESS--SCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHH
T ss_pred             ceeeeEE--EEEEee--eeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhh
Confidence            4566333  344444  488999999999999999999999999999999996             34444455555544


Q ss_pred             hc-CCcceeeecccccCCCC
Q psy5781         119 LF-DKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       119 ~~-~~~~~~~vv~~k~dl~~  137 (231)
                      .. ....+.++++||.|+..
T Consensus       223 ~~~~~~~piiLv~NK~DL~~  242 (340)
T 4fid_A          223 NEFLKGAVKLIFLNKMDLFE  242 (340)
T ss_dssp             CGGGTTSEEEEEEECHHHHH
T ss_pred             hhccCCCeEEEEEECchhhh
Confidence            32 24556789999999865

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.46  E-value=4.3e-15  Score=136.33  Aligned_cols=115  Identities=15%  Similarity=0.084  Sum_probs=86.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +..+|+++|++++|||||+++|.+..+...+.+++..++....+..++ ...+.||||+|++.|..++..+++.+|++||
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~-g~~i~~iDTPGhe~f~~~~~~~~~~aD~vIL   81 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPS-GEKITFLDTPGHAAFSAMRARGTQVTDIVIL   81 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSC-SSCCBCEECSSSCCTTTSBBSSSBSBSSCEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCC-CCEEEEEECCChHHHHHHHHHHHccCCEEEE
Confidence            467899999999999999999998877665666665444444444422 2368999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      |||.+   ..+    |.+.+........+.++++||.|+....
T Consensus        82 VVDa~dg~~~q----t~e~l~~~~~~~vPiIVViNKiDl~~~~  120 (537)
T 3izy_P           82 VVAADDGVMKQ----TVESIQHAKDAHVPIVLAINKCDKAEAD  120 (537)
T ss_dssp             ECBSSSCCCHH----HHHHHHHHHTTTCCEEECCBSGGGTTTS
T ss_pred             EEECCCCccHH----HHHHHHHHHHcCCcEEEEEecccccccc
Confidence            99999   333    3333333334445678999999987543

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.46  E-value=2.6e-14  Score=125.41  Aligned_cols=118  Identities=18%  Similarity=0.271  Sum_probs=71.7

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHc-CCCCCCcc--------cceeeEEEEEEEEECCeEEEEEEeeCCCc-------cc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRS-GDFVEKTG--------NTIGVDFSMKTVNIDGKKVKLQIWDTAGQ-------ER   82 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~-~~f~~~~~--------pt~~~~~~~~~~~~~~~~~~l~i~D~~G~-------~~   82 (231)
                      ...++|+|+|++|+|||||++++.. +.+...+.        +|++.++....+..++..+.+.||||+|.       +.
T Consensus        35 ~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~  114 (361)
T 2qag_A           35 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDC  114 (361)
T ss_dssp             CCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC-------------
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHH
Confidence            4568999999999999999999764 44444332        57766655555556677789999999998       66


Q ss_pred             cchhhh-------hcccCCcEE-----------EEEEecC----cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          83 FRTITQ-------SYYRSANGV-----------IIEVTSV----EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        83 ~~~~~~-------~~~~~ad~v-----------IlV~dit----Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      +..+..       .|++.++++           ++||+++    ++..+. .|++.+    ....+.++++||.|+...+
T Consensus       115 ~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~~  190 (361)
T 2qag_A          115 FKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTLK  190 (361)
T ss_dssp             -CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCHH
Confidence            776665       666655443           3666665    666665 455544    3556678999999997654


Q ss_pred             c
Q psy5781         140 P  140 (231)
Q Consensus       140 ~  140 (231)
                      .
T Consensus       191 e  191 (361)
T 2qag_A          191 E  191 (361)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.45  E-value=5.6e-13  Score=119.61  Aligned_cols=118  Identities=18%  Similarity=0.180  Sum_probs=79.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCC--CCCC----------ccccee-------------------eEEEEEEEEEC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGD--FVEK----------TGNTIG-------------------VDFSMKTVNID   66 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~--f~~~----------~~pt~~-------------------~~~~~~~~~~~   66 (231)
                      ....+||+++|..++|||||+++|+++.  +..+          +.+|.+                   +........++
T Consensus        21 ~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~  100 (434)
T 1zun_B           21 RKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS  100 (434)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEee
Confidence            3467999999999999999999998653  1111          112211                   11111111222


Q ss_pred             CeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          67 GKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        67 ~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .....+.||||+|+++|......++..+|++|||+|.+  ......+|+..+...  +.+..++++||.|+..
T Consensus       101 ~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~~~~~--~~~~iIvviNK~Dl~~  171 (434)
T 1zun_B          101 TAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLL--GIKHIVVAINKMDLNG  171 (434)
T ss_dssp             CSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHT--TCCEEEEEEECTTTTT
T ss_pred             cCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHc--CCCeEEEEEEcCcCCc
Confidence            23467999999999999888888999999999999999  344445555544432  2334678899999975

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.45  E-value=1.1e-13  Score=116.67  Aligned_cols=116  Identities=15%  Similarity=0.209  Sum_probs=74.6

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc-CCCCCCc-------ccceeeEEEEEEEEECCeEEEEEEeeCCCcc-------c
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS-GDFVEKT-------GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE-------R   82 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~-~~f~~~~-------~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~-------~   82 (231)
                      +...+||+|+|.+|+|||||+++++. +.+...+       .+|++.+.....+..++..+.+.||||+|..       .
T Consensus         5 ~g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~   84 (274)
T 3t5d_A            5 SGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNC   84 (274)
T ss_dssp             --CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTT
T ss_pred             CccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhh
Confidence            45689999999999999999999765 4455555       6788877776666667777899999999973       2


Q ss_pred             cchhh-------hhccc-------------CCcEEEEEEecC--cHhhHH-HHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          83 FRTIT-------QSYYR-------------SANGVIIEVTSV--EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        83 ~~~~~-------~~~~~-------------~ad~vIlV~dit--Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +..+.       ..|++             ++|+++++++.+  .+.... .+++.+..    ..+.++++||.|+..
T Consensus        85 ~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~----~~pvi~V~nK~D~~~  158 (274)
T 3t5d_A           85 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE----KVNIIPLIAKADTLT  158 (274)
T ss_dssp             THHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT----TSCEEEEESSGGGSC
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc----cCCEEEEEeccCCCC
Confidence            22222       33333             377899998776  444443 44444433    566778999999864

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=99.45  E-value=4.4e-14  Score=126.86  Aligned_cols=115  Identities=21%  Similarity=0.213  Sum_probs=82.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC--CCCCCc-------------------------------ccceeeEEEEEEEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG--DFVEKT-------------------------------GNTIGVDFSMKTVNI   65 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~~~-------------------------------~pt~~~~~~~~~~~~   65 (231)
                      ...+||+++|..++|||||+++|+.+  .+.+.+                               ..|+.  .....  +
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~--~~~~~--~   79 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTIN--LTFMR--F   79 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-------------CE--E
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeE--eeEEE--E
Confidence            45699999999999999999999864  332111                               12222  22222  3


Q ss_pred             CCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcC-----CcceeeecccccCCCC
Q psy5781          66 DGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFD-----KYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        66 ~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~-----~~~~~~vv~~k~dl~~  137 (231)
                      +.....+.||||+|+++|......+++.+|++|+|+|.+  +|+++..|..+.++...     ..+..++++||.|+..
T Consensus        80 ~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~  158 (435)
T 1jny_A           80 ETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTE  158 (435)
T ss_dssp             ECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSS
T ss_pred             ecCCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCC
Confidence            334467999999999999998899999999999999999  88877766555544332     2234568899999876

>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=99.45  E-value=4.2e-13  Score=117.42  Aligned_cols=82  Identities=11%  Similarity=0.086  Sum_probs=60.4

Q ss_pred             cceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCc----------HhhHH---HHHHHHHH
Q psy5781          52 NTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVE----------YCYQR---NWHKQAVT  118 (231)
Q Consensus        52 pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditS----------f~~l~---~w~~~i~~  118 (231)
                      ||+|++  ...+.+++  +.+.|||++||+.++.+|..|+++++++|+|||++.          .+++.   .|+..+.+
T Consensus       179 ~T~Gi~--~~~~~~~~--~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~  254 (353)
T 1cip_A          179 KTTGIV--ETHFTFKD--LHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICN  254 (353)
T ss_dssp             CCCSEE--EEEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHT
T ss_pred             ceeceE--EEEEeeCC--eeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHc
Confidence            355533  34455554  889999999999999999999999999999999994          33444   55555544


Q ss_pred             hc-CCcceeeecccccCCCC
Q psy5781         119 LF-DKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       119 ~~-~~~~~~~vv~~k~dl~~  137 (231)
                      .. ....++++++||.|+..
T Consensus       255 ~~~~~~~piiLv~NK~DL~~  274 (353)
T 1cip_A          255 NKWFTDTSIILFLNKKDLFE  274 (353)
T ss_dssp             CGGGTTSEEEEEEECHHHHH
T ss_pred             CccccCCcEEEEEECcCchh
Confidence            32 24566789999999853

>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=99.43  E-value=1.2e-13  Score=120.27  Aligned_cols=146  Identities=12%  Similarity=0.055  Sum_probs=96.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC-CCcc-cceeeEEEEEEEEECCeEEEEEEeeCCCcc----ccchhhhhccc---
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV-EKTG-NTIGVDFSMKTVNIDGKKVKLQIWDTAGQE----RFRTITQSYYR---   92 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~-pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~----~~~~~~~~~~~---   92 (231)
                      .+|+++|.++||||||++++++.++. .+|. .|..  .....+.+++ ...+.|||++|..    ++..+...|++   
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~--p~~g~v~~~~-~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~  235 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLV--PNLGMVETDD-GRSFVMADLPGLIEGAHQGVGLGHQFLRHIE  235 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCC--CCEEEEECSS-SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHH
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccCCccccC--ceEEEEEeCC-CceEEEecCCCCcccccccchhHHHHHHHHH
Confidence            36889999999999999999976532 2332 2322  2223455553 2468999999964    34445555655   


Q ss_pred             CCcEEEEEEecC------cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCCccccccchhhhhhcC--CCcccccc-
Q psy5781          93 SANGVIIEVTSV------EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVRPCLFHKFGHASSSA--MPFPQVWP-  161 (231)
Q Consensus        93 ~ad~vIlV~dit------Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~--~~~~ev~~-  161 (231)
                      .++++|+|+|++      +++++..|+.++..+.+  ...+.++++||.|+...... .  ........  .++.+++. 
T Consensus       236 ~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~e~-~--~~l~~~l~~~~~v~~iSA~  312 (342)
T 1lnz_A          236 RTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAEN-L--EAFKEKLTDDYPVFPISAV  312 (342)
T ss_dssp             HCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHHHH-H--HHHHHHCCSCCCBCCCSSC
T ss_pred             hccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCHHH-H--HHHHHHhhcCCCEEEEECC
Confidence            499999999995      67888899999988764  35667899999999764321 1  11222222  34555554 


Q ss_pred             -ccchhhhhhhhc
Q psy5781         162 -CLKFGHAFSTSL  173 (231)
Q Consensus       162 -~~nv~e~f~~~~  173 (231)
                       ..|+++++....
T Consensus       313 tg~gi~eL~~~l~  325 (342)
T 1lnz_A          313 TREGLRELLFEVA  325 (342)
T ss_dssp             CSSTTHHHHHHHH
T ss_pred             CCcCHHHHHHHHH
Confidence             567777776654

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.42  E-value=2.6e-12  Score=114.31  Aligned_cols=154  Identities=8%  Similarity=0.080  Sum_probs=92.6

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc---CCCCCCccc--ceeeEEEEEEEEE-------------C--C----eEEEEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS---GDFVEKTGN--TIGVDFSMKTVNI-------------D--G----KKVKLQ   73 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~---~~f~~~~~p--t~~~~~~~~~~~~-------------~--~----~~~~l~   73 (231)
                      ....+||+++|..++|||||++++.+   +.+..++.+  |+...+....+..             +  +    ....+.
T Consensus         5 r~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   84 (408)
T 1s0u_A            5 SQAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVS   84 (408)
T ss_dssp             CCCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEE
T ss_pred             cCCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEE
Confidence            34579999999999999999999984   344455555  6665555444422             1  2    137899


Q ss_pred             EeeCCCccccchhhhhcccCCcEEEEEEecC-c--HhhHHHHHHHHHHhcCCcceeeecccccCCCCCcccc--ccchh-
Q psy5781          74 IWDTAGQERFRTITQSYYRSANGVIIEVTSV-E--YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCL--FHKFG-  147 (231)
Q Consensus        74 i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-S--f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~--~~~~~-  147 (231)
                      |||++|+++|.......+..+|++|||+|.+ .  .....+.+..+.. . ..+..++++||.|+.......  ..+.. 
T Consensus        85 iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~-l-~~~~iivv~NK~Dl~~~~~~~~~~~~i~~  162 (408)
T 1s0u_A           85 FVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEI-L-GIDKIIIVQNKIDLVDEKQAEENYEQIKE  162 (408)
T ss_dssp             EEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHH-T-TCCCEEEEEECTTSSCTTTTTTHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHH-c-CCCeEEEEEEccCCCCHHHHHHHHHHHHH
Confidence            9999999998887777788899999999998 2  2333333333322 2 223467899999997644321  11111 


Q ss_pred             hhhh---cCCCcccccc--ccchhhhhhhhc
Q psy5781         148 HASS---SAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       148 ~s~~---~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ....   ...++..++.  ..|+++.+....
T Consensus       163 ~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~  193 (408)
T 1s0u_A          163 FVKGTIAENAPIIPISAHHEANIDVLLKAIQ  193 (408)
T ss_dssp             HHTTSTTTTCCEEEC------CHHHHHHHHH
T ss_pred             HHhhcCCCCCeEEEeeCCCCCCHHHHHHHHH
Confidence            1111   2334445544  567777776654

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.41  E-value=6.4e-13  Score=123.50  Aligned_cols=149  Identities=13%  Similarity=0.109  Sum_probs=93.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcC--CCC-----CCcc------cceeeEEEEEEEEE-----CCeEEEEEEeeCCCcc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSG--DFV-----EKTG------NTIGVDFSMKTVNI-----DGKKVKLQIWDTAGQE   81 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~--~f~-----~~~~------pt~~~~~~~~~~~~-----~~~~~~l~i~D~~G~~   81 (231)
                      +..+|+++|..++|||||+++++..  .+.     ..+.      .+.|++.....+.+     +++.+.++||||+|+.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            5689999999999999999999862  111     1111      12233332222222     5667999999999999


Q ss_pred             ccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCC---
Q psy5781          82 RFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMP---  155 (231)
Q Consensus        82 ~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~---  155 (231)
                      +|......+++.+|++|+|+|.+   +++....|...+.    ...+.++++||.|+.....-. ...+.....+.+   
T Consensus        83 dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~~~~-v~~ei~~~lg~~~~~  157 (599)
T 3cb4_D           83 DFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAADPER-VAEEIEDIVGIDATD  157 (599)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCCHHH-HHHHHHHHTCCCCTT
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCcccccHHH-HHHHHHHHhCCCcce
Confidence            99999999999999999999998   7788888876653    244577899999998644211 011123333333   


Q ss_pred             cccccc--ccchhhhhhhhc
Q psy5781         156 FPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       156 ~~ev~~--~~nv~e~f~~~~  173 (231)
                      +..++.  ..|+++.+....
T Consensus       158 vi~vSAktg~GI~~Ll~~I~  177 (599)
T 3cb4_D          158 AVRCSAKTGVGVQDVLERLV  177 (599)
T ss_dssp             CEEECTTTCTTHHHHHHHHH
T ss_pred             EEEeecccCCCchhHHHHHh
Confidence            333333  567777776643

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.39  E-value=1.4e-12  Score=118.49  Aligned_cols=123  Identities=11%  Similarity=0.013  Sum_probs=79.3

Q ss_pred             CCCCCCCCCceeeEEEEEcCCCCcHHHHHHHHHcCC-------CCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc
Q psy5781          10 PNTFQDDSYDFLFKVVLIGDCGVGKTCVVHRFRSGD-------FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER   82 (231)
Q Consensus        10 ~~~~~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~~-------f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~   82 (231)
                      +++.+.......++|+++|..++|||||++++++..       +..+..+.+..+.....+.+++  ..+.||||+|+++
T Consensus         8 ~~~~~~~~~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~   85 (482)
T 1wb1_A            8 SIEGRPHMDFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHAD   85 (482)
T ss_dssp             -----CCCCCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHH
T ss_pred             CCCcchhhcCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHH
Confidence            344444455678999999999999999999999766       2233332222223333455555  6899999999999


Q ss_pred             cchhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          83 FRTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        83 ~~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |......++..+|++|||+|.+  -...-.+++..+...  + ...++++||.|+..
T Consensus        86 ~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~--~-ip~IvviNK~Dl~~  139 (482)
T 1wb1_A           86 LIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHF--N-IPIIVVITKSDNAG  139 (482)
T ss_dssp             HHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHT--T-CCBCEEEECTTSSC
T ss_pred             HHHHHHHHHhhCCEEEEEEecCCCccHHHHHHHHHHHHc--C-CCEEEEEECCCccc
Confidence            9888888999999999999998  122222333333321  2 23378999999875

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.39  E-value=1.6e-12  Score=121.25  Aligned_cols=118  Identities=11%  Similarity=0.076  Sum_probs=80.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCc-------------------------------ccceeeEEEEEEEEEC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKT-------------------------------GNTIGVDFSMKTVNID   66 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~-------------------------------~pt~~~~~~~~~~~~~   66 (231)
                      ....+||+++|.+++|||||+++|++....-..                               .+.+..+.....+..+
T Consensus       164 ~k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~  243 (611)
T 3izq_1          164 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTH  243 (611)
T ss_dssp             CCCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECS
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecC
Confidence            345799999999999999999999965321100                               0111111222233333


Q ss_pred             CeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCc--Hh----hHHHHHHHHHHhcCC-cceeeecccccCCCC
Q psy5781          67 GKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVE--YC----YQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQ  137 (231)
Q Consensus        67 ~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditS--f~----~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~  137 (231)
                        ...+.||||+|+++|......+++.+|++|+|+|++.  |+    ....+...+...... .+..++++||.|+..
T Consensus       244 --~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~  319 (611)
T 3izq_1          244 --RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVD  319 (611)
T ss_dssp             --SCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTT
T ss_pred             --CceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccc
Confidence              4678999999999999999999999999999999982  22    223444444333332 244678899999876

>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=99.39  E-value=2.3e-12  Score=115.69  Aligned_cols=114  Identities=21%  Similarity=0.169  Sum_probs=74.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh----------
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI----------   86 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~----------   86 (231)
                      ...+||+++|++|||||||++++++..+  ...+..|. .+.....+.++|.  .+.+|||+|..+....          
T Consensus       178 ~~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT-~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~  254 (439)
T 1mky_A          178 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTT-RDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSN  254 (439)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC-------CCEEEEETTE--EEEESSCSCC-----------CCSCC
T ss_pred             ccCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCc-CCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHH
Confidence            3569999999999999999999998764  33333322 3444566778885  5789999997543221          


Q ss_pred             --hhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          87 --TQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        87 --~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                        ...+++.+|++++|+|.+   +++.. .+...+.   ......++++||.|+....
T Consensus       255 ~~~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~---~~~~~~ilv~NK~Dl~~~~  308 (439)
T 1mky_A          255 YRVVDSIEKADVVVIVLDATQGITRQDQ-RMAGLME---RRGRASVVVFNKWDLVVHR  308 (439)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHH---HTTCEEEEEEECGGGSTTG
T ss_pred             HHHHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHH---HcCCCEEEEEECccCCCch
Confidence              134677899999999998   44432 2222222   2345677899999987543

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.39  E-value=5.6e-13  Score=121.14  Aligned_cols=119  Identities=15%  Similarity=0.076  Sum_probs=77.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC--CCCCCc---------------------------ccceeeEEEEEEEEECCeE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG--DFVEKT---------------------------GNTIGVDFSMKTVNIDGKK   69 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~~~---------------------------~pt~~~~~~~~~~~~~~~~   69 (231)
                      ...+||+++|..++|||||+++|++.  .+...+                           ....|++.......++...
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~  110 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  110 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCC
Confidence            45799999999999999999999854  111100                           0011222222233343445


Q ss_pred             EEEEEeeCCCccccchhhhhcccCCcEEEEEEecC---cHhh--HHHHHHHHHHhc--CCcceeeecccccCCCC
Q psy5781          70 VKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV---EYCY--QRNWHKQAVTLF--DKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~--l~~w~~~i~~~~--~~~~~~~vv~~k~dl~~  137 (231)
                      +.+.||||+|+++|......+++.+|++|||+|++   ++..  +..|..+.....  ...+..++++||.|+..
T Consensus       111 ~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl~~  185 (483)
T 3p26_A          111 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVD  185 (483)
T ss_dssp             CEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGGGGT
T ss_pred             ceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcCccc
Confidence            78999999999999999999999999999999999   2222  112222222221  12234678999999876

>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=99.39  E-value=2.2e-12  Score=113.34  Aligned_cols=115  Identities=13%  Similarity=0.030  Sum_probs=78.3

Q ss_pred             eeE-EEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc---------cccchhhhhc
Q psy5781          21 LFK-VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ---------ERFRTITQSY   90 (231)
Q Consensus        21 ~~k-IvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~---------~~~~~~~~~~   90 (231)
                      .++ |+++|.+|||||||++++++..+.....+....+.....+.+++  ..+.+|||+|.         +.+...+. .
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~tl~-~  254 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVTLS-E  254 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHHHH-G
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHHHH-H
Confidence            355 99999999999999999998776322222222245556778887  46799999996         22333333 5


Q ss_pred             ccCCcEEEEEEecC--c---HhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          91 YRSANGVIIEVTSV--E---YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        91 ~~~ad~vIlV~dit--S---f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +..+|++++|+|++  .   ++.+..|.+.+........+.+++.||.|+...
T Consensus       255 ~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~  307 (364)
T 2qtf_A          255 AKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKING  307 (364)
T ss_dssp             GGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCS
T ss_pred             HHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCc
Confidence            78999999999998  2   445566777776665456667889999998653

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.38  E-value=4.6e-13  Score=119.05  Aligned_cols=118  Identities=15%  Similarity=0.139  Sum_probs=83.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC--------CCCCC-------cccceeeEEEEEEEEECCeEEEEEEeeCCCccc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG--------DFVEK-------TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER   82 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~--------~f~~~-------~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~   82 (231)
                      ....+||+++|..++|||||++++++.        .|...       ...+.|.+.....+.++.....+.||||+|+++
T Consensus         8 ~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~   87 (405)
T 2c78_A            8 TKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHAD   87 (405)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGG
T ss_pred             CCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHH
Confidence            345799999999999999999999873        22110       001223223333344444446789999999999


Q ss_pred             cchhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          83 FRTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        83 ~~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |......+++.+|++|+|+|.+  .+....+|+..+...  +.+..++++||.|+..
T Consensus        88 f~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l~~~~~~--~ip~iivviNK~Dl~~  142 (405)
T 2c78_A           88 YIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQV--GVPYIVVFMNKVDMVD  142 (405)
T ss_dssp             GHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHT--TCCCEEEEEECGGGCC
T ss_pred             HHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHc--CCCEEEEEEECccccC
Confidence            9888888999999999999998  445556666665542  2222568899999874

>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=99.38  E-value=3.1e-12  Score=118.78  Aligned_cols=150  Identities=13%  Similarity=0.121  Sum_probs=95.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC--CCCC-----Cccc------ceeeEEE--EEEEEE---CCeEEEEEEeeCCCc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG--DFVE-----KTGN------TIGVDFS--MKTVNI---DGKKVKLQIWDTAGQ   80 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~-----~~~p------t~~~~~~--~~~~~~---~~~~~~l~i~D~~G~   80 (231)
                      .+..+|+++|..++|||||+++++..  .+..     .+..      ..|++..  ...+.+   +++.+.++||||+|+
T Consensus         4 ~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh   83 (600)
T 2ywe_A            4 KNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGH   83 (600)
T ss_dssp             GGEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCS
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCc
Confidence            46789999999999999999999852  1111     1111      1121111  112222   566799999999999


Q ss_pred             cccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCC--
Q psy5781          81 ERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMP--  155 (231)
Q Consensus        81 ~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~--  155 (231)
                      .+|......+++.+|++|+|+|.+   +++....|...+.    ...+.++++||.|+....... ...+.....+.+  
T Consensus        84 ~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~~~~-v~~el~~~lg~~~~  158 (600)
T 2ywe_A           84 VDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSADVDR-VKKQIEEVLGLDPE  158 (600)
T ss_dssp             GGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCCHHH-HHHHHHHTSCCCGG
T ss_pred             HhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccCHHH-HHHHHHHhhCCCcc
Confidence            999988889999999999999999   7788888876653    244577899999997644211 011122333332  


Q ss_pred             -cccccc--ccchhhhhhhhc
Q psy5781         156 -FPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       156 -~~ev~~--~~nv~e~f~~~~  173 (231)
                       +..++.  ..|+++.+...+
T Consensus       159 ~vi~vSAktg~GI~~Lle~I~  179 (600)
T 2ywe_A          159 EAILASAKEGIGIEEILEAIV  179 (600)
T ss_dssp             GCEECBTTTTBSHHHHHHHHH
T ss_pred             cEEEEEeecCCCchHHHHHHH
Confidence             233333  567777776643

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.37  E-value=6e-13  Score=120.50  Aligned_cols=115  Identities=14%  Similarity=0.133  Sum_probs=69.6

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHc--CCCCC-------------------------------CcccceeeEEEEEEEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRS--GDFVE-------------------------------KTGNTIGVDFSMKTVNI   65 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~--~~f~~-------------------------------~~~pt~~~~~~~~~~~~   65 (231)
                      ...+||+++|..++|||||+++|+.  +.+.+                               +.-.|+...  ...+..
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~--~~~~~~  118 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVG--RAYFET  118 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC------------------------------CCEEEC
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEee--eEEEec
Confidence            4578999999999999999999974  22210                               112333322  223444


Q ss_pred             CCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC------cHhhHHHHHHHHHHhcCCcce-eeecccccCCCC
Q psy5781          66 DGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV------EYCYQRNWHKQAVTLFDKYKF-GHAFSTSLAMPQ  137 (231)
Q Consensus        66 ~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit------Sf~~l~~w~~~i~~~~~~~~~-~~vv~~k~dl~~  137 (231)
                      ++  ..+.||||+|+++|......+++.+|++|||+|.+      +|+....|.+++......... .++++||.|+..
T Consensus       119 ~~--~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~  195 (467)
T 1r5b_A          119 EH--RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPS  195 (467)
T ss_dssp             SS--EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTT
T ss_pred             CC--eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCC
Confidence            44  67899999999999988888999999999999998      344444566665544433333 678899999964

>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=99.35  E-value=8.3e-12  Score=106.80  Aligned_cols=151  Identities=11%  Similarity=0.067  Sum_probs=92.1

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCC--CCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc-c--------cchhh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFV--EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE-R--------FRTIT   87 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~-~--------~~~~~   87 (231)
                      .+..+|+++|.+|||||||++++++..+.  .....|.. +.....+..++  ..+.+|||+|.. .        +....
T Consensus         6 ~r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr-~~~~gi~~~~~--~~i~~iDTpG~~~~~~~~l~~~~~~~~   82 (301)
T 1ega_A            6 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTR-HRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAA   82 (301)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCS-SCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCT
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcce-eeEEEEEEECC--eeEEEEECcCCCccchhhHHHHHHHHH
Confidence            34568999999999999999999988753  11222221 11112233333  678999999987 2        33445


Q ss_pred             hhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCC-Ccccccc--cc
Q psy5781          88 QSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAM-PFPQVWP--CL  163 (231)
Q Consensus        88 ~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~-~~~ev~~--~~  163 (231)
                      ..+++.+|++++|+|.+.+.....|+.+...  ....+.++++||.|+............ .....+. .+..+++  ..
T Consensus        83 ~~~l~~~D~vl~Vvd~~~~~~~~~~i~~~l~--~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g~  160 (301)
T 1ega_A           83 SSSIGDVELVIFVVEGTRWTPDDEMVLNKLR--EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGL  160 (301)
T ss_dssp             TSCCCCEEEEEEEEETTCCCHHHHHHHHHHH--SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTT
T ss_pred             HHHHhcCCEEEEEEeCCCCCHHHHHHHHHHH--hcCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCCC
Confidence            6788999999999999854444455443322  334566788899998762211111111 1222221 2334444  56


Q ss_pred             chhhhhhhhcc
Q psy5781         164 KFGHAFSTSLA  174 (231)
Q Consensus       164 nv~e~f~~~~~  174 (231)
                      |+++.+.....
T Consensus       161 ~v~~l~~~i~~  171 (301)
T 1ega_A          161 NVDTIAAIVRK  171 (301)
T ss_dssp             THHHHHHHHHT
T ss_pred             CHHHHHHHHHH
Confidence            78888877663

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.35  E-value=1.4e-12  Score=110.60  Aligned_cols=118  Identities=16%  Similarity=0.198  Sum_probs=75.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC------ccccee--------------------eEE-------------
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK------TGNTIG--------------------VDF-------------   58 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~------~~pt~~--------------------~~~-------------   58 (231)
                      .....||+|+|++|||||||++++++..+.+.      ..|+.-                    .++             
T Consensus        23 ~~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~  102 (299)
T 2aka_B           23 DLDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDR  102 (299)
T ss_dssp             TCCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHH
Confidence            34568999999999999999999999887421      223210                    000             


Q ss_pred             ----------EEEEEEECC-eEEEEEEeeCCCcc-------------ccchhhhhcccCCcEEE-EEEecC-cHh--hHH
Q psy5781          59 ----------SMKTVNIDG-KKVKLQIWDTAGQE-------------RFRTITQSYYRSANGVI-IEVTSV-EYC--YQR  110 (231)
Q Consensus        59 ----------~~~~~~~~~-~~~~l~i~D~~G~~-------------~~~~~~~~~~~~ad~vI-lV~dit-Sf~--~l~  110 (231)
                                ....+.+.+ ....+.||||+|..             .+..+...|++.++++| +|+|.+ .+.  ...
T Consensus       103 i~g~~~gi~~~~~~~~~~~~~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~  182 (299)
T 2aka_B          103 VTGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL  182 (299)
T ss_dssp             HCSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHH
T ss_pred             hcccCCCccccceEEEEeCCCCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHH
Confidence                      000011100 12579999999963             34556778888888777 699998 333  222


Q ss_pred             HHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781         111 NWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       111 ~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .|.+.+.   ......++++||.|+...
T Consensus       183 ~~~~~~~---~~~~~~i~V~NK~Dl~~~  207 (299)
T 2aka_B          183 KIAKEVD---PQGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHHHHC---TTCSSEEEEEECGGGSCT
T ss_pred             HHHHHhC---CCCCeEEEEEEccccCCC
Confidence            3444442   345567899999998654

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.34  E-value=4.1e-13  Score=122.30  Aligned_cols=114  Identities=15%  Similarity=0.130  Sum_probs=80.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .+..+|+++|..++|||||++++....+.....+.+..+.....+..++  ..+.||||+|++.|..++..++..+|++|
T Consensus         2 ~R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~--~~i~~iDTPGhe~f~~~~~~~~~~aD~aI   79 (501)
T 1zo1_I            2 PRAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN--GMITFLDTPGHAAFTSMRARGAQATDIVV   79 (501)
T ss_dssp             CCCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS--SCCCEECCCTTTCCTTSBCSSSBSCSSEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC--EEEEEEECCCcHHHHHHHHHHHhhCCEEE
Confidence            3567999999999999999999997665543333222222222333344  46899999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ||||.+   ..+..+.| ..+.   ....+.++++||.|+...
T Consensus        80 LVVda~~g~~~qT~e~l-~~~~---~~~vPiIVviNKiDl~~~  118 (501)
T 1zo1_I           80 LVVAADDGVMPQTIEAI-QHAK---AAQVPVVVAVNKIDKPEA  118 (501)
T ss_dssp             EEEETTTBSCTTTHHHH-HHHH---HTTCCEEEEEECSSSSTT
T ss_pred             EEeecccCccHHHHHHH-HHHH---hcCceEEEEEEecccccc
Confidence            999998   22222222 2222   234447789999998753

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.33  E-value=6.7e-13  Score=121.83  Aligned_cols=115  Identities=12%  Similarity=0.074  Sum_probs=80.8

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc------------------CCCCCCc----ccceeeEEEEEEEEECCeEEEEEEe
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS------------------GDFVEKT----GNTIGVDFSMKTVNIDGKKVKLQIW   75 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~------------------~~f~~~~----~pt~~~~~~~~~~~~~~~~~~l~i~   75 (231)
                      ..+..+|+++|.+|+|||||+++++.                  ..+....    .+.+........+..++  +.++||
T Consensus        10 ~~~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~li   87 (528)
T 3tr5_A           10 TAMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKD--YLINLL   87 (528)
T ss_dssp             HHTEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETT--EEEEEE
T ss_pred             hhcCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCC--EEEEEE
Confidence            34678999999999999999999961                  1111000    01111112223344444  789999


Q ss_pred             eCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          76 DTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        76 D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ||+|+.+|......+++.+|++|+|+|.+   +.+....|.. +.   ....+.++++||.|+...
T Consensus        88 DTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~-~~---~~~iPiivviNK~Dl~~~  149 (528)
T 3tr5_A           88 DTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEV-CR---LRHTPIMTFINKMDRDTR  149 (528)
T ss_dssp             CCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHH-HH---TTTCCEEEEEECTTSCCS
T ss_pred             ECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHH-HH---HcCCCEEEEEeCCCCccc
Confidence            99999999999999999999999999999   6666555543 22   234567789999998754

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.33  E-value=1.3e-11  Score=109.81  Aligned_cols=155  Identities=12%  Similarity=0.116  Sum_probs=97.0

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHc---CCCCCCccc--ceeeEEEEEEEEE-------------C--C----eEEEE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRS---GDFVEKTGN--TIGVDFSMKTVNI-------------D--G----KKVKL   72 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~---~~f~~~~~p--t~~~~~~~~~~~~-------------~--~----~~~~l   72 (231)
                      .....++|+++|..++|||||++++++   +.+..++.+  |+...+....+..             +  +    ....+
T Consensus         6 ~~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i   85 (410)
T 1kk1_A            6 SRQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRV   85 (410)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEE
T ss_pred             cCCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEE
Confidence            456789999999999999999999984   344444445  6655555443322             1  1    13789


Q ss_pred             EEeeCCCccccchhhhhcccCCcEEEEEEecC-c--HhhHHHHHHHHHHhcCCcceeeecccccCCCCCccc--cccchh
Q psy5781          73 QIWDTAGQERFRTITQSYYRSANGVIIEVTSV-E--YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPC--LFHKFG  147 (231)
Q Consensus        73 ~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-S--f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~--~~~~~~  147 (231)
                      .||||+|+++|.......+..+|++|||+|.+ .  .....+.+..+...  ..+..++++||.|+......  ...+..
T Consensus        86 ~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~--~~~~iivviNK~Dl~~~~~~~~~~~~i~  163 (410)
T 1kk1_A           86 SFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII--GQKNIIIAQNKIELVDKEKALENYRQIK  163 (410)
T ss_dssp             EEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH--TCCCEEEEEECGGGSCHHHHHHHHHHHH
T ss_pred             EEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHc--CCCcEEEEEECccCCCHHHHHHHHHHHH
Confidence            99999999998877777788999999999998 2  23333333333322  22346688999998764321  111111


Q ss_pred             -hhhh---cCCCcccccc--ccchhhhhhhhc
Q psy5781         148 -HASS---SAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       148 -~s~~---~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                       ....   ...++..++.  ..|+++.+....
T Consensus       164 ~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~  195 (410)
T 1kk1_A          164 EFIEGTVAENAPIIPISALHGANIDVLVKAIE  195 (410)
T ss_dssp             HHHTTSTTTTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             HHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHH
Confidence             1111   2334445544  567777776654

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.33  E-value=2.8e-12  Score=113.79  Aligned_cols=116  Identities=15%  Similarity=0.100  Sum_probs=77.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcC-------CCCCC-------cccceeeEEEEEEEEECCeEEEEEEeeCCCccccch
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSG-------DFVEK-------TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT   85 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~-------~f~~~-------~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~   85 (231)
                      ..+||+++|..++|||||+++|++.       .|...       .....|.+.....+.++.....+.||||+|+++|..
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~   81 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVK   81 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHH
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHHH
Confidence            3589999999999999999999863       11110       001112222222233433446789999999999988


Q ss_pred             hhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          86 ITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        86 ~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ....+++.+|++|+|+|.+  ......+++..+...  +.+..++++||.|+..
T Consensus        82 ~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~--~vp~iivviNK~Dl~~  133 (397)
T 1d2e_A           82 NMITGTAPLDGCILVVAANDGPMPQTREHLLLARQI--GVEHVVVYVNKADAVQ  133 (397)
T ss_dssp             HHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHT--TCCCEEEEEECGGGCS
T ss_pred             HHHhhHhhCCEEEEEEECCCCCCHHHHHHHHHHHHc--CCCeEEEEEECcccCC
Confidence            8888999999999999999  233333333344321  2232468899999875

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.33  E-value=8.5e-13  Score=119.26  Aligned_cols=113  Identities=17%  Similarity=0.157  Sum_probs=77.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC--CCCC-------------------------------CcccceeeEEEEEEEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG--DFVE-------------------------------KTGNTIGVDFSMKTVNI   65 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~-------------------------------~~~pt~~~~~~~~~~~~   65 (231)
                      ...++|+++|..++|||||+++|++.  .+.+                               +.-.|+...+  ..+..
T Consensus         5 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~--~~~~~   82 (458)
T 1f60_A            5 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIAL--WKFET   82 (458)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSC--EEEEC
T ss_pred             CceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEE--EEEec
Confidence            45799999999999999999999864  2211                               0112333222  23333


Q ss_pred             CCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHh-------hHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          66 DGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYC-------YQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        66 ~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~-------~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                        ....+.||||+|+++|......++..+|++|||+|.+  .++       ...+++..+..  ...+..++++||.|+.
T Consensus        83 --~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~--~~v~~iivviNK~Dl~  158 (458)
T 1f60_A           83 --PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT--LGVRQLIVAVNKMDSV  158 (458)
T ss_dssp             --SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH--TTCCEEEEEEECGGGG
T ss_pred             --CCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH--cCCCeEEEEEEccccc
Confidence              3467999999999999988899999999999999999  222       22222222221  1223366889999987


Q ss_pred             C
Q psy5781         137 Q  137 (231)
Q Consensus       137 ~  137 (231)
                      .
T Consensus       159 ~  159 (458)
T 1f60_A          159 K  159 (458)
T ss_dssp             T
T ss_pred             c
Confidence            3

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.32  E-value=2.8e-12  Score=123.67  Aligned_cols=115  Identities=13%  Similarity=0.161  Sum_probs=83.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC------------CCCC----Cc--ccceeeEEEEEEEE------------ECC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG------------DFVE----KT--GNTIGVDFSMKTVN------------IDG   67 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~------------~f~~----~~--~pt~~~~~~~~~~~------------~~~   67 (231)
                      ..+..||+++|..++|||||+++++..            .+.+    ++  ..|+........+.            .++
T Consensus        16 ~~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~   95 (842)
T 1n0u_A           16 VTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDG   95 (842)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCS
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccC
Confidence            456789999999999999999999864            2211    01  12433222222222            245


Q ss_pred             eEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          68 KKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        68 ~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      ..+.++||||+|+.+|...+..+++.+|++|+|||++   +++....|.....    ...+.++++||.|+.
T Consensus        96 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~----~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           96 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRA  163 (842)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHH
T ss_pred             CCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH----cCCCeEEEEECCCcc
Confidence            5789999999999999999999999999999999999   7777766764432    344567899999876

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.31  E-value=2.7e-12  Score=112.31  Aligned_cols=120  Identities=16%  Similarity=0.241  Sum_probs=81.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCccccee-----e-------------EE-----------------------
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIG-----V-------------DF-----------------------   58 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~-----~-------------~~-----------------------   58 (231)
                      ...+|+|+|++|||||||++++++..|.+....++.     .             .+                       
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~  112 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETD  112 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHH
Confidence            344999999999999999999999887433221110     0             00                       


Q ss_pred             -----------EEEEEEE-CCeEEEEEEeeCCCcccc-------------chhhhhcccCCcEEEEEEecC-cHhhHHHH
Q psy5781          59 -----------SMKTVNI-DGKKVKLQIWDTAGQERF-------------RTITQSYYRSANGVIIEVTSV-EYCYQRNW  112 (231)
Q Consensus        59 -----------~~~~~~~-~~~~~~l~i~D~~G~~~~-------------~~~~~~~~~~ad~vIlV~dit-Sf~~l~~w  112 (231)
                                 ....+.+ ......+.||||+|...+             ..+...|++++|++|+|+|.+ ....-..|
T Consensus       113 ~~~g~~~~~s~~~i~l~i~~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~  192 (360)
T 3t34_A          113 RETGRSKAISSVPIHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDA  192 (360)
T ss_dssp             HTSCTTCCCCCSCEEEEEEETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHH
T ss_pred             HhcCCCCCcccceEEEEEeCCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHH
Confidence                       0001111 011235899999998775             567788999999999999886 22223567


Q ss_pred             HHHHHHhcCCcceeeecccccCCCCCc
Q psy5781         113 HKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus       113 ~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      +..+..........++++||.|+....
T Consensus       193 ~~l~~~~~~~~~~~i~V~nK~Dl~~~~  219 (360)
T 3t34_A          193 IKISREVDPSGDRTFGVLTKIDLMDKG  219 (360)
T ss_dssp             HHHHHHSCTTCTTEEEEEECGGGCCTT
T ss_pred             HHHHHHhcccCCCEEEEEeCCccCCCc
Confidence            776666666666677899999987543

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.30  E-value=2e-12  Score=118.78  Aligned_cols=119  Identities=11%  Similarity=0.112  Sum_probs=77.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC--CCCC------------------CcccceeeEEEEEEEEECCeEEEEEEeeCC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG--DFVE------------------KTGNTIGVDFSMKTVNIDGKKVKLQIWDTA   78 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~------------------~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~   78 (231)
                      .+..+|+++|.+++|||||+++++..  .+..                  ...++.|.+.......++...+.+.||||+
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTP   90 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTP   90 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETTEEEEEECCC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECCeEEEEEECC
Confidence            46799999999999999999999863  1100                  001122222221122222234789999999


Q ss_pred             CccccchhhhhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCc
Q psy5781          79 GQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        79 G~~~~~~~~~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~  139 (231)
                      |+++|......+++.+|++|+|+|.+.-  +..|..++.+.+. ...+.++++||.|+....
T Consensus        91 G~~df~~~~~~~l~~aD~~IlVvDa~~g--~~~~t~~~~~~~~~~~ipiivviNK~Dl~~~~  150 (529)
T 2h5e_A           91 GHEDFSEDTYRTLTAVDCCLMVIDAAKG--VEDRTRKLMEVTRLRDTPILTFMNKLDRDIRD  150 (529)
T ss_dssp             CSTTCCHHHHHGGGGCSEEEEEEETTTC--SCHHHHHHHHHHTTTTCCEEEEEECTTSCCSC
T ss_pred             CChhHHHHHHHHHHHCCEEEEEEeCCcc--chHHHHHHHHHHHHcCCCEEEEEcCcCCcccc
Confidence            9999998888899999999999999921  1223333333332 344577899999987643

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.30  E-value=1.1e-11  Score=117.26  Aligned_cols=116  Identities=20%  Similarity=0.203  Sum_probs=82.2

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHHcC--CCC------C------------CcccceeeEEEEEEEEECCeEEEEEEe
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFRSG--DFV------E------------KTGNTIGVDFSMKTVNIDGKKVKLQIW   75 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~------~------------~~~pt~~~~~~~~~~~~~~~~~~l~i~   75 (231)
                      ....+..+|+++|..|+|||||+++++..  .+.      .            ...+|+..  ....+..++  +.++||
T Consensus         7 ~~~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~--~~~~~~~~~--~~i~li   82 (691)
T 1dar_A            7 YDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITA--AVTTCFWKD--HRINII   82 (691)
T ss_dssp             CCGGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------C--CEEEEEETT--EEEEEE
T ss_pred             CccccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhccccccc--ceEEEEECC--eEEEEE
Confidence            34567899999999999999999999842  110      0            12234332  222334443  789999


Q ss_pred             eCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          76 DTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        76 D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      ||+|+.+|...+..+++.+|++|+|+|.+   +++....|... .+   ...+.++++||.|+....
T Consensus        83 DTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~-~~---~~~p~ivviNKiD~~~~~  145 (691)
T 1dar_A           83 DTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQA-EK---YKVPRIAFANKMDKTGAD  145 (691)
T ss_dssp             CCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHH-HH---TTCCEEEEEECTTSTTCC
T ss_pred             ECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHHH-HH---cCCCEEEEEECCCcccCC
Confidence            99999999999999999999999999999   66666666643 22   245567889999987643

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.29  E-value=1.3e-12  Score=111.86  Aligned_cols=152  Identities=13%  Similarity=0.193  Sum_probs=74.5

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC-CCCCCc--------ccceeeEEEEEEEEECCeEEEEEEeeCCCc-------c
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG-DFVEKT--------GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ-------E   81 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~-~f~~~~--------~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~-------~   81 (231)
                      +...++|+++|++|||||||++++.+. .++...        .++++.......+..++....+++||++|.       +
T Consensus        15 ~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e   94 (301)
T 2qnr_A           15 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRD   94 (301)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC----------
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHH
Confidence            456799999999999999999998764 554433        233332222222233455678999999998       5


Q ss_pred             ccchhhh-------hcccCCc-------------EEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          82 RFRTITQ-------SYYRSAN-------------GVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        82 ~~~~~~~-------~~~~~ad-------------~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      .+..+..       .|++..+             +++++.+.+  +++.+..  +.+++. .......++++|.|+....
T Consensus        95 ~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~~Ld~~~~--~~l~~l-~~~~~iilV~~K~Dl~~~~  171 (301)
T 2qnr_A           95 CFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDV--AFMKAI-HNKVNIVPVIAKADTLTLK  171 (301)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSSSCCHHHH--HHHHHH-TTTSCEEEEECCGGGSCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcccCCCHHHH--HHHHHH-HhcCCEEEEEEeCCCCCHH
Confidence            5555554       5554433             244444433  4777652  333333 3444567889999987543


Q ss_pred             cccc--cc-hhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         140 PCLF--HK-FGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       140 ~~~~--~~-~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      +...  .. .......+..+.++++  . |++++|...+
T Consensus       172 e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~  209 (301)
T 2qnr_A          172 ERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQT  209 (301)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCCCC----------CHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHH
Confidence            3211  11 1134455667777765  4 6777776544

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.28  E-value=5.1e-12  Score=101.31  Aligned_cols=111  Identities=14%  Similarity=0.171  Sum_probs=66.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc----------cchhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER----------FRTIT   87 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----------~~~~~   87 (231)
                      .....+|+++|++|||||||++++++..+...+.|+.|.......+.+++   .+.+||++|...          +....
T Consensus        23 ~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~   99 (210)
T 1pui_A           23 SDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRAL   99 (210)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHH
Confidence            34568999999999999999999998876666778877655444444444   478999999742          23333


Q ss_pred             hhcc---cCCcEEEEEEecC---cHh--hHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          88 QSYY---RSANGVIIEVTSV---EYC--YQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        88 ~~~~---~~ad~vIlV~dit---Sf~--~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ..++   +.++++++|+|++   ++.  .+..|+..      ......+++||.|+..
T Consensus       100 ~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~~------~~~~~~~v~nK~D~~s  151 (210)
T 1pui_A          100 GEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVD------SNIAVLVLLTKADKLA  151 (210)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH------TTCCEEEEEECGGGSC
T ss_pred             HHHHHhhhcccEEEEEEECCCCCchhHHHHHHHHHH------cCCCeEEEEecccCCC
Confidence            3444   5789999999998   332  22333321      2233456789988765

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.27  E-value=6.1e-12  Score=123.20  Aligned_cols=118  Identities=14%  Similarity=0.105  Sum_probs=80.6

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC-------CCCC-------CcccceeeEEEEEEEEECCeEEEEEEeeCCCcccc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG-------DFVE-------KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF   83 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~-------~f~~-------~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~   83 (231)
                      ....+||+++|..++|||||++++++.       .+..       ....+.|++.....+.++.....+.||||+|+++|
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF  372 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADY  372 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHH
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHH
Confidence            456799999999999999999999863       1111       11233444333333444445578999999999999


Q ss_pred             chhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          84 RTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        84 ~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ......+++.+|++|||+|.+  .+....+|+..+...  +.+.+++++||.|+..
T Consensus       373 ~~~mi~gas~AD~aILVVDAtdGv~~QTrEhL~ll~~l--gIP~IIVVINKiDLv~  426 (1289)
T 3avx_A          373 VKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQV--GVPYIIVFLNKCDMVD  426 (1289)
T ss_dssp             HHHHHHTSCCCSEEEEEEETTTCSCTTHHHHHHHHHHH--TCSCEEEEEECCTTCC
T ss_pred             HHHHHHHHhhCCEEEEEEcCCccCcHHHHHHHHHHHHc--CCCeEEEEEeeccccc
Confidence            888888999999999999999  444555666555432  2232568899999975

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.27  E-value=2.4e-12  Score=119.67  Aligned_cols=115  Identities=19%  Similarity=0.077  Sum_probs=79.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC----cccceeeEEEEEEE------------EECCeEEEEEEeeCCCccc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK----TGNTIGVDFSMKTV------------NIDGKKVKLQIWDTAGQER   82 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~----~~pt~~~~~~~~~~------------~~~~~~~~l~i~D~~G~~~   82 (231)
                      .+..+|+++|+.++|||||++++++..+...    ..++++..+.....            .++.....++||||+|++.
T Consensus         3 ~r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~   82 (594)
T 1g7s_A            3 IRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEA   82 (594)
T ss_dssp             ECCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSC
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHH
Confidence            3568999999999999999999987655331    23455533321100            0001112589999999999


Q ss_pred             cchhhhhcccCCcEEEEEEecCc---HhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          83 FRTITQSYYRSANGVIIEVTSVE---YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        83 ~~~~~~~~~~~ad~vIlV~ditS---f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |..++..+++.+|++|+|||++.   .+....|. .+.   ....+.++++||.|+..
T Consensus        83 F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~-~l~---~~~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           83 FTTLRKRGGALADLAILIVDINEGFKPQTQEALN-ILR---MYRTPFVVAANKIDRIH  136 (594)
T ss_dssp             CTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHH-HHH---HTTCCEEEEEECGGGST
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHH-HHH---HcCCeEEEEeccccccc
Confidence            99999999999999999999992   33333332 222   23445779999999864

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.26  E-value=1e-11  Score=106.09  Aligned_cols=118  Identities=20%  Similarity=0.258  Sum_probs=74.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCc------ccceeeEEEE-------------------------------
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKT------GNTIGVDFSM-------------------------------   60 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~------~pt~~~~~~~-------------------------------   60 (231)
                      .....+|+|+|++|||||||++++++..+....      .|+.- ....                               
T Consensus        21 ~~~~~~I~vvG~~~~GKSTlln~l~g~~~lp~~~~~~t~~p~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (315)
T 1jwy_B           21 PLDLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLIL-QLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIR   99 (315)
T ss_dssp             TTCCCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEE-EEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHH
T ss_pred             CCCCCeEEEEcCCCCCHHHHHHHHHCCCcCCCCCCceeeeeEEE-EEEeCCCcccccchhhhhhhhcccccccCCHHHHH
Confidence            345679999999999999999999988763211      11100 0000                               


Q ss_pred             ---------------------EEEEE-CCeEEEEEEeeCCCccc-------------cchhhhhcccCCcEEEEEEecC-
Q psy5781          61 ---------------------KTVNI-DGKKVKLQIWDTAGQER-------------FRTITQSYYRSANGVIIEVTSV-  104 (231)
Q Consensus        61 ---------------------~~~~~-~~~~~~l~i~D~~G~~~-------------~~~~~~~~~~~ad~vIlV~dit-  104 (231)
                                           ..+.+ ......+.||||+|..+             +......+++.+|++++|+|.+ 
T Consensus       100 ~~i~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~  179 (315)
T 1jwy_B          100 EEIIRDTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPAN  179 (315)
T ss_dssp             HHHHHHCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESS
T ss_pred             HHHHHHHHHhcCCCCCccCccEEEEEecCCCCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecC
Confidence                                 00011 11124689999999753             4556778899999999999985 


Q ss_pred             -cHh--hHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781         105 -EYC--YQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus       105 -Sf~--~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                       .+.  ....+...+   .......++++||.|+....
T Consensus       180 ~~~~~~~~~~i~~~~---~~~~~~~i~v~NK~Dl~~~~  214 (315)
T 1jwy_B          180 TDLANSDALQLAKEV---DPEGKRTIGVITKLDLMDKG  214 (315)
T ss_dssp             SCSTTCSHHHHHHHH---CSSCSSEEEEEECTTSSCSS
T ss_pred             cchhhhHHHHHHHHh---CCCCCcEEEEEcCcccCCcc
Confidence             222  212233322   23455677899999987543

>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=99.24  E-value=9.9e-13  Score=112.58  Aligned_cols=95  Identities=14%  Similarity=0.011  Sum_probs=78.9

Q ss_pred             HHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC----cHhhHH
Q psy5781          36 CVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV----EYCYQR  110 (231)
Q Consensus        36 SLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit----Sf~~l~  110 (231)
                      +|+.+|+.+.|. ++|.||+|..+. ..+..++   .+.|||+  +++++.+++.|++++|++|+|||++    +++.+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            799999999998 899999995443 3332333   6899999  8999999999999999999999998    688899


Q ss_pred             HHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781         111 NWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus       111 ~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      .|+.++..   ...+.++++||.|+...+
T Consensus       106 ~~l~~~~~---~~~piilv~NK~DL~~~~  131 (301)
T 1u0l_A          106 KFLVLAEK---NELETVMVINKMDLYDED  131 (301)
T ss_dssp             HHHHHHHH---TTCEEEEEECCGGGCCHH
T ss_pred             HHHHHHHH---CCCCEEEEEeHHHcCCch
Confidence            99998765   356678999999997643

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.23  E-value=1.3e-11  Score=108.68  Aligned_cols=100  Identities=14%  Similarity=0.123  Sum_probs=75.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      +|+++|..++|||||+++++      +...|+...+  ..+..++  ..+.||||+|+++|......+++.+|++|+|+|
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~------~~giTi~~~~--~~~~~~~--~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG------KKGTSSDITM--YNNDKEG--RNMVFVDAHSYPKTLKSLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS------EEEEESSSEE--EEECSSS--SEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHH------hCCEEEEeeE--EEEecCC--eEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc
Confidence            99999999999999999998      2334444333  2333333  569999999999998777788899999999999


Q ss_pred             cC--cHhhHHHHHHHHHHhcCCcceeeeccc-ccCC
Q psy5781         103 SV--EYCYQRNWHKQAVTLFDKYKFGHAFST-SLAM  135 (231)
Q Consensus       103 it--Sf~~l~~w~~~i~~~~~~~~~~~vv~~-k~dl  135 (231)
                       +  .+....+|+..+...  ..+..+++.| |.|+
T Consensus        93 -~~g~~~qt~e~~~~~~~~--~i~~~ivvvNNK~Dl  125 (370)
T 2elf_A           93 -PQGLDAHTGECIIALDLL--GFKHGIIALTRSDST  125 (370)
T ss_dssp             -TTCCCHHHHHHHHHHHHT--TCCEEEEEECCGGGS
T ss_pred             -CCCCcHHHHHHHHHHHHc--CCCeEEEEEEeccCC
Confidence             7  666677777666543  2333356777 9998

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.22  E-value=1.7e-12  Score=120.67  Aligned_cols=118  Identities=17%  Similarity=0.113  Sum_probs=60.6

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCC-------------------------------CCCCcccceeeEEEEEEEEEC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGD-------------------------------FVEKTGNTIGVDFSMKTVNID   66 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~-------------------------------f~~~~~pt~~~~~~~~~~~~~   66 (231)
                      ....+||+++|..++|||||+++|+...                               +..+..+.+..+.....+.. 
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~-  252 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFES-  252 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEe-
Confidence            3457899999999999999999996321                               11111222222233233333 


Q ss_pred             CeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCc------HhhHHHHHHHHHHhcC-CcceeeecccccCCCC
Q psy5781          67 GKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVE------YCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        67 ~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditS------f~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~  137 (231)
                       ....+.||||+|+++|......+++.+|++|||+|.+.      +.....+...+..... +.+..++++||.|+..
T Consensus       253 -~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~lgip~iIvviNKiDl~~  329 (592)
T 3mca_A          253 -DKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRALGISEIVVSVNKLDLMS  329 (592)
T ss_dssp             -------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHSSCCCEEEEEECGGGGT
T ss_pred             -CCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEecccccc
Confidence             34688999999999999888889999999999999982      2111122222222222 2223668899999864

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.21  E-value=5.6e-11  Score=112.54  Aligned_cols=115  Identities=17%  Similarity=0.126  Sum_probs=80.7

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC--CCCC------------------CcccceeeEEEEEEEEE-----CCeEEEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG--DFVE------------------KTGNTIGVDFSMKTVNI-----DGKKVKL   72 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~--~f~~------------------~~~pt~~~~~~~~~~~~-----~~~~~~l   72 (231)
                      ..+..+|+++|..++|||||+++++..  .+..                  +...|+....  ..+.+     ++..+.+
T Consensus         7 ~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~--~~~~~~~~~~~~~~~~i   84 (704)
T 2rdo_7            7 IARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAA--TTAFWSGMAKQYEPHRI   84 (704)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeece--EEEEECCccccCCceeE
Confidence            456789999999999999999999742  2211                  1112332111  22332     2345899


Q ss_pred             EEeeCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          73 QIWDTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        73 ~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +||||+|+.+|......+++.+|++|+|+|.+   ..+....|.. +.   ....+.++++||.|+...
T Consensus        85 ~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~---~~~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           85 NIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-AN---KYKVPRIAFVNKMDRMGA  149 (704)
T ss_pred             EEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HH---HcCCCEEEEEeCCCcccc
Confidence            99999999999988899999999999999999   4444444533 22   224456688999998764

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.21  E-value=5.8e-11  Score=112.27  Aligned_cols=113  Identities=19%  Similarity=0.238  Sum_probs=81.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc--CCCCC-----------C-------cccceeeEEEEEEEEECCeEEEEEEeeC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS--GDFVE-----------K-------TGNTIGVDFSMKTVNIDGKKVKLQIWDT   77 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~--~~f~~-----------~-------~~pt~~~~~~~~~~~~~~~~~~l~i~D~   77 (231)
                      ..+..+|+++|..|+|||||+++++.  +.+..           +       ...|+.  .....+..++  +.+.||||
T Consensus         7 ~~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~--~~~~~~~~~~--~~i~liDT   82 (693)
T 2xex_A            7 LEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITIT--SAATTAAWEG--HRVNIIDT   82 (693)
T ss_dssp             STTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------C--CSEEEEEETT--EEEEEECC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEe--eeeEEEEECC--eeEEEEEC
Confidence            34678999999999999999999985  32211           1       111222  1122344444  78999999


Q ss_pred             CCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          78 AGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        78 ~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +|+.+|......+++.+|++|+|+|.+   ++.....|.. +.+   ...+.++++||.|+...
T Consensus        83 PG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~---~~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           83 PGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATT---YGVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             CCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTTC
T ss_pred             cCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHH---cCCCEEEEEECCCcccc
Confidence            999999988899999999999999998   6666666654 333   24556788999998764

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=99.18  E-value=3.3e-11  Score=113.53  Aligned_cols=116  Identities=13%  Similarity=0.044  Sum_probs=79.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCC-------------CCccc---ceeeEEEEEEEEECCeEEEEEEeeCCCcc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFV-------------EKTGN---TIGVDFSMKTVNIDGKKVKLQIWDTAGQE   81 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-------------~~~~p---t~~~~~~~~~~~~~~~~~~l~i~D~~G~~   81 (231)
                      .....+|+++|+.|+|||||+++++.....             .++.+   ..++.+......+....+.++||||+|++
T Consensus         6 ~~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~   85 (665)
T 2dy1_A            6 GAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYG   85 (665)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSG
T ss_pred             cCCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCcc
Confidence            345689999999999999999999843321             11111   11222222333333335789999999999


Q ss_pred             ccchhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          82 RFRTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        82 ~~~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      +|......+++.+|++++|+|.+  .......|+..+..   .....++++||.|+.
T Consensus        86 ~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~~~~~~~~~---~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           86 DFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAER---LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHH---TTCCEEEEEECGGGC
T ss_pred             chHHHHHHHHhhcCcEEEEEcCCcccchhHHHHHHHHHH---ccCCEEEEecCCchh
Confidence            99988999999999999999988  22223344444443   234566889999987

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.18  E-value=5.4e-11  Score=106.16  Aligned_cols=120  Identities=14%  Similarity=0.123  Sum_probs=71.4

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCC-CCc-------ccceeeEEEEEEEEECCeEEEEEEeeCCCccccc----
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKT-------GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR----   84 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~-------~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~----   84 (231)
                      -....++|+++|++|||||||++++++..+. ..+       .+|++.+.....+..++....+++||++|...+.    
T Consensus        27 l~~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~  106 (418)
T 2qag_C           27 KRGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSN  106 (418)
T ss_dssp             C-CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC----------
T ss_pred             ecCCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchh
Confidence            3556789999999999999999999987663 211       2344433222222334445689999999976431    


Q ss_pred             ---h------------------hhhhcccCCcEEEEEEecC----cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          85 ---T------------------ITQSYYRSANGVIIEVTSV----EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        85 ---~------------------~~~~~~~~ad~vIlV~dit----Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                         .                  +.+.++.++++.+++|+++    +++.+. .|++.+.    ....++++++|.|+...
T Consensus       107 ~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll~~  182 (418)
T 2qag_C          107 CWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----EKVNIIPLIAKADTLTP  182 (418)
T ss_dssp             -CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----TTSEEEEEEESTTSSCH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh----ccCcEEEEEEcccCccH
Confidence               1                  1244566777766677665    566665 6777664    34567789999998754


Q ss_pred             cc
Q psy5781         139 RP  140 (231)
Q Consensus       139 ~~  140 (231)
                      ..
T Consensus       183 ~e  184 (418)
T 2qag_C          183 EE  184 (418)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.17  E-value=2e-11  Score=106.55  Aligned_cols=119  Identities=17%  Similarity=0.227  Sum_probs=73.8

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCc------ccce--------------------------------------
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKT------GNTI--------------------------------------   54 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~------~pt~--------------------------------------   54 (231)
                      ....+|+|+|++|||||||++++++..|.+..      .|+.                                      
T Consensus        29 ~~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i  108 (353)
T 2x2e_A           29 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  108 (353)
T ss_dssp             CCCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHh
Confidence            34579999999999999999999998874221      2331                                      


Q ss_pred             -----eeEEEEEEEEECC-eEEEEEEeeCCCcc-------------ccchhhhhcccCCcEEEEEE-ecC-cHhhHHHHH
Q psy5781          55 -----GVDFSMKTVNIDG-KKVKLQIWDTAGQE-------------RFRTITQSYYRSANGVIIEV-TSV-EYCYQRNWH  113 (231)
Q Consensus        55 -----~~~~~~~~~~~~~-~~~~l~i~D~~G~~-------------~~~~~~~~~~~~ad~vIlV~-dit-Sf~~l~~w~  113 (231)
                           ++......+.+.+ ....+.||||+|..             .+..+...|++.++.+|+++ |.+ .+... .|.
T Consensus       109 ~g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~-~~~  187 (353)
T 2x2e_A          109 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANS-DAL  187 (353)
T ss_dssp             HTTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGC-HHH
T ss_pred             cccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchh-HHH
Confidence                 0000000111111 13569999999953             34556777887777666655 444 44432 343


Q ss_pred             HHHHHhcCCcceeeecccccCCCCC
Q psy5781         114 KQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       114 ~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ..+....+.....++++||.|+...
T Consensus       188 ~i~~~~~~~~~~~i~V~NK~Dl~~~  212 (353)
T 2x2e_A          188 KVAKEVDPQGQRTIGVITKLDLMDE  212 (353)
T ss_dssp             HHHHHHCTTCTTEEEEEECGGGSCT
T ss_pred             HHHHHhCcCCCceEEEeccccccCc
Confidence            3444444455667899999998654

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.15  E-value=3.9e-11  Score=113.49  Aligned_cols=117  Identities=10%  Similarity=0.145  Sum_probs=77.9

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCC-Ccccceee----E----EE------------------------------
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVE-KTGNTIGV----D----FS------------------------------   59 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~-~~~pt~~~----~----~~------------------------------   59 (231)
                      ...++|+|+|++|+|||||+|++++..+.. ...|+...    .    ..                              
T Consensus        67 ~~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~  146 (695)
T 2j69_A           67 QGVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEA  146 (695)
T ss_dssp             HCCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHH
Confidence            356899999999999999999999877532 22333310    0    00                              


Q ss_pred             ---------------EEEEEECCeE--EEEEEeeCCCccc---cchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHH
Q psy5781          60 ---------------MKTVNIDGKK--VKLQIWDTAGQER---FRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQA  116 (231)
Q Consensus        60 ---------------~~~~~~~~~~--~~l~i~D~~G~~~---~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i  116 (231)
                                     ...+......  ..+.||||||...   .......|++.+|++|+|+|.+   +......|.+.+
T Consensus       147 ~~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l  226 (695)
T 2j69_A          147 KKLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYI  226 (695)
T ss_dssp             HHHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHT
T ss_pred             HHHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHH
Confidence                           0001111000  3589999999654   3345678899999999999998   666666676555


Q ss_pred             HHhcCCcceeeecccccCCCCC
Q psy5781         117 VTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       117 ~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .+   .....++++||.|+...
T Consensus       227 ~~---~~~~iiiVlNK~Dl~~~  245 (695)
T 2j69_A          227 KG---RGLTVFFLVNAWDQVRE  245 (695)
T ss_dssp             TT---SCCCEEEEEECGGGGGG
T ss_pred             Hh---hCCCEEEEEECcccccc
Confidence            32   23347789999998643

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.15  E-value=4.8e-11  Score=110.03  Aligned_cols=115  Identities=15%  Similarity=0.078  Sum_probs=79.1

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCC---CCcccceeeEEEEEEEEEC-------------------------C-
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFV---EKTGNTIGVDFSMKTVNID-------------------------G-   67 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~---~~~~pt~~~~~~~~~~~~~-------------------------~-   67 (231)
                      ......+|+|+|..|||||||+|++++..+.   ....|+... .  ..+..+                         + 
T Consensus        61 ~~~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~-~--~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~  137 (550)
T 2qpt_A           61 DFDGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDC-F--VAVMHGETEGTVPGNALVVDPEKPFRKLNPFGN  137 (550)
T ss_dssp             TTSSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCS-E--EEEECCSSSEEECCC------------------
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccce-E--EEEEECCcccccCCceeeecCcccHHHHhhhcc
Confidence            3456799999999999999999999998763   222232210 0  000000                         0 


Q ss_pred             -----eE---------EEEEEeeCCCccc-----------cchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHh
Q psy5781          68 -----KK---------VKLQIWDTAGQER-----------FRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTL  119 (231)
Q Consensus        68 -----~~---------~~l~i~D~~G~~~-----------~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~  119 (231)
                           -.         ..+.||||+|...           +......++..+|++|+|+|.+   ..+....|++.+.. 
T Consensus       138 ~~~~~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~-  216 (550)
T 2qpt_A          138 TFLNRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG-  216 (550)
T ss_dssp             CCCTTEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT-
T ss_pred             cccccceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh-
Confidence                 00         2589999999864           4456677889999999999998   35566677766543 


Q ss_pred             cCCcceeeecccccCCCC
Q psy5781         120 FDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       120 ~~~~~~~~vv~~k~dl~~  137 (231)
                        .....++++||.|+..
T Consensus       217 --~~~pvilVlNK~Dl~~  232 (550)
T 2qpt_A          217 --HEDKIRVVLNKADMVE  232 (550)
T ss_dssp             --CGGGEEEEEECGGGSC
T ss_pred             --cCCCEEEEEECCCccC
Confidence              2345778999999875

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.13  E-value=1.6e-10  Score=102.51  Aligned_cols=83  Identities=19%  Similarity=0.275  Sum_probs=48.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC-CCc-----ccceeeEEEEEE---------------EEECC-eEEEEEEeeCCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV-EKT-----GNTIGVDFSMKT---------------VNIDG-KKVKLQIWDTAG   79 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~-----~pt~~~~~~~~~---------------~~~~~-~~~~l~i~D~~G   79 (231)
                      +||+++|.+|||||||++++++.... ..+     .|+.+..+....               ..+++ ..+.+.||||+|
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            58999999999999999999987632 222     233442211100               11233 257899999999


Q ss_pred             ccc----cchhhh---hcccCCcEEEEEEecC
Q psy5781          80 QER----FRTITQ---SYYRSANGVIIEVTSV  104 (231)
Q Consensus        80 ~~~----~~~~~~---~~~~~ad~vIlV~dit  104 (231)
                      ...    .+.+..   .+++.+|++++|+|++
T Consensus        81 ~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~  112 (397)
T 1wxq_A           81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDAT  112 (397)
T ss_dssp             --------------CCCSSTTCSEEEEEEETT
T ss_pred             cccchhhhhhHHHHHHHHHhcCCEEEEEEecc
Confidence            753    233333   4578999999999997

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.13  E-value=7e-11  Score=103.45  Aligned_cols=81  Identities=17%  Similarity=0.188  Sum_probs=55.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCC-Ccc-cceeeEEEEEEEEECCe---------------EEEEEEeeCCCccccc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVE-KTG-NTIGVDFSMKTVNIDGK---------------KVKLQIWDTAGQERFR   84 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~-~~~-pt~~~~~~~~~~~~~~~---------------~~~l~i~D~~G~~~~~   84 (231)
                      +||+++|.+|||||||++++++..+.. .|. .|++.+.  ..+.+++.               ...++|||++|..++.
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~--g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a   80 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNT--GVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCS--SEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceE--EEEecCCcccceeeeeecccceeeeEEEEEECCCCcccc
Confidence            799999999999999999999876432 222 1333222  23444442               1579999999987653


Q ss_pred             ----hhhh---hcccCCcEEEEEEecC
Q psy5781          85 ----TITQ---SYYRSANGVIIEVTSV  104 (231)
Q Consensus        85 ----~~~~---~~~~~ad~vIlV~dit  104 (231)
                          .+..   .+++++|++++|+|++
T Consensus        81 ~~~~gl~~~fl~~ir~ad~il~VvD~~  107 (363)
T 1jal_A           81 SKGEGLGNKFLANIRETDAIGHVVRCF  107 (363)
T ss_dssp             HHHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             cccchHHHHHHHHHHhcCeEEEEEecC
Confidence                2322   3578999999999997

>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=99.06  E-value=5.3e-10  Score=99.16  Aligned_cols=81  Identities=17%  Similarity=0.118  Sum_probs=64.1

Q ss_pred             ceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCc-------------HhhHHHHHHHHHHh
Q psy5781          53 TIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVE-------------YCYQRNWHKQAVTL  119 (231)
Q Consensus        53 t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditS-------------f~~l~~w~~~i~~~  119 (231)
                      |+|++.  ..+.+++  +.++||||+|++.++.+|..|+++++++|+|||++.             |+++..|+..+.+.
T Consensus       204 TiGi~~--~~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~  279 (402)
T 1azs_C          204 TSGIFE--TKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNN  279 (402)
T ss_dssp             CCSEEE--EEEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTC
T ss_pred             eeeeEE--EEeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhc
Confidence            455443  3556665  899999999999999999999999999999999984             56666787777664


Q ss_pred             c-CCcceeeecccccCCCC
Q psy5781         120 F-DKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       120 ~-~~~~~~~vv~~k~dl~~  137 (231)
                      . ....++++++||.|+..
T Consensus       280 ~~~~~~piiLvgNK~DL~~  298 (402)
T 1azs_C          280 RWLRTISVILFLNKQDLLA  298 (402)
T ss_dssp             TTCSSCCEEEEEECHHHHH
T ss_pred             ccCCCCeEEEEEEChhhhh
Confidence            2 34566789999999854

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.04  E-value=1.2e-10  Score=102.96  Aligned_cols=86  Identities=15%  Similarity=0.133  Sum_probs=52.8

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe---------------EEEEEEeeCCCcccc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK---------------KVKLQIWDTAGQERF   83 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~---------------~~~l~i~D~~G~~~~   83 (231)
                      ...++|+++|.+|||||||++++++..+.....|....+.....+.+++.               ...+.+||++|....
T Consensus        20 ~~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~   99 (396)
T 2ohf_A           20 GTSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKG   99 (396)
T ss_dssp             SSCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC----
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccc
Confidence            45689999999999999999999987653333333333344445555442               235999999998764


Q ss_pred             ch-------hhhhcccCCcEEEEEEecC
Q psy5781          84 RT-------ITQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        84 ~~-------~~~~~~~~ad~vIlV~dit  104 (231)
                      ..       ....+++++|++++|+|++
T Consensus       100 as~~~glg~~~l~~ir~aD~Il~VvD~~  127 (396)
T 2ohf_A          100 AHNGQGLGNAFLSHISACDGIFHLTRAF  127 (396)
T ss_dssp             -------CCHHHHHHHTSSSEEEEEEC-
T ss_pred             cchhhHHHHHHHHHHHhcCeEEEEEecC
Confidence            43       3567789999999999987

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.01  E-value=6.3e-10  Score=99.17  Aligned_cols=147  Identities=7%  Similarity=0.029  Sum_probs=90.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc----cchhhhhc---ccCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER----FRTITQSY---YRSA   94 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----~~~~~~~~---~~~a   94 (231)
                      .|+++|.+|||||||++++.+... ...+..|. .......+..++ ...+.+||++|..+    +..+...+   +..+
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftT-l~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era  236 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTT-LSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIART  236 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCS-SCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcccce-ecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHH
Confidence            478999999999999999987642 12222111 011222344443 24688999999732    22222222   4579


Q ss_pred             cEEEEEEecC--cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhh
Q psy5781          95 NGVIIEVTSV--EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGH  167 (231)
Q Consensus        95 d~vIlV~dit--Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e  167 (231)
                      +.+++|+|++  .++++..|.+++..+..  ...+.++++||+|+... . ...... .....+..+..+++  ..++++
T Consensus       237 ~~lL~vvDls~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~-~-~~~~l~~~l~~~g~~vi~iSA~~g~gi~e  314 (416)
T 1udx_A          237 RVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE-E-AVKALADALAREGLAVLPVSALTGAGLPA  314 (416)
T ss_dssp             SEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH-H-HHHHHHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             HhhhEEeCCccCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH-H-HHHHHHHHHHhcCCeEEEEECCCccCHHH
Confidence            9999999995  88888889888877643  23445567799998764 1 111111 12223445555554  456777


Q ss_pred             hhhhhc
Q psy5781         168 AFSTSL  173 (231)
Q Consensus       168 ~f~~~~  173 (231)
                      ++....
T Consensus       315 L~~~i~  320 (416)
T 1udx_A          315 LKEALH  320 (416)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776544

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=98.94  E-value=2.2e-09  Score=94.02  Aligned_cols=82  Identities=18%  Similarity=0.112  Sum_probs=56.2

Q ss_pred             cceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecCc-------------HhhHHHHHHHHHH
Q psy5781          52 NTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVE-------------YCYQRNWHKQAVT  118 (231)
Q Consensus        52 pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditS-------------f~~l~~w~~~i~~  118 (231)
                      +|+|++.  ..+.+++  +.+.|||++|++.++..|..|+++++++|+|||++.             +++...|+..+.+
T Consensus       187 ~T~Gi~~--~~~~~~~--~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~  262 (362)
T 1zcb_A          187 PTKGIHE--YDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVN  262 (362)
T ss_dssp             CCSSEEE--EEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHT
T ss_pred             CccceEE--EEeeeCC--eEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhc
Confidence            4566443  4556654  889999999999999999999999999999999984             4455567766665


Q ss_pred             hc-CCcceeeecccccCCCC
Q psy5781         119 LF-DKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       119 ~~-~~~~~~~vv~~k~dl~~  137 (231)
                      .. ....++++++||.|+..
T Consensus       263 ~~~~~~~piILv~NK~DL~~  282 (362)
T 1zcb_A          263 NRVFSNVSIILFLNKTDLLE  282 (362)
T ss_dssp             CGGGTTSEEEEEEECHHHHH
T ss_pred             chhhCCCCEEEEEEChhhhh
Confidence            42 24556789999999864

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.92  E-value=1e-12  Score=106.90  Aligned_cols=40  Identities=18%  Similarity=0.135  Sum_probs=34.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFS   59 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~   59 (231)
                      ..++|+++|++|||||||+++|+...+...+.++++.++.
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~   76 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVI   76 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCC
Confidence            4689999999999999999999988777667788876654

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=98.78  E-value=4.3e-09  Score=92.38  Aligned_cols=77  Identities=16%  Similarity=0.249  Sum_probs=54.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC-CCC-----cccceeeEEEEEEEEECC-------------------eEEEEEEee
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF-VEK-----TGNTIGVDFSMKTVNIDG-------------------KKVKLQIWD   76 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f-~~~-----~~pt~~~~~~~~~~~~~~-------------------~~~~l~i~D   76 (231)
                      ++|+++|.+|||||||++++++... ...     ..|+++.      +.+.+                   ....+++||
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~------~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvD   75 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGV------VPLEDERLYALQRTFAKGERVPPVVPTHVEFVD   75 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEE------EECCCHHHHHHHHHHCBTTBCCCEECCEEEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceee------EecChHHHHHHHHHhcccccccccCCceEEEEE
Confidence            6899999999999999999987542 122     3345442      12221                   235799999


Q ss_pred             CCCccccc----hh---hhhcccCCcEEEEEEecC
Q psy5781          77 TAGQERFR----TI---TQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        77 ~~G~~~~~----~~---~~~~~~~ad~vIlV~dit  104 (231)
                      ++|..+..    .+   ...+++.+|++++|+|.+
T Consensus        76 tpGl~~~a~~~~~lg~~fl~~ir~ad~ii~VvD~~  110 (368)
T 2dby_A           76 IAGLVKGAHKGEGLGNQFLAHIREVAAIAHVLRCF  110 (368)
T ss_dssp             CCSCCCCCCSSSCTTHHHHHHHHTCSEEEEEEECC
T ss_pred             CCCccccccccchHHHHHHHHHHhCCEEEEEEECC
Confidence            99987642    22   223578999999999997

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=98.76  E-value=3.1e-08  Score=87.09  Aligned_cols=114  Identities=14%  Similarity=0.044  Sum_probs=73.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcccc----chh---hhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF----RTI---TQS   89 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~----~~~---~~~   89 (231)
                      +....+|.++|.|+||||||+|++++.+. ..+|.-|. .+.....+.+++  ..+++.|++|--+-    ..+   .-.
T Consensus        69 k~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT-~~~~~g~~~~~~--~~i~l~D~pGl~~~a~~~~~~g~~~l~  145 (376)
T 4a9a_A           69 RTGVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTT-LVTVPGVIRYKG--AKIQMLDLPGIIDGAKDGRGRGKQVIA  145 (376)
T ss_dssp             BCSSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSC-CCEEEEEEEETT--EEEEEEECGGGCCC-----CHHHHHHH
T ss_pred             ecCCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCce-eeeeeEEEEeCC--cEEEEEeCCCccCCchhhhHHHHHHHH
Confidence            44567999999999999999999997553 23343332 234455677777  56889999995321    111   223


Q ss_pred             cccCCcEEEEEEecC-cHhhHHHHHHHHHHhcC--CcceeeecccccC
Q psy5781          90 YYRSANGVIIEVTSV-EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLA  134 (231)
Q Consensus        90 ~~~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~d  134 (231)
                      .++.+|++++|.|.+ .....+....++.....  ..++..++.+|.|
T Consensus       146 ~i~~ad~il~vvD~~~p~~~~~~i~~EL~~~~~~l~~k~~~i~~nK~d  193 (376)
T 4a9a_A          146 VARTCNLLFIILDVNKPLHHKQIIEKELEGVGIRLNKTPPDILIKKKE  193 (376)
T ss_dssp             HHHHCSEEEEEEETTSHHHHHHHHHHHHHHTTEEETCCCCCEEEEECS
T ss_pred             HHHhcCccccccccCccHHHHHHHHHHHHHhhHhhccCChhhhhhHhh
Confidence            567899999999999 45555555556654321  2333445555554

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=98.61  E-value=5.6e-08  Score=85.92  Aligned_cols=88  Identities=16%  Similarity=0.154  Sum_probs=59.5

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEECCe---------------EEEEEEeeCCCc
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGK---------------KVKLQIWDTAGQ   80 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~---------------~~~l~i~D~~G~   80 (231)
                      ......+|.++|.+|||||||++.+++... .....|....+.....+.+++.               ...+.+||++|.
T Consensus        16 ~v~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl   95 (392)
T 1ni3_A           16 RPGNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGL   95 (392)
T ss_dssp             SSSSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGG
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEecccc
Confidence            334568999999999999999999998664 3323332222233334555542               135899999995


Q ss_pred             cc-------cchhhhhcccCCcEEEEEEecC
Q psy5781          81 ER-------FRTITQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        81 ~~-------~~~~~~~~~~~ad~vIlV~dit  104 (231)
                      ..       .......+++.+|+++.|+|..
T Consensus        96 ~~~~s~~e~L~~~fl~~ir~~d~il~Vvd~~  126 (392)
T 1ni3_A           96 TKGASTGVGLGNAFLSHVRAVDAIYQVVRAF  126 (392)
T ss_dssp             CCCCCSSSSSCHHHHHHHTTCSEEEEEEECC
T ss_pred             ccCCcHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            32       2223445678999999999986

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.61  E-value=2.7e-08  Score=80.11  Aligned_cols=109  Identities=16%  Similarity=0.071  Sum_probs=62.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEE------------EEEEEECC------------------eE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFS------------MKTVNIDG------------------KK   69 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~------------~~~~~~~~------------------~~   69 (231)
                      ...+|+++|.+|||||||+++++..........++..++.            ...+.++.                  ..
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSD  108 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCC
Confidence            4579999999999999999999865322211122211110            01111211                  23


Q ss_pred             EEEEEeeCCCccccchhhhhcccCCcEEEEEEecCcHh-hHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          70 VKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYC-YQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditSf~-~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +.+.||||+|+-...   ..+....+.+++|+|.+... ....+...+      ..+.++++||.|+..
T Consensus       109 ~d~iiidt~G~~~~~---~~~~~~~~~~i~vvd~~~~~~~~~~~~~~~------~~~~iiv~NK~Dl~~  168 (221)
T 2wsm_A          109 CDLLLIENVGNLICP---VDFDLGENYRVVMVSVTEGDDVVEKHPEIF------RVADLIVINKVALAE  168 (221)
T ss_dssp             CSEEEEEEEEBSSGG---GGCCCSCSEEEEEEEGGGCTTHHHHCHHHH------HTCSEEEEECGGGHH
T ss_pred             CCEEEEeCCCCCCCC---chhccccCcEEEEEeCCCcchhhhhhhhhh------hcCCEEEEecccCCc
Confidence            567899999852111   11223678999999998332 222222111      244668899999854

>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=98.48  E-value=2e-08  Score=87.59  Aligned_cols=60  Identities=5%  Similarity=-0.082  Sum_probs=38.3

Q ss_pred             EEEEEeeCCCccccchhhhhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          70 VKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +.+.||||+|...   .....+..+|++|+|+|.+..+..+.+...+     .....+++.||.|+..
T Consensus       172 ~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~~~-----~~~p~ivVlNK~Dl~~  231 (355)
T 3p32_A          172 FDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKKGV-----LELADIVVVNKADGEH  231 (355)
T ss_dssp             CCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCTTS-----GGGCSEEEEECCCGGG
T ss_pred             CCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHHhH-----hhcCCEEEEECCCCcC
Confidence            6789999999432   2233458899999999988322222111111     1235678899999864

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=98.47  E-value=6.9e-07  Score=82.27  Aligned_cols=117  Identities=13%  Similarity=0.128  Sum_probs=78.8

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC------------------CCCC----CcccceeeEEEEEEEEECCeEEEEEEe
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG------------------DFVE----KTGNTIGVDFSMKTVNIDGKKVKLQIW   75 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~------------------~f~~----~~~pt~~~~~~~~~~~~~~~~~~l~i~   75 (231)
                      ..+.-+|.|+|..++|||||..+++..                  .+.+    +...-+.+......+.+++  +.++|.
T Consensus        28 ~~r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~--~~iNlI  105 (548)
T 3vqt_A           28 AARRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRD--RVVNLL  105 (548)
T ss_dssp             HHTEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETT--EEEEEE
T ss_pred             ccccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECC--EEEEEE
Confidence            346778999999999999999999621                  1110    0001111111223344444  789999


Q ss_pred             eCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          76 DTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        76 D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      ||||+.+|..-....++-+|++|+|+|..   --+...-|.....    ...+.+++.||+|....+.
T Consensus       106 DTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~~----~~lp~i~fINK~Dr~~ad~  169 (548)
T 3vqt_A          106 DTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCRM----RATPVMTFVNKMDREALHP  169 (548)
T ss_dssp             CCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCCEEEEEECTTSCCCCH
T ss_pred             eCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHHHH----hCCceEEEEecccchhcch
Confidence            99999999998899999999999999999   4444455644332    3445668899998766443

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=98.35  E-value=2.4e-06  Score=81.25  Aligned_cols=116  Identities=15%  Similarity=0.130  Sum_probs=69.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCC-CcccceeeE----------------------------------------
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVE-KTGNTIGVD----------------------------------------   57 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~-~~~pt~~~~----------------------------------------   57 (231)
                      ....+|+|+|..++|||||++.+++..+.+ ...++....                                        
T Consensus        49 i~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~  128 (772)
T 3zvr_A           49 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  128 (772)
T ss_dssp             GCCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhh
Confidence            456799999999999999999999987622 111110000                                        


Q ss_pred             ----------EEEEEEEECCeEEEEEEeeCCCccc-------------cchhhhhcc-cCCcEEEEEEecC-c--HhhHH
Q psy5781          58 ----------FSMKTVNIDGKKVKLQIWDTAGQER-------------FRTITQSYY-RSANGVIIEVTSV-E--YCYQR  110 (231)
Q Consensus        58 ----------~~~~~~~~~~~~~~l~i~D~~G~~~-------------~~~~~~~~~-~~ad~vIlV~dit-S--f~~l~  110 (231)
                                .....+...+ ...+.|+||||-..             ...+...|+ ..+|++++|.|.+ .  -....
T Consensus       129 ~g~~~~is~~~i~l~I~~P~-~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l  207 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPH-VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL  207 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETT-CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHH
T ss_pred             cCCCCcccccceEEEEecCC-CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHH
Confidence                      0000111111 12478999999432             223444455 5789999999998 2  22222


Q ss_pred             HHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781         111 NWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       111 ~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .+...+   .......+++.||.|+...
T Consensus       208 ~ll~~L---~~~g~pvIlVlNKiDlv~~  232 (772)
T 3zvr_A          208 KIAKEV---DPQGQRTIGVITKLDLMDE  232 (772)
T ss_dssp             HHHHHH---CTTCSSEEEEEECTTSSCT
T ss_pred             HHHHHH---HhcCCCEEEEEeCcccCCc
Confidence            233333   3445567789999998653

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.29  E-value=2.7e-07  Score=77.18  Aligned_cols=57  Identities=18%  Similarity=0.381  Sum_probs=36.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER   82 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~   82 (231)
                      ++|+++|.+|||||||++++.+..... ..++.|.+.....+.++.   .+.||||+|...
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~-~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~~  156 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASS-VGAQPGITKGIQWFSLEN---GVKILDTPGILY  156 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECTT---SCEEESSCEECC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccc-cCCCCCCccceEEEEeCC---CEEEEECCCccc
Confidence            699999999999999999999776532 345555444333333332   578999999764

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=98.19  E-value=9.4e-06  Score=76.87  Aligned_cols=116  Identities=13%  Similarity=0.143  Sum_probs=77.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC--------CCCC--Cccc------ceeeE--EEEEEEEEC-----CeEEEEEEe
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG--------DFVE--KTGN------TIGVD--FSMKTVNID-----GKKVKLQIW   75 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~--------~f~~--~~~p------t~~~~--~~~~~~~~~-----~~~~~l~i~   75 (231)
                      ++.-+|.|+|.-..|||||..+++..        +...  .+..      .-|+.  .....+.+.     .+.+.++|.
T Consensus        11 ~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlI   90 (709)
T 4fn5_A           11 NRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVI   90 (709)
T ss_dssp             GGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEE
T ss_pred             HHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEE
Confidence            56778999999999999999998621        1000  0100      00111  111222332     136899999


Q ss_pred             eCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          76 DTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        76 D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ||||+.+|..-....++-+|++|+|+|..   .-+...-|.....+    ..+.+++.||+|....
T Consensus        91 DTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~----~lp~i~~iNKiDr~~a  152 (709)
T 4fn5_A           91 DTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKY----GVPRIVYVNKMDRQGA  152 (709)
T ss_dssp             CCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHH----TCCEEEEEECSSSTTC
T ss_pred             eCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHc----CCCeEEEEccccccCc
Confidence            99999999998899999999999999999   44444555555443    3345688899887653

>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=98.19  E-value=2.3e-06  Score=70.51  Aligned_cols=68  Identities=7%  Similarity=-0.176  Sum_probs=39.5

Q ss_pred             EEEEEeeCCCccccchhhh------hcccCCcEEEEEEecC---cHhhHHHHHH-HHHHhcCCcceeeecccccCCCCC
Q psy5781          70 VKLQIWDTAGQERFRTITQ------SYYRSANGVIIEVTSV---EYCYQRNWHK-QAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~~------~~~~~ad~vIlV~dit---Sf~~l~~w~~-~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +.+.||||+|+.+......      .++.. +++|++.|.+   +......... ..........+..+++||.|+...
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~~  186 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSE  186 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCH
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEeccccccc
Confidence            5799999999876543322      24456 8888888876   2222221111 111112223445689999998653

>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=98.16  E-value=1.7e-06  Score=73.12  Aligned_cols=59  Identities=25%  Similarity=0.437  Sum_probs=36.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE   81 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~   81 (231)
                      ...++|+++|.+|||||||+|++.+..... ..++.+.+.....+.++.   .+.+|||+|..
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~-~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~  176 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAK-TGDRPGITTSQQWVKVGK---ELELLDTPGIL  176 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEETT---TEEEEECCCCC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceee-cCCCCCeeeeeEEEEeCC---CEEEEECcCcC
Confidence            356899999999999999999999765322 223333322222333332   47899999964

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=98.10  E-value=1.8e-06  Score=75.00  Aligned_cols=60  Identities=5%  Similarity=-0.104  Sum_probs=33.5

Q ss_pred             EEEEEeeCCCccccchhhhhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          70 VKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +.+.|+||+|....   .......+|++++|+|.+..+..+.....+   .  ....+++.||.|+..
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~~i---l--~~~~ivVlNK~Dl~~  226 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKRGI---I--EMADLVAVTKSDGDL  226 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC---------------C--CSCSEEEECCCSGGG
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHHHH---H--hcCCEEEEeeecCCC
Confidence            56789999995321   133467899999999998322222111111   1  224567789998853

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.05  E-value=8.2e-07  Score=83.19  Aligned_cols=115  Identities=14%  Similarity=0.174  Sum_probs=75.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc--CCCCC-----------Cccc---ceeeEEEEEEEEECCeEEEEEEeeCCCccccc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS--GDFVE-----------KTGN---TIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR   84 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~--~~f~~-----------~~~p---t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~   84 (231)
                      .-+|.++|....|||||..+++.  +....           ++.+   .-|+......+.+..+.+.++|.||||+.+|.
T Consensus         2 IRNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~   81 (638)
T 3j25_A            2 IINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFL   81 (638)
T ss_dssp             CCCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTH
T ss_pred             eeEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHH
Confidence            45789999999999999999972  21110           1110   00111111222223344779999999999999


Q ss_pred             hhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          85 TITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        85 ~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      ......++-+|++|+|+|..   .-+...-|.......    .+.+++.||.|.....
T Consensus        82 ~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~~~~----lp~i~~INKmDr~~a~  135 (638)
T 3j25_A           82 AEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMG----IPTIFFINKIDQNGID  135 (638)
T ss_dssp             HHHHHHHTTCSEEECCEESSCTTCSHHHHHHHHHHHHT----CSCEECCEECCSSSCC
T ss_pred             HHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHHHcC----CCeEEEEeccccccCC
Confidence            98899999999999999999   334444555444332    2345778998876543

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=98.01  E-value=8.7e-07  Score=76.77  Aligned_cols=60  Identities=12%  Similarity=-0.121  Sum_probs=36.3

Q ss_pred             EEEEEeeCCCccccchhhhhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          70 VKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +.+.||||+|......   ...+.+|++++|+|.+..+.++......     .....+++.||.|+..
T Consensus       149 ~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~~~-----~~~p~ivv~NK~Dl~~  208 (341)
T 2p67_A          149 YDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKKGL-----MEVADLIVINKDDGDN  208 (341)
T ss_dssp             CSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCHHH-----HHHCSEEEECCCCTTC
T ss_pred             CCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHHhh-----hcccCEEEEECCCCCC
Confidence            5799999999654332   2458999999999998333221111011     1234568899999865

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=98.00  E-value=2.2e-07  Score=83.95  Aligned_cols=100  Identities=9%  Similarity=0.030  Sum_probs=64.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc--cchhh--------h
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER--FRTIT--------Q   88 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~--~~~~~--------~   88 (231)
                      ...++|+++|.+|+||||+.+++....... ..++...+.........+......+||..|++.  .+..+        .
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~~~-~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~  115 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLNFI-GVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVR  115 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHHT-TCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHhcc-CCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHH
Confidence            456899999999999999999998653211 223333211100011112223457899998742  23332        5


Q ss_pred             hcccCCcEEEEEEecC--cHhhHHHHHHHHHHh
Q psy5781          89 SYYRSANGVIIEVTSV--EYCYQRNWHKQAVTL  119 (231)
Q Consensus        89 ~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~  119 (231)
                      .++..+.+.++|+|.+  +.+..+.|+..+++.
T Consensus       116 ~~l~~~~G~~vV~D~tn~~~~~R~~~~~~~~~~  148 (469)
T 1bif_A          116 KFLSEEGGHVAVFDATNTTRERRAMIFNFGEQN  148 (469)
T ss_dssp             HHHHTTCCSEEEEESCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCEEEEeCCCCCHHHHHHHHHHHHhc
Confidence            6677788999999999  888888888877664

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=97.84  E-value=6.4e-05  Score=63.88  Aligned_cols=56  Identities=13%  Similarity=-0.071  Sum_probs=47.2

Q ss_pred             ccccchhhhhcccCCcEEEEEEecC----cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          80 QERFRTITQSYYRSANGVIIEVTSV----EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        80 ~~~~~~~~~~~~~~ad~vIlV~dit----Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ++++..+.+.+++++|++++|||++    +++.+.+|+..+..   ...+.++++||.|+...
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~  125 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNE  125 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCH
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCc
Confidence            6777788889999999999999998    78888999987765   44567799999998754

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=97.68  E-value=7.6e-05  Score=62.46  Aligned_cols=24  Identities=25%  Similarity=0.635  Sum_probs=21.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++++|++|+|||||++.+++-
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            589999999999999999999853

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=97.65  E-value=0.00022  Score=63.52  Aligned_cols=59  Identities=24%  Similarity=0.481  Sum_probs=34.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCC----cccceeeEEEEEEEEE--CCeEEEEEEeeCCCc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEK----TGNTIGVDFSMKTVNI--DGKKVKLQIWDTAGQ   80 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~----~~pt~~~~~~~~~~~~--~~~~~~l~i~D~~G~   80 (231)
                      ..++++|+|.+|+|||||++.+++-.+...    ..+...  .....+..  .+-...+.++|+.|-
T Consensus        41 ei~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~--~~~i~~v~Q~~~l~~~ltv~D~~~~  105 (427)
T 2qag_B           41 FCFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQ--LQSNTYDLQESNVRLKLTIVSTVGF  105 (427)
T ss_dssp             CEEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCE--EEEEEEEEEC--CEEEEEEEEEECC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccce--EeeEEEEeecCccccccchhhhhhh
Confidence            356799999999999999999987654221    112111  11111122  222347889998764

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.55  E-value=8.4e-05  Score=64.96  Aligned_cols=111  Identities=11%  Similarity=0.093  Sum_probs=60.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC-----CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchh--------hh
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV-----EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTI--------TQ   88 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~-----~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~--------~~   88 (231)
                      .+|+++|.+|||||||+|++++....     ....+..+.+.....+.++..   +.++||+|-.....+        ..
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~  237 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQSLK  237 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSS---CEEEECCCBCCTTSGGGGSCHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCC---eEEEeCCCcCcHHHHHHHhhHHHHH
Confidence            57999999999999999999875311     111222332333334444432   789999996432211        11


Q ss_pred             hc--ccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          89 SY--YRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        89 ~~--~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      .+  ....+.++++.+..   -...+..    +........+..++.+|.|..+..
T Consensus       238 ~~~~~~~i~~~~~~l~~~~~~~~g~l~~----~d~l~~~~~~~~~v~nk~d~~~~~  289 (368)
T 3h2y_A          238 LITPTKEIKPMVFQLNEEQTLFFSGLAR----FDYVSGGRRAFTCHFSNRLTIHRT  289 (368)
T ss_dssp             HHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEE
T ss_pred             HhccccccCceEEEEcCCCEEEEcceEE----EEEecCCCceEEEEecCccccccc
Confidence            11  24667788888874   1111111    111122344456777887766543

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.51  E-value=8.6e-05  Score=67.53  Aligned_cols=115  Identities=11%  Similarity=0.117  Sum_probs=62.1

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHH------cCCCC----CCcccce-----------eeEEEEEEEE-------------
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFR------SGDFV----EKTGNTI-----------GVDFSMKTVN-------------   64 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~------~~~f~----~~~~pt~-----------~~~~~~~~~~-------------   64 (231)
                      .....|+++|.+||||||+++++.      +.+..    +.+.|..           +++++.....             
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~  178 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEK  178 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHH
Confidence            456789999999999999999998      32210    0111110           1111110000             


Q ss_pred             ECCeEEEEEEeeCCCccccch-hhh---hc--ccCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          65 IDGKKVKLQIWDTAGQERFRT-ITQ---SY--YRSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        65 ~~~~~~~l~i~D~~G~~~~~~-~~~---~~--~~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      .....+.+.|+||+|...... +..   ..  ...+|.+++|.|.+ ..+.+ .....+.+.   .++..++.||.|...
T Consensus       179 ~~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~-~~a~~~~~~---~~i~gvVlNK~D~~~  254 (504)
T 2j37_W          179 FKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACE-AQAKAFKDK---VDVASVIVTKLDGHA  254 (504)
T ss_dssp             HHHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHH-HHHHHHHHH---HCCCCEEEECTTSCC
T ss_pred             HHHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHH-HHHHHHHhh---cCceEEEEeCCcccc
Confidence            000236789999999753221 111   11  22789999999998 33322 222333321   233467889988764

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=97.50  E-value=9.6e-05  Score=68.44  Aligned_cols=62  Identities=19%  Similarity=0.197  Sum_probs=39.6

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcc-----cceeeEEEEEEEEE-CCeEEEEEEeeCCCccc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTG-----NTIGVDFSMKTVNI-DGKKVKLQIWDTAGQER   82 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~-----pt~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~   82 (231)
                      ...++|+|+|.+|||||||+|++++....-.+.     .|.++..  +...+ ......+.|+||+|...
T Consensus        36 ~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~--~~~~~~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           36 QPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWM--WCVPHPKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEE--EEEECSSSTTCEEEEEEECCBCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEE--eecccccCCCceEEEecCCCcCc
Confidence            456899999999999999999999876321222     2333211  11111 12235688999999653

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.49  E-value=8.1e-05  Score=65.06  Aligned_cols=109  Identities=12%  Similarity=0.122  Sum_probs=61.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC-----CCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch--------hhh
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG-----DFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT--------ITQ   88 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~-----~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~--------~~~   88 (231)
                      .+|+++|.+|||||||+|.+++.     .... ..+..+.+.....+.++..   +.++||+|-.....        ...
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~-~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~  238 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVIT-TSYFPGTTLDMIEIPLESG---ATLYDTPGIINHHQMAHFVDARDLK  238 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCE-EEECTTSSCEEEEEECSTT---CEEEECCSCCCCSSGGGGSCTTTHH
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCcccee-ecCCCCeEEeeEEEEeCCC---eEEEeCCCcCcHHHHHHHHhHHHHH
Confidence            47999999999999999999975     1110 1111122223333444432   78999999542221        112


Q ss_pred             hcc--cCCcEEEEEEecC-c--HhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          89 SYY--RSANGVIIEVTSV-E--YCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        89 ~~~--~~ad~vIlV~dit-S--f~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .++  +..+.++++.+.. +  +..+..    +...........++.+|.|..+.
T Consensus       239 ~~~~~~~i~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~~~~  289 (369)
T 3ec1_A          239 IITPKREIHPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELTVHR  289 (369)
T ss_dssp             HHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEE
T ss_pred             HHhcccccCceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCccccc
Confidence            222  5678899999984 1  112111    11112233445677788776553

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.48  E-value=8.2e-05  Score=64.24  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      -..|.++|.+|+|||||++.+.
T Consensus        55 g~~v~i~G~~GaGKSTLl~~l~   76 (337)
T 2qm8_A           55 AIRVGITGVPGVGKSTTIDALG   76 (337)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4679999999999999999997

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=97.18  E-value=0.00013  Score=58.96  Aligned_cols=61  Identities=10%  Similarity=0.037  Sum_probs=34.7

Q ss_pred             CCCccccchhhhhcccCCcEEEEEEecCcHhhHHHHHHHH---HHhcCC-----cceeeeccccc-CCCCC
Q psy5781          77 TAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQA---VTLFDK-----YKFGHAFSTSL-AMPQV  138 (231)
Q Consensus        77 ~~G~~~~~~~~~~~~~~ad~vIlV~ditSf~~l~~w~~~i---~~~~~~-----~~~~~vv~~k~-dl~~~  138 (231)
                      .+||+.++.+|++||.++|++|+|.|.+.-+.+. ...++   .+...+     ..+.++++||. |++..
T Consensus       109 ~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~A  178 (227)
T 3l82_B          109 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR  178 (227)
T ss_dssp             --------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCB
T ss_pred             cCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCC
Confidence            3589999999999999999999999999222221 33333   444432     23566777873 56543

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=96.65  E-value=0.0011  Score=51.85  Aligned_cols=22  Identities=36%  Similarity=0.702  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +++++|++|+|||||++.+.+-
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999988754

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=96.59  E-value=0.0016  Score=58.22  Aligned_cols=115  Identities=19%  Similarity=0.133  Sum_probs=63.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc------CCC----CCCccc-----------ceeeEEEEEEEEEC------------
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS------GDF----VEKTGN-----------TIGVDFSMKTVNID------------   66 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~------~~f----~~~~~p-----------t~~~~~~~~~~~~~------------   66 (231)
                      ....|+++|.+||||||++..+..      .+.    .+.+.+           ..+++++......+            
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a  178 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYF  178 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHH
Confidence            467899999999999999988863      111    001111           11211211000000            


Q ss_pred             -CeEEEEEEeeCCCccccch-----hhh-hcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          67 -GKKVKLQIWDTAGQERFRT-----ITQ-SYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        67 -~~~~~l~i~D~~G~~~~~~-----~~~-~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                       ...+.+.|.||+|......     +.. .....+|.++||.|.+.-.+.......+.+   ...+..++.||+|...
T Consensus       179 ~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~a~~f~~---~~~i~gVIlTKlD~~~  253 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQALAFKE---ATPIGSIIVTKLDGSA  253 (443)
T ss_dssp             HHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHH---SCTTEEEEEECCSSCS
T ss_pred             HhCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHHHHHHHh---hCCCeEEEEECCCCcc
Confidence             0126788999999543221     110 112357899999999933333333333332   3345568889988764

>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=96.57  E-value=0.00092  Score=56.52  Aligned_cols=62  Identities=8%  Similarity=-0.042  Sum_probs=38.8

Q ss_pred             CCCccccchhhhhcccCCcEEEEEEecCcHhhH--HHHHHHHHHhcC-----Ccceeeecccc-cCCCCC
Q psy5781          77 TAGQERFRTITQSYYRSANGVIIEVTSVEYCYQ--RNWHKQAVTLFD-----KYKFGHAFSTS-LAMPQV  138 (231)
Q Consensus        77 ~~G~~~~~~~~~~~~~~ad~vIlV~ditSf~~l--~~w~~~i~~~~~-----~~~~~~vv~~k-~dl~~~  138 (231)
                      .+||+.++.+|++||.++|++|+|+|.+.-+++  ..-+.++.....     ...+.++.+|| -|++..
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A  263 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR  263 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC
Confidence            478999999999999999999999999932222  222222223222     33456677776 466543

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.55  E-value=0.0012  Score=51.23  Aligned_cols=22  Identities=27%  Similarity=0.566  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+...
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999999853

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.46  E-value=0.0015  Score=51.68  Aligned_cols=21  Identities=33%  Similarity=0.600  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .++++|++|+|||||++.+.+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999999875

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=96.39  E-value=0.003  Score=56.31  Aligned_cols=66  Identities=15%  Similarity=0.129  Sum_probs=38.4

Q ss_pred             EEEEEEeeCCCccccch-hh-----hhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCc-ceeeecccccCCCC
Q psy5781          69 KVKLQIWDTAGQERFRT-IT-----QSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKY-KFGHAFSTSLAMPQ  137 (231)
Q Consensus        69 ~~~l~i~D~~G~~~~~~-~~-----~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~-~~~~vv~~k~dl~~  137 (231)
                      .+.+.|.||+|...... +.     -.....+|.+++|.|.+.-.+.....   ....... ++..++.||.|...
T Consensus       180 ~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~~~~~~---~~~~~~~~~i~gvVlnK~D~~~  252 (432)
T 2v3c_C          180 KADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQAGIQA---KAFKEAVGEIGSIIVTKLDGSA  252 (432)
T ss_dssp             SCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGGHHHHH---HHHHTTSCSCEEEEEECSSSCS
T ss_pred             CCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHHHHHHH---HHHhhcccCCeEEEEeCCCCcc
Confidence            36789999999754211 11     11223689999999998222222222   2222333 44678889988754

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=96.32  E-value=0.004  Score=55.69  Aligned_cols=63  Identities=25%  Similarity=0.313  Sum_probs=40.7

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC------------------CCC---CCcccceeeEEEEEEE--E-ECCeEEEEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG------------------DFV---EKTGNTIGVDFSMKTV--N-IDGKKVKLQI   74 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~------------------~f~---~~~~pt~~~~~~~~~~--~-~~~~~~~l~i   74 (231)
                      ....-|.|+|..++|||+|+|++++.                  .|.   .....|.|+-.....+  . .++....+.+
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg~~~~~~~~~wl~~~~~~~~~f~~~~t~~~~T~GIw~~~~p~~~~~~~~~~~~vvl  144 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLL  144 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHHHHHCCSTTTSSCCTTSBCCSSCSCCSSCCCCCEEEEESSCEEEECSSSCEEEEEE
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhhhcccccccccccccccccceecCCCCCCCceeEEEEecCccccccCCCCcceEEE
Confidence            45677899999999999999999852                  232   1122344532221111  1 1456788999


Q ss_pred             eeCCCcc
Q psy5781          75 WDTAGQE   81 (231)
Q Consensus        75 ~D~~G~~   81 (231)
                      .||.|..
T Consensus       145 lDTeG~~  151 (447)
T 3q5d_A          145 MDTQGTF  151 (447)
T ss_dssp             EEEECCC
T ss_pred             EcCCccc
Confidence            9999954

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.32  E-value=0.0022  Score=50.62  Aligned_cols=21  Identities=24%  Similarity=0.586  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |||+|++|||||||+++++..
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            899999999999999999853

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.27  E-value=0.0022  Score=50.27  Aligned_cols=22  Identities=23%  Similarity=0.409  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|+++|++|+|||||++.+.+-
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            4899999999999999999854

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.24  E-value=0.0023  Score=51.68  Aligned_cols=22  Identities=14%  Similarity=0.338  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.+.+.
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5889999999999999998864

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.24  E-value=0.0024  Score=50.90  Aligned_cols=22  Identities=36%  Similarity=0.640  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|+++|++|+|||||++.++..
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            5899999999999999999853

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.20  E-value=0.0026  Score=49.35  Aligned_cols=22  Identities=23%  Similarity=0.378  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|+++|.+|+|||||++.+.+.
T Consensus        11 ~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           11 ILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5899999999999999999864

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.20  E-value=0.0025  Score=50.56  Aligned_cols=23  Identities=43%  Similarity=0.521  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      =-++++|++|+|||||++.+.+-
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            35889999999999999998753

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.16  E-value=0.0023  Score=49.26  Aligned_cols=20  Identities=40%  Similarity=0.609  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy5781          23 KVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~   42 (231)
                      -++++|++|+|||||++.+.
T Consensus        11 i~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            47899999999999999644

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.12  E-value=0.0029  Score=50.84  Aligned_cols=22  Identities=27%  Similarity=0.585  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4899999999999999999863

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.11  E-value=0.003  Score=50.23  Aligned_cols=22  Identities=36%  Similarity=0.442  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|+++|++|+|||||++.+...
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            5899999999999999999865

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.05  E-value=0.0065  Score=50.79  Aligned_cols=22  Identities=27%  Similarity=0.551  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999988753

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.03  E-value=0.0035  Score=47.99  Aligned_cols=23  Identities=39%  Similarity=0.497  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      -+.++|+.|+|||||++.+.+-.
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            48899999999999999998653

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.99  E-value=0.0049  Score=48.39  Aligned_cols=30  Identities=20%  Similarity=0.235  Sum_probs=22.9

Q ss_pred             CCCCCceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        14 ~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +.........|++.|.+|+||||+.+.+..
T Consensus        13 ~~~~~~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           13 GLVPRGSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             ---CCCSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cccCCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            333445557899999999999999998864

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.99  E-value=0.0058  Score=47.91  Aligned_cols=25  Identities=20%  Similarity=0.367  Sum_probs=21.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .....|++.|.+|+||||+.+.+..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3446799999999999999998874

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=95.98  E-value=0.005  Score=47.08  Aligned_cols=22  Identities=32%  Similarity=0.468  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.|+++|.+|+||||+++.+..
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4699999999999999998864

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.87  E-value=0.0047  Score=48.75  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|+++|.+|+|||||++++...
T Consensus        14 ~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           14 PLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999999753

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.85  E-value=0.0044  Score=49.12  Aligned_cols=24  Identities=25%  Similarity=0.235  Sum_probs=21.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .-..|.|+|++|+|||||++.+.+
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999998874

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=95.81  E-value=0.0053  Score=46.46  Aligned_cols=22  Identities=18%  Similarity=0.178  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|++.|.+|+||||+.+.+...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998743

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=95.81  E-value=0.012  Score=51.21  Aligned_cols=22  Identities=27%  Similarity=0.455  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.+.+-
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            3689999999999999998864

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.79  E-value=0.0055  Score=48.15  Aligned_cols=22  Identities=32%  Similarity=0.539  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.|+++|.+|+||||+.+.+..
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.78  E-value=0.0051  Score=47.71  Aligned_cols=21  Identities=29%  Similarity=0.589  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -|+++|.+|+|||||++.+..
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999999975

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.76  E-value=0.0085  Score=47.19  Aligned_cols=31  Identities=16%  Similarity=0.127  Sum_probs=24.7

Q ss_pred             CCCCCceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          14 QDDSYDFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        14 ~~~~~~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      --+.......|.++|.+|+||||+++.+...
T Consensus        14 ~~~~~~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           14 LVPRGSKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCCCSCCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             ccccCCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3344455578999999999999999998864

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.74  E-value=0.0053  Score=48.06  Aligned_cols=24  Identities=38%  Similarity=0.513  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      -.|+++|.+|+||||+++.+...-
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            368999999999999999988643

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.74  E-value=0.0056  Score=46.60  Aligned_cols=22  Identities=23%  Similarity=0.548  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|+++|.+|+||||+++.+...
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999998753

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=95.74  E-value=0.005  Score=50.19  Aligned_cols=35  Identities=29%  Similarity=0.363  Sum_probs=25.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      .+.++|++|+|||||++.+.+-     ..|+.|      .+.++|.
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl-----~~p~~G------~I~~~g~   67 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCL-----DKPTEG------EVYIDNI   67 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCCcHHHHHHHHhcC-----CCCCce------EEEECCE
Confidence            4789999999999999988743     335555      4556664

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=95.72  E-value=0.0062  Score=49.49  Aligned_cols=21  Identities=33%  Similarity=0.637  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      -.|+++|.+|+|||||++.+.
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999998

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.71  E-value=0.005  Score=48.53  Aligned_cols=21  Identities=43%  Similarity=0.689  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ++.++|++|+|||||++.+.+
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g   23 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHh
Confidence            478999999999999998875

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=95.67  E-value=0.0096  Score=50.57  Aligned_cols=28  Identities=21%  Similarity=0.370  Sum_probs=22.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCccccee
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIG   55 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~   55 (231)
                      .+.++|++|+|||||++.+.+-     +.|+.|
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl-----~~p~~G  109 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRF-----YDISSG  109 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTS-----SCCSEE
T ss_pred             EEEEECCCCchHHHHHHHHHcC-----CCCCCc
Confidence            6899999999999999877643     345555

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.67  E-value=0.0063  Score=49.79  Aligned_cols=35  Identities=26%  Similarity=0.429  Sum_probs=26.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      .+.++|++|+|||||++.+.+-     ..|+.|      .+.++|.
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl-----~~p~~G------~i~~~g~   60 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGI-----VKPDRG------EVRLNGA   60 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCCCHHHHHHHHhCC-----CCCCce------EEEECCE
Confidence            4789999999999999998854     235555      4456664

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.66  E-value=0.0053  Score=49.63  Aligned_cols=35  Identities=31%  Similarity=0.419  Sum_probs=25.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      .+.++|++|+|||||++.+.+-     ..|+.|      .+.++|.
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl-----~~p~~G------~i~~~g~   66 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLL-----DAPTEG------KVFLEGK   66 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCCCHHHHHHHHhcC-----CCCCce------EEEECCE
Confidence            4789999999999999988753     235555      4556664

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.65  E-value=0.0062  Score=47.90  Aligned_cols=22  Identities=36%  Similarity=0.575  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.|+++|.+|+|||||++.+..
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.64  E-value=0.0072  Score=48.76  Aligned_cols=27  Identities=19%  Similarity=0.219  Sum_probs=20.1

Q ss_pred             CCceeeE-EEEEcCCCCcHHHHHHHHHc
Q psy5781          17 SYDFLFK-VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        17 ~~~~~~k-IvvlG~~~vGKTSLl~~~~~   43 (231)
                      ......| |+++|++|+||+|...++..
T Consensus        24 ~~~~k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           24 QKLAKAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             CCTTSCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             hhccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3334445 45689999999999988864

>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=95.64  E-value=0.0068  Score=52.67  Aligned_cols=23  Identities=22%  Similarity=0.452  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      .++++|.+|||||||++.+++..
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCS
T ss_pred             EEEEECCCCccHHHHHHHHhccc
Confidence            68999999999999999999754

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=95.62  E-value=0.0066  Score=45.76  Aligned_cols=20  Identities=20%  Similarity=0.286  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHH
Q psy5781          22 FKVVLIGDCGVGKTCVVHRF   41 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~   41 (231)
                      .-|++.|.+|+||||+.+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            35899999999999999998

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=95.61  E-value=0.018  Score=50.26  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCcHHHHHHHHHHcC
Confidence            4789999999999999998854

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.60  E-value=0.0072  Score=46.07  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|++.|.+|+||||+.+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4689999999999999999986

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.56  E-value=0.0064  Score=50.40  Aligned_cols=35  Identities=20%  Similarity=0.409  Sum_probs=26.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      -+.++|++|+|||||++.+.+-     ..|+.|      .+.++|.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl-----~~p~~G------~i~~~g~   68 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFL-----EKPSEG------AIIVNGQ   68 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCCCHHHHHHHHhcC-----CCCCCc------EEEECCE
Confidence            4789999999999999988753     235555      4556664

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=95.53  E-value=0.0069  Score=48.73  Aligned_cols=35  Identities=23%  Similarity=0.322  Sum_probs=25.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      .++++|++|+|||||++.+.+-     ..|+.|      .+.++|.
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl-----~~p~~G------~I~~~g~   71 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTY-----LKPLKG------EIIYNGV   71 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCCCHHHHHHHHhcC-----CCCCCe------EEEECCE
Confidence            3689999999999999988754     235555      4556664

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=95.52  E-value=0.015  Score=50.89  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.+.+-
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHHcC
Confidence            3789999999999999999854

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=95.51  E-value=0.0074  Score=49.21  Aligned_cols=22  Identities=23%  Similarity=0.526  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999988754

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.50  E-value=0.0085  Score=47.43  Aligned_cols=21  Identities=29%  Similarity=0.438  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +|++.|.+|+||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999864

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.47  E-value=0.0077  Score=47.27  Aligned_cols=22  Identities=27%  Similarity=0.410  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|+++|.+|+||||+++.+..
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998864

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=95.47  E-value=0.007  Score=49.94  Aligned_cols=22  Identities=23%  Similarity=0.418  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988754

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.47  E-value=0.0087  Score=47.40  Aligned_cols=21  Identities=33%  Similarity=0.420  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +|+++|.+|+||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999864

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=95.47  E-value=0.0077  Score=49.43  Aligned_cols=22  Identities=18%  Similarity=0.366  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999988754

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=95.47  E-value=0.008  Score=49.15  Aligned_cols=22  Identities=18%  Similarity=0.307  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998754

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=95.46  E-value=0.0063  Score=52.98  Aligned_cols=57  Identities=11%  Similarity=0.074  Sum_probs=46.5

Q ss_pred             CccccchhhhhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          79 GQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        79 G~~~~~~~~~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .++.|+.+++.+++.++++++|+|++.++  ..|.+++.+... ..+.++++||.|+...
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~--~~~~~~l~~~~~-~~p~ilV~NK~DL~~~  111 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN--GSWLPGLHRFVG-NNKVLLVGNKADLIPK  111 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH--HHCCTTHHHHSS-SSCEEEEEECGGGSCT
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc--ccHHHHHHHHhC-CCcEEEEEEChhcCCc
Confidence            46789999999999999999999999654  678888888765 4556789999998653

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=95.45  E-value=0.0062  Score=46.88  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.++++|++|+|||+|++.+.+.
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999988753

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=95.45  E-value=0.0082  Score=45.86  Aligned_cols=22  Identities=27%  Similarity=0.454  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|++.|.+|+||||+.+.+...
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999998753

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.45  E-value=0.0088  Score=46.53  Aligned_cols=21  Identities=24%  Similarity=0.586  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .|++.|.+|+||||+++.+..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            689999999999999998875

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=95.45  E-value=0.017  Score=50.33  Aligned_cols=22  Identities=23%  Similarity=0.311  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -+.++|++|+|||||++.+.+-
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHhcC
Confidence            4689999999999999988753

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=95.43  E-value=0.0074  Score=47.91  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.++..
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999863

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=95.43  E-value=0.0076  Score=50.05  Aligned_cols=35  Identities=31%  Similarity=0.416  Sum_probs=26.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      .+.++|++|+|||||++.+.+-     ..|+.|      .+.++|+
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl-----~~p~~G------~I~~~g~   86 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLL-----EDFDEG------EIIIDGI   86 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEEcCCCCcHHHHHHHHHcC-----CCCCCc------EEEECCE
Confidence            4789999999999999988753     235555      4556664

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.42  E-value=0.0092  Score=45.93  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .|++.|.+|+||||+++.+..
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998874

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.42  E-value=0.0086  Score=49.73  Aligned_cols=22  Identities=18%  Similarity=0.347  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999864

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=95.41  E-value=0.0085  Score=49.21  Aligned_cols=37  Identities=22%  Similarity=0.342  Sum_probs=26.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      .+.++|++|+|||||++.+.+-.   .+.|+.|      .+.++|.
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl~---~~~p~~G------~I~~~g~   67 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGDP---EYTVERG------EILLDGE   67 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTCT---TCEEEEE------EEEETTE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC---CCCCCce------EEEECCE
Confidence            47899999999999999998641   1334444      4566664

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.41  E-value=0.0091  Score=47.05  Aligned_cols=23  Identities=22%  Similarity=0.378  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ...|.++|++|+|||||++.+.+
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998875

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.41  E-value=0.0076  Score=49.19  Aligned_cols=22  Identities=36%  Similarity=0.451  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988753

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=95.40  E-value=0.0087  Score=48.49  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999988754

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=95.39  E-value=0.0079  Score=49.99  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            5789999999999999988853

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.38  E-value=0.0055  Score=49.29  Aligned_cols=21  Identities=33%  Similarity=0.490  Sum_probs=15.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      --|+++|++|+|||||++.+.
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CEEEEECSCC----CHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            358999999999999999998

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=95.38  E-value=0.008  Score=49.46  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999988754

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=95.38  E-value=0.009  Score=45.43  Aligned_cols=23  Identities=43%  Similarity=0.621  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.+++.|++|+|||+|++.+...
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999988754

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=95.38  E-value=0.0089  Score=46.85  Aligned_cols=22  Identities=36%  Similarity=0.646  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .+|+++|.+|+||||+.+.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999876

>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=95.36  E-value=0.0087  Score=50.55  Aligned_cols=20  Identities=35%  Similarity=0.713  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy5781          23 KVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~   42 (231)
                      .++++|.+|||||||++.+.
T Consensus       167 i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            57999999999999999998

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=95.34  E-value=0.0094  Score=46.35  Aligned_cols=23  Identities=17%  Similarity=0.268  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      --++++|.+|+|||||+++++..
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            46889999999999999999854

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.34  E-value=0.0085  Score=49.52  Aligned_cols=22  Identities=32%  Similarity=0.353  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988754

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.33  E-value=0.0092  Score=49.96  Aligned_cols=22  Identities=32%  Similarity=0.427  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5789999999999999988754

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.31  E-value=0.0094  Score=49.30  Aligned_cols=22  Identities=23%  Similarity=0.404  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5789999999999999998753

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.30  E-value=0.0062  Score=50.08  Aligned_cols=27  Identities=19%  Similarity=0.244  Sum_probs=21.5

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ..+...|++.|..|+||||+++.+...
T Consensus        21 ~~~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           21 GTRIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             --CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             ccCceEEEEECCCCCCHHHHHHHHHHh
Confidence            345578999999999999999887643

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=95.29  E-value=0.0089  Score=52.93  Aligned_cols=23  Identities=26%  Similarity=0.582  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ..+.++|++|+|||||++.+.+-
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCcHHHHHHHHhCC
Confidence            37999999999999999999873

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.29  E-value=0.0096  Score=49.59  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999988754

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.28  E-value=0.0077  Score=48.16  Aligned_cols=22  Identities=27%  Similarity=0.270  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998854

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=95.27  E-value=0.0098  Score=46.71  Aligned_cols=24  Identities=17%  Similarity=0.181  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .--|+++|.+|+|||||++.+...
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            356899999999999999988753

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=95.25  E-value=0.011  Score=45.39  Aligned_cols=22  Identities=32%  Similarity=0.241  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|++.|.+|+||||+.+.+..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998864

>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=95.25  E-value=0.0085  Score=50.54  Aligned_cols=23  Identities=26%  Similarity=0.457  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      .++++|++|+|||||++.+.+..
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCcHHHHHHHhcccc
Confidence            57899999999999999998643

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=95.24  E-value=0.015  Score=50.30  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.+.+-
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999998854

>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=95.24  E-value=0.011  Score=51.29  Aligned_cols=24  Identities=25%  Similarity=0.452  Sum_probs=21.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHH
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRF   41 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~   41 (231)
                      ..+.+||+++|.+|+|||||++++
T Consensus        30 ~~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           30 SARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             hcCccEEEEECCCCCcHHHHHHHH
Confidence            356899999999999999999887

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.23  E-value=0.01  Score=49.18  Aligned_cols=21  Identities=19%  Similarity=0.439  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .++++|++|+|||||++.+.+
T Consensus        27 ~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHH
Confidence            589999999999999998875

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.18  E-value=0.013  Score=45.11  Aligned_cols=22  Identities=36%  Similarity=0.490  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.|+++|.+|+||||+.+.+..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999864

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.18  E-value=0.0099  Score=48.98  Aligned_cols=22  Identities=18%  Similarity=0.380  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988754

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=95.18  E-value=0.0098  Score=51.45  Aligned_cols=24  Identities=21%  Similarity=0.382  Sum_probs=21.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .-+++++|++|+|||||++.+.+-
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999998753

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.17  E-value=0.0099  Score=49.30  Aligned_cols=22  Identities=18%  Similarity=0.371  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5789999999999999988753

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.17  E-value=0.013  Score=45.33  Aligned_cols=24  Identities=21%  Similarity=0.391  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ..+|+++|.+|+||||+.+.+...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            357999999999999999988754

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=95.16  E-value=0.014  Score=45.06  Aligned_cols=22  Identities=18%  Similarity=0.357  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|++.|.+|+||||+.+.+..
T Consensus         6 ~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.15  E-value=0.016  Score=45.40  Aligned_cols=22  Identities=18%  Similarity=0.055  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|++.|.+|+||||+.+.+..
T Consensus        11 ~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           11 KFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999998874

>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=95.14  E-value=0.0039  Score=53.02  Aligned_cols=23  Identities=26%  Similarity=0.508  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.++++|.+|||||||++.+.+.
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CEEEEECCCCCCHHHHHHHhccc
Confidence            37899999999999999999864

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=95.13  E-value=0.015  Score=45.73  Aligned_cols=22  Identities=36%  Similarity=0.591  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +.|.++|.+|+||||+.+.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999976

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.11  E-value=0.012  Score=48.83  Aligned_cols=22  Identities=32%  Similarity=0.564  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999988754

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=95.10  E-value=0.014  Score=46.99  Aligned_cols=24  Identities=25%  Similarity=0.346  Sum_probs=21.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ...+|+++|.+|+||||+.+.+..
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999998874

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.10  E-value=0.017  Score=44.44  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ...|+++|.+|+||||+.+.+..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998874

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=95.10  E-value=0.014  Score=45.43  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=22.5

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .....|+++|.+|+||||+.+.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            34578999999999999999999864

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=95.10  E-value=0.013  Score=46.57  Aligned_cols=22  Identities=18%  Similarity=0.312  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .+|.++|.+|+||||+++.+..
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.09  E-value=0.012  Score=49.96  Aligned_cols=21  Identities=19%  Similarity=0.333  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .++|+|++|+|||||++.+.+
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhh
Confidence            689999999999999998874

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.09  E-value=0.015  Score=47.28  Aligned_cols=24  Identities=17%  Similarity=0.199  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ...+|++.|.+|+||||+.+++..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999974

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=94.97  E-value=0.014  Score=46.20  Aligned_cols=21  Identities=19%  Similarity=0.319  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +|++.|.+|+||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998874

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=94.96  E-value=0.016  Score=46.10  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .+|+++|.+|+||||+.+.+..
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998874

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.95  E-value=0.015  Score=46.57  Aligned_cols=22  Identities=32%  Similarity=0.602  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|+++|.+|+||||+.+.+..
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999998864

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=94.94  E-value=0.014  Score=46.10  Aligned_cols=21  Identities=33%  Similarity=0.490  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -++++|++|+|||+|++.++.
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478899999999999999874

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.93  E-value=0.0075  Score=46.75  Aligned_cols=22  Identities=23%  Similarity=0.415  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|.++|.+|+|||||++.++.-
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999998753

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=94.93  E-value=0.018  Score=44.29  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ...|++.|.+|+||||+.+.+..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998864

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.91  E-value=0.018  Score=44.98  Aligned_cols=22  Identities=18%  Similarity=0.280  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|++.|.+|+||||+++.+..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999875

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=94.90  E-value=0.014  Score=50.54  Aligned_cols=22  Identities=32%  Similarity=0.434  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.+.+-
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999998854

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=94.89  E-value=0.022  Score=43.78  Aligned_cols=22  Identities=23%  Similarity=0.267  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|++.|.+|+||||+.+.+..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=94.86  E-value=0.014  Score=49.15  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            5789999999999999988753

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=94.85  E-value=0.017  Score=46.03  Aligned_cols=21  Identities=29%  Similarity=0.493  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +|+++|+||+||+|...++..
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998874

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=94.84  E-value=0.014  Score=49.38  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      .-.|+++|++|+||||+++.+.
T Consensus       102 g~vi~lvG~nGsGKTTll~~La  123 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLG  123 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHH
Confidence            3478899999999999999886

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=94.84  E-value=0.015  Score=50.47  Aligned_cols=22  Identities=23%  Similarity=0.382  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            4789999999999999998854

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=94.84  E-value=0.015  Score=50.45  Aligned_cols=22  Identities=32%  Similarity=0.409  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHHCC
Confidence            4789999999999999998854

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.81  E-value=0.016  Score=46.15  Aligned_cols=23  Identities=26%  Similarity=0.407  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..+|+++|.+|+||||+.+.+..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998864

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=94.80  E-value=0.023  Score=48.22  Aligned_cols=26  Identities=19%  Similarity=0.336  Sum_probs=22.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .....-|.|+|++|+|||||++.+.+
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHh
Confidence            34556899999999999999998875

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.80  E-value=0.018  Score=46.70  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=20.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ....|.++|++|+|||||++.+.+
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999998875

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=94.79  E-value=0.019  Score=44.09  Aligned_cols=22  Identities=36%  Similarity=0.511  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.|+++|.+|+||||+.+.+..
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHH
Confidence            4689999999999999998873

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=94.78  E-value=0.016  Score=47.10  Aligned_cols=21  Identities=38%  Similarity=0.589  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ++++|++|+|||+|++.+.+.
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999999854

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=94.76  E-value=0.012  Score=44.67  Aligned_cols=23  Identities=39%  Similarity=0.598  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.+++.|++|+|||+|++.+...
T Consensus        44 ~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           44 NNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             CEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            35799999999999999988754

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=94.75  E-value=0.02  Score=44.64  Aligned_cols=23  Identities=22%  Similarity=0.117  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ..|++.|.+|+||||+++.+...
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHT
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHH
Confidence            57999999999999999999864

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=94.74  E-value=0.03  Score=51.58  Aligned_cols=22  Identities=32%  Similarity=0.563  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ++.++|++|+|||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6899999999999999998754

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.74  E-value=0.016  Score=49.02  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=20.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..--++++|++|+||||+++.+.+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            345689999999999999998863

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.73  E-value=0.026  Score=43.53  Aligned_cols=24  Identities=33%  Similarity=0.310  Sum_probs=20.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ....|+++|.+|+||||+++.+..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            346799999999999999998864

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=94.73  E-value=0.017  Score=50.38  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.+.+-
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            4689999999999999998754

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=94.72  E-value=0.022  Score=47.72  Aligned_cols=24  Identities=25%  Similarity=0.184  Sum_probs=21.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ...-|++.|.+|+||||+++.+..
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999999974

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=94.71  E-value=0.017  Score=44.17  Aligned_cols=21  Identities=29%  Similarity=0.545  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +|+++|.+|+||||+.+.+..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            599999999999999998864

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=94.70  E-value=0.02  Score=43.15  Aligned_cols=21  Identities=29%  Similarity=0.335  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +|++.|.+|+||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998875

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=94.66  E-value=0.012  Score=44.33  Aligned_cols=22  Identities=18%  Similarity=0.419  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||+|++.+.+.
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999998864

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=94.66  E-value=0.035  Score=51.05  Aligned_cols=35  Identities=26%  Similarity=0.413  Sum_probs=26.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      ++.++|++|+|||||++.+.+-     +.|+.|      .+.++|.
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~-----~~p~~G------~i~~~g~  405 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRF-----YDIDEG------HILMDGH  405 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT-----TCCSEE------EEEETTE
T ss_pred             EEEEECCCCCCHHHHHHHHhhc-----cCCCCC------eEEECCE
Confidence            6899999999999999988753     445555      4556663

>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=94.64  E-value=0.017  Score=49.42  Aligned_cols=24  Identities=21%  Similarity=0.454  Sum_probs=20.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..--|+++|++|+||||+++.+.+
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999998864

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.63  E-value=0.016  Score=46.15  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|+++|.+|+||||+.+.+..
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=94.63  E-value=0.018  Score=47.91  Aligned_cols=21  Identities=33%  Similarity=0.479  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ++++|++|+|||+|++.+.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999999863

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.60  E-value=0.022  Score=45.59  Aligned_cols=21  Identities=19%  Similarity=0.397  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .|++.|.+|+||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998864

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=94.57  E-value=0.0081  Score=47.30  Aligned_cols=21  Identities=24%  Similarity=0.445  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -|+|.|.+|+||||+++.+..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            489999999999999998874

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=94.57  E-value=0.019  Score=45.52  Aligned_cols=23  Identities=22%  Similarity=0.312  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.+++.|++|+|||+|++.+...
T Consensus        53 ~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           53 QAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999988753

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=94.55  E-value=0.014  Score=50.46  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.+.+-
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCccHHHHHHHHHcC
Confidence            4789999999999999998854

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=94.52  E-value=0.022  Score=44.02  Aligned_cols=22  Identities=18%  Similarity=0.321  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|++.|.+|+||||+.+.+..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=94.47  E-value=0.022  Score=44.75  Aligned_cols=21  Identities=19%  Similarity=0.167  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -++++|++|+|||+|+..++.
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            479999999999999999987

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=94.47  E-value=0.027  Score=47.31  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=20.8

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHH
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      .....|.|+|.+|+|||||++.+.
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~   52 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIY   52 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            356789999999999999998775

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=94.46  E-value=0.021  Score=44.88  Aligned_cols=21  Identities=29%  Similarity=0.483  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -+++.|++|+|||+|++.+..
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~   67 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAK   67 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998874

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=94.46  E-value=0.019  Score=47.87  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||||++.++..
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4789999999999999998743

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=94.44  E-value=0.023  Score=45.42  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|+|||+|+..++..
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            4789999999999999999874

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=94.42  E-value=0.027  Score=43.58  Aligned_cols=22  Identities=18%  Similarity=0.238  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|.++|.+|+|||||+.+++.
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999885

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=94.42  E-value=0.025  Score=44.36  Aligned_cols=22  Identities=23%  Similarity=0.226  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|++.|.+|+||||+++.+..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A           10 ALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999874

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=94.40  E-value=0.023  Score=44.22  Aligned_cols=21  Identities=24%  Similarity=0.392  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +++.|++|+|||+|++.+...
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999988753

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.38  E-value=0.025  Score=43.46  Aligned_cols=21  Identities=24%  Similarity=0.314  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .|++.|.+|+||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.37  E-value=0.024  Score=43.86  Aligned_cols=23  Identities=22%  Similarity=0.325  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ...|++.|.+|+||||+.+.+..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999988874

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=94.37  E-value=0.017  Score=44.17  Aligned_cols=22  Identities=32%  Similarity=0.446  Sum_probs=15.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|++.|.+|+||||+.+.+..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999864

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.36  E-value=0.032  Score=47.67  Aligned_cols=26  Identities=15%  Similarity=0.324  Sum_probs=21.8

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ....+-|.++|++|+|||||++.+..
T Consensus        89 ~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           89 PKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34567899999999999999988753

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=94.35  E-value=0.024  Score=43.45  Aligned_cols=21  Identities=19%  Similarity=0.286  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.+++|++|+|||||+..+..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999998753

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=94.35  E-value=0.028  Score=44.20  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=20.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ....|.++|.+|+|||||++.+..
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998864

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=94.34  E-value=0.016  Score=46.64  Aligned_cols=24  Identities=33%  Similarity=0.573  Sum_probs=20.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.-|++.|.+|+|||||++.+.+.
T Consensus        20 g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           20 PFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            457999999999999999988754

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=94.32  E-value=0.024  Score=46.51  Aligned_cols=21  Identities=19%  Similarity=0.207  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -|+|+|.+|+|||||.+.+..
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999864

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=94.32  E-value=0.022  Score=49.99  Aligned_cols=21  Identities=33%  Similarity=0.623  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .+.++|++|+|||||++.+.+
T Consensus        49 ~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHhC
Confidence            578999999999999998875

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=94.32  E-value=0.024  Score=46.27  Aligned_cols=25  Identities=24%  Similarity=0.325  Sum_probs=21.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .....|+++|.+|+||||+.+.+..
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456899999999999999998864

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=94.31  E-value=0.022  Score=48.52  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+.
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4899999999999999998753

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=94.30  E-value=0.024  Score=46.86  Aligned_cols=21  Identities=38%  Similarity=0.589  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+++|++|+|||+|++.+.+.
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHHH
Confidence            899999999999999999854

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=94.30  E-value=0.023  Score=49.28  Aligned_cols=21  Identities=24%  Similarity=0.420  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .|+|+|++|+|||||++.+++
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            799999999999999998864

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=94.25  E-value=0.024  Score=48.88  Aligned_cols=23  Identities=22%  Similarity=0.498  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      ++.++|++|+|||||++.+.+..
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78999999999999999998763

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.22  E-value=0.031  Score=47.15  Aligned_cols=24  Identities=17%  Similarity=0.430  Sum_probs=20.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ....|.++|.+|+|||||++.+.+
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998875

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=94.22  E-value=0.029  Score=42.42  Aligned_cols=21  Identities=24%  Similarity=0.457  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .|++.|.+|+||||+.+.+..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999998864

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.18  E-value=0.025  Score=49.08  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=20.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..--|+++|.+|+||||++..+.+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHh
Confidence            345789999999999999998864

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.14  E-value=0.031  Score=45.65  Aligned_cols=21  Identities=19%  Similarity=0.314  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      ..|.++|.+|+||||+++.+.
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999987

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=94.13  E-value=0.029  Score=42.97  Aligned_cols=22  Identities=36%  Similarity=0.422  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|+++|.+|+||||+++.+..
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998875

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.12  E-value=0.025  Score=48.95  Aligned_cols=22  Identities=27%  Similarity=0.533  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+++-
T Consensus       177 ~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          177 VIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             CEEEEESSSSCHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            7899999999999999999854

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=94.11  E-value=0.035  Score=45.59  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|++.|.+|+||||+.+.+..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4699999999999999998874

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.09  E-value=0.044  Score=50.62  Aligned_cols=35  Identities=34%  Similarity=0.473  Sum_probs=26.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      ++.++|++|+|||||++.+.+-     +.|+.|      .+.++|.
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~-----~~p~~G------~i~~~g~  417 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRF-----YDVDRG------QILVDGI  417 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCCcHHHHHHHHhcC-----cCCCCe------EEEECCE
Confidence            7899999999999999987743     455555      4455663

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=94.09  E-value=0.026  Score=51.05  Aligned_cols=24  Identities=29%  Similarity=0.567  Sum_probs=20.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..--|+|+|.+|+|||||++.+.+
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHH
Confidence            345689999999999999998863

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=94.05  E-value=0.03  Score=43.71  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.+++.|++|+|||+|+..+...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999988753

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=94.04  E-value=0.029  Score=45.61  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|+++|++|+|||+|++.+...
T Consensus        47 ~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           47 GVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            5999999999999999998753

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=94.02  E-value=0.029  Score=48.77  Aligned_cols=21  Identities=19%  Similarity=0.439  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .|+++|++|+|||||++.+++
T Consensus       138 ~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          138 LILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999998875

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=93.98  E-value=0.037  Score=50.90  Aligned_cols=35  Identities=29%  Similarity=0.424  Sum_probs=26.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      .+.++|++|+|||||++.+.+-     +.|+.|      .+.++|.
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~-----~~p~~G------~i~~~g~  403 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRF-----YDVTSG------QILIDGH  403 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCChHHHHHHHHhcC-----CCCCCc------EEEECCE
Confidence            6889999999999999866633     456666      4566663

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=93.98  E-value=0.02  Score=53.17  Aligned_cols=23  Identities=26%  Similarity=0.463  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      .|+|+|++|+|||||++.+.+-.
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC
T ss_pred             eEEEECCCCChHHHHHHHHhCCC
Confidence            49999999999999999998754

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=93.98  E-value=0.037  Score=45.03  Aligned_cols=26  Identities=19%  Similarity=0.210  Sum_probs=21.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ....+.|.|.|.+|+||||+.+.+..
T Consensus        19 ~~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           19 GGEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             --CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            34567899999999999999998865

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=93.97  E-value=0.039  Score=43.67  Aligned_cols=23  Identities=35%  Similarity=0.590  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .+.|++.|.+|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999999875

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=93.95  E-value=0.032  Score=45.09  Aligned_cols=25  Identities=24%  Similarity=0.292  Sum_probs=21.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ...-|++.|.+|+||||+++++...
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3467999999999999999998753

>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=93.94  E-value=0.037  Score=48.77  Aligned_cols=25  Identities=28%  Similarity=0.602  Sum_probs=22.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHH
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      ..+.+|++++|..++||||+++++-
T Consensus        37 ~~~~~klLLLG~geSGKSTi~KQmk   61 (402)
T 1azs_C           37 YRATHRLLLLGAGESGKSTIVKQMR   61 (402)
T ss_dssp             CTTEEEEEEEESTTSSHHHHHHHHH
T ss_pred             hhccceEEEecCCCCchhhHHHHHH
Confidence            4568999999999999999998874

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=93.92  E-value=0.024  Score=50.82  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++|+|++|+|||||++.+++-
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            6899999999999999988753

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=93.89  E-value=0.036  Score=42.54  Aligned_cols=21  Identities=38%  Similarity=0.577  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .|+++|.+|+||||+.+.+..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            499999999999999988864

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=93.81  E-value=0.027  Score=48.20  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .++++|++|+|||||++.+.+-
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~  194 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEF  194 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999998854

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=93.80  E-value=0.035  Score=43.87  Aligned_cols=22  Identities=18%  Similarity=0.327  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .-|+++|.+|+||||+++.+..
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=93.80  E-value=0.1  Score=46.60  Aligned_cols=63  Identities=25%  Similarity=0.324  Sum_probs=40.7

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHH---H---------------cCCCC---CCcccceeeEEEEEEE--EE-CCeEEEEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRF---R---------------SGDFV---EKTGNTIGVDFSMKTV--NI-DGKKVKLQI   74 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~---~---------------~~~f~---~~~~pt~~~~~~~~~~--~~-~~~~~~l~i   74 (231)
                      ....=|.|+|..++|||.|+|.+   +               ...|.   ....-|.|+......+  .. +|....+-+
T Consensus        65 ~~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vll  144 (457)
T 4ido_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLL  144 (457)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEE
T ss_pred             CceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEEE
Confidence            34556669999999999999954   4               12332   1233466654432222  22 677889999


Q ss_pred             eeCCCcc
Q psy5781          75 WDTAGQE   81 (231)
Q Consensus        75 ~D~~G~~   81 (231)
                      .||-|..
T Consensus       145 lDTEG~~  151 (457)
T 4ido_A          145 MDTQGTF  151 (457)
T ss_dssp             EEECCBT
T ss_pred             EeccCCC
Confidence            9999854

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=93.74  E-value=0.036  Score=44.32  Aligned_cols=21  Identities=38%  Similarity=0.483  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -++++|++|+|||+|+.+++.
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999888864

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=93.73  E-value=0.026  Score=47.91  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|..|+|||||++.+++.
T Consensus         6 v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEEEecCCCCHHHHHHHHHhh
Confidence            4678999999999999999964

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=93.65  E-value=0.067  Score=44.50  Aligned_cols=25  Identities=32%  Similarity=0.474  Sum_probs=21.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHH
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      ....+.|+|.|.+|+||||+.+.+.
T Consensus        72 ~~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           72 PSGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CTTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHH
Confidence            3456789999999999999999987

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=93.64  E-value=0.036  Score=49.32  Aligned_cols=22  Identities=23%  Similarity=0.385  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ++.++|++|+|||||++.+.+.
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            7899999999999999998865

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=93.62  E-value=0.037  Score=45.73  Aligned_cols=21  Identities=19%  Similarity=0.335  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -++++|++|+|||+|+..++.
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            588999999999999999874

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=93.57  E-value=0.038  Score=45.48  Aligned_cols=23  Identities=26%  Similarity=0.379  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.+++.|++|+|||+|++.+...
T Consensus        52 ~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           52 KGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             SEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            35999999999999999999754

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=93.57  E-value=0.039  Score=46.38  Aligned_cols=22  Identities=27%  Similarity=0.446  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++|.|+.|+|||+|++.+...
T Consensus        33 ~v~i~G~~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A           33 LTLLLGIRRVGKSSLLRAFLNE   54 (350)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcCCHHHHHHHHHHH
Confidence            5889999999999999999854

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=93.56  E-value=0.037  Score=49.00  Aligned_cols=22  Identities=18%  Similarity=0.256  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|+|+|++|+|||||++.+++-
T Consensus       169 ii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHhh
Confidence            4899999999999999998753

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=93.54  E-value=0.036  Score=47.15  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -+++.|++|+|||+|++.+...
T Consensus        47 ~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           47 NIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998753

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=93.52  E-value=0.047  Score=43.95  Aligned_cols=27  Identities=15%  Similarity=0.179  Sum_probs=21.8

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +......|+++|.+|+||||+.+.+..
T Consensus        12 ~~~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           12 DKMKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             --CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            444567899999999999999998874

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=93.51  E-value=0.042  Score=44.46  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      --|++.|++|+|||+|++.+..
T Consensus        40 ~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           40 KGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999875

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=93.43  E-value=0.038  Score=45.45  Aligned_cols=22  Identities=32%  Similarity=0.360  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.|+++|.+|+||||+.+.+..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999998864

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=93.39  E-value=0.042  Score=45.54  Aligned_cols=23  Identities=26%  Similarity=0.353  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      --|++.|++|+|||+|++.+...
T Consensus        55 ~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           55 KGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            46899999999999999999853

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=93.38  E-value=0.047  Score=49.84  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999863

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=93.36  E-value=0.053  Score=44.13  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=20.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..+.|++.|++|+||||+.+.+..
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999998863

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=93.34  E-value=0.054  Score=40.88  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.|++.|.+|+||||+.+.+..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=93.32  E-value=0.056  Score=49.85  Aligned_cols=28  Identities=21%  Similarity=0.380  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCccccee
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIG   55 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~   55 (231)
                      ++.++|++|+|||||++.+.+-     +.|+.|
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~-----~~~~~G  398 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRL-----IDPERG  398 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTS-----SCCSEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCC-----ccCCCc
Confidence            6899999999999999877643     445555

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=93.30  E-value=0.048  Score=45.30  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..|++.|.+|+||||+.+++..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999985

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=93.30  E-value=0.042  Score=46.25  Aligned_cols=22  Identities=14%  Similarity=0.184  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++|.|+.|+|||+|++.+...
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~~~   53 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGINE   53 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHh
Confidence            5889999999999999999754

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=93.26  E-value=0.056  Score=40.59  Aligned_cols=19  Identities=26%  Similarity=0.550  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy5781          24 VVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~   42 (231)
                      .+++|++|+|||+|+..+.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5799999999999998864

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=93.20  E-value=0.054  Score=40.19  Aligned_cols=24  Identities=21%  Similarity=0.224  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      ..|++.|++|+|||++++.+....
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHhC
Confidence            458999999999999999887643

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=93.19  E-value=0.046  Score=46.02  Aligned_cols=22  Identities=23%  Similarity=0.462  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -+++.|++|+|||+|++.+...
T Consensus        39 ~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           39 PIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4889999999999999988753

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=93.13  E-value=0.046  Score=46.00  Aligned_cols=63  Identities=14%  Similarity=0.088  Sum_probs=36.2

Q ss_pred             EEEEEeeCCCccccch--hh--hhccc--CCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          70 VKLQIWDTAGQERFRT--IT--QSYYR--SANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~--~~--~~~~~--~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      +.+.|.||+|......  +.  ...+.  ..+.+++|.|.+ ..+.+..+.+.+.    .-....++.+|.|..
T Consensus       183 ~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~~~~~~~~~~~~~----~l~~~giVltk~D~~  252 (296)
T 2px0_A          183 YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAKYEDMKHIVKRFS----SVPVNQYIFTKIDET  252 (296)
T ss_dssp             SSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBCHHHHHHHTTTTS----SSCCCEEEEECTTTC
T ss_pred             CCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCCHHHHHHHHHHHh----cCCCCEEEEeCCCcc
Confidence            5688999998654321  11  12222  367888899888 5555655544432    223344566777654

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=93.06  E-value=0.047  Score=49.60  Aligned_cols=22  Identities=18%  Similarity=0.356  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|+|+|++|+|||||++.+++-
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~  283 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMF  283 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4899999999999999998753

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=93.06  E-value=0.051  Score=46.46  Aligned_cols=22  Identities=27%  Similarity=0.501  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+++.|++|+|||+|++.+...
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWEL   67 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998854

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=93.05  E-value=0.053  Score=44.88  Aligned_cols=22  Identities=36%  Similarity=0.665  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.+++.|++|+|||++++.+..
T Consensus        51 ~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998875

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=93.00  E-value=0.051  Score=45.47  Aligned_cols=24  Identities=17%  Similarity=0.126  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ..-+++.|++|+|||+|++.+...
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            345777899999999999998753

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=93.00  E-value=0.06  Score=42.93  Aligned_cols=24  Identities=29%  Similarity=0.499  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      ..|+++|++|+|||+|...+...-
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            468999999999999999998654

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=92.95  E-value=0.068  Score=44.40  Aligned_cols=23  Identities=26%  Similarity=0.481  Sum_probs=19.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ...+++.|++|+|||+|++.+..
T Consensus        67 ~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999986653

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=92.94  E-value=0.053  Score=48.89  Aligned_cols=21  Identities=29%  Similarity=0.465  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -+.++|++|+|||||++.+.+
T Consensus        31 ~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999998863

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=92.83  E-value=0.057  Score=45.23  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|++.|++|+|||+|++.+...
T Consensus        51 ~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           51 GVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCcCHHHHHHHHHHH
Confidence            5899999999999999998854

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=92.77  E-value=0.067  Score=46.00  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      --|+|+|+.|+|||+|...+...
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999999854

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=92.73  E-value=0.049  Score=46.20  Aligned_cols=20  Identities=25%  Similarity=0.386  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      +++.|++|+||||+++.+.+
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998876

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=92.68  E-value=0.057  Score=49.35  Aligned_cols=22  Identities=32%  Similarity=0.493  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -+.++|++|+|||||++.+.+-
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4789999999999999998863

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=92.68  E-value=0.064  Score=45.43  Aligned_cols=22  Identities=27%  Similarity=0.525  Sum_probs=19.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      .--|+++|.+|+||||++..+.
T Consensus       104 ~~vi~ivG~~GsGKTTl~~~LA  125 (306)
T 1vma_A          104 PFVIMVVGVNGTGKTTSCGKLA  125 (306)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHH
Confidence            3468899999999999998886

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=92.66  E-value=0.063  Score=49.78  Aligned_cols=22  Identities=23%  Similarity=0.456  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            5899999999999999999853

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=92.61  E-value=0.019  Score=49.85  Aligned_cols=58  Identities=7%  Similarity=-0.040  Sum_probs=44.7

Q ss_pred             CCccccchhhhhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          78 AGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        78 ~G~~~~~~~~~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ..++.|+.++..+++.++++++|+|++.++  ..|.+++.+... .+..++++||.|+...
T Consensus        56 ~~~e~f~~~L~~~~~~~~lil~VvD~~d~~--~s~~~~l~~~l~-~~piilV~NK~DLl~~  113 (369)
T 3ec1_A           56 LDDDDFLSMLHRIGESKALVVNIVDIFDFN--GSFIPGLPRFAA-DNPILLVGNKADLLPR  113 (369)
T ss_dssp             ---CHHHHHHHHHHHHCCEEEEEEETTCSG--GGCCSSHHHHCT-TSCEEEEEECGGGSCT
T ss_pred             CCHHHHHHHHHHhhccCcEEEEEEECCCCC--CchhhHHHHHhC-CCCEEEEEEChhcCCC
Confidence            357889999999999999999999999555  367777777765 4456689999998653

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=92.57  E-value=0.064  Score=46.79  Aligned_cols=21  Identities=19%  Similarity=0.211  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -|+++|++|+|||||++.+.+
T Consensus       171 ~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          171 YWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            689999999999999999884

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=92.53  E-value=0.065  Score=45.53  Aligned_cols=21  Identities=24%  Similarity=0.439  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +++.|++|+|||++++.+...
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999998754

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=92.52  E-value=0.097  Score=42.84  Aligned_cols=25  Identities=28%  Similarity=0.317  Sum_probs=21.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ..-.+++.|++|+|||+|++.+...
T Consensus        63 ~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            3457999999999999999998864

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=92.48  E-value=0.068  Score=45.15  Aligned_cols=21  Identities=24%  Similarity=0.449  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +++.|++|+|||++++.+...
T Consensus        61 ~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999988754

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=92.48  E-value=0.057  Score=54.50  Aligned_cols=35  Identities=31%  Similarity=0.477  Sum_probs=27.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      ||.++|.+|+|||||++-+..     -|+|+.|      .+.+||.
T Consensus      1107 ~vaIVG~SGsGKSTL~~lL~r-----l~~p~~G------~I~iDG~ 1141 (1321)
T 4f4c_A         1107 TLALVGPSGCGKSTVVALLER-----FYDTLGG------EIFIDGS 1141 (1321)
T ss_dssp             EEEEECSTTSSTTSHHHHHTT-----SSCCSSS------EEEETTE
T ss_pred             EEEEECCCCChHHHHHHHHhc-----CccCCCC------EEEECCE
Confidence            789999999999999998763     2567777      4567773

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=92.47  E-value=0.069  Score=44.35  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.++++|++|+|||++++.+...
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHHH
Confidence            36899999999999999988754

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=92.43  E-value=0.1  Score=42.31  Aligned_cols=24  Identities=33%  Similarity=0.249  Sum_probs=20.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHH
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      ...+||++.|.+|||||++...+.
T Consensus         4 ~g~l~I~~~~kgGvGKTt~a~~la   27 (228)
T 2r8r_A            4 RGRLKVFLGAAPGVGKTYAMLQAA   27 (228)
T ss_dssp             CCCEEEEEESSTTSSHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHH
Confidence            446999999999999999976554

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=92.39  E-value=0.098  Score=44.99  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .-|+|.|++|+|||+|...+...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~   30 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKK   30 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHHH
Confidence            46899999999999999998753

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=92.38  E-value=0.075  Score=45.98  Aligned_cols=19  Identities=26%  Similarity=0.478  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy5781          24 VVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~   42 (231)
                      .+++|++|+|||||+..+.
T Consensus        26 ~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           26 TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5689999999999998876

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=92.38  E-value=0.058  Score=45.92  Aligned_cols=23  Identities=30%  Similarity=0.339  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.+++.|++|+|||+|++.+...
T Consensus        45 ~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           45 SNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999998753

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=92.32  E-value=0.082  Score=48.27  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl  335 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGV  335 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999864

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=92.31  E-value=0.068  Score=45.58  Aligned_cols=22  Identities=27%  Similarity=0.504  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+++.|++|+|||+|++.+...
T Consensus        72 ~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           72 AVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998753

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=92.22  E-value=0.076  Score=49.25  Aligned_cols=22  Identities=32%  Similarity=0.445  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gl  140 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQ  140 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            5899999999999999998753

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=92.22  E-value=0.075  Score=45.73  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -+.++|++|+|||+|++.++..
T Consensus       133 i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          133 ITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999864

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=92.20  E-value=0.084  Score=45.01  Aligned_cols=22  Identities=27%  Similarity=0.333  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|+|+|++|+|||+|...+...
T Consensus         5 ~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCcCCHHHHHHHHHHh
Confidence            4789999999999999999854

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=92.19  E-value=0.074  Score=47.57  Aligned_cols=23  Identities=39%  Similarity=0.573  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.++++|++|+|||++++.+...
T Consensus       202 ~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          202 NNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             CEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999988743

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=92.15  E-value=0.077  Score=44.98  Aligned_cols=23  Identities=22%  Similarity=0.405  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      --|++.|++|+|||+|++.+...
T Consensus        46 ~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            46899999999999999999864

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=92.15  E-value=0.14  Score=51.58  Aligned_cols=28  Identities=25%  Similarity=0.405  Sum_probs=23.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCccccee
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIG   55 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~   55 (231)
                      +++++|++|+|||||++-+++-     |.|+.|
T Consensus       446 ~vaivG~sGsGKSTll~ll~~~-----~~~~~G  473 (1321)
T 4f4c_A          446 TVALVGSSGCGKSTIISLLLRY-----YDVLKG  473 (1321)
T ss_dssp             EEEEEECSSSCHHHHHHHHTTS-----SCCSEE
T ss_pred             EEEEEecCCCcHHHHHHHhccc-----cccccC
Confidence            7899999999999999877643     566666

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=92.11  E-value=0.089  Score=48.79  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl  405 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGV  405 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999864

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=92.09  E-value=0.1  Score=40.93  Aligned_cols=26  Identities=19%  Similarity=0.368  Sum_probs=22.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ...+.|.+.|..|+||||+.+.+...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            45688999999999999999988753

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=92.09  E-value=0.12  Score=45.56  Aligned_cols=25  Identities=24%  Similarity=0.216  Sum_probs=21.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ...-|+++|.+|+||||+.+++...
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            3456899999999999999998753

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=92.07  E-value=0.076  Score=48.16  Aligned_cols=19  Identities=32%  Similarity=0.552  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q psy5781          23 KVVLIGDCGVGKTCVVHRF   41 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~   41 (231)
                      -++++|++|+|||||++.|
T Consensus        41 ~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           41 STLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            5889999999999999996

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=92.07  E-value=0.077  Score=45.35  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -+++.|++|+|||+|++.+...
T Consensus        47 ~vll~G~~G~GKT~la~~l~~~   68 (384)
T 2qby_B           47 SNLFLGLTGTGKTFVSKYIFNE   68 (384)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998753

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=91.97  E-value=0.096  Score=41.77  Aligned_cols=20  Identities=40%  Similarity=0.647  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy5781          23 KVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~   42 (231)
                      -+++.|++|+|||+|+.+++
T Consensus        32 l~~i~G~pG~GKT~l~l~~~   51 (251)
T 2zts_A           32 TVLLTGGTGTGKTTFAAQFI   51 (251)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            47899999999999998876

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=91.94  E-value=0.079  Score=48.38  Aligned_cols=22  Identities=23%  Similarity=0.409  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+.++|++|+|||||++.+.+-
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl  317 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGE  317 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999998864

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=91.94  E-value=0.067  Score=42.85  Aligned_cols=21  Identities=24%  Similarity=0.328  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .+++.|++|+|||+++..++.
T Consensus        60 ~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999888764

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=91.89  E-value=0.088  Score=44.41  Aligned_cols=22  Identities=23%  Similarity=0.472  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|++.|++|+|||+|++.+...
T Consensus        57 ~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           57 HILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            4899999999999999999754

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=91.88  E-value=0.087  Score=44.49  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.|++.|++|+|||+|++.+...
T Consensus        52 ~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           52 SGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            46999999999999999998753

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=91.86  E-value=0.092  Score=44.85  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ..|+|+|++|+|||+|...+...
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999998753

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=91.77  E-value=0.11  Score=40.33  Aligned_cols=21  Identities=29%  Similarity=0.423  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .|.+.|.+|+||||+.+.+..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998864

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=91.66  E-value=0.094  Score=46.11  Aligned_cols=20  Identities=25%  Similarity=0.441  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy5781          23 KVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~   42 (231)
                      -+.|+|++|+|||+|+..++
T Consensus       180 i~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          180 ITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEcCCCCChHHHHHHHH
Confidence            47899999999999999886

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=91.66  E-value=0.14  Score=43.60  Aligned_cols=23  Identities=26%  Similarity=0.380  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .-|+|+|++|+|||+|...+...
T Consensus        11 ~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCccCHHHHHHHHHHh
Confidence            35889999999999999999854

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=91.59  E-value=0.044  Score=44.68  Aligned_cols=21  Identities=33%  Similarity=0.532  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |++.|++|+|||+|++.+...
T Consensus        47 vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           47 VLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CCCBCSSCSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            889999999999999998753

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=91.59  E-value=0.12  Score=41.62  Aligned_cols=23  Identities=22%  Similarity=0.371  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ..|++-|..|+||||+++.+...
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            46899999999999999988753

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=91.58  E-value=0.11  Score=42.41  Aligned_cols=24  Identities=29%  Similarity=0.480  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      ..|++.|++|+|||+|++.+....
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             CCEEEECCCCCcHHHHHHHHHHhc
Confidence            468999999999999999988653

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=91.56  E-value=0.12  Score=40.83  Aligned_cols=19  Identities=26%  Similarity=0.550  Sum_probs=16.6

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy5781          24 VVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~   42 (231)
                      .+++|++|+|||||+..+.
T Consensus        26 ~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           26 NLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHH
Confidence            5788999999999998764

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=91.54  E-value=0.054  Score=40.10  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      ..|++.|++|+|||++++.+...
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCCT
T ss_pred             CcEEEECCCCccHHHHHHHHHHh
Confidence            35999999999999998877643

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=91.52  E-value=0.17  Score=50.96  Aligned_cols=21  Identities=33%  Similarity=0.672  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ++.++|++|+|||||++.+.+
T Consensus       418 ~~~ivG~sGsGKSTl~~ll~g  438 (1284)
T 3g5u_A          418 TVALVGNSGCGKSTTVQLMQR  438 (1284)
T ss_dssp             EEEEECCSSSSHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            689999999999999987764

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=91.48  E-value=0.1  Score=44.89  Aligned_cols=23  Identities=30%  Similarity=0.515  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.|++.|++|+|||++++.+...
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999998753

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=91.47  E-value=0.11  Score=41.46  Aligned_cols=22  Identities=27%  Similarity=0.301  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .-|++.|.+|+||||+++.+..
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~   28 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAE   28 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999998863

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=91.44  E-value=0.12  Score=43.68  Aligned_cols=23  Identities=26%  Similarity=0.475  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.+++.|++|+|||.|+..+...
T Consensus       153 ~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          153 KGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999888753

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=91.38  E-value=0.11  Score=48.18  Aligned_cols=21  Identities=29%  Similarity=0.667  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +.++|++|+|||||++.+.+-
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl  401 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGA  401 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhcC
Confidence            689999999999999999864

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=91.30  E-value=0.12  Score=50.41  Aligned_cols=24  Identities=21%  Similarity=0.470  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF   46 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f   46 (231)
                      .+.++|++|+|||||++.+.++..
T Consensus       463 ~v~LiGpNGsGKSTLLk~LagG~i  486 (986)
T 2iw3_A          463 RYGICGPNGCGKSTLMRAIANGQV  486 (986)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            579999999999999999996543

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=91.25  E-value=0.081  Score=44.59  Aligned_cols=21  Identities=29%  Similarity=0.404  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .+++.|++|+|||+|++.+..
T Consensus        48 ~vll~G~pGtGKT~la~~la~   68 (331)
T 2r44_A           48 HILLEGVPGLAKTLSVNTLAK   68 (331)
T ss_dssp             CEEEESCCCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            689999999999999999875

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=91.24  E-value=0.089  Score=42.55  Aligned_cols=23  Identities=26%  Similarity=0.208  Sum_probs=17.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -.-|++.|.+|+||||+++.+..
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~   47 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCD   47 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=91.24  E-value=0.15  Score=44.09  Aligned_cols=22  Identities=27%  Similarity=0.499  Sum_probs=19.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      ..+|+++|.+|+||||+.+.+.
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la   45 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELC   45 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHH
Confidence            4589999999999999998665

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=91.24  E-value=0.11  Score=44.59  Aligned_cols=22  Identities=23%  Similarity=0.446  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|++.|++|+|||+|++.+...
T Consensus        86 ~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           86 GILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4899999999999999998854

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=91.22  E-value=0.12  Score=40.09  Aligned_cols=20  Identities=30%  Similarity=0.341  Sum_probs=17.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      +++.|+.|+|||+++.+.+.
T Consensus         6 ~vi~G~~gsGKTT~ll~~~~   25 (184)
T 2orw_A            6 TVITGPMYSGKTTELLSFVE   25 (184)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999866653

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=91.22  E-value=0.14  Score=39.98  Aligned_cols=23  Identities=17%  Similarity=0.369  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      =|++.|++|+|||++...++...
T Consensus        18 gvli~G~SGaGKStlal~L~~rG   40 (181)
T 3tqf_A           18 GVLITGEANIGKSELSLALIDRG   40 (181)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHcC
Confidence            48999999999999999998653

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=91.21  E-value=0.11  Score=44.53  Aligned_cols=24  Identities=29%  Similarity=0.324  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .-.|++.|++|+|||+|++.+...
T Consensus       117 ~~~vLl~GppGtGKT~la~aia~~  140 (357)
T 3d8b_A          117 PKGILLFGPPGTGKTLIGKCIASQ  140 (357)
T ss_dssp             CSEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            346999999999999999999754

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.18  E-value=0.12  Score=45.95  Aligned_cols=22  Identities=36%  Similarity=0.519  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|++.|++|+|||+|++.+.+.
T Consensus       208 GiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          208 GVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             EEEEESCTTTTHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4999999999999999999853

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=91.10  E-value=0.11  Score=46.01  Aligned_cols=21  Identities=24%  Similarity=0.556  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -+++.|++|+|||+|++.+.+
T Consensus       132 ~lll~Gp~G~GKTtLa~aia~  152 (440)
T 2z4s_A          132 PLFIYGGVGLGKTHLLQSIGN  152 (440)
T ss_dssp             CEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=91.06  E-value=0.12  Score=42.85  Aligned_cols=22  Identities=27%  Similarity=0.427  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+++.|++|+|||++++.+...
T Consensus        48 ~~ll~G~~G~GKT~la~~l~~~   69 (327)
T 1iqp_A           48 HLLFAGPPGVGKTTAALALARE   69 (327)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            3899999999999999998754

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=91.04  E-value=0.11  Score=47.33  Aligned_cols=21  Identities=33%  Similarity=0.491  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -++++|++|+|||+|++.+..
T Consensus       110 ~vll~Gp~GtGKTtlar~ia~  130 (543)
T 3m6a_A          110 ILCLAGPPGVGKTSLAKSIAK  130 (543)
T ss_dssp             EEEEESSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=91.03  E-value=0.14  Score=39.86  Aligned_cols=21  Identities=14%  Similarity=0.294  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+|+|.+++|||++..++...
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            789999999999999999865

---

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	231
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	1e-36
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-35
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	6e-35
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	3e-32
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	2e-30
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	6e-28
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	2e-27
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	8e-27
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	2e-26
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-26
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	4e-26
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-19
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	3e-19
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	9e-19
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	5e-18
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	5e-16
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	8e-16
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	1e-15
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	1e-15
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-15
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	4e-15
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	6e-15
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	7e-15
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	2e-14
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	3e-14
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	4e-14
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	7e-14
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	2e-13
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-13
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	4e-13
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	8e-13
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	1e-12
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	2e-12
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	2e-12
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	2e-12
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	3e-12
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	5e-12
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	5e-12
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	6e-12
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	7e-12
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	4e-11
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	6e-11
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	1e-10
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	1e-10
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	1e-10
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	2e-10
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	1e-09
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	2e-09
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	2e-09
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	4e-09
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-08
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	2e-08
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	5e-08
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	1e-07
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	2e-07
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	2e-07
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	5e-07
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	0.001
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	0.004

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  124 bits (312), Expect = 1e-36
 Identities = 61/98 (62%), Positives = 71/98 (72%)

Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           YDFLFK+VLIG+ GVGKTC+V RF  G F    G TIGVDF +KTV I+G+KVKLQIWDT
Sbjct: 2   YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDT 61

Query: 78  AGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           AGQERFR+ITQSYYRSAN +I+          R   + 
Sbjct: 62  AGQERFRSITQSYYRSANALILTYDITCEESFRCLPEW 99

>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 =  121 bits (305), Expect = 2e-35
 Identities = 50/83 (60%), Positives = 67/83 (80%)

Query: 17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
          +YD+LFK++LIGD GVGKTCV+ RF    F     +TIG+DF ++T+ +DGK++KLQIWD
Sbjct: 2  TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWD 61

Query: 77 TAGQERFRTITQSYYRSANGVII 99
          TAGQERFRTIT +YYR A G+++
Sbjct: 62 TAGQERFRTITTAYYRGAMGIML 84

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  121 bits (303), Expect = 6e-35
 Identities = 52/98 (53%), Positives = 67/98 (68%)

Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           YD+LFK++LIG+ GVGK+C++ RF    +     +TIGVDF +KTV +DGK VKLQIWDT
Sbjct: 3   YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDT 62

Query: 78  AGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           AGQERFRTIT SYYR ++G+II     +          
Sbjct: 63  AGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMW 100

>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 =  113 bits (283), Expect = 3e-32
 Identities = 49/79 (62%), Positives = 62/79 (78%)

Query: 21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
          + K++LIGD GVGK+C++ RF    F      TIG+DF +KTV+I+GKKVKLQIWDTAGQ
Sbjct: 2  IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ 61

Query: 81 ERFRTITQSYYRSANGVII 99
          ERFRTIT +YYR A G+I+
Sbjct: 62 ERFRTITTAYYRGAMGIIL 80

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  108 bits (271), Expect = 2e-30
 Identities = 40/98 (40%), Positives = 60/98 (61%)

Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           +D++FK+++IG+  VGKT  + R+    F     +T+G+DF +KT+  + K++KLQIWDT
Sbjct: 2   FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDT 61

Query: 78  AGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           AGQER+RTIT +YYR A G I+                
Sbjct: 62  AGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDW 99

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  103 bits (256), Expect = 6e-28
 Identities = 40/139 (28%), Positives = 64/139 (46%), Gaps = 15/139 (10%)

Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI----------DG 67
           YD+L K++ +GD GVGKT  ++R+    F  K   T+G+DF  K V              
Sbjct: 2   YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKA 61

Query: 68  KKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGH 127
            KV LQ+WDTAGQERFR++T +++R A G ++      +          V  +      +
Sbjct: 62  FKVHLQLWDTAGQERFRSLTTAFFRDAMGFLL-----MFDLTSQQSFLNVRNWMSQLQAN 116

Query: 128 AFSTSLAMPQVRPCLFHKF 146
           A+  +  +  +        
Sbjct: 117 AYCENPDIVLIGNKADLPD 135

>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 =  100 bits (250), Expect = 2e-27
 Identities = 48/99 (48%), Positives = 68/99 (68%), Gaps = 1/99 (1%)

Query: 16  DSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKT-GNTIGVDFSMKTVNIDGKKVKLQI 74
           D YD  FKV+L+GD GVGKTC++ RF+ G F+  T  +T+G+DF  K +++DG KVKLQ+
Sbjct: 1   DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQM 60

Query: 75  WDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWH 113
           WDTAGQERFR++T +YYR A+ +++           N  
Sbjct: 61  WDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQ 99

>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 = 99.6 bits (247), Expect = 8e-27
 Identities = 46/99 (46%), Positives = 65/99 (65%)

Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
           +YDFLFK ++IG+ G GK+C++H+F    F + + +TIGV+F  K +N+ GK VKLQIWD
Sbjct: 1   TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWD 60

Query: 77  TAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           TAGQERFR++T+SYYR A G ++                
Sbjct: 61  TAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNW 99

>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 = 98.8 bits (245), Expect = 2e-26
 Identities = 47/103 (45%), Positives = 65/103 (63%), Gaps = 2/103 (1%)

Query: 15  DDSYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQI 74
           D+      K+++IG+ GVGK+ ++ RF    F  +   TIGVDF +KT+++DG K KL I
Sbjct: 1   DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAI 60

Query: 75  WDTAGQERFRTITQSYYRSANGVI--IEVTSVEYCYQRNWHKQ 115
           WDTAGQERFRT+T SYYR A GVI   +VT  +   + +    
Sbjct: 61  WDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLN 103

>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 = 98.4 bits (244), Expect = 2e-26
 Identities = 46/98 (46%), Positives = 68/98 (69%)

Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           YD+LFKVVLIGD GVGK+ ++ RF   +F  ++ +TIGV+F+ +++ +DGK +K QIWDT
Sbjct: 1   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 60

Query: 78  AGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           AGQER+R IT +YYR A G ++     ++    N  + 
Sbjct: 61  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERW 98

>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 = 97.6 bits (242), Expect = 4e-26
 Identities = 42/98 (42%), Positives = 63/98 (64%)

Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           Y ++FK ++IGD GVGK+C++H+F    F+    +TIGV+F  + + + G+K+KLQIWDT
Sbjct: 1   YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDT 60

Query: 78  AGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           AGQERFR +T+SYYR A G ++           +    
Sbjct: 61  AGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSW 98

>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 = 80.3 bits (197), Expect = 2e-19
 Identities = 45/96 (46%), Positives = 61/96 (63%)

Query: 20  FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG 79
           +LFK ++IGD GVGK+C++ +F    F      TIGV+F  + VNIDGK++KLQIWDTAG
Sbjct: 2   YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 61

Query: 80  QERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           QE FR+IT+SYYR A G ++           +    
Sbjct: 62  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSW 97

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 79.6 bits (195), Expect = 3e-19
 Identities = 38/126 (30%), Positives = 66/126 (52%)

Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           LFKV+L+GD GVGK+ +++R+ +  F  +  +TIGV+F  K + +DG  V +QIWDTAGQ
Sbjct: 6   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 65

Query: 81  ERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP 140
           ERFR++   +YR ++  ++  +  +    +N                  S    +   + 
Sbjct: 66  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 125

Query: 141 CLFHKF 146
            +  + 
Sbjct: 126 DISERQ 131

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 78.1 bits (191), Expect = 9e-19
 Identities = 37/94 (39%), Positives = 50/94 (53%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+G+  VGK+ +V RF  G F E   +TIG  F  +TV +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           R+ ++   YYR A   I+                
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNW 100

>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 = 76.2 bits (186), Expect = 5e-18
 Identities = 33/78 (42%), Positives = 51/78 (65%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
          FK+V +G+  VGKT ++ RF    F      TIG+DF  KT+ ++ + ++LQ+WDTAGQE
Sbjct: 1  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 60

Query: 82 RFRTITQSYYRSANGVII 99
          RFR++  SY R +   ++
Sbjct: 61 RFRSLIPSYIRDSAAAVV 78

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 72.1 bits (176), Expect = 5e-16
 Identities = 24/126 (19%), Positives = 41/126 (32%), Gaps = 8/126 (6%)

Query: 18  YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           Y    +++L+G    GK+ +V + R    V     T G+            KV   ++D 
Sbjct: 3   YRATHRLLLLGAGESGKSTIVKQMRILHVV----LTSGIF----ETKFQVDKVNFHMFDV 54

Query: 78  AGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ 137
            GQ   R      +     +I  V S  Y        Q   L +      +   +  +  
Sbjct: 55  GGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRT 114

Query: 138 VRPCLF 143
           +   LF
Sbjct: 115 ISVILF 120

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 70.1 bits (170), Expect = 8e-16
 Identities = 41/96 (42%), Positives = 64/96 (66%), Gaps = 1/96 (1%)

Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           +FK+++IGD  VGKTC+ +RF +G F ++T  TIGVDF  + V+IDG+++K+Q+WDTAGQ
Sbjct: 2   IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 61

Query: 81  ERF-RTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           ERF +++ Q YYR+ + V+            +    
Sbjct: 62  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAW 97

>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 = 70.0 bits (170), Expect = 1e-15
 Identities = 40/80 (50%), Positives = 52/80 (65%)

Query: 20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAG 79
          + FKVVL+G+  VGKT +V R+    F +K   T+G  F  K +NI GK+V L IWDTAG
Sbjct: 2  YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAG 61

Query: 80 QERFRTITQSYYRSANGVII 99
          QERF  +   YYR +NG I+
Sbjct: 62 QERFHALGPIYYRDSNGAIL 81

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 70.5 bits (171), Expect = 1e-15
 Identities = 34/91 (37%), Positives = 56/91 (61%)

Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           L KV+++GD GVGKT +++++ +  F  +   TIG DF  K V +D + V +QIWDTAGQ
Sbjct: 2   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 61

Query: 81  ERFRTITQSYYRSANGVIIEVTSVEYCYQRN 111
           ERF+++  ++YR A+  ++          + 
Sbjct: 62  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKT 92

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score = 68.9 bits (167), Expect = 3e-15
 Identities = 18/93 (19%), Positives = 44/93 (47%), Gaps = 5/93 (5%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           +++++G    GKT ++++ + G+ V     T           ++ K +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEIV-----TTIPTIGFNVETVEYKNISFTVWDVGGQDK 56

Query: 83  FRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
            R + + Y+++  G+I  V S +        ++
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREE 89

>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 = 68.4 bits (166), Expect = 4e-15
 Identities = 31/94 (32%), Positives = 51/94 (54%), Gaps = 1/94 (1%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +KVV++G  GVGK+ +  +F +G F+EK   TI  DF  K + +D     L+I DTAG E
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           +F ++   Y ++  G I+  + V     ++    
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPM 96

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 68.2 bits (165), Expect = 6e-15
 Identities = 36/96 (37%), Positives = 58/96 (60%), Gaps = 1/96 (1%)

Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKV-KLQIWDTAG 79
           + KV+++GD GVGKT ++HR+ +  + ++   TIG DF  K V +DG KV  +Q+WDTAG
Sbjct: 2   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 61

Query: 80  QERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           QERF+++  ++YR A+  ++           N    
Sbjct: 62  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSW 97

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 68.1 bits (165), Expect = 7e-15
 Identities = 29/107 (27%), Positives = 52/107 (48%), Gaps = 1/107 (0%)

Query: 17  SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWD 76
               + K V++GD  VGKTC++  + +  F E+   T+  D    +V + GK+  L ++D
Sbjct: 5   PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYD 63

Query: 77  TAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKY 123
           TAGQE +  +    Y   +  +I  + V     +N  ++ V    +Y
Sbjct: 64  TAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY 110

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 67.0 bits (162), Expect = 2e-14
 Identities = 26/94 (27%), Positives = 45/94 (47%), Gaps = 1/94 (1%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K V++GD  VGKTC++  + +  F  +   T+  D    TV I G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQE 62

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
            +  +    Y   +  ++  + V      N  ++
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEK 96

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score = 66.5 bits (161), Expect = 3e-14
 Identities = 26/103 (25%), Positives = 46/103 (44%), Gaps = 5/103 (4%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G  G GKT +++R + G+ V     TIG +       +  K +KL +WD  GQ 
Sbjct: 18  LRILILGLDGAGKTTILYRLQIGEVVTTK-PTIGFNV----ETLSYKNLKLNVWDLGGQT 72

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYK 124
             R   + YY     VI  V S +        K+   +  + +
Sbjct: 73  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEE 115

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.8 bits (159), Expect = 4e-14
 Identities = 24/102 (23%), Positives = 47/102 (46%), Gaps = 1/102 (0%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K+V++GD   GKTC++       F E    T+  +  +  + +DGK+V+L +WDTAG E
Sbjct: 3   KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLE 61

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKY 123
            +  +    Y   + +++  +        N  ++       +
Sbjct: 62  DYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF 103

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 65.1 bits (157), Expect = 7e-14
 Identities = 42/143 (29%), Positives = 60/143 (41%), Gaps = 1/143 (0%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+VL+G+  VGK+ +V RF S DF E    TIG  F  + V I+   VK +IWDTAGQER
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64

Query: 83  FRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCL 142
           F ++   YYR+A   ++ V  V         +  V    +          +         
Sbjct: 65  FASLAPMYYRNAQAALV-VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQE 123

Query: 143 FHKFGHASSSAMPFPQVWPCLKF 165
             +   A        +    L F
Sbjct: 124 GGERKVAREEGEKLAEEKGLLFF 146

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 63.9 bits (154), Expect = 2e-13
 Identities = 29/92 (31%), Positives = 47/92 (51%), Gaps = 1/92 (1%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +K+V++G  GVGK+ +  +F  G FVEK   TI  D   K V +D ++  L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTAGTE 62

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWH 113
           +F  +   Y ++  G  +  +        +  
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQ 94

>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 = 63.4 bits (153), Expect = 3e-13
 Identities = 27/120 (22%), Positives = 52/120 (43%), Gaps = 5/120 (4%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++++ + G  V        V F+++TV    K VK  +WD  GQ+
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQSVT---TIPTVGFNVETVTY--KNVKFNVWDVGGQD 67

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPC 141
           + R + + YY    G+I  V   +        ++   + +  +   A     A  Q  P 
Sbjct: 68  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 127

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 63.1 bits (152), Expect = 4e-13
 Identities = 35/94 (37%), Positives = 43/94 (45%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            KV L+GD GVGK+ ++ RF    F      TIG  F  KTV    +  K  IWDTAG E
Sbjct: 5   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 64

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           RFR +   YYR +   II     +          
Sbjct: 65  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNW 98

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 62.0 bits (149), Expect = 8e-13
 Identities = 31/89 (34%), Positives = 54/89 (60%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+V++G+  VGK+ ++ R+  G F +    TIGVDF  + + ++ + V+L +WDTAGQE 
Sbjct: 4   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEE 63

Query: 83  FRTITQSYYRSANGVIIEVTSVEYCYQRN 111
           F  IT++YYR A   ++  ++ +      
Sbjct: 64  FDAITKAYYRGAQACVLVFSTTDRESFEA 92

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 62.2 bits (150), Expect = 1e-12
 Identities = 24/123 (19%), Positives = 44/123 (35%), Gaps = 7/123 (5%)

Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           L K++L+G    GK+  + + R    +     T G+       + + K V  ++ D  GQ
Sbjct: 2   LVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGI----HEYDFEIKNVPFKMVDVGGQ 54

Query: 81  ERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP 140
              R      + S   ++  V+S E+       +Q   L +          +     V  
Sbjct: 55  RSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSI 114

Query: 141 CLF 143
            LF
Sbjct: 115 ILF 117

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 61.2 bits (147), Expect = 2e-12
 Identities = 15/93 (16%), Positives = 37/93 (39%), Gaps = 5/93 (5%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K++ +G    GKT ++H  ++         T+   +   +  +    +K   +D  G  +
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRLA-----TLQPTWHPTSEELAIGNIKFTTFDLGGHIQ 56

Query: 83  FRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
            R + + Y+   NG++  V + +         +
Sbjct: 57  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVE 89

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 61.9 bits (149), Expect = 2e-12
 Identities = 20/122 (16%), Positives = 36/122 (29%), Gaps = 6/122 (4%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K++L+G    GK+  + + R          T G+         D + V  ++ D  GQ 
Sbjct: 3   LKLLLLGTGESGKSTFIKQMRIIHGSGVP--TTGIIE----YPFDLQSVIFRMVDVGGQR 56

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPC 141
             R      + +   ++  V   EY            + +         T          
Sbjct: 57  SERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVI 116

Query: 142 LF 143
           LF
Sbjct: 117 LF 118

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 61.2 bits (147), Expect = 2e-12
 Identities = 29/90 (32%), Positives = 47/90 (52%), Gaps = 1/90 (1%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +K+V++GD GVGK+ +  +F    FV     TI  D  +K   ID +   L + DTAGQE
Sbjct: 5   YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTI-EDSYLKHTEIDNQWAILDVLDTAGQE 63

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRN 111
            F  + + Y R+ +G +I  +  +     +
Sbjct: 64  EFSAMREQYMRTGDGFLIVYSVTDKASFEH 93

>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 = 60.7 bits (146), Expect = 3e-12
 Identities = 32/94 (34%), Positives = 49/94 (52%), Gaps = 1/94 (1%)

Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
           L KV+++G  GVGK+ +  +F   +FVE    T   D   K V +DG++V++ I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILDTAGQ 62

Query: 81  ERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHK 114
           E +  I  +Y+RS  G +   +  E         
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATAD 96

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 60.1 bits (144), Expect = 5e-12
 Identities = 22/94 (23%), Positives = 46/94 (48%), Gaps = 5/94 (5%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G    GKT ++ +F   D      +TI          ++ +  KL IWD  GQ+
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGEDV-----DTISPTLGFNIKTLEHRGFKLNIWDVGGQK 57

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
             R+  ++Y+ S +G+I  V S +    ++  ++
Sbjct: 58  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRE 91

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.1 bits (144), Expect = 5e-12
 Identities = 26/93 (27%), Positives = 43/93 (46%), Gaps = 1/93 (1%)

Query: 21  LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ 80
             K+V++G  GVGK+ +  +F    FV    +    D   K  ++DG   +L I DTAGQ
Sbjct: 6   THKLVVVGGGGVGKSALTIQFIQSYFVSDY-DPTIEDSYTKICSVDGIPARLDILDTAGQ 64

Query: 81  ERFRTITQSYYRSANGVIIEVTSVEYCYQRNWH 113
           E F  + + Y R+ +G ++     +        
Sbjct: 65  EEFGAMREQYMRAGHGFLLVFAINDRQSFNEVG 97

>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 = 60.1 bits (144), Expect = 6e-12
 Identities = 28/93 (30%), Positives = 46/93 (49%), Gaps = 1/93 (1%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +++V++G  GVGK+ +  +F    FV     TI  D   K   ID +  +L I DTAGQE
Sbjct: 6   YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQE 64

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHK 114
            F  + + Y R+  G ++  +  +       +K
Sbjct: 65  EFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYK 97

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.0 bits (144), Expect = 7e-12
 Identities = 28/102 (27%), Positives = 47/102 (46%), Gaps = 1/102 (0%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K V++GD  VGKTC++  + +  F  +   T+  ++S     +DGK V L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANV-MVDGKPVNLGLWDTAGQE 64

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKY 123
            +  +    Y   +  +I  + V      N   +       +
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH 106

>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 = 57.7 bits (138), Expect = 4e-11
 Identities = 24/92 (26%), Positives = 41/92 (44%), Gaps = 1/92 (1%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +K+V++G  GVGK+ +  +     FV++   TI   +  + V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDG-ETCLLDILDTAGQE 62

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWH 113
            +  +   Y R+  G +            + H
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIH 94

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 57.4 bits (137), Expect = 6e-11
 Identities = 22/91 (24%), Positives = 42/91 (46%), Gaps = 1/91 (1%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
           K+V++GD   GKT ++H F    F E    T+  +    +  ID ++++L +WDT+G   
Sbjct: 4   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPY 62

Query: 83  FRTITQSYYRSANGVIIEVTSVEYCYQRNWH 113
           +  +    Y  ++ V+I           +  
Sbjct: 63  YDNVRPLSYPDSDAVLICFDISRPETLDSVL 93

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 56.9 bits (136), Expect = 1e-10
 Identities = 23/106 (21%), Positives = 39/106 (36%), Gaps = 3/106 (2%)

Query: 23  KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER 82
            V+ +G C  GKT +  R  +G + + T  +I    ++  VN +       I     +  
Sbjct: 2   AVLFVGLCDSGKTLLFVRLLTGQYRD-TQTSITDSSAIYKVNNNRGNSLTLIDLPGHESL 60

Query: 83  FRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHA 128
              +   +  SA  V+  V S    +QR     A  L+       A
Sbjct: 61  RFQLLDRFKSSARAVVFVVDS--AAFQREVKDVAEFLYQVLIDSMA 104

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.2 bits (134), Expect = 1e-10
 Identities = 33/90 (36%), Positives = 47/90 (52%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           FK+VL+GD G GKT  V R  +G+F +K   T+GV+      + +   +K  +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRN 111
           +F  +   YY  A   II          +N
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKN 93

>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 = 56.1 bits (134), Expect = 1e-10
 Identities = 21/106 (19%), Positives = 36/106 (33%), Gaps = 1/106 (0%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           ++V + G  GVGK+ +V RF  G F E    T+   +             LQI DT G  
Sbjct: 3   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDK-SICTLQITDTTGSH 61

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGH 127
           +F  + +      +  I+  +                + +      
Sbjct: 62  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVE 107

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.9 bits (133), Expect = 2e-10
 Identities = 25/94 (26%), Positives = 44/94 (46%), Gaps = 1/94 (1%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K+ ++G   VGK+ +  +F  G FV+    TI  +   K + ++G++  LQ+ DTAGQ+
Sbjct: 5   RKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTI-ENTFTKLITVNGQEYHLQLVDTAGQD 63

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
            +    Q+Y    NG I+  +             
Sbjct: 64  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVI 97

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.5 bits (127), Expect = 1e-09
 Identities = 19/94 (20%), Positives = 36/94 (38%), Gaps = 2/94 (2%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K+ + G  GVGK+ +V RF +  F+ +   T+          ID + V ++I DT   +
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTL-ESTYRHQATIDDEVVSMEILDT-AGQ 60

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
                 + + R   G ++     +          
Sbjct: 61  EDTIQREGHMRWGEGFVLVYDITDRGSFEEVLPL 94

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 53.1 bits (126), Expect = 2e-09
 Identities = 21/94 (22%), Positives = 38/94 (40%), Gaps = 5/94 (5%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            KV+++G    GKT ++++F   + V                 I     +  +WD  GQE
Sbjct: 16  HKVIIVGLDNAGKTTILYQFSMNEVVH-----TSPTIGSNVEEIVINNTRFLMWDIGGQE 70

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
             R+   +YY +   VI+ V S +        ++
Sbjct: 71  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREE 104

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 53.0 bits (126), Expect = 2e-09
 Identities = 16/103 (15%), Positives = 36/103 (34%), Gaps = 9/103 (8%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K++L+G    GK+ +V + +            G+       +   K +  +++D  GQ 
Sbjct: 3   VKLLLLGAGESGKSTIVKQMKIIHEA-----GTGI----VETHFTFKDLHFKMFDVGGQR 53

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYK 124
             R      +     +I  V   +Y       ++   + +  K
Sbjct: 54  SERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMK 96

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 52.0 bits (123), Expect = 4e-09
 Identities = 23/106 (21%), Positives = 45/106 (42%), Gaps = 5/106 (4%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++++G  G GKT +++R + G+ V     T           +  K +K Q+WD  G  
Sbjct: 6   MRILILGLDGAGKTTILYRLQVGEVV-----TTIPTIGFNVETVTYKNLKFQVWDLGGLT 60

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGH 127
             R   + YY + + VI  V S +         + V + ++ +   
Sbjct: 61  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRK 106

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 51.1 bits (121), Expect = 1e-08
 Identities = 21/94 (22%), Positives = 42/94 (44%), Gaps = 5/94 (5%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            +++L+G    GKT ++ +  S D    T  T G        ++  +  KL +WD  GQ 
Sbjct: 17  VRILLLGLDNAGKTTLLKQLASEDISHIT-PTQG----FNIKSVQSQGFKLNVWDIGGQR 71

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
           + R   +SY+ + + +I  + S +        ++
Sbjct: 72  KIRPYWRSYFENTDILIYVIDSADRKRFEETGQE 105

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.4 bits (119), Expect = 2e-08
 Identities = 13/57 (22%), Positives = 28/57 (49%), Gaps = 2/57 (3%)

Query: 22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA 78
           ++ ++GD   GK+ ++HRF +G +          +   K + +DG+   + I + A
Sbjct: 6  LRLGVLGDARSGKSSLIHRFLTGSYQVLE--KTESEQYKKEMLVDGQTHLVLIREEA 60

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.0 bits (115), Expect = 5e-08
 Identities = 18/98 (18%), Positives = 39/98 (39%), Gaps = 1/98 (1%)

Query: 19  DFLFKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDT 77
           +  ++VVLIG+ GVGK+ + + F      ++     +G D   +T+ +DG+   + + D 
Sbjct: 1   NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDM 60

Query: 78  AGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
              +        +        + V S+          +
Sbjct: 61  WENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASE 98

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.2 bits (113), Expect = 1e-07
 Identities = 16/94 (17%), Positives = 38/94 (40%), Gaps = 2/94 (2%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
           +KV+L+G  GVGK+ +   F   +   +           +++ +DG++  L ++D   Q+
Sbjct: 2   YKVLLLGAPGVGKSALARIFGGVEDGPEA--EAAGHTYDRSIVVDGEEASLMVYDIWEQD 59

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQ 115
             R +        +  +I  +  +        + 
Sbjct: 60  GGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASEL 93

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 47.4 bits (111), Expect = 2e-07
 Identities = 27/102 (26%), Positives = 45/102 (44%), Gaps = 4/102 (3%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            ++ L+G    GKT  V+   SG F E    T+G +       I    V +++WD  GQ 
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK----ITKGNVTIKLWDIGGQP 58

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKY 123
           RFR++ + Y R  + ++  V + +         +   L DK 
Sbjct: 59  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKP 100

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 47.7 bits (112), Expect = 2e-07
 Identities = 12/68 (17%), Positives = 23/68 (33%), Gaps = 6/68 (8%)

Query: 24 VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF 83
          +++ G    GKT ++    +         T+     +   + DG  V   + D  G  + 
Sbjct: 6  IIIAGPQNSGKTSLLTLLTTDSVRP----TVVSQEPLSAADYDGSGV--TLVDFPGHVKL 59

Query: 84 RTITQSYY 91
          R     Y 
Sbjct: 60 RYKLSDYL 67

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 46.2 bits (108), Expect = 5e-07
 Identities = 14/93 (15%), Positives = 34/93 (36%), Gaps = 5/93 (5%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            K+V +G    GKT ++H  +     +             +  +    +    +D  G  
Sbjct: 14  GKLVFLGLDNAGKTTLLHMLKDDRLGQHV-----PTLHPTSEELTIAGMTFTTFDLGGHI 68

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHK 114
           + R + ++Y  + NG++  V   ++       +
Sbjct: 69  QARRVWKNYLPAINGIVFLVDCADHERLLESKE 101

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]} Length = 161

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

 Score = 36.6 bits (83), Expect = 0.001
 Identities = 20/108 (18%), Positives = 33/108 (30%), Gaps = 1/108 (0%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE 81
            KVV+ G    GK+ +++   +G       +  G    +   +I    + L I DTAG  
Sbjct: 2   MKVVIAGRPNAGKSSLLNAL-AGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLR 60

Query: 82  RFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAF 129
                 +          IE               AV   + +    A 
Sbjct: 61  EASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIAR 108

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.1 bits (80), Expect = 0.004
 Identities = 13/73 (17%), Positives = 22/73 (30%), Gaps = 2/73 (2%)

Query: 22  FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVN--IDGKKVKLQIWDTAG 79
             V + G+ G GK+  ++  R     E+     GV       +         +  WD  G
Sbjct: 57  LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPG 116

Query: 80  QERFRTITQSYYR 92
                    +Y  
Sbjct: 117 IGSTNFPPDTYLE 129

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	231
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.95
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.95
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.95
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.95
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.95
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.95
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.95
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.95
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.95
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.95
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.94
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.94
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.94
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.93
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.93
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.93
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.92
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.92
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.91
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.9
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.88
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.86
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.84
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.84
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.83
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.8
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.78
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.78
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.76
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.72
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.67
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.67
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.66
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.65
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.58
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.57
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.55
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.47
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.4
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.36
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.34
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.3
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.24
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.17
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.1
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.07
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.01
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.98
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.97
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.97
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.89
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	98.79
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	98.78
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	98.78
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.78
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	98.75
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	98.73
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.7
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.69
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.68
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	98.56
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	98.38
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	98.19
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.17
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.13
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.12
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.1
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.0
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.49
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.27
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.22
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.12
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.96
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.82
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.68
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.64
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.64
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.59
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.51
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.46
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.46
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.45
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.44
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.41
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.4
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.38
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.36
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.35
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.33
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.33
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.3
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.25
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.23
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.23
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.22
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.22
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.21
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.2
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.18
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.15
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.12
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.12
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.1
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.07
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.06
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.05
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.01
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.98
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.98
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.96
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.96
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	95.94
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.91
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.91
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.89
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.89
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.86
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.84
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.77
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.75
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.71
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.67
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.67
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.66
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.64
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.59
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	95.55
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	95.52
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.49
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.48
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.46
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.45
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.43
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	95.41
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.38
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	95.27
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.2
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.15
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	95.05
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.97
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	94.94
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	94.92
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.89
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	94.84
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	94.83
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.8
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	94.79
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	94.71
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.65
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	94.59
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	94.51
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	94.23
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	94.23
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	94.19
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	94.06
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	93.95
d2qy9a2	211	GTPase domain of the signal recognition particle r	93.91
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	93.89
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.77
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	93.77
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.71
d1j8yf2	211	GTPase domain of the signal sequence recognition p	93.69
d1ls1a2	207	GTPase domain of the signal sequence recognition p	93.66
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.63
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	93.53
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.52
d1okkd2	207	GTPase domain of the signal recognition particle r	93.47
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	93.42
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.42
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	93.33
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	93.28
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	92.83
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	92.81
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	92.76
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	92.74
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	92.62
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	92.61
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.53
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	92.53
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.51
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	92.33
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	92.25
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	92.24
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	92.2
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	92.17
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	91.97
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	91.91
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	91.7
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	91.56
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	91.48
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	91.45
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	91.44
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	91.36
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	91.3
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.84
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	90.65
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	90.63
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	90.55
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	90.49
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	90.33
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	90.29
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	90.29
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	90.1
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	90.01
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	89.8
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	89.29
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	89.2
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	88.99
d1xpua3	289	Transcription termination factor Rho, ATPase domai	88.3
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	88.3
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	88.29
d1y7ta1	154	Malate dehydrogenase {Thermus thermophilus [TaxId:	88.18
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	88.01
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	87.12
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	85.46
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	85.17
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	84.97
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	84.9
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	84.84
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	84.71
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	84.63
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	83.77
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	82.98
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	82.26
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	81.88
d1tuea_	205	Replication protein E1 helicase domain {Human papi	81.61
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	81.06

>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=99.96  E-value=6.2e-29  Score=193.62  Aligned_cols=154  Identities=31%  Similarity=0.470  Sum_probs=131.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.|||+++|++|||||||++||+++.|.+.+.||.+.++..+.+..++..+.+.+||++|++++..+++.+++++|++|+
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   81 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAIL   81 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEE
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEE
Confidence            67999999999999999999999999999999999999998899999999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |||++   ||+++..|++.+........+..++|||.|+...+.....+.. .+.+.+.++.|++.  ..|++++|...+
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~~l~  161 (167)
T d1z08a1          82 VYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLC  161 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHH
T ss_pred             EEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHHHHH
Confidence            99999   9999999999998888888888899999999887765544444 67777788888876  778999987654

>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=99.96  E-value=1.7e-28  Score=191.85  Aligned_cols=157  Identities=41%  Similarity=0.663  Sum_probs=138.3

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      ++++.|||+++|++|||||||+++|+++.|.+.+.++++.++..+.+.++++.+.+.+|||+|+++|..+++.+++++++
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            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +++|||++   +++++..|+..+.+......+.++++||.|+...+.....+.. .+...+.++.++++  ..|++++|.
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~  160 (171)
T d2ew1a1          81 LILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFL  160 (171)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHH
Confidence            99999999   9999999999998888888888899999998776554444333 56667778888876  677888886


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       161 ~l~  163 (171)
T d2ew1a1         161 DLA  163 (171)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>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=99.96  E-value=2.8e-28  Score=189.70  Aligned_cols=156  Identities=33%  Similarity=0.621  Sum_probs=138.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      +++.+||+|+|++|||||||++||++++|..++.++.+.++....+.+++..+.+.+||++|++++..++..+++++|++
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            36789999999999999999999999999999999999889989999999999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      |+|||++   ||+.+..|+..+.+......++++++||.|+.........+.. .+...+.++.|+++  ..|++++|..
T Consensus        81 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~  160 (166)
T d1z0fa1          81 LMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLE  160 (166)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            9999999   9999999999999988888889999999999876665544333 56666777778876  7788998876


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       161 i~  162 (166)
T d1z0fa1         161 AA  162 (166)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.95  E-value=4.2e-28  Score=189.31  Aligned_cols=157  Identities=31%  Similarity=0.509  Sum_probs=137.5

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      ++++.+||+++|++|||||||+++|++++|.+.+.|+.+.+...+.+..++..+.+++||++|++++..+++.+++++|+
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            35789999999999999999999999999999999999999998999999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +|+|||++   +++.+..|+..+........++.+++||.|+...+.....+.. .+...+.++.|+++  ..|++++|.
T Consensus        81 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~  160 (169)
T d3raba_          81 FILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFE  160 (169)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHH
Confidence            99999999   8999999999888888788888899999998876654443333 46666777888876  678899887


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       161 ~l~  163 (169)
T d3raba_         161 RLV  163 (169)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            655

>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=99.95  E-value=1.9e-28  Score=191.64  Aligned_cols=152  Identities=26%  Similarity=0.414  Sum_probs=127.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      .+|||+++|++|||||||+++|+++.|.+.+.||++.++..+.+..++..+.+.|||++|++.+..+++.++++++++++
T Consensus         2 ~~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1i2ma_           2 VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAII   81 (170)
T ss_dssp             EEEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhh
Confidence            57999999999999999999999999999999999999998999999999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |||++   ||+++.+|+.++.+..+ ..+.++++||.|+...+.. ......+.+.+.++.|+++  ..|++++|...+
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~~-~~piilvgnK~Dl~~~~~~-~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~  158 (170)
T d1i2ma_          82 MFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRKVK-AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLA  158 (170)
T ss_dssp             EEETTSGGGGTTHHHHHHHHHHHHC-SCCEEEEEECCCCSCSCCT-TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHH
T ss_pred             ccccccccccchhHHHHHHHhhccC-CCceeeecchhhhhhhhhh-hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            99999   99999999999988765 4566799999999876543 2333456666777777776  678888887755

>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=99.95  E-value=7.4e-28  Score=186.66  Aligned_cols=152  Identities=26%  Similarity=0.422  Sum_probs=135.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      |||+|+|++|||||||++||++++|.+++.|+++.+.....+..++..+.+.+||++|++++...++.+++++|++++||
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~   80 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVY   80 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEee
Confidence            79999999999999999999999999999999998888888888999999999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |++   ||+++..|+.++.+......+.++++||.|+...+.....+.. .+...+..+.|+++  ..|++++|...+
T Consensus        81 d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~  158 (164)
T d1yzqa1          81 DITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVA  158 (164)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             ccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHH
Confidence            999   9999999999999988888889999999999876665443333 56666777788876  678999998765

>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=99.95  E-value=1.6e-27  Score=185.54  Aligned_cols=154  Identities=28%  Similarity=0.403  Sum_probs=138.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.+||+++|++|||||||++||+.++|.+.+.||.+.++.......++....+.|||++|++++..++..+++.++++|+
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~   82 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAII   82 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEE
Confidence            57999999999999999999999999999999999988888888889999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |||++   +|+++..|+.++.+......++.+++||.|+...+.....+.. .+...+..+.|+++  +.|++++|...+
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~l~  162 (167)
T d1z0ja1          83 VYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEIS  162 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHH
T ss_pred             EeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHH
Confidence            99999   9999999999999999888899999999999876665444433 56667777888876  788999998765

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.3e-27  Score=185.91  Aligned_cols=154  Identities=21%  Similarity=0.271  Sum_probs=133.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .+.+||+|+|++|||||||+++|+++.|.+++.||++.++ .+.+.+++..+.+.+||++|.+.+..++..+++++|++|
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~i   80 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYI   80 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEE
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccchhhhhhhhhh
Confidence            4568999999999999999999999999999999999765 577889999999999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      +|||++   ||+++..|+.++.+.... ..+..+++||.|+...+.....+.. .+...+..+.|+++  ..|++++|..
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~~  160 (167)
T d1xtqa1          81 LVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRR  160 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHH
T ss_pred             hhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHH
Confidence            999999   999999999999887654 5567899999999887765554433 66677777888876  6788999876


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       161 li  162 (167)
T d1xtqa1         161 II  162 (167)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1e-27  Score=187.84  Aligned_cols=156  Identities=22%  Similarity=0.293  Sum_probs=133.9

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .+...+||+|+|++|||||||++||+++.|.+++.||.. ++..+.+.+++..+.+.+||++|++++..++..+++++|+
T Consensus         2 ~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~   80 (173)
T d2fn4a1           2 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHG   80 (173)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeEeccCCeeeeeeccccccccccccccchhhcccee
Confidence            356779999999999999999999999999999999976 6777889999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      +|+|||++   ||+.+..|+..+.+... ...+.++++||.|+...+.....+.. .+.+.+.++.|+++  ..|++++|
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f  160 (173)
T d2fn4a1          81 FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAF  160 (173)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHH
T ss_pred             eeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHHH
Confidence            99999999   99999999999988764 45567789999999877665443333 66777777778776  77889988


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       161 ~~l~  164 (173)
T d2fn4a1         161 EQLV  164 (173)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7765

>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=99.95  E-value=8e-28  Score=187.70  Aligned_cols=157  Identities=18%  Similarity=0.166  Sum_probs=133.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .|||+|+|++|||||||++||+++.|.+.+.||++.. +.....+++..+.+.+||++|++.+...+..+++.+|++++|
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~-~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv   80 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDT-YRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILV   80 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEE-EEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeec-cccceeeccccceeccccccccccccccccccccceeEEEEE
Confidence            6899999999999999999999999999999999954 456778899999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      ||++   ||+++..|+.++.+...  ...+.+++|||.|+...++....+.. .+...+.++.|+++  ..|++++|...
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l  160 (171)
T d2erxa1          81 YSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQEL  160 (171)
T ss_dssp             EETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHH
T ss_pred             eecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHH
Confidence            9999   99999999999987654  45567889999999877665544433 56777778888876  78899999988


Q ss_pred             ccCCCc
Q psy5781         173 LAMPQV  178 (231)
Q Consensus       173 ~~~~~~  178 (231)
                      +...+-
T Consensus       161 ~~~~~~  166 (171)
T d2erxa1         161 LNLEKR  166 (171)
T ss_dssp             HHTCCS
T ss_pred             HHHHHH
Confidence            755443

>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=99.95  E-value=3e-27  Score=188.53  Aligned_cols=157  Identities=39%  Similarity=0.651  Sum_probs=137.5

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      +.++.|||+|+|++|||||||+++|+++.|...+.||.+..+....+.+++..+.+.||||+|++++..+++.+++++++
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            57889999999999999999999999999999999999988888899999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +|+|||++   +|+.+..|...+.+......+++++++|.|+.........+.. .....+..+.|+++  ..|++++|.
T Consensus        82 ~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~f~  161 (194)
T d2bcgy1          82 IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFL  161 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHHHH
Confidence            99999999   9999999999999888888889999999999886665444433 55556666666666  667888887


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       162 ~l~  164 (194)
T d2bcgy1         162 TMA  164 (194)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            665

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.95  E-value=3.2e-27  Score=184.49  Aligned_cols=152  Identities=23%  Similarity=0.346  Sum_probs=132.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .|||+++|++|||||||+++|+++.|.+.+.||.+. .+.+.+.+++..+.+.+||++|++.+..+++.|++++|++++|
T Consensus         4 t~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv   82 (169)
T d1x1ra1           4 TYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIED-SYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIV   82 (169)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCE-EEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceee-ccccccccccccccccccccccccccccchhhhhhhccEEEEe
Confidence            599999999999999999999999999999999984 4567788999999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc---ccchhhhhhhh
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP---CLKFGHAFSTS  172 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~---~~nv~e~f~~~  172 (231)
                      ||++   ||+++..|+.++.+.... ..+.++++||.|+...+.....+.. .+.+.+..+.|+++   ..|++++|...
T Consensus        83 ~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~~l  162 (169)
T d1x1ra1          83 YSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDL  162 (169)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHH
T ss_pred             cccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHHHH
Confidence            9999   999999999999887654 5557788999999887765444333 67788888999986   35899999876


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       163 ~  163 (169)
T d1x1ra1         163 V  163 (169)
T ss_dssp             H
T ss_pred             H
Confidence            5

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.95  E-value=1.3e-27  Score=185.43  Aligned_cols=152  Identities=24%  Similarity=0.434  Sum_probs=132.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      -+||+++|++|||||||++||+++.|.+++.||++.++.......++..+.+.+||++|++++..+++.++++++++++|
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v   81 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLV   81 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEE
Confidence            48999999999999999999999999999999999889989999999999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   ||+++..|++++.+..++ .+.++++||.|+...+.....+.. .+...+..+.|+++  ..|++++|...+
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~-~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~  159 (164)
T d1z2aa1          82 FSTTDRESFEAISSWREKVVAEVGD-IPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLA  159 (164)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCS-CCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHH
T ss_pred             EeccchhhhhhcccccccccccCCC-ceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHH
Confidence            9999   999999999999887765 445689999999877655444333 55666677778776  778899887654

>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=99.95  E-value=1.1e-27  Score=187.68  Aligned_cols=157  Identities=38%  Similarity=0.615  Sum_probs=110.7

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      ..++.|||+|+|++|||||||+++|+++.|...+.||++.++..+.+.+++..+.+.|||++|++.+..+++.+++.+|+
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            56789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +|+|||++   ||+.+..|...+........+.+++++|.|+...+.....+.. .+...+..+.+++.  ..|++++|.
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~  161 (173)
T d2fu5c1          82 IMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFF  161 (173)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHH
T ss_pred             EEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999   9999999999998888888888899999998876654433222 45566666777766  678899887


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       162 ~l~  164 (173)
T d2fu5c1         162 TLA  164 (173)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            765

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=5.5e-27  Score=183.49  Aligned_cols=156  Identities=37%  Similarity=0.625  Sum_probs=136.3

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      .+++.+||+|+|++|||||||++||+.++|.+.+.||.+.......+..++..+.+.+||++|++++..+++.+++++++
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            36789999999999999999999999999999999999988888888889999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +|+|||.+   +|+++..|+.++.+......+.++++||.|+............ .+...+.++.|++.  ..|++++|.
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~  160 (174)
T d2bmea1          81 ALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFV  160 (174)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHH
Confidence            99999999   9999999999999988888888899999998776665544432 45556666777776  778888886


Q ss_pred             hh
Q psy5781         171 TS  172 (231)
Q Consensus       171 ~~  172 (231)
                      ..
T Consensus       161 ~l  162 (174)
T d2bmea1         161 QC  162 (174)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=99.95  E-value=2.4e-27  Score=185.01  Aligned_cols=152  Identities=22%  Similarity=0.369  Sum_probs=127.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+|+|++|||||||+++|++++|.++|.||++.++ .+.+.+++..+.+.+||++|++++..+++.+++++|++++|
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv   82 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCV   82 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccccccccccccccchhhhhhhcccccceeEEE
Confidence            58999999999999999999999999999999999655 57788999999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   ||+++..|++++.+.... ..+..+++||.|+...++....+.. .+...+.++.|+++  ..|++++|...+
T Consensus        83 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~  162 (168)
T d1u8za_          83 FSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLM  162 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             eeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHH
Confidence            9999   999999999999887654 4557789999999876665444333 56666777778776  678888887654

>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=99.94  E-value=3.4e-27  Score=183.62  Aligned_cols=153  Identities=22%  Similarity=0.299  Sum_probs=129.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.|||+++|++|||||||++||+.++|.+++.||++..+ ...+.+++..+.+.+||++|++.+..+++.|++++|++|+
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   80 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccccccccccceeEE
Confidence            579999999999999999999999999999999999554 5677889999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhh-cCCCcccccc--ccchhhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASS-SAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~-~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      |||++   ||+++..|+..+.+... +..+.++++||.|+...+.....+.. .+.. .+..+.|+++  ..|++++|..
T Consensus        81 v~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~  160 (167)
T d1c1ya_          81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYD  160 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHH
T ss_pred             eeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHH
Confidence            99999   99999999999988765 45567899999999887665444333 2333 4567777775  7889999987


Q ss_pred             hc
Q psy5781         172 SL  173 (231)
Q Consensus       172 ~~  173 (231)
                      .+
T Consensus       161 l~  162 (167)
T d1c1ya_         161 LV  162 (167)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>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=99.94  E-value=9.6e-27  Score=181.43  Aligned_cols=154  Identities=29%  Similarity=0.427  Sum_probs=134.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||++||++++|.+.+.||.+.++..+.+..+++.+.+.|||++|++++..+++.+++++|++|+|
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVV   82 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEE
Confidence            58999999999999999999999999999999999999989999999999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc---cccccchh-hhhhcCCCcccccc--ccchhhhhhh
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR---PCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~---~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      ||++   ||+++..|+.++.+.........++++|.|+..+.   .....+.. .+.+.+.++.|+++  ..|++++|..
T Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F~~  162 (170)
T d1ek0a_          83 YDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLG  162 (170)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHH
T ss_pred             EeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHH
Confidence            9999   99999999999988888888888999999886542   22222222 56666777888886  7789999987


Q ss_pred             hcc
Q psy5781         172 SLA  174 (231)
Q Consensus       172 ~~~  174 (231)
                      .+.
T Consensus       163 i~~  165 (170)
T d1ek0a_         163 IGE  165 (170)
T ss_dssp             HHT
T ss_pred             HHH
Confidence            763

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=7.3e-27  Score=183.17  Aligned_cols=155  Identities=35%  Similarity=0.590  Sum_probs=130.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ++.+||+|+|++|||||||+++|+++.|..++.++.+.+.....+.+++..+.+.|||++|+++|..++..++++++++|
T Consensus         2 ~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i   81 (175)
T d2f9la1           2 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   81 (175)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEE
Confidence            67899999999999999999999999999999999988888889999999999999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccc-hhhhhhcCCCcccccc--ccchhhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHK-FGHASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~-~~~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      +|||++   ||+.+.+|+.++.+......+.++++||.|+...+...... .......+.++.+++.  +.|++++|...
T Consensus        82 ~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~l  161 (175)
T d2f9la1          82 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNI  161 (175)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHHHH
Confidence            999999   99999999999999888888888999999998765543322 2244455556666665  56777777554


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       162 ~  162 (175)
T d2f9la1         162 L  162 (175)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=7.4e-27  Score=182.23  Aligned_cols=155  Identities=29%  Similarity=0.472  Sum_probs=137.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .-.|||+|+|++|||||||++||+++.|.+.+.||.+.++....+..++..+.+.+||++|++++..+++.+++++++++
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   83 (170)
T d1r2qa_           4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAI   83 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEE
T ss_pred             eeEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEE
Confidence            34789999999999999999999999999999999999888888888999999999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      +|||++   +|+++..|...+.+......+.++++||.|+...+........ .+...+..+.|+++  ..|++++|...
T Consensus        84 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l  163 (170)
T d1r2qa_          84 VVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI  163 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHH
Confidence            999999   9999999999998888888888999999999877665544333 56666677888887  67899999876


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       164 ~  164 (170)
T d1r2qa_         164 A  164 (170)
T ss_dssp             H
T ss_pred             H
Confidence            5

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=6.2e-27  Score=185.36  Aligned_cols=154  Identities=19%  Similarity=0.243  Sum_probs=122.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      +...+||+|+|++|||||||++||+++.|.+++.||++ ++..+.+.+++..+.+.+||++|++.+..++..+++++|++
T Consensus         6 ~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~-~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~   84 (185)
T d2atxa1           6 GALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVF   84 (185)
T ss_dssp             EEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSC-CCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEE
T ss_pred             CCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCcee-eeeeEEEeeCCceEEeecccccccchhhhhhhhccccccee
Confidence            56789999999999999999999999999999999998 56667788899999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc------------ccccch-hhhhhcC-CCccccc
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP------------CLFHKF-GHASSSA-MPFPQVW  160 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~------------~~~~~~-~~s~~~~-~~~~ev~  160 (231)
                      ++|||++   ||+++..|...+.+......+.++++||.|+..+..            ....+. +.+.+.+ ..+.|++
T Consensus        85 ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E~S  164 (185)
T d2atxa1          85 LICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECS  164 (185)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECC
T ss_pred             eeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEEec
Confidence            9999999   999886555555555556667779999999875321            111111 1233333 5667776


Q ss_pred             c--ccchhhhhhhh
Q psy5781         161 P--CLKFGHAFSTS  172 (231)
Q Consensus       161 ~--~~nv~e~f~~~  172 (231)
                      +  ..|++++|...
T Consensus       165 Ak~~~gv~e~F~~l  178 (185)
T d2atxa1         165 ALTQKGLKTVFDEA  178 (185)
T ss_dssp             TTTCTTHHHHHHHH
T ss_pred             CCCCcCHHHHHHHH
Confidence            4  67788888764

>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=99.94  E-value=5.1e-27  Score=182.52  Aligned_cols=153  Identities=24%  Similarity=0.336  Sum_probs=131.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.|||+++|++|||||||++||+++.|.+.+.||++ +++.....+++..+.+.+||++|++.+..++..+++++|++++
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   80 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceee
Confidence            579999999999999999999999999999999998 6777888899999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |||++   ||+++..|+.++.+.... ..++++++||.|+...+.....+.. .+...+.++.|+++  ..|++++|...
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~i  160 (167)
T d1kaoa_          81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEI  160 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHH
T ss_pred             eeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHHH
Confidence            99999   999999999999886654 4567889999999876554433332 56666778888876  67889998765


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       161 ~  161 (167)
T d1kaoa_         161 V  161 (167)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.94  E-value=5.3e-27  Score=182.92  Aligned_cols=151  Identities=15%  Similarity=0.133  Sum_probs=113.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .|||+++|++|||||||+++|.+..+.. +.++.+ +.+.+.+.++++.+.+.+||++|++++..+++.|++++|++|+|
T Consensus         1 ifKi~lvG~~~vGKTsLi~~~~~~~~~~-~~~~~~-~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv   78 (168)
T d2gjsa1           1 VYKVLLLGAPGVGKSALARIFGGVEDGP-EAEAAG-HTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   78 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHTC----------C-EEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEE
T ss_pred             CeEEEEECCCCcCHHHHHHHHhCCccCC-cCCeee-eeecceeeccccccceeeeecccccccceecccchhhhhhhcee
Confidence            4899999999999999999999887654 456665 45567888999999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCc-ceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKY-KFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~-~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      ||++   ||+++..|+.++.+..... .+.++++||.|+...++....+.. .+...+.++.|+++  ..|++++|...+
T Consensus        79 ~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~  158 (168)
T d2gjsa1          79 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV  158 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHH
T ss_pred             ccccccccccccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHH
Confidence            9999   9999999999998876544 457899999999887665443333 56677777888876  778899888765

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=1.9e-26  Score=179.88  Aligned_cols=157  Identities=34%  Similarity=0.571  Sum_probs=128.0

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC-cccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCc
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK-TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSAN   95 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~-~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   95 (231)
                      -++..|||+|+|+++||||||+++|++++|... +.++++.++....+..++..+.++||||+|++.+..++..+++++|
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            367899999999999999999999999998654 5667788888888999999999999999999999999999999999


Q ss_pred             EEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          96 GVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        96 ~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      ++++|||++   |++.+..|+.++.+......+.+++++|.|..........+.. .+...+.++.|++.  ..|++++|
T Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f  161 (170)
T d2g6ba1          82 ALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAF  161 (170)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHH
T ss_pred             eeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHH
Confidence            999999999   9999999999999988888888899999998887665544333 56666778888875  77889988


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       162 ~~l~  165 (170)
T d2g6ba1         162 TAIA  165 (170)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=1e-26  Score=182.05  Aligned_cols=154  Identities=34%  Similarity=0.548  Sum_probs=129.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.+||+|+|++|||||||++||++++|...+.++.+.+........++..+.+.+||++|++.+..+++.+++.+|++|+
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALL   81 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEE
Confidence            67999999999999999999999999999999999888888888889999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |||++   ||+.+..|+.++.+......++++++||.|+...+.....+.. .+...+.++.|+++  ..|++++|...+
T Consensus        82 v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i~  161 (173)
T d2a5ja1          82 VYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTA  161 (173)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHH
T ss_pred             EEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHH
Confidence            99999   9999999999999888888889999999998776554443333 56666777778776  677888887654

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=1.6e-26  Score=180.47  Aligned_cols=153  Identities=22%  Similarity=0.320  Sum_probs=127.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..|||+++|++|||||||++||+++.|.+++.||.+ +.....+.+++..+.+.+||++|++++...++.+++.+|++++
T Consensus         4 ~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   82 (171)
T d2erya1           4 EKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLL   82 (171)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccccccccccceEEE
Confidence            348999999999999999999999999999999998 6777888999999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAFSTS  172 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f~~~  172 (231)
                      |||++   ||+.+..|+.++.+.... ..+.++++||.|+...+.....+.. .+...+.++.|+++  ..|++++|...
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l  162 (171)
T d2erya1          83 VFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHEL  162 (171)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             eeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHHHH
Confidence            99999   999999999998877654 4556788999999876655443333 56667777788875  77899999876


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       163 ~  163 (171)
T d2erya1         163 V  163 (171)
T ss_dssp             H
T ss_pred             H
Confidence            5

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=3.1e-26  Score=182.11  Aligned_cols=152  Identities=20%  Similarity=0.243  Sum_probs=121.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||++||+.+.|..++.||++ +.......++++.+.+.|||++|+++|..+++.+++++|++++|
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   81 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   81 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecc
Confidence            58999999999999999999999999999999998 55567778899999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc------------ccccchh-hhhh-cCCCcccccc--
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP------------CLFHKFG-HASS-SAMPFPQVWP--  161 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~------------~~~~~~~-~s~~-~~~~~~ev~~--  161 (231)
                      ||++   ||+++..|..++........+..+++||.|+.....            ....+.. .+.+ .+..+.|+++  
T Consensus        82 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~  161 (191)
T d2ngra_          82 FSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALT  161 (191)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTTT
T ss_pred             cccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCCC
Confidence            9999   999998765555555556667779999999864321            1111111 2223 3456777775  


Q ss_pred             ccchhhhhhhhc
Q psy5781         162 CLKFGHAFSTSL  173 (231)
Q Consensus       162 ~~nv~e~f~~~~  173 (231)
                      ..|++++|...+
T Consensus       162 ~~~V~e~f~~l~  173 (191)
T d2ngra_         162 QKGLKNVFDEAI  173 (191)
T ss_dssp             CTTHHHHHHHHH
T ss_pred             CcCHHHHHHHHH
Confidence            677888887544

>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=99.94  E-value=1.2e-26  Score=180.21  Aligned_cols=154  Identities=37%  Similarity=0.535  Sum_probs=127.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..+||+|+|++|||||||+++|++++|...+.||++.++..+.+.+++..+.+.|||++|++.+..+++.+++++|++|+
T Consensus         1 ~~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (166)
T d1g16a_           1 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   80 (166)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEE
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |||.+   |++++..|+..+........+.++++++.++.....-.......+...+.++.+++.  ..|++++|...+
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~  159 (166)
T d1g16a_          81 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA  159 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhhhhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHHH
Confidence            99999   999999999999998888888888899988776544333333356667777777765  778888887654

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=2.3e-26  Score=180.54  Aligned_cols=152  Identities=18%  Similarity=0.188  Sum_probs=120.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      ..||+|+|++|||||||+++|+++.|.+.+.||++ +.......++++.+.+.|||++|++.+..+++.|++++|++|||
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMC   80 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccchhcccchhhcccchhhhhh
Confidence            57999999999999999999999999999999998 56667788899999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccc------------cccchh-hhhhcC-CCcccccc--
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPC------------LFHKFG-HASSSA-MPFPQVWP--  161 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~------------~~~~~~-~s~~~~-~~~~ev~~--  161 (231)
                      ||++   ||+++..|...+.+...+..+.++++||.|+...+..            ...+.. .+...+ ..+.|+++  
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt  160 (177)
T d1kmqa_          81 FSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKT  160 (177)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTT
T ss_pred             cccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCC
Confidence            9999   9999887665555555566677789999999764321            111111 222222 34566654  


Q ss_pred             ccchhhhhhhhc
Q psy5781         162 CLKFGHAFSTSL  173 (231)
Q Consensus       162 ~~nv~e~f~~~~  173 (231)
                      ..|++++|...+
T Consensus       161 ~~gi~e~F~~i~  172 (177)
T d1kmqa_         161 KDGVREVFEMAT  172 (177)
T ss_dssp             CTTHHHHHHHHH
T ss_pred             CcCHHHHHHHHH
Confidence            777888887643

>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=99.94  E-value=1.2e-26  Score=183.25  Aligned_cols=118  Identities=27%  Similarity=0.380  Sum_probs=104.1

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      ++.+||+|+|++|||||||++||+.+.|.+++.||++ +...+.+..++..+.+.+||++|++.+..++..+++++|+++
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   81 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSC-CEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCccccccee-eceeeeeeccCcceEEEeecccccccchhhhhhcccccceee
Confidence            5679999999999999999999999999999999998 566677888999999999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHH-HHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          99 IEVTSV---EYCYQRN-WHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        99 lV~dit---Sf~~l~~-w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +|||++   ||+++.. |...++. .....+.++++||.|+...
T Consensus        82 lv~d~~~~~sf~~i~~~~~~~~~~-~~~~~piilvgnK~Dl~~~  124 (183)
T d1mh1a_          82 ICFSLVSPASFENVRAKWYPEVRH-HCPNTPIILVGTKLDLRDD  124 (183)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHH-HSTTSCEEEEEECHHHHTC
T ss_pred             eeeccchHHHHHHHHHHHHHHHHH-hCCCCcEEEEeecccchhh
Confidence            999999   9999976 5555544 4455667799999997654

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=2.1e-26  Score=179.43  Aligned_cols=151  Identities=19%  Similarity=0.191  Sum_probs=126.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+|+|++|||||||++||+++.|.++|.||++.++. ..+..+++.+.+.|||++|++.+. .+..++++++++++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~-~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv   79 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLV   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceecccc-ccccccccceEEEEeecccccccc-cchhhhcccccceee
Confidence            489999999999999999999999999999999997765 556678999999999999998875 557789999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--cc-chhhhhhhh
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CL-KFGHAFSTS  172 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~-nv~e~f~~~  172 (231)
                      ||++   ||+++..|+..+..... ...+.++++||.|+...+.....+.. .+.+.+..+.|+++  .. |++++|...
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~l  159 (168)
T d2atva1          80 YDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYEL  159 (168)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHH
T ss_pred             cccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHHH
Confidence            9999   99999998887766544 56778899999999876665444433 66777888888886  34 699999876


Q ss_pred             c
Q psy5781         173 L  173 (231)
Q Consensus       173 ~  173 (231)
                      +
T Consensus       160 ~  160 (168)
T d2atva1         160 C  160 (168)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=99.93  E-value=7.7e-26  Score=175.17  Aligned_cols=154  Identities=31%  Similarity=0.517  Sum_probs=132.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch-hhhhcccCCcEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT-ITQSYYRSANGVI   98 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~-~~~~~~~~ad~vI   98 (231)
                      +.|||+|+|++|||||||++||++++|...+.++.+..+..+...+.+....+.+||+.|...+.. .++.|++++|++|
T Consensus         1 r~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i   80 (165)
T d1z06a1           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (165)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceE
Confidence            479999999999999999999999999999999999888888889999999999999999877654 5788999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchh-hhhhcCCCcccccc-----ccchhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP-----CLKFGHA  168 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~-----~~nv~e~  168 (231)
                      +|||++   ||+++..|+.++.+.... ..+..++|||.|+...+.....+.. .+.+.+..+.|+++     +.||+++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e~  160 (165)
T d1z06a1          81 FVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAI  160 (165)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHH
T ss_pred             EEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHHH
Confidence            999999   999999999999887654 5567899999999877665444433 66777788888875     5689999


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |...|
T Consensus       161 F~~lA  165 (165)
T d1z06a1         161 FMTLA  165 (165)
T ss_dssp             HHHHC
T ss_pred             HHHhC
Confidence            98654

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=1.4e-26  Score=182.99  Aligned_cols=157  Identities=31%  Similarity=0.486  Sum_probs=133.1

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECC----------eEEEEEEeeCCCccccchh
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDG----------KKVKLQIWDTAGQERFRTI   86 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~----------~~~~l~i~D~~G~~~~~~~   86 (231)
                      ++++.+||+++|++|||||||+++|++++|.+.+.++.+.++..+.+.+++          ..+.+.+||++|++++..+
T Consensus         1 ~~d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~   80 (186)
T d2f7sa1           1 DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSL   80 (186)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHH
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHH
Confidence            467899999999999999999999999999999999999888877777643          3578999999999999999


Q ss_pred             hhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc
Q psy5781          87 TQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP  161 (231)
Q Consensus        87 ~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~  161 (231)
                      ++.+++++|++|+|||++   +|+.+..|+.++.+... ...+..+++||.|+...+.....+.. .+.+.+.++.|+++
T Consensus        81 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sa  160 (186)
T d2f7sa1          81 TTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSA  160 (186)
T ss_dssp             HHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBT
T ss_pred             HHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeC
Confidence            999999999999999999   99999999998876654 44557789999999877665444433 56667788888876


Q ss_pred             --ccchhhhhhhhc
Q psy5781         162 --CLKFGHAFSTSL  173 (231)
Q Consensus       162 --~~nv~e~f~~~~  173 (231)
                        +.|++++|...+
T Consensus       161 k~~~~i~e~f~~l~  174 (186)
T d2f7sa1         161 ATGQNVEKAVETLL  174 (186)
T ss_dssp             TTTBTHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHH
Confidence              678899887655

>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=99.93  E-value=2.5e-25  Score=172.74  Aligned_cols=153  Identities=23%  Similarity=0.299  Sum_probs=129.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      ..|||+|+|++|||||||++||+++.|.+.+.|+++.++. ..+..++..+.+.+||++|++.+...++.+++.++++++
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~ii   80 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   80 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeec-cceeeeceeeeeeeeeccCccccccchhhhhhcccccce
Confidence            3599999999999999999999999999999999996554 557788899999999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhhhhc
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFSTSL  173 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~~~~  173 (231)
                      |||++   +|+++..|+..+.+.... ..++++++||.|+.............+...+.++.|+++  ..|++++|...+
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~i~  160 (166)
T d1ctqa_          81 VFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV  160 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHH
T ss_pred             eecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccccccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHH
Confidence            99999   999999999999988764 456788999999875433222222266777778888877  778899987654

>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=99.93  E-value=2.5e-25  Score=175.25  Aligned_cols=151  Identities=19%  Similarity=0.246  Sum_probs=120.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||++||+++.|.+++.||++ +...+.+.+++..+.+.|||++|++.+..+++.+++++|++|+|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVF-ENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLIC   80 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-ecccccccccceEEeeccccccccccccccccchhhhhhhhhee
Confidence            57999999999999999999999999999999997 56667788899999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc------------cccccchh-hhhhc-CCCcccccc--
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR------------PCLFHKFG-HASSS-AMPFPQVWP--  161 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~------------~~~~~~~~-~s~~~-~~~~~ev~~--  161 (231)
                      ||++   ||+++..|.....+....+.+.+++|||.|+....            +....+.. .+.+. ...+.|+++  
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~  160 (179)
T d1m7ba_          81 FDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQ  160 (179)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTT
T ss_pred             eecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCC
Confidence            9999   99999876666555555677788999999986432            11111121 22232 345677775  


Q ss_pred             ccc-hhhhhhhh
Q psy5781         162 CLK-FGHAFSTS  172 (231)
Q Consensus       162 ~~n-v~e~f~~~  172 (231)
                      ..| ++++|...
T Consensus       161 ~~n~i~~~F~~~  172 (179)
T d1m7ba_         161 SENSVRDIFHVA  172 (179)
T ss_dssp             BHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHH
Confidence            454 78888654

>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=99.92  E-value=1.4e-24  Score=169.68  Aligned_cols=154  Identities=29%  Similarity=0.514  Sum_probs=125.5

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      +...|||+|+|++|||||||++||++++|.+++.+|++..+..+.+..++..+.+.+||++|+.++...+..++..++++
T Consensus         3 ~~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~   82 (174)
T d1wmsa_           3 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCC   82 (174)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceE
Confidence            35679999999999999999999999999999999999888888889999999999999999999999999999999999


Q ss_pred             EEEEecC---cHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCccccccchh-hhhhc-CCCcccccc--ccchh
Q psy5781          98 IIEVTSV---EYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSS-AMPFPQVWP--CLKFG  166 (231)
Q Consensus        98 IlV~dit---Sf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~-~~~~~ev~~--~~nv~  166 (231)
                      ++|||++   ||+.+..|++++.+...    ...+.++++||.|+.. +.....+.. .+.+. ...+.|++.  ..|++
T Consensus        83 i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~  161 (174)
T d1wmsa_          83 LLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVA  161 (174)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTHH
T ss_pred             EEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHH
Confidence            9999999   99999999999987653    2455789999999965 333333333 44443 467777776  77899


Q ss_pred             hhhhhh
Q psy5781         167 HAFSTS  172 (231)
Q Consensus       167 e~f~~~  172 (231)
                      ++|...
T Consensus       162 e~f~~l  167 (174)
T d1wmsa_         162 AAFEEA  167 (174)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988654

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=8.6e-25  Score=171.50  Aligned_cols=157  Identities=34%  Similarity=0.536  Sum_probs=129.0

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      +..-.+||+|+|++|||||||+++|.+++|..++.++.+..+..+.+.+++..+.+.|||++|+++++.+++.+++++|+
T Consensus         3 ~~~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   82 (177)
T d1x3sa1           3 DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQG   82 (177)
T ss_dssp             TEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCE
T ss_pred             cccceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCE
Confidence            33456999999999999999999999999999999999988888889999999999999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcCC-cceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFDK-YKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~~-~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      +++|||++   +++.+..|+.++.+.... ..+..++++|.|..............+...+..+.++++  ..|++++|.
T Consensus        83 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f~  162 (177)
T d1x3sa1          83 VILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFE  162 (177)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECCCccccccchhhhhhhcccccccceeeEEEeeccccccccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHH
Confidence            99999998   999999999999876655 455668889988665332211222256666667777765  677888886


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       163 ~l~  165 (177)
T d1x3sa1         163 ELV  165 (177)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=99.92  E-value=2e-24  Score=170.36  Aligned_cols=153  Identities=26%  Similarity=0.470  Sum_probs=128.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+|+|++|||||||+++|++++|..++.||++.++..+.....+..+.+.+||++|+..+...++.++..++++++|
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   81 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLV   81 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEe
Confidence            68999999999999999999999999999999999999988888999999999999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCccccccchhh-hhhcCCCcccccc--ccchhhhhh
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVRPCLFHKFGH-ASSSAMPFPQVWP--CLKFGHAFS  170 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~~~~~~~~~~-s~~~~~~~~ev~~--~~nv~e~f~  170 (231)
                      ||++   +++.+..|++++.+...    ...+.++++||.|+.....-....... ....+..+.+++.  ..|++++|.
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~  161 (184)
T d1vg8a_          82 FDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQ  161 (184)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHH
T ss_pred             ecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccccchhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHHH
Confidence            9998   99999999999987653    334577899999987644322222222 3345667777775  778899887


Q ss_pred             hhc
Q psy5781         171 TSL  173 (231)
Q Consensus       171 ~~~  173 (231)
                      ..+
T Consensus       162 ~l~  164 (184)
T d1vg8a_         162 TIA  164 (184)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            754

>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=99.92  E-value=9e-25  Score=170.83  Aligned_cols=151  Identities=15%  Similarity=0.176  Sum_probs=122.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCC---CccccchhhhhcccCCcE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTA---GQERFRTITQSYYRSANG   96 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~---G~~~~~~~~~~~~~~ad~   96 (231)
                      -|||+++|++|||||||+++|.+..+. ..+.+|.+.+++.+.+.++++.+.+.+||++   |++++  ++..+++++|+
T Consensus         3 ~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~~   80 (172)
T d2g3ya1           3 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDA   80 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCSE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccce
Confidence            589999999999999999999987764 3455777778888999999999999999976   45554  67789999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh-hhhhcCCCcccccc--ccchhhhh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      +|+|||++   ||+++..|..++.+... ...+.++++||.|+...+.....+.. .+...+.++.|++.  ..|++++|
T Consensus        81 ~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~~f  160 (172)
T d2g3ya1          81 YLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELF  160 (172)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHH
T ss_pred             eeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHHHH
Confidence            99999999   99999999999987654 45667899999999887665444433 66777788888875  77899999


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       161 ~~l~  164 (172)
T d2g3ya1         161 EGIV  164 (172)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>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=99.91  E-value=2.2e-24  Score=168.35  Aligned_cols=153  Identities=25%  Similarity=0.472  Sum_probs=110.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEE-CCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI-DGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      .+||+++|++|||||||+++|++++|.+.+.||.+.+........ +...+.+.+||++|++++...+..+++.++++++
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   81 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVL   81 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEE
Confidence            689999999999999999999999999999999887666555554 4456789999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHHHHhcC----CcceeeecccccCCCCCccccccc-h-hhhhhc-CCCcccccc--ccchhh
Q psy5781         100 EVTSV---EYCYQRNWHKQAVTLFD----KYKFGHAFSTSLAMPQVRPCLFHK-F-GHASSS-AMPFPQVWP--CLKFGH  167 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i~~~~~----~~~~~~vv~~k~dl~~~~~~~~~~-~-~~s~~~-~~~~~ev~~--~~nv~e  167 (231)
                      |||++   ||+.+..|++++.+...    ...+.++++||.|+...+...... . +.+... ...+.++++  ..|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~e  161 (175)
T d1ky3a_          82 VYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDT  161 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHH
T ss_pred             EeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHHH
Confidence            99999   99999999999987653    344577999999998765433222 1 234444 356777765  678899


Q ss_pred             hhhhhc
Q psy5781         168 AFSTSL  173 (231)
Q Consensus       168 ~f~~~~  173 (231)
                      +|...+
T Consensus       162 ~f~~l~  167 (175)
T d1ky3a_         162 AFEEIA  167 (175)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            987654

>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=99.90  E-value=1.4e-23  Score=164.77  Aligned_cols=146  Identities=18%  Similarity=0.172  Sum_probs=111.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|+++.|.. +.++.+. .+.+.+.++++.+.+.|||++|+..+     .|++++|++|+|
T Consensus         5 ~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~-~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilV   77 (175)
T d2bmja1           5 ELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESE-QYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFV   77 (175)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCE-EEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccce-eEEEEeecCceEEEEEEeeccccccc-----ccccccceeEEE
Confidence            5999999999999999999999999865 5677764 44678899999999999999998764     478899999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhcC---CcceeeecccccCCCCC--ccccccchh-h-hhhcCCCcccccc--ccchhhh
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLFD---KYKFGHAFSTSLAMPQV--RPCLFHKFG-H-ASSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~~---~~~~~~vv~~k~dl~~~--~~~~~~~~~-~-s~~~~~~~~ev~~--~~nv~e~  168 (231)
                      ||++   ||+++..|++++.....   ...+..+++++.|+...  +.....+.. . ....+..+.|+++  ..|++++
T Consensus        78 fd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~~  157 (175)
T d2bmja1          78 FSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRV  157 (175)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHHH
T ss_pred             eecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHHH
Confidence            9999   99999999999877653   33356678877666443  332222222 2 2334556677666  6788888


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |...+
T Consensus       158 F~~l~  162 (175)
T d2bmja1         158 FQEVA  162 (175)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87654

>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=99.88  E-value=2.9e-22  Score=154.93  Aligned_cols=114  Identities=22%  Similarity=0.330  Sum_probs=98.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIE  100 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV  100 (231)
                      .+||+++|++|||||||+++|.+++|.+.+.||++.++.  .+..++  +.+.+||++|++.+...+..++..++++++|
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   77 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKGN--VTIKLWDIGGQPRFRSMWERYCRGVSAIVYM   77 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEETT--EEEEEEEECCSHHHHTTHHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeee--eeeeee--EEEEEeeccccccccccccccccccchhhcc
Confidence            689999999999999999999999999999999995554  455554  7899999999999999999999999999999


Q ss_pred             EecC---cHhhHHHHHHHHHHhc-CCcceeeecccccCCCCC
Q psy5781         101 VTSV---EYCYQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus       101 ~dit---Sf~~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~~  138 (231)
                      ||++   +|+.+..|+..+.+.. ....+.++++||.|+...
T Consensus        78 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~  119 (164)
T d1zd9a1          78 VDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA  119 (164)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC
T ss_pred             cccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchh
Confidence            9998   8888888887775543 345667789999998754

>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=99.86  E-value=9.3e-22  Score=153.24  Aligned_cols=152  Identities=18%  Similarity=0.224  Sum_probs=110.5

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      ..++.+||+++|++|||||||+++|.++.|.. +.++.+.  ....+..++  +.+.+||++|++.++..+..+++.+|+
T Consensus        12 ~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~-~~~~~~~--~~~~i~~~~--~~~~i~d~~g~~~~~~~~~~~~~~~~~   86 (176)
T d1fzqa_          12 APDQEVRILLLGLDNAGKTTLLKQLASEDISH-ITPTQGF--NIKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDI   86 (176)
T ss_dssp             CCSSCEEEEEEESTTSSHHHHHHHHCCSCCEE-EEEETTE--EEEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSE
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHhcCCCCc-ceeeeee--eEEEeccCC--eeEeEeeccccccchhHHHHHhhccce
Confidence            34567999999999999999999999998854 4566764  444555554  789999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccchh----hhhhcCCCcccccc--ccchh
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKFG----HASSSAMPFPQVWP--CLKFG  166 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~~----~s~~~~~~~~ev~~--~~nv~  166 (231)
                      +|+|||++   +++++..|+.++..... ...+.++++||.|+............    ........+.++++  ..|++
T Consensus        87 ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv~  166 (176)
T d1fzqa_          87 LIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQ  166 (176)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             eEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccccHHHHHHHHHHHHHHhcCCEEEEEeCCCCCCHH
Confidence            99999999   89888888877765544 45567789999999765442211111    11111222334443  56677


Q ss_pred             hhhhhhc
Q psy5781         167 HAFSTSL  173 (231)
Q Consensus       167 e~f~~~~  173 (231)
                      |+|...+
T Consensus       167 e~~~~l~  173 (176)
T d1fzqa_         167 DGMNWVC  173 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776543

>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=99.84  E-value=6.8e-21  Score=146.89  Aligned_cols=116  Identities=24%  Similarity=0.385  Sum_probs=93.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.+||+++|++|||||||+++|.++.+ ..+.||.+..  ...+..++  +.+.+||++|++.++..++.+++.++++++
T Consensus         1 k~~ki~ivG~~~~GKTsLi~~l~~~~~-~~~~~t~~~~--~~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~   75 (165)
T d1ksha_           1 RELRLLMLGLDNAGKTTILKKFNGEDV-DTISPTLGFN--IKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIW   75 (165)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCCC-SSCCCCSSEE--EEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHcCCCC-CcccceEeee--eeeccccc--cceeeeecCcchhhhhHHHhhhhhhhccee
Confidence            468999999999999999999998876 4578998843  34455554  889999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHHH-HHhcCCcceeeecccccCCCCCcc
Q psy5781         100 EVTSV---EYCYQRNWHKQA-VTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~i-~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      |||++   ++.....|+..+ ........+.++++||.|+.....
T Consensus        76 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~  120 (165)
T d1ksha_          76 VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALS  120 (165)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC
T ss_pred             eeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccC
Confidence            99998   777776555444 334455667889999999976443

>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=99.84  E-value=7.5e-21  Score=148.08  Aligned_cols=150  Identities=17%  Similarity=0.241  Sum_probs=107.5

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .+.+||+++|++|||||||++||+++.+.. ..+|.+..+  .....+  .+.+.+||++|++.++..+..++++++++|
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~~--~~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii   84 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNV--ETVTYK--NVKFNVWDVGGQDKIRPLWRHYYTGTQGLI   84 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETTEEE--EEEEET--TEEEEEEEESCCGGGHHHHGGGTTTCCEEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceeeeeE--EEeecc--ceeeEEecCCCcchhhhHHHhhhcccceEE
Confidence            456999999999999999999999888755 456666443  333443  488999999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHH-hcCCcceeeecccccCCCCCccccccchhhh----hhcCCCcccccc--ccchhhh
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVT-LFDKYKFGHAFSTSLAMPQVRPCLFHKFGHA----SSSAMPFPQVWP--CLKFGHA  168 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~-~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s----~~~~~~~~ev~~--~~nv~e~  168 (231)
                      +|||++   ++.++..|+..+.+ ......++++++||.|++.............    ...+..+.++++  ..|++|+
T Consensus        85 ~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~  164 (173)
T d1e0sa_          85 FVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEG  164 (173)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHH
T ss_pred             EEEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccccccHHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHH
Confidence            999999   88888777766554 3455677889999999976443211111111    111112334444  5677777


Q ss_pred             hhhhc
Q psy5781         169 FSTSL  173 (231)
Q Consensus       169 f~~~~  173 (231)
                      |....
T Consensus       165 ~~~l~  169 (173)
T d1e0sa_         165 LTWLT  169 (173)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76543

>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=99.83  E-value=3.8e-21  Score=150.85  Aligned_cols=117  Identities=24%  Similarity=0.363  Sum_probs=91.6

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANG   96 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~   96 (231)
                      ...+.+||+++|++|||||||+++|..+.+.. +.||.+....  .+..++  +.+.+||++|++.++.++..+++.+++
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~~~--~~~~~~--~~~~i~D~~g~~~~~~~~~~~~~~~~~   87 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNVE--TLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAA   87 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTCCEE--EEEETT--EEEEEEEEC----CCTTGGGTTTTEEE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceEEE--EEeeCC--EEEEEEecccccccchhHHhhhcccee
Confidence            35568999999999999999999999887754 5678774443  444444  789999999999999999999999999


Q ss_pred             EEEEEecC---cHhhHHHHHHHHHH-hcCCcceeeecccccCCCCC
Q psy5781          97 VIIEVTSV---EYCYQRNWHKQAVT-LFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        97 vIlV~dit---Sf~~l~~w~~~i~~-~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +++|||++   ++..+..|+.++.+ ......+.++++||.|+...
T Consensus        88 ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~  133 (182)
T d1moza_          88 VIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA  133 (182)
T ss_dssp             EEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC
T ss_pred             EEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccc
Confidence            99999999   88888877766544 33456678899999999764

>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=99.80  E-value=4.5e-20  Score=145.55  Aligned_cols=112  Identities=13%  Similarity=0.076  Sum_probs=95.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.+||++||+.|||||||++||..+.|  .+.||+|.++.  .+.  ...+.+++||++|++.++..+..+++.++++++
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~~--~~~--~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   74 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEY--PFD--LQSVIFRMVDVGGQRSERRKWIHCFENVTSIMF   74 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEEE--EEE--CSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEEE--EEe--ccceeeeeccccccccccccccccccccceeeE
Confidence            469999999999999999999999887  47899996654  333  345889999999999999999999999999999


Q ss_pred             EEecC--------------cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781         100 EVTSV--------------EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       100 V~dit--------------Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      |||.+              .++.+..|...+........+..+++||.|+..
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~  126 (200)
T d2bcjq2          75 LVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLE  126 (200)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHH
T ss_pred             eeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhh
Confidence            99997              245677888888887778888889999987644

>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=99.78  E-value=2.6e-19  Score=136.08  Aligned_cols=146  Identities=14%  Similarity=0.211  Sum_probs=104.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEE
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEV  101 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~  101 (231)
                      +||+++|++|||||||+++|.++++...+..+..   .  ....+...+.+.+||++|...+...+..+++.++++++||
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~---~--~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   75 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGF---N--VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSC---C--EEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceee---E--EEEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEE
Confidence            5999999999999999999999988776554443   1  2234456689999999999999999999999999999999


Q ss_pred             ecC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCccccccch----hhhhhcCCCcccccc--ccchhhhhhh
Q psy5781         102 TSV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVRPCLFHKF----GHASSSAMPFPQVWP--CLKFGHAFST  171 (231)
Q Consensus       102 dit---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~~~~~~~~----~~s~~~~~~~~ev~~--~~nv~e~f~~  171 (231)
                      |++   ++..+..|..++..... ...+..++++|.|+...........    ......+..+.++++  ..|++++|..
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~  155 (160)
T d1r8sa_          76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDW  155 (160)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHH
T ss_pred             EecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHH
Confidence            999   88888888877765544 4556778899988775432111110    012222333444444  5667777754


Q ss_pred             h
Q psy5781         172 S  172 (231)
Q Consensus       172 ~  172 (231)
                      .
T Consensus       156 l  156 (160)
T d1r8sa_         156 L  156 (160)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.78  E-value=1.2e-19  Score=142.41  Aligned_cols=108  Identities=14%  Similarity=0.137  Sum_probs=85.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.+||++||+.|||||||++||..+.|+.     .+.  ....+..  ..+.++|||++|++.++.++..|++.++++++
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~t-----~~~--~~~~~~~--~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~   71 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEAG-----TGI--VETHFTF--KDLHFKMFDVGGQRSERKKWIHCFEGVTAIIF   71 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSCC-----CSE--EEEEEEE--TTEEEEEEEECCSGGGGGGGGGGCTTCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCC-----ccE--EEEEEEe--eeeeeeeeccccccccccchhhcccCCceeee
Confidence            46899999999999999999999877654     442  2223333  45889999999999999999999999999999


Q ss_pred             EEecC---cH-----------hhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781         100 EVTSV---EY-----------CYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus       100 V~dit---Sf-----------~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      |||++   ++           +.+..|...+........+..+++||.|+.
T Consensus        72 v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~  122 (195)
T d1svsa1          72 CVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLF  122 (195)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             EEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhh
Confidence            99998   43           334456666666666677788899988753

>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=99.76  E-value=5.1e-19  Score=139.82  Aligned_cols=111  Identities=17%  Similarity=0.160  Sum_probs=81.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.+||++||++|||||||++||   .|...+.||+|...  ..+..++  +.+.+||++|++.++..+..++++++++++
T Consensus         1 r~iKivllG~~~vGKTsll~r~---~f~~~~~pTiG~~~--~~~~~~~--~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~   73 (200)
T d1zcba2           1 RLVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHE--YDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILF   73 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH---HHHHSCCCCSSEEE--EEEEETT--EEEEEEEECC-------CTTSCTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHH---hcCCCCCCeeeeEE--EEEeeee--eeeeeecccceeeecccccccccccceeEE
Confidence            4699999999999999999999   47778999999544  4555544  789999999999999999999999999999


Q ss_pred             EEecC---cH-------hhHHHHHHHHHH----hcCCcceeeecccccCCCC
Q psy5781         100 EVTSV---EY-------CYQRNWHKQAVT----LFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus       100 V~dit---Sf-------~~l~~w~~~i~~----~~~~~~~~~vv~~k~dl~~  137 (231)
                      |||.+   ++       .....|...+..    ......+.++++||.|+..
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~  125 (200)
T d1zcba2          74 LVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLE  125 (200)
T ss_dssp             EEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHH
T ss_pred             EEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhh
Confidence            99998   22       233344433333    3345677889999998754

>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=99.72  E-value=5.1e-18  Score=137.35  Aligned_cols=113  Identities=17%  Similarity=0.196  Sum_probs=89.2

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGV   97 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~v   97 (231)
                      +++.+||++||++|||||||++||..+.    +.||+|+  ....+.+++  +.+.+||++|++.++..|..++++++++
T Consensus         3 ~k~~~KilllG~~~vGKTsll~~~~~~~----~~pTiG~--~~~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~i   74 (221)
T d1azta2           3 YRATHRLLLLGAGESGKSTIVKQMRILH----VVLTSGI--FETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAI   74 (221)
T ss_dssp             HHHSEEEEEECSTTSSHHHHHHHHHHHH----CCCCCSC--EEEEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEE
T ss_pred             chhcCEEEEECCCCCCHHHHHHHHhcCC----cCCCCCe--EEEEEEECc--EEEEEEecCccceeccchhhhcccccce
Confidence            4568999999999999999999998665    4589994  444566665  7899999999999999999999999999


Q ss_pred             EEEEecCc----------HhhHHHHHHHHHHhc----CCcceeeecccccCCCCC
Q psy5781          98 IIEVTSVE----------YCYQRNWHKQAVTLF----DKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        98 IlV~ditS----------f~~l~~w~~~i~~~~----~~~~~~~vv~~k~dl~~~  138 (231)
                      ++|+|++.          ..++.+++.++...+    ....++++++||.|+...
T Consensus        75 i~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~  129 (221)
T d1azta2          75 IFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAE  129 (221)
T ss_dssp             EEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHH
T ss_pred             EEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhh
Confidence            99999982          123444444444433    345668899999998654

>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=99.67  E-value=6e-16  Score=117.83  Aligned_cols=149  Identities=20%  Similarity=0.236  Sum_probs=103.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEE
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVII   99 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIl   99 (231)
                      +.+||+++|++|||||||+++|+++.|.. ..+|.+...  .....++  +.+.+||.+|.+.+......++...+++++
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~-~~~~~~~~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVT-TIPTIGFNV--ETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   78 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSSEEE--EEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCcc-eecccceee--eeeccCc--eEEEEeeccccccccccchhhhhhhhhhhh
Confidence            45899999999999999999999999875 456766322  3344444  788999999999999999999999999999


Q ss_pred             EEecC---cHhhHHHHHHH-HHHhcCCcceeeecccccCCCCCccccccchh----hhhhcCCCcccccc--ccchhhhh
Q psy5781         100 EVTSV---EYCYQRNWHKQ-AVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG----HASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus       100 V~dit---Sf~~l~~w~~~-i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~----~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      ++|++   ++.....+... +...........++++|.|+.....-......    .......++.++++  ..|++++|
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~  158 (169)
T d1upta_          79 VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAM  158 (169)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHH
T ss_pred             hhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHH
Confidence            99998   66666554444 44444556667789999998765431111110    12222233444444  56677777


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ...+
T Consensus       159 ~~l~  162 (169)
T d1upta_         159 EWLV  162 (169)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6554

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=1.6e-16  Score=126.49  Aligned_cols=115  Identities=18%  Similarity=0.281  Sum_probs=86.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEE-CCeEEEEEEeeCCCccccc-hhhhhcccCCcEEEEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNI-DGKKVKLQIWDTAGQERFR-TITQSYYRSANGVIIE  100 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~~-~~~~~~~~~ad~vIlV  100 (231)
                      +|+++|++|||||||+++|+++.+... .||++.++..  +.+ ++..+.+.+||++|++.++ ..+..+++.++++++|
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~~--~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v   78 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSAI--YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFV   78 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEEE--EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEEE--EEEeeeeeeeeeeeeccccccccchhhhhhhhhccccceE
Confidence            699999999999999999999988764 4777755543  333 4556889999999999875 4678899999999999


Q ss_pred             EecC----cHhhHHHHHHHHHHh---cCCcceeeecccccCCCCCcc
Q psy5781         101 VTSV----EYCYQRNWHKQAVTL---FDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus       101 ~dit----Sf~~l~~w~~~i~~~---~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      ||++    .+.....|+.++...   .....+.++++||.|+....+
T Consensus        79 ~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~~  125 (207)
T d2fh5b1          79 VDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKS  125 (207)
T ss_dssp             EETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCC
T ss_pred             EEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCCC
Confidence            9999    234444555444322   234456678899999987554

>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=99.66  E-value=4.1e-16  Score=117.96  Aligned_cols=112  Identities=17%  Similarity=0.267  Sum_probs=89.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVT  102 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~d  102 (231)
                      ||+++|++|||||||++++.++.+. .+.||.+....  ....  ..+...+||+.|...+...++.++..+++++++||
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~~--~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d   76 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTSE--ELAI--GNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVD   76 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEEE--EECC--TTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeEE--Eecc--CCeeEEEEeeccchhhhhhHhhhhhheeeeeeecc
Confidence            8999999999999999999998875 47788874433  3333  34678899999999999999999999999999999


Q ss_pred             cC---cHhhHHHHHHHHHHhcC-CcceeeecccccCCCCCc
Q psy5781         103 SV---EYCYQRNWHKQAVTLFD-KYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus       103 it---Sf~~l~~w~~~i~~~~~-~~~~~~vv~~k~dl~~~~  139 (231)
                      .+   ++.....|......... ...+..++++|.|++...
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~  117 (166)
T d2qtvb1          77 AADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV  117 (166)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCC
T ss_pred             ccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccC
Confidence            99   66666677766665544 445567888999887643

>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=99.65  E-value=5.7e-16  Score=119.62  Aligned_cols=117  Identities=23%  Similarity=0.331  Sum_probs=87.1

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .+.+||+|+|++|||||||++|+.++++.. ..++.+  .....+...+  +.+.+||+++++..+..+..++..+++++
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~-~~~~~~--~~~~~~~~~~--~~~~~~d~~~~~~~~~~~~~~~~~~~~~i   87 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVH-TSPTIG--SNVEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVI   87 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEE-EECCSC--SSCEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccc--eeEEEEeecc--eEEEEeccccccccccchhhhhccceeee
Confidence            456999999999999999999999998764 334444  2333444444  78899999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHHHHh-cCCcceeeecccccCCCCCcc
Q psy5781          99 IEVTSV---EYCYQRNWHKQAVTL-FDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i~~~-~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      +|+|.+   +++....+....... .....+.++++||.|++....
T Consensus        88 ~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~  133 (177)
T d1zj6a1          88 VVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT  133 (177)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC
T ss_pred             eecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCc
Confidence            999999   777766555544433 335666788999999876544

>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=99.58  E-value=1.3e-14  Score=112.53  Aligned_cols=150  Identities=10%  Similarity=-0.031  Sum_probs=91.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCC--CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch--------hhh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFV--EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT--------ITQ   88 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~--------~~~   88 (231)
                      .+.-+|+|+|.+|||||||++++++.+..  .....+.. +.........+  ..+.+|||+|......        ...
T Consensus         3 ~~~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~-~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~~~   79 (178)
T d1wf3a1           3 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTR-KRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVY   79 (178)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCC-SCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHH
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeecccCCccc-ccccceeeeee--eeeeecccccccccccccchhcccccc
Confidence            34447999999999999999999987542  22222332 23333444454  5788999999754322        234


Q ss_pred             hcccCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcC-CCcccccc--ccc
Q psy5781          89 SYYRSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSA-MPFPQVWP--CLK  164 (231)
Q Consensus        89 ~~~~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~-~~~~ev~~--~~n  164 (231)
                      .++.++|++|+|+|++ .+.....|+.++.+......+.++++||.|+.....-....  .....+ ..+..+++  ..|
T Consensus        80 ~~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~~~piilv~NK~Dl~~~~~~~~~~--~~~~~~~~~~~~iSA~~~~g  157 (178)
T d1wf3a1          80 EALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPEEAMKA--YHELLPEAEPRMLSALDERQ  157 (178)
T ss_dssp             HHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSSHHHHHHH--HHHTSTTSEEEECCTTCHHH
T ss_pred             cccccccceeeeechhhhhcccccchhhheeccccchhhhhhhcccccccCHHHHHHH--HHhhcccCceEEEecCCCCC
Confidence            4578999999999999 55555444444434444455677899999986543211111  111111 11222333  567


Q ss_pred             hhhhhhhhc
Q psy5781         165 FGHAFSTSL  173 (231)
Q Consensus       165 v~e~f~~~~  173 (231)
                      +++.+...+
T Consensus       158 i~~L~~~i~  166 (178)
T d1wf3a1         158 VAELKADLL  166 (178)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888887766

>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=99.57  E-value=4e-15  Score=114.88  Aligned_cols=115  Identities=16%  Similarity=0.202  Sum_probs=81.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhcccCCcEEE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVI   98 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vI   98 (231)
                      .+..||++||++|||||||+++|.++.+.. ..|+.+..  ...+..++  ..+..||+.++..+...+..+++..++++
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~-~~~~~~~~--~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQ-HVPTLHPT--SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   85 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS--CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcc-eecccccc--eeEEEecc--cccccccccchhhhhhHHhhhhcccceee
Confidence            556899999999999999999999988765 44666633  34556666  56789999999999999999999999999


Q ss_pred             EEEecC---cHhhHHHHHHHH-HHhcCCcceeeecccccCCCCC
Q psy5781          99 IEVTSV---EYCYQRNWHKQA-VTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        99 lV~dit---Sf~~l~~w~~~i-~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +|+|++   .+.....+.... ........+.+++++|.|++..
T Consensus        86 ~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~  129 (186)
T d1f6ba_          86 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA  129 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTC
T ss_pred             eeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCcccc
Confidence            999999   555554433333 3344456677888999887654

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.55  E-value=4.7e-15  Score=112.84  Aligned_cols=115  Identities=18%  Similarity=0.169  Sum_probs=80.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccch--------hhhhccc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRT--------ITQSYYR   92 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~--------~~~~~~~   92 (231)
                      +||+++|.+|||||||++++++.+.. ....|....+.....+...+  ..+.+||++|..+...        ....++.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   79 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEIE   79 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC--ceeeeccccccccccccchhHHHHHHHHHHH
Confidence            79999999999999999999976543 22333333334444555665  5678999999643321        2345678


Q ss_pred             CCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          93 SANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        93 ~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      .+|++++++|.+   +++....|...+.+.. ...+.++++||.|+....
T Consensus        80 ~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~-~~~~iilv~NK~Dl~~~~  128 (161)
T d2gj8a1          80 QADRVLFMVDGTTTDAVDPAEIWPEFIARLP-AKLPITVVRNKADITGET  128 (161)
T ss_dssp             TCSEEEEEEETTTCCCCSHHHHCHHHHHHSC-TTCCEEEEEECHHHHCCC
T ss_pred             hccccceeeccccccchhhhhhhhhhhhhcc-cccceeeccchhhhhhhH
Confidence            999999999999   6666677766665544 445567999999976543

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.47  E-value=2.2e-14  Score=113.37  Aligned_cols=114  Identities=14%  Similarity=0.144  Sum_probs=81.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccchhhhhc----ccCCcE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFRTITQSY----YRSANG   96 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~----~~~ad~   96 (231)
                      .-+|+++|++|||||||+++|+++++.+    +...+.....  ++.....+.+||++|++.+...+..+    ...++.
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~~~~~----~tt~~~~~~~--~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~   76 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTDSVRP----TVVSQEPLSA--ADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKG   76 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSSCCC----BCCCSSCEEE--TTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCC----eEEecceEEE--EEeCCeEEEEEecccccchhhHHHHHHHHHhhhccc
Confidence            4589999999999999999999887643    3322233233  33334568899999998776655544    445689


Q ss_pred             EEEEEecC----cHhhHHHHHHHH----HHhcCCcceeeecccccCCCCCcc
Q psy5781          97 VIIEVTSV----EYCYQRNWHKQA----VTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        97 vIlV~dit----Sf~~l~~w~~~i----~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      +++++|..    +++.+..|+..+    ........+.++++||.|+.....
T Consensus        77 ~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~  128 (209)
T d1nrjb_          77 LIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  128 (209)
T ss_dssp             EEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             cceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccCc
Confidence            99999977    677777666544    444556667788999999876543

>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=99.40  E-value=2.1e-13  Score=105.69  Aligned_cols=149  Identities=7%  Similarity=-0.079  Sum_probs=86.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcccc-------chhhhhcccCCc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF-------RTITQSYYRSAN   95 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~-------~~~~~~~~~~ad   95 (231)
                      .|.++|.+|||||||++++++........+......... +........+.+|||+|....       .......+..++
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLG-VVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTR   81 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEE-EEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeec-eeeecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhh
Confidence            489999999999999999987553221111111112211 222223356889999994321       112234567899


Q ss_pred             EEEEEEecC--cHhhHHHHHHHHHHhcC--CcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchhhhh
Q psy5781          96 GVIIEVTSV--EYCYQRNWHKQAVTLFD--KYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFGHAF  169 (231)
Q Consensus        96 ~vIlV~dit--Sf~~l~~w~~~i~~~~~--~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~e~f  169 (231)
                      ++++++|..  .+..+..|...+.....  ..+..++++||.|+........ ........+.++..+++  ..|+++.+
T Consensus        82 ~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~~~~~~-~~~~~~~~~~~~~~iSA~tg~gid~L~  160 (180)
T d1udxa2          82 VLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEEAVKA-LADALAREGLAVLPVSALTGAGLPALK  160 (180)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHHHHHH-HHHHHHTTTSCEEECCTTTCTTHHHHH
T ss_pred             hhhhhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhhhhHHHHHH-HHHHHHhcCCeEEEEEcCCCCCHHHHH
Confidence            999999987  44555555555443321  2345668899999976543211 11122334455555555  56777777


Q ss_pred             hhhc
Q psy5781         170 STSL  173 (231)
Q Consensus       170 ~~~~  173 (231)
                      ....
T Consensus       161 ~~i~  164 (180)
T d1udxa2         161 EALH  164 (180)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=99.36  E-value=1.4e-13  Score=104.29  Aligned_cols=141  Identities=13%  Similarity=0.106  Sum_probs=79.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCCC-CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc---------hhhhhcc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFVE-KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR---------TITQSYY   91 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~~-~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~---------~~~~~~~   91 (231)
                      +||+++|.+|||||||++++++.+... ...+..........+..++  ..+.+||++|.....         ......+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~   78 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEI   78 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC--eeEEeccccccccCCccHHHHHHHHHHHHHH
Confidence            699999999999999999998765321 1122221122333445555  678899999942110         1122236


Q ss_pred             cCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--ccchh
Q psy5781          92 RSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CLKFG  166 (231)
Q Consensus        92 ~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~nv~  166 (231)
                      ..+|++++|+|.+   +.+.     ..+...... ....++.+|.|......  ..+.........++..++.  ..|++
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~-----~~~~~~~~~-~~~i~~~~k~d~~~~~~--~~~~~~~~~~~~~~~~vSA~~g~gi~  150 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEED-----RKILERIKN-KRYLVVINKVDVVEKIN--EEEIKNKLGTDRHMVKISALKGEGLE  150 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHH-----HHHHHHHTT-SSEEEEEEECSSCCCCC--HHHHHHHHTCSTTEEEEEGGGTCCHH
T ss_pred             HhCCEEEEEEeCCCCcchhh-----hhhhhhccc-ccceeeeeeccccchhh--hHHHHHHhCCCCcEEEEECCCCCCHH
Confidence            7899999999999   2222     222222233 34557778888765432  1111111122233333333  55666


Q ss_pred             hhhhhh
Q psy5781         167 HAFSTS  172 (231)
Q Consensus       167 e~f~~~  172 (231)
                      +.+...
T Consensus       151 ~L~~~I  156 (160)
T d1xzpa2         151 KLEESI  156 (160)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666543

>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=6.6e-12  Score=97.27  Aligned_cols=115  Identities=20%  Similarity=0.144  Sum_probs=71.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc------------h
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR------------T   85 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~------------~   85 (231)
                      ..+||+++|.+|||||||++++++...  ...+..+.. ......+..++  ..+.++|++|.....            .
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~-~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~   83 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTR-DPVDDEVFIDG--RKYVFVDTAGLRRKSRVEPRTVEKYSNY   83 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC-------CCEEEEETT--EEEEESSCSCC-----------CCSCCH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcceeeccccccc-ccceeeeccCC--ceeeeeccCCccccccccccccccchhH
Confidence            359999999999999999999997653  233333322 22223455665  457888998864322            2


Q ss_pred             hhhhcccCCcEEEEEEecC-cHhh-HHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          86 ITQSYYRSANGVIIEVTSV-EYCY-QRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        86 ~~~~~~~~ad~vIlV~dit-Sf~~-l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      ....+++.+|++++|+|.+ .+.. ...|...+.+   .....++++||.|+.....
T Consensus        84 ~~~~~~~~~dvii~v~d~~~~~~~~~~~~~~~~~~---~~~~~i~v~nK~D~~~~~~  137 (186)
T d1mkya2          84 RVVDSIEKADVVVIVLDATQGITRQDQRMAGLMER---RGRASVVVFNKWDLVVHRE  137 (186)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHH---TTCEEEEEEECGGGSTTGG
T ss_pred             HHHHHHhcCCEEEEeecccccchhhHHHHHHHHHH---cCCceeeeccchhhhcchh
Confidence            2344567899999999999 4333 3444444433   2345667899998765443

>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=99.30  E-value=1.6e-12  Score=99.71  Aligned_cols=111  Identities=15%  Similarity=0.096  Sum_probs=66.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCC--CCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc---------cchhhhhcc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFV--EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER---------FRTITQSYY   91 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~---------~~~~~~~~~   91 (231)
                      .|+++|.+|||||||+++|++....  ..+..+.. ......+...  ...+.+||++|...         +......++
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~-~~~~~~~~~~--~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   78 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTR-DPVQDTVEWY--GKTFKLVDTCGVFDNPQDIISQKMKEVTLNMI   78 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC---------------CCSEEEEEET--TEEEEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceee-cccccccccc--ccccccccccceeeeecccccccccccccccc
Confidence            6899999999999999999976542  22222221 1222233333  36788999998421         122334457


Q ss_pred             cCCcEEEEEEecC-cH-hhHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          92 RSANGVIIEVTSV-EY-CYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        92 ~~ad~vIlV~dit-Sf-~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      ..+|+++++.|.+ .+ .....|...++..   ..+.++++||.|+....
T Consensus        79 ~~ad~i~~~~~~~~~~~~~~~~~~~~l~~~---~~pviiv~NK~Dl~~~~  125 (171)
T d1mkya1          79 READLVLFVVDGKRGITKEDESLADFLRKS---TVDTILVANKAENLREF  125 (171)
T ss_dssp             TTCSEEEEEEETTTCCCHHHHHHHHHHHHH---TCCEEEEEESCCSHHHH
T ss_pred             ccCcEEEEeecccccccccccccccccccc---cccccccchhhhhhhhh
Confidence            7899999999998 33 3334555555532   23456888999986543

>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=99.24  E-value=1.2e-11  Score=95.32  Aligned_cols=110  Identities=14%  Similarity=0.148  Sum_probs=66.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCcc---------------ccchhh
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE---------------RFRTIT   87 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~---------------~~~~~~   87 (231)
                      .|+++|.+|||||||+|++++.+......|  |.+.....+...+    +.|||++|..               .+....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~--g~T~~~~~~~~~~----~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~   75 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRP--GVTRKIIEIEWKN----HKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   75 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSST--TCTTSCEEEEETT----EEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCC--CEeeccccccccc----ceecccCCceeccccccccccccchhhhhhh
Confidence            589999999999999999998765332222  2112222333333    5789999941               111223


Q ss_pred             hhcccCCcEEEEEEecC-cHhhHHHHHH---------HHHHhcCCcceeeecccccCCCCC
Q psy5781          88 QSYYRSANGVIIEVTSV-EYCYQRNWHK---------QAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit-Sf~~l~~w~~---------~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ...++.+|++++|+|.+ .......|..         .+........+.++++||.|+...
T Consensus        76 ~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~~~p~iiv~NK~D~~~~  136 (184)
T d2cxxa1          76 EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKN  136 (184)
T ss_dssp             HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSC
T ss_pred             hhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHcCCCEEEEEeeeehhhh
Confidence            44567899999999998 3222222211         112222234556788999997654

>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=99.17  E-value=8.8e-11  Score=90.82  Aligned_cols=114  Identities=10%  Similarity=0.002  Sum_probs=73.3

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcc--cc---eeeEE--EEEEEEECCeEEEEEEeeCCCccccchhhhhcc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTG--NT---IGVDF--SMKTVNIDGKKVKLQIWDTAGQERFRTITQSYY   91 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~--pt---~~~~~--~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~   91 (231)
                      .+.++|.++|.+++|||||++++++..-.....  ++   .+...  ....+..++  ..+.++|++|+.++.......+
T Consensus         3 ~k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~l   80 (179)
T d1wb1a4           3 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSAA   80 (179)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHHT
T ss_pred             CCCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCC--ccccccccccccccccchhhhh
Confidence            467899999999999999999998643221111  10   01111  111222233  6788999999999988888899


Q ss_pred             cCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          92 RSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        92 ~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      ..+|++++|+|.+   ..+....| ..+.   ....+.+++.||.|+...
T Consensus        81 ~~~d~~ilv~d~~~g~~~~~~~~~-~~~~---~~~~p~iiv~NKiD~~~~  126 (179)
T d1wb1a4          81 DIIDLALIVVDAKEGPKTQTGEHM-LILD---HFNIPIIVVITKSDNAGT  126 (179)
T ss_dssp             TSCCEEEEEEETTTCSCHHHHHHH-HHHH---HTTCCBCEEEECTTSSCH
T ss_pred             hhccccccccccccccchhhhhhh-hhhh---hcCCcceeccccccccCH
Confidence            9999999999999   22222222 2222   223456688899998764

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.10  E-value=4.7e-11  Score=96.06  Aligned_cols=113  Identities=17%  Similarity=0.099  Sum_probs=71.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCCCCCCccccee--eEEEEEE--------------EEECCeEEEEEEeeCCCccccchhh
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIG--VDFSMKT--------------VNIDGKKVKLQIWDTAGQERFRTIT   87 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~--~~~~~~~--------------~~~~~~~~~l~i~D~~G~~~~~~~~   87 (231)
                      |+|+|.+++|||||+++++...........+.  .......              ..++.....+.++||||++.|....
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~~   87 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLR   87 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSB
T ss_pred             EEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccccc
Confidence            99999999999999999986432111100000  0000000              0112233568899999999998888


Q ss_pred             hhcccCCcEEEEEEecC-cHhhH-HHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          88 QSYYRSANGVIIEVTSV-EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit-Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      ...+..+|++|+|+|.. .++.. ...+..+.   ....+.+++.||.|+....
T Consensus        88 ~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~---~~~~p~iivlNK~D~~~~~  138 (227)
T d1g7sa4          88 KRGGALADLAILIVDINEGFKPQTQEALNILR---MYRTPFVVAANKIDRIHGW  138 (227)
T ss_dssp             CSSSBSCSEEEEEEETTTCCCHHHHHHHHHHH---HTTCCEEEEEECGGGSTTC
T ss_pred             hhcccccceEEEEEecccCcccchhHHHHHhh---cCCCeEEEEEECccCCCch
Confidence            88899999999999998 33322 12222222   2344566888999987643

>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=99.07  E-value=3.8e-11  Score=92.91  Aligned_cols=147  Identities=12%  Similarity=0.054  Sum_probs=78.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC-CCCcccceeeEEEEEEEEE-CCeEEEEEEeeCCCccc----cchhh---hhcccC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTIGVDFSMKTVNI-DGKKVKLQIWDTAGQER----FRTIT---QSYYRS   93 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~----~~~~~---~~~~~~   93 (231)
                      +|.++|.+|||||||+|++++.+. ...+.++.. +.......+ ++  ..+.+|||+|..+    ...+.   ...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~-~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~   79 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTL-VPNLGMVETDDG--RSFVMADLPGLIEGAHQGVGLGHQFLRHIER   79 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCC-CCCEEEEECSSS--CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceE-eeeeceeEecCC--cEEEEecCCCcccCchHHHHHHHHHHHHHHH
Confidence            689999999999999999986553 222323221 122223333 33  3578999999532    11111   123456


Q ss_pred             CcEEEEEEecC---cHh--hHHHHHHHHHHhcC---CcceeeecccccCCCCCccccccchhhhhhcCCCcccccc--cc
Q psy5781          94 ANGVIIEVTSV---EYC--YQRNWHKQAVTLFD---KYKFGHAFSTSLAMPQVRPCLFHKFGHASSSAMPFPQVWP--CL  163 (231)
Q Consensus        94 ad~vIlV~dit---Sf~--~l~~w~~~i~~~~~---~~~~~~vv~~k~dl~~~~~~~~~~~~~s~~~~~~~~ev~~--~~  163 (231)
                      ++.++++.+..   ...  ....+.........   ..++.++++||.|+.....- ..........+.++..+++  ..
T Consensus        80 ~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~v~~iSA~~g~  158 (185)
T d1lnza2          80 TRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAEN-LEAFKEKLTDDYPVFPISAVTRE  158 (185)
T ss_dssp             CCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHHHH-HHHHHHHCCSCCCBCCCSSCCSS
T ss_pred             hhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHHHH-HHHHHHHhccCCcEEEEECCCCC
Confidence            78888888766   222  22222222222222   23456788999999764321 1111111122334444444  56


Q ss_pred             chhhhhhhhc
Q psy5781         164 KFGHAFSTSL  173 (231)
Q Consensus       164 nv~e~f~~~~  173 (231)
                      |+++.+....
T Consensus       159 Gi~~L~~~i~  168 (185)
T d1lnza2         159 GLRELLFEVA  168 (185)
T ss_dssp             TTHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            6777766543

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.01  E-value=3.2e-10  Score=89.75  Aligned_cols=112  Identities=13%  Similarity=0.092  Sum_probs=72.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC--------CCC----CCccc-----ceeeEEEEEEEEECCeEEEEEEeeCCCcccc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG--------DFV----EKTGN-----TIGVDFSMKTVNIDGKKVKLQIWDTAGQERF   83 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~--------~f~----~~~~p-----t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~   83 (231)
                      .++|+++|..++|||||+.+++..        .+.    .++.+     -+-++.....+..++  ..+.|.||||+.+|
T Consensus         3 ~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~--~~i~iiDtPGh~df   80 (204)
T d2c78a3           3 HVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK--RHYSHVDCPGHADY   80 (204)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSS--CEEEEEECCCSGGG
T ss_pred             CeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCC--eEEEEEeCCCchhh
Confidence            489999999999999999999631        000    01111     111122323444444  57789999999999


Q ss_pred             chhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          84 RTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        84 ~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ......-++.+|++|||+|.+   ..+..+.|. .+...  +-+..+++.||.|+..
T Consensus        81 ~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~-~~~~~--gi~~iiv~iNK~D~~~  134 (204)
T d2c78a3          81 IKNMITGAAQMDGAILVVSAADGPMPQTREHIL-LARQV--GVPYIVVFMNKVDMVD  134 (204)
T ss_dssp             HHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHH-HHHHT--TCCCEEEEEECGGGCC
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHH-HHHHc--CCCeEEEEEEecccCC
Confidence            888888889999999999998   333333333 22221  1223445689999754

>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=98.98  E-value=7.6e-10  Score=86.16  Aligned_cols=111  Identities=14%  Similarity=0.058  Sum_probs=60.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc----------c---chhh
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER----------F---RTIT   87 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~----------~---~~~~   87 (231)
                      .-+|+++|.+|||||||++++++.+......+..+............   .+.+.|+.|...          .   ....
T Consensus        23 ~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~   99 (195)
T d1svia_          23 LPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIETY   99 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccccc---cceEEEEEeeccccccccccchhhhHHhhh
Confidence            34899999999999999999997654333333332222222233332   233455544211          1   1122


Q ss_pred             hhcccCCcEEEEEEecC-cHhhH-HHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          88 QSYYRSANGVIIEVTSV-EYCYQ-RNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit-Sf~~l-~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      ...+..++++++|.|.+ .+... ..+++.+..   ...+.++++||.|+..
T Consensus       100 ~~~~~~~~~vi~viD~~~~~~~~~~~~~~~l~~---~~~piivv~NK~D~~~  148 (195)
T d1svia_         100 ITTREELKAVVQIVDLRHAPSNDDVQMYEFLKY---YGIPVIVIATKADKIP  148 (195)
T ss_dssp             HHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH---TTCCEEEEEECGGGSC
T ss_pred             hccccchhhhhhhhhcccccccccccccccccc---ccCcceechhhccccC
Confidence            33455789999999998 33332 344444443   2345778999999754

>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=98.97  E-value=7.8e-10  Score=86.96  Aligned_cols=114  Identities=15%  Similarity=0.082  Sum_probs=75.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcC----------------CCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSG----------------DFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR   84 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~----------------~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~   84 (231)
                      .++|+++|..++|||||+++++..                ....+  ..-|+......+.++.....+.+.|++|+.+|.
T Consensus         3 ~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~E--r~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~   80 (196)
T d1d2ea3           3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEE--RARGITINAAHVEYSTAARHYAHTDCPGHADYV   80 (196)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEE--EETTEEEECEEEEEECSSCEEEEEECSSHHHHH
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhh--cCCCccCCcceEEEEeceeeEEeecCcchHHHH
Confidence            479999999999999999999741                11111  112233333334444445678999999999998


Q ss_pred             hhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          85 TITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        85 ~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      .....-++.+|++|||+|.+  -.+.-++.+..+..  -..+..+++.||.|+..+
T Consensus        81 ~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~a~~--~~~~~iIv~iNK~D~~~~  134 (196)
T d1d2ea3          81 KNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQ--IGVEHVVVYVNKADAVQD  134 (196)
T ss_dssp             HHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHH--TTCCCEEEEEECGGGCSC
T ss_pred             HHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHHHHH--hcCCcEEEEEeccccccc
Confidence            88778889999999999999  22222222222222  123445677899997653

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.97  E-value=5e-09  Score=79.84  Aligned_cols=150  Identities=11%  Similarity=-0.015  Sum_probs=80.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCC-CCcccceeeEEEEEEEEECCeEEEEEEeeCCCcccc---------chhhh
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFV-EKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERF---------RTITQ   88 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~---------~~~~~   88 (231)
                      .+.=.|+++|.+|||||||++++++.+.. ..+.++............+.  ..+..||++|....         .....
T Consensus         3 ~~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (179)
T d1egaa1           3 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAAS   80 (179)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTT
T ss_pred             ccccEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCC--ceeEeecCCCceecchhhhhhhhhhccc
Confidence            44556999999999999999999976542 22222222122222223333  34556787764321         11223


Q ss_pred             hcccCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCccccccchh-hhhhcC-CCcccccc--cc
Q psy5781          89 SYYRSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRPCLFHKFG-HASSSA-MPFPQVWP--CL  163 (231)
Q Consensus        89 ~~~~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~~~~~~~~-~s~~~~-~~~~ev~~--~~  163 (231)
                      .+...+++++++.|.+ .......+...+.+   ......++.++.|............. .....+ .++..+++  ..
T Consensus        81 ~~~~~~~~~l~~~d~~~~~~~~~~~~~~l~~---~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~  157 (179)
T d1egaa1          81 SSIGDVELVIFVVEGTRWTPDDEMVLNKLRE---GKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGL  157 (179)
T ss_dssp             SCCCCEEEEEEEEETTCCCHHHHHHHHHHHS---SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTT
T ss_pred             cchhhcceeEEEEecCccchhHHHHHHHhhh---ccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCCC
Confidence            3445678888888888 55554455544443   23334566677666554332111111 122221 22333443  66


Q ss_pred             chhhhhhhhc
Q psy5781         164 KFGHAFSTSL  173 (231)
Q Consensus       164 nv~e~f~~~~  173 (231)
                      |+++.+...+
T Consensus       158 gi~~L~~~i~  167 (179)
T d1egaa1         158 NVDTIAAIVR  167 (179)
T ss_dssp             THHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            7888777765

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=98.89  E-value=8.5e-09  Score=84.11  Aligned_cols=119  Identities=15%  Similarity=0.034  Sum_probs=75.0

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCC-CC-CcccceeeEEEEEEEEECCeEEEEEEeeCCCccccc-------hhhh
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDF-VE-KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQERFR-------TITQ   88 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f-~~-~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~-------~~~~   88 (231)
                      ....++|+++|.+|||||||+|.+++... .. ...++.. +........+|  ..+.++||+|-.+..       ....
T Consensus        29 ~~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~-~~~~~~~~~~g--~~i~viDTPGl~~~~~~~~~~~~~i~  105 (257)
T d1h65a_          29 DVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGP-RPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIK  105 (257)
T ss_dssp             TCCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCS-SCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcce-eEEEEEEEecc--EEEEEEeeecccCCcchHHHHHHHHH
Confidence            34579999999999999999999997653 22 2223322 22333445666  568899999953211       1111


Q ss_pred             --hcccCCcEEEEEEecC--cHhhH-HHHHHHHHHhcCCcc--eeeecccccCCCCCc
Q psy5781          89 --SYYRSANGVIIEVTSV--EYCYQ-RNWHKQAVTLFDKYK--FGHAFSTSLAMPQVR  139 (231)
Q Consensus        89 --~~~~~ad~vIlV~dit--Sf~~l-~~w~~~i~~~~~~~~--~~~vv~~k~dl~~~~  139 (231)
                        ......+++++|.+++  .+... ...++.+.+.++...  ..+++.++.|.....
T Consensus       106 ~~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~  163 (257)
T d1h65a_         106 SFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPD  163 (257)
T ss_dssp             HHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGG
T ss_pred             HHHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCcC
Confidence              1223568899998887  33333 455666666665543  356788888876543

>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=98.79  E-value=2.6e-08  Score=77.50  Aligned_cols=120  Identities=13%  Similarity=0.081  Sum_probs=74.5

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCC---c--ccceeeEEEEEEEEE-------------------CCeEEEEE
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEK---T--GNTIGVDFSMKTVNI-------------------DGKKVKLQ   73 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~---~--~pt~~~~~~~~~~~~-------------------~~~~~~l~   73 (231)
                      ++..++|+++|..++|||||++++++......   .  -.|....+.......                   ......+.
T Consensus         2 ~~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (195)
T d1kk1a3           2 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVS   81 (195)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEE
T ss_pred             CCCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEe
Confidence            45678999999999999999999986321110   0  011111111111111                   11245689


Q ss_pred             EeeCCCccccchhhhhcccCCcEEEEEEecC--cHh-hHHHHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          74 IWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYC-YQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        74 i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~-~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      +.|++|++.|......-+..+|++++|.|..  ... ...+-+..+...  ..+..+++.||.|+....
T Consensus        82 ~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~--~~~~iiv~inK~D~~d~~  148 (195)
T d1kk1a3          82 FIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII--GQKNIIIAQNKIELVDKE  148 (195)
T ss_dssp             EEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH--TCCCEEEEEECGGGSCHH
T ss_pred             eeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHh--cCccceeeeecccchhhH
Confidence            9999999999888788888999999999999  222 222222222222  234456778888876543

>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=98.78  E-value=5.1e-09  Score=83.70  Aligned_cols=115  Identities=16%  Similarity=0.191  Sum_probs=70.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCC--C-----------------------------CCCcccceeeEEEEEEEEECCeE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGD--F-----------------------------VEKTGNTIGVDFSMKTVNIDGKK   69 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~--f-----------------------------~~~~~pt~~~~~~~~~~~~~~~~   69 (231)
                      .++|+++|.-+.|||||+.+++...  .                             ..+...  |..........+...
T Consensus         3 ~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~r--g~ti~~~~~~~~~~~   80 (224)
T d1jnya3           3 HLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERER--GVTINLTFMRFETKK   80 (224)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-------------CEEECSS
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcC--CccccceEEEEecCC
Confidence            5799999999999999999885310  0                             000011  111111112222334


Q ss_pred             EEEEEeeCCCccccchhhhhcccCCcEEEEEEecC-cH-h----hHHHHHHHHHHhc-CCcceeeecccccCCCC
Q psy5781          70 VKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-EY-C----YQRNWHKQAVTLF-DKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-Sf-~----~l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~  137 (231)
                      ..+.|.||||+..|......-.+-+|++|||+|.. -. .    -.....+++.-.. -+.+..+++.||.|+..
T Consensus        81 ~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~~~  155 (224)
T d1jnya3          81 YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTE  155 (224)
T ss_dssp             CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSS
T ss_pred             ceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEcccCCC
Confidence            67999999999999998888999999999999999 11 1    1112222222111 23344567799998764

>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=98.78  E-value=2.3e-08  Score=79.83  Aligned_cols=119  Identities=17%  Similarity=0.169  Sum_probs=75.0

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHHc--CCCCC-------------------------------CcccceeeEEEEEEE
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFRS--GDFVE-------------------------------KTGNTIGVDFSMKTV   63 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~~--~~f~~-------------------------------~~~pt~~~~~~~~~~   63 (231)
                      ++.-.+||+++|...+|||||+.+++.  +....                               +....+.++.....+
T Consensus         5 ~~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~   84 (222)
T d1zunb3           5 ERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYF   84 (222)
T ss_dssp             TSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEE
T ss_pred             ccCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEE
Confidence            455779999999999999999999963  11110                               000111111222222


Q ss_pred             EECCeEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          64 NIDGKKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        64 ~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      ..+  ...+.|.|+||++.|......-...+|++|||.|..   .-+..+.|.  +... .+-+.++++.||.|+....+
T Consensus        85 ~~~--~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~--~~~~-~gv~~iiv~vNK~D~~~~~~  159 (222)
T d1zunb3          85 STA--KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSY--IASL-LGIKHIVVAINKMDLNGFDE  159 (222)
T ss_dssp             ECS--SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHH--HHHH-TTCCEEEEEEECTTTTTSCH
T ss_pred             ecc--ceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHHH--HHHH-cCCCEEEEEEEccccccccc
Confidence            333  357899999999999887777888999999999999   222211111  1111 12344667889999876443

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.78  E-value=7.1e-09  Score=89.87  Aligned_cols=111  Identities=14%  Similarity=0.117  Sum_probs=64.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccce---eeEEEEEEEEECCeEEEEEEeeCCCccccch-----hhhhcc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTI---GVDFSMKTVNIDGKKVKLQIWDTAGQERFRT-----ITQSYY   91 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~---~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~-----~~~~~~   91 (231)
                      ..++|+|+|.+|||||||+|.+++....+.-....   +.......+...+ .-.+.||||+|......     +....+
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~-~~~~~l~DtPG~~~~~~~~~~~~~~~~~  133 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPN-IPNVVFWDLPGIGSTNFPPDTYLEKMKF  133 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSS-CTTEEEEECCCGGGSSCCHHHHHHHTTG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccC-CCeEEEEeCCCcccccccHHHHHHHhhh
Confidence            36899999999999999999999754322111111   1111112222221 22477999999653221     223345


Q ss_pred             cCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCC
Q psy5781          92 RSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAM  135 (231)
Q Consensus        92 ~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl  135 (231)
                      ..+|.++++.|.. +-.+ ..+.+.+.+   ..+..+++.||.|.
T Consensus       134 ~~~d~~l~~~~~~~~~~d-~~l~~~l~~---~~k~~~~V~nK~D~  174 (400)
T d1tq4a_         134 YEYDFFIIISATRFKKND-IDIAKAISM---MKKEFYFVRTKVDS  174 (400)
T ss_dssp             GGCSEEEEEESSCCCHHH-HHHHHHHHH---TTCEEEEEECCHHH
T ss_pred             hcceEEEEecCCCCCHHH-HHHHHHHHH---cCCCEEEEEeCccc
Confidence            6788888887766 3222 233444443   24556677888774

>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=5.6e-08  Score=76.26  Aligned_cols=120  Identities=13%  Similarity=0.106  Sum_probs=72.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcCCCCC---Ccc--cceeeEEEEEEEEE------------------------CCeE
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSGDFVE---KTG--NTIGVDFSMKTVNI------------------------DGKK   69 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~---~~~--pt~~~~~~~~~~~~------------------------~~~~   69 (231)
                      +..++|+++|...+|||||++++++..-..   +..  .+.........+..                        ....
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFL   85 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEE
T ss_pred             CCCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccce
Confidence            344799999999999999999998532110   000  00000000011111                        0113


Q ss_pred             EEEEEeeCCCccccchhhhhcccCCcEEEEEEecC-cHhhHH--HHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          70 VKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV-EYCYQR--NWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit-Sf~~l~--~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      ..+.+.|++|+..|....-..+..+|++|+|.|.. .+...+  +-+..+ ... +.+..+++.||.|+.....
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~-~~~-~i~~iIV~vNK~Dl~~~~~  157 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVAL-GII-GVKNLIIVQNKVDVVSKEE  157 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHH-HHT-TCCCEEEEEECGGGSCHHH
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHH-HHc-CCceeeeccccCCCccchH
Confidence            46899999999999887777788999999999999 442222  122122 212 2334567799999876543

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=98.73  E-value=1.7e-08  Score=82.86  Aligned_cols=107  Identities=17%  Similarity=0.210  Sum_probs=74.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC--CCCC-----------C-------cccceeeEEEEEEEEECCeEEEEEEeeCCCcc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG--DFVE-----------K-------TGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE   81 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~--~f~~-----------~-------~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~   81 (231)
                      -+|+++|..++|||||+.+++..  ....           +       ...|+.  .....+..++  .+++|+||||+.
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~--~~~~~~~~~~--~~~n~iDtPGh~   78 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVR--TGVAPLLFRG--HRVFLLDAPGYG   78 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCS--CEEEEEEETT--EEEEEEECCCSG
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEE--eecccccccc--cceeEEccCchh
Confidence            36999999999999999999632  1100           0       111222  2334455565  678999999999


Q ss_pred             ccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          82 RFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        82 ~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      +|.......++-+|++|+|.|..   .-...+.|....    ....+.+++.||.|..
T Consensus        79 dF~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~----~~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          79 DFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAE----RLGLPRMVVVTKLDKG  132 (267)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHH----HTTCCEEEEEECGGGC
T ss_pred             hhhhhhhhhhcccCceEEEeeccCCccchhHHHHHhhh----hccccccccccccccc
Confidence            99998889999999999999999   444444454332    2234456778998854

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.70  E-value=6e-08  Score=79.75  Aligned_cols=115  Identities=17%  Similarity=0.200  Sum_probs=77.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc--CCCCC-----------Cc-----ccceeeEEEEEEEEECCeEEEEEEeeCCCcc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS--GDFVE-----------KT-----GNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE   81 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~--~~f~~-----------~~-----~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~   81 (231)
                      +.-+|+++|..++|||||+.+++.  +....           ++     ...+.+......+..++  .+++|.||||..
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~--~~~n~iDtPG~~   82 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDAPGHV   82 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETT--EEEEEECCCSSS
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCC--eEEEEecCCchh
Confidence            344799999999999999999963  11110           00     00111112223445555  679999999999


Q ss_pred             ccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCCCCcc
Q psy5781          82 RFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQVRP  140 (231)
Q Consensus        82 ~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~~~  140 (231)
                      +|.......++-+|++|+|+|..   .-....-|...-    ....+.+++.||.|-.....
T Consensus        83 dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a~----~~~lP~i~fINKmDr~~ad~  140 (276)
T d2bv3a2          83 DFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAE----KYKVPRIAFANKMDKTGADL  140 (276)
T ss_dssp             SCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHHHH----TTTCCEEEEEECTTSTTCCH
T ss_pred             hhHHHHHHHHHhhhheEEeccccCCcchhHHHHHHHHH----HcCCCEEEEEeccccccccc
Confidence            99998899999999999999999   334444453322    33555678899998877443

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=98.69  E-value=2.8e-09  Score=81.37  Aligned_cols=30  Identities=17%  Similarity=0.285  Sum_probs=24.9

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFV   47 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~   47 (231)
                      .+..+||+++|.+|||||||+|++.+.+..
T Consensus        13 ~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~   42 (188)
T d1puia_          13 SDTGIEVAFAGRSNAGKSSALNTLTNQKSL   42 (188)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC---
T ss_pred             CccCCEEEEECCCCCCHHHHHHHHhCCCce
Confidence            556899999999999999999999887653

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.68  E-value=3.1e-08  Score=83.90  Aligned_cols=111  Identities=13%  Similarity=0.161  Sum_probs=74.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc--CCCC--------------CCcc--cceeeEEEEEEEEE--------------CC
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS--GDFV--------------EKTG--NTIGVDFSMKTVNI--------------DG   67 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~--~~f~--------------~~~~--pt~~~~~~~~~~~~--------------~~   67 (231)
                      ..-+|+++|..+.|||||+.+++.  +...              ++..  -|+.  .....+..              ++
T Consensus        16 ~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~--~~~~~l~~~~~~~~~~~~~~~~~~   93 (341)
T d1n0ua2          16 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIK--STAISLYSEMSDEDVKEIKQKTDG   93 (341)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBC--CCEEEEEEECCHHHHHHCSSCCCS
T ss_pred             cCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEe--CCEEEEEeccCcccccchhccccc
Confidence            333599999999999999999972  1110              0000  1111  11111211              34


Q ss_pred             eEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC---cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          68 KKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV---EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        68 ~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit---Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      +.+.++|.||||+.+|.......++-+|++|+|+|..   ..+...-|...+.    ...+.+++.||+|-.
T Consensus        94 ~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~----~~~p~i~viNKiDr~  161 (341)
T d1n0ua2          94 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRA  161 (341)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHH
T ss_pred             cceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHH----cCCCeEEEEECcccc
Confidence            6788999999999999998889999999999999999   4554445554432    334566778887643

>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=98.56  E-value=6.6e-08  Score=77.94  Aligned_cols=117  Identities=14%  Similarity=0.132  Sum_probs=74.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc--CCCC-----------------------------CCcccceeeEEEEEEEEECCeE
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS--GDFV-----------------------------EKTGNTIGVDFSMKTVNIDGKK   69 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~--~~f~-----------------------------~~~~pt~~~~~~~~~~~~~~~~   69 (231)
                      .++|+++|....|||||+.+++.  +...                             ++...-+.++.....+..++  
T Consensus         6 ~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~--   83 (239)
T d1f60a3           6 HINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK--   83 (239)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS--
T ss_pred             ccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCC--
Confidence            48999999999999999999963  1100                             00111122223334445544  


Q ss_pred             EEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHhhH---H-HHHHHHHHh-cCCcceeeecccccCCCCCc
Q psy5781          70 VKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYCYQ---R-NWHKQAVTL-FDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~~l---~-~w~~~i~~~-~~~~~~~~vv~~k~dl~~~~  139 (231)
                      .+++|.|+||+.+|......-...+|++|||.|.+  -|+.-   + .-.+++.-. .-.-+.++++.||.|.....
T Consensus        84 ~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~gv~~iiv~iNKmD~~~~d  160 (239)
T d1f60a3          84 YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVKWD  160 (239)
T ss_dssp             EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGGGTTC
T ss_pred             EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHHcCCCeEEEEEECCCCCCCC
Confidence            78999999999999888888899999999999998  33321   0 111222111 11223355789999876533

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.38  E-value=3.4e-07  Score=73.86  Aligned_cols=117  Identities=13%  Similarity=0.126  Sum_probs=60.7

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHc--CCCCC-----------------------------CcccceeeEEEEEEEEECC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRS--GDFVE-----------------------------KTGNTIGVDFSMKTVNIDG   67 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~--~~f~~-----------------------------~~~pt~~~~~~~~~~~~~~   67 (231)
                      ...++|+++|.-..|||||+.+++.  +....                             +...-+.++.....+..  
T Consensus        22 k~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~--   99 (245)
T d1r5ba3          22 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFET--   99 (245)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEEC--
T ss_pred             CCceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccccc--
Confidence            3467999999999999999999953  11100                             00000000111112222  


Q ss_pred             eEEEEEEeeCCCccccchhhhhcccCCcEEEEEEecC--cHhh----HHHHHHHHHHhc-CCcceeeecccccCCCC
Q psy5781          68 KKVKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSV--EYCY----QRNWHKQAVTLF-DKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        68 ~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~dit--Sf~~----l~~w~~~i~~~~-~~~~~~~vv~~k~dl~~  137 (231)
                      ....+.+.|+||+..|......-...+|++++|.|..  -++.    -..-.+.+.-.. .+.+.++++.||.|+..
T Consensus       100 ~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~~i~~iiv~iNKmD~~~  176 (245)
T d1r5ba3         100 EHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPS  176 (245)
T ss_dssp             SSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTT
T ss_pred             ccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHcCCCeEEEEEEcCCCCc
Confidence            2357899999999999888888889999999999998  2221    111222222111 12333567889999864

>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=98.19  E-value=5.6e-06  Score=67.86  Aligned_cols=34  Identities=26%  Similarity=0.493  Sum_probs=27.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCC-CCCcccce
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDF-VEKTGNTI   54 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~pt~   54 (231)
                      .-+|+|+|+-++|||||||.+++..+ +....|+.
T Consensus        26 ~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T   60 (299)
T d2akab1          26 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVT   60 (299)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSC
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccc
Confidence            34899999999999999999999886 44344433

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.17  E-value=1.9e-06  Score=71.55  Aligned_cols=83  Identities=18%  Similarity=0.233  Sum_probs=46.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC-CCCcc-----cceeeEEEEEEEEE----------------CCeEEEEEEeeCCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF-VEKTG-----NTIGVDFSMKTVNI----------------DGKKVKLQIWDTAG   79 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f-~~~~~-----pt~~~~~~~~~~~~----------------~~~~~~l~i~D~~G   79 (231)
                      .||.++|.|+||||||+|.+++.+- ...|+     |.+|+.........                ......++++|++|
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            4899999999999999999987542 22332     33343221111000                01336799999998


Q ss_pred             ccc----cchh---hhhcccCCcEEEEEEecC
Q psy5781          80 QER----FRTI---TQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        80 ~~~----~~~~---~~~~~~~ad~vIlV~dit  104 (231)
                      --.    -..+   .-..++++|+++.|.|..
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDAT  112 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETT
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEeccc
Confidence            422    1112   233467899999999975

>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=98.13  E-value=1.2e-06  Score=71.79  Aligned_cols=77  Identities=17%  Similarity=0.241  Sum_probs=50.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHcCCCC-CCc-----ccceeeEEEEEEEEECC------------eE---EEEEEeeCCC
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRSGDFV-EKT-----GNTIGVDFSMKTVNIDG------------KK---VKLQIWDTAG   79 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~~~f~-~~~-----~pt~~~~~~~~~~~~~~------------~~---~~l~i~D~~G   79 (231)
                      .+||-+||-|+||||||+++++..+.. ..|     .|.+|      .+.+..            ++   ..+++.|++|
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~g------vv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~G   75 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTG------VVPMPDPRLDALAEIVKPERILPTTMEFVDIAG   75 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSS------EEECCCHHHHHHHHHHCCSEEECCEEEEEECCS
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceE------EEecccHhHHHHHHhcCCCceeeeeEEEEEccc
Confidence            479999999999999999999965532 223     24444      233322            11   3588999998


Q ss_pred             c----cccchhh---hhcccCCcEEEEEEec
Q psy5781          80 Q----ERFRTIT---QSYYRSANGVIIEVTS  103 (231)
Q Consensus        80 ~----~~~~~~~---~~~~~~ad~vIlV~di  103 (231)
                      -    .+-..+.   -..++++|+++.|.|.
T Consensus        76 Li~ga~~g~Glg~~FL~~ir~~d~LihVVr~  106 (278)
T d1jala1          76 LVAGASKGEGLGNKFLANIRETDAIGHVVRC  106 (278)
T ss_dssp             CCTTHHHHGGGTCCHHHHHHTCSEEEEEEEC
T ss_pred             cCCCcccCCCccHHHHHHHHhccceEEEeec
Confidence            4    2222232   3457799999999975

>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=98.12  E-value=2.7e-06  Score=70.15  Aligned_cols=26  Identities=27%  Similarity=0.544  Sum_probs=23.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDFV   47 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f~   47 (231)
                      -+|+|+|+.++|||||||.+++..+.
T Consensus        25 P~ivVvG~~ssGKSSliNaLlG~~~l   50 (306)
T d1jwyb_          25 PQIVVVGSQSSGKSSVLENIVGRDFL   50 (306)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHTSCCC
T ss_pred             CeEEEEeCCCCCHHHHHHHHhCCCCC
Confidence            48999999999999999999988863

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.10  E-value=1.7e-06  Score=70.58  Aligned_cols=59  Identities=27%  Similarity=0.452  Sum_probs=37.3

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQ   80 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~   80 (231)
                      ....++|.|+|-++||||||+|++.+..-. ...++.|.+.....+..+.   .+.+.||+|-
T Consensus       109 ~~~~~~v~vvG~PNvGKSsliN~L~~~~~~-~~~~~pG~Tr~~~~i~~~~---~~~l~DTPGi  167 (273)
T d1puja_         109 KPRAIRALIIGIPNVGKSTLINRLAKKNIA-KTGDRPGITTSQQWVKVGK---ELELLDTPGI  167 (273)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEETT---TEEEEECCCC
T ss_pred             CCCceEEEEEecCccchhhhhhhhhccceE-EECCcccccccceEEECCC---CeEEecCCCc
Confidence            446799999999999999999999986633 3456666554444444433   3889999995

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.00  E-value=5.1e-06  Score=68.46  Aligned_cols=79  Identities=16%  Similarity=0.133  Sum_probs=54.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCC--CCCcc-----cceeeEEEEEEEEECC---------------eEEEEEEeeC
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDF--VEKTG-----NTIGVDFSMKTVNIDG---------------KKVKLQIWDT   77 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f--~~~~~-----pt~~~~~~~~~~~~~~---------------~~~~l~i~D~   77 (231)
                      ..+||.+||.|+||||||++.+++...  ...|+     |..|      .+.+..               ....+++.|+
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g------~v~v~d~r~~~l~~~~~~~~~~~~~i~~~Dv   82 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEA------KVAVPDERFDWLCEAYKPKSRVPAFLTVFDI   82 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEE------EEEECCHHHHHHHHHHCCSEEECEEEEEECT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeE------EEeccccchhhhhhcccCCceecccceeeec
Confidence            448999999999999999999996532  34443     3334      233322               1247889999


Q ss_pred             CCcc----ccc---hhhhhcccCCcEEEEEEecC
Q psy5781          78 AGQE----RFR---TITQSYYRSANGVIIEVTSV  104 (231)
Q Consensus        78 ~G~~----~~~---~~~~~~~~~ad~vIlV~dit  104 (231)
                      +|--    +-.   ...-..++++|+++.|.|..
T Consensus        83 aGLv~gA~~g~GLGn~fL~~ir~~d~lihVV~~f  116 (296)
T d1ni3a1          83 AGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAF  116 (296)
T ss_dssp             GGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECC
T ss_pred             cccccccccccccHHHHHHHhhccceeEEEEecc
Confidence            9743    212   12344578999999999875

>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=97.49  E-value=4e-05  Score=60.52  Aligned_cols=58  Identities=19%  Similarity=0.280  Sum_probs=33.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCC--cccce--e--eEEEEEEEEECCeEEEEEEeeCCCcccc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEK--TGNTI--G--VDFSMKTVNIDGKKVKLQIWDTAGQERF   83 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~--~~pt~--~--~~~~~~~~~~~~~~~~l~i~D~~G~~~~   83 (231)
                      ..+++|.+|||||||||.+..+.-...  .....  |  .+....-+.+++.   -.|.||||-..+
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~g---g~iiDTPG~r~~  160 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFG---GYVVDTPGFANL  160 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTS---CEEESSCSSTTC
T ss_pred             eEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCC---cEEEeCCccccc
Confidence            579999999999999999986543221  11111  1  0111223344322   368899997654

>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=97.27  E-value=6.7e-05  Score=55.88  Aligned_cols=23  Identities=35%  Similarity=0.694  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .||+++|++|+|||||++.+++.
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHhc
Confidence            48999999999999999999853

>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=97.22  E-value=4.6e-05  Score=60.39  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      ..+++|.+|||||||||.++.+.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             eEEEECCCCccHHHHHHhhccHh
Confidence            56899999999999999998754

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.12  E-value=0.00011  Score=54.52  Aligned_cols=22  Identities=23%  Similarity=0.484  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      =+|+|.|.+|+|||||++++..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999975

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.96  E-value=0.00023  Score=52.46  Aligned_cols=27  Identities=19%  Similarity=0.278  Sum_probs=23.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +++..+|++.|.+||||||+.+.+...
T Consensus         2 ~pk~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           2 QPKGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            456789999999999999999988753

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=96.82  E-value=0.00027  Score=51.88  Aligned_cols=23  Identities=39%  Similarity=0.547  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .-||+++|.+|+||||+.+.+..
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999998864

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=96.68  E-value=0.00046  Score=50.45  Aligned_cols=20  Identities=20%  Similarity=0.398  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      |.|+|.+|+|||||+++++.
T Consensus         5 i~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            78999999999999999985

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.64  E-value=0.00059  Score=51.84  Aligned_cols=27  Identities=26%  Similarity=0.399  Sum_probs=23.5

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +.+.+||+++|++|+||||+..++...
T Consensus         3 ~~r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           3 SARLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             SSCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcceeEEEECCCCCCHHHHHHHHHHH
Confidence            456789999999999999999998753

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.64  E-value=0.00056  Score=51.58  Aligned_cols=24  Identities=25%  Similarity=0.346  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +.+||+++|++|+||||+.+.+..
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998874

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.59  E-value=0.00059  Score=49.16  Aligned_cols=21  Identities=29%  Similarity=0.436  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |++.|.+|+|||||++++...
T Consensus         5 Iii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            788999999999999998753

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.51  E-value=0.00069  Score=50.38  Aligned_cols=22  Identities=27%  Similarity=0.460  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .||+|+|.+|+||||+.+.+..
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999988754

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.46  E-value=0.0013  Score=52.09  Aligned_cols=35  Identities=26%  Similarity=0.352  Sum_probs=27.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      +|.++|.+|+|||||++.+.+-     +.|+.|      .+.++|.
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl-----~~p~~G------~I~i~g~   65 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRF-----YIPENG------QVLIDGH   65 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCCCHHHHHHHHHhc-----CCCCCC------EEEECCE
Confidence            6899999999999999988753     456666      4566774

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.46  E-value=0.00069  Score=48.77  Aligned_cols=22  Identities=23%  Similarity=0.548  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|+++|.+||||||+.+.+...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999988754

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=96.45  E-value=0.00077  Score=49.07  Aligned_cols=20  Identities=30%  Similarity=0.654  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      |++.|.+|+||||+++++..
T Consensus         5 I~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999999974

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.44  E-value=0.0018  Score=49.75  Aligned_cols=35  Identities=23%  Similarity=0.322  Sum_probs=26.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      .++++|++|+|||||++.+++-     +.|+.|      .+.++|.
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl-----~~p~~G------~I~~~g~   63 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTY-----LKPLKG------EIIYNGV   63 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCChHHHHHHHHhcc-----cccCCC------EEEECCE
Confidence            4689999999999999999753     456666      3455664

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.41  E-value=0.00086  Score=50.05  Aligned_cols=23  Identities=26%  Similarity=0.491  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .||+++|++|+||||+.+.+...
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999998743

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.40  E-value=0.0011  Score=50.03  Aligned_cols=25  Identities=20%  Similarity=0.167  Sum_probs=21.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .++..|+++|++|+||||+.+++..
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3446789999999999999999874

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.38  E-value=0.00092  Score=49.09  Aligned_cols=20  Identities=45%  Similarity=0.713  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      |++.|++|+|||+|+..++.
T Consensus         4 v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           4 VFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             EEEESCCSSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            88999999999999999974

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.36  E-value=0.00087  Score=50.59  Aligned_cols=21  Identities=24%  Similarity=0.586  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+|+|++|||||||+++++..
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            899999999999999999754

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.35  E-value=0.0017  Score=51.78  Aligned_cols=35  Identities=31%  Similarity=0.414  Sum_probs=27.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      +++++|++|+|||||++.+.+-     +.|+.|      .+.++|.
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl-----~~p~~G------~I~i~g~   76 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNL-----YQPTGG------QLLLDGK   76 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCCcHHHHHHHHhcc-----cCCCcC------EEEECCE
Confidence            7899999999999999987643     456666      4566774

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.33  E-value=0.001  Score=49.75  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +||+++|.+|+||||+.+.+..
T Consensus         3 mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           3 IRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998874

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.33  E-value=0.0022  Score=50.72  Aligned_cols=34  Identities=26%  Similarity=0.462  Sum_probs=26.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      ++++|++|+|||||++.+.+-     ..|+.|      .+.++|+
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl-----~~p~~G------~I~~~G~   60 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGI-----VKPDRG------EVRLNGA   60 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS-----SCCSEE------EEEETTE
T ss_pred             EEEECCCCChHHHHHHHHHcC-----CCCCce------EEEECCE
Confidence            578999999999999999864     346666      5677774

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.30  E-value=0.0011  Score=49.62  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .||+++|.+|+||||+...+...
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999888743

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.25  E-value=0.00085  Score=50.52  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +.+|+++|++|+||||+...+..
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999988764

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.23  E-value=0.0017  Score=51.49  Aligned_cols=35  Identities=26%  Similarity=0.430  Sum_probs=26.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      ++.++|++|+|||||++.+.+-     +.|+.|      .+.++|.
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl-----~~p~~G------~I~i~g~   64 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERF-----YQPTAG------EITIDGQ   64 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS-----SCCSBS------CEEETTE
T ss_pred             EEEEECCCCCCHHHHHHHHHHh-----hCCCCC------EEEECCE
Confidence            7899999999999999988643     456666      4455663

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.23  E-value=0.0026  Score=50.60  Aligned_cols=35  Identities=26%  Similarity=0.413  Sum_probs=27.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      +++++|++|+|||||++.+.+-     +.|+.|      .+.++|.
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl-----~~p~~G------~I~i~g~   77 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRF-----YDIDEG------HILMDGH   77 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT-----TCCSEE------EEEETTE
T ss_pred             EEEEECCCCChHHHHHHHHhcc-----cCCCcc------EEEECCc
Confidence            7999999999999999888642     456666      4566664

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.22  E-value=0.0027  Score=50.17  Aligned_cols=35  Identities=26%  Similarity=0.384  Sum_probs=26.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      -+.++|++|+|||||++.+.+=     ..|+.|      .+.++|+
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl-----~~p~sG------~I~i~g~   68 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGL-----EEPTEG------RIYFGDR   68 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCChHHHHHHHHHcC-----CCCCCC------EEEEcce
Confidence            4789999999999999988754     345555      4566774

>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=96.22  E-value=0.0012  Score=49.89  Aligned_cols=22  Identities=23%  Similarity=0.378  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .=|+++|.+|+|||||.+++..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3489999999999999999874

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.21  E-value=0.0013  Score=49.00  Aligned_cols=22  Identities=18%  Similarity=0.329  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .||+++|++|+||||+..++..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999988853

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.20  E-value=0.0024  Score=50.13  Aligned_cols=35  Identities=29%  Similarity=0.363  Sum_probs=26.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      -+.++|++|+|||||++.+.+-     ..|+.|      .+.++|.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl-----~~p~sG------~I~~~g~   67 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCL-----DKPTEG------EVYIDNI   67 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCCCcchhhHhccCC-----CCCCcc------eeEECCE
Confidence            4789999999999999966643     346666      4566773

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.18  E-value=0.0015  Score=50.11  Aligned_cols=24  Identities=42%  Similarity=0.542  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      =++++||++|||||+++..+...-
T Consensus        44 ~n~lLvG~pGVGKTalv~~LA~ri   67 (195)
T d1jbka_          44 NNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEecCCcccHHHHHHHHHHH
Confidence            478999999999999998887543

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.15  E-value=0.0041  Score=49.09  Aligned_cols=36  Identities=25%  Similarity=0.377  Sum_probs=27.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK   69 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~   69 (231)
                      .+.++|++|+|||||++.+.+-     ..|+.|      .+.++|+.
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl-----~~p~sG------~I~~~g~~   66 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGL-----EEPSRG------QIYIGDKL   66 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS-----SCCSEE------EEEETTEE
T ss_pred             EEEEECCCCChHHHHHHHHhcC-----CCCCCC------EEEECCEE
Confidence            4789999999999999988753     346666      55677743

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.12  E-value=0.0011  Score=48.81  Aligned_cols=21  Identities=38%  Similarity=0.577  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ||+++|.+||||||+.+.+..
T Consensus         3 ~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999888763

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.12  E-value=0.0014  Score=49.07  Aligned_cols=21  Identities=48%  Similarity=0.648  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+++|++|||||||++.+...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            688999999999999998754

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.10  E-value=0.0015  Score=49.03  Aligned_cols=21  Identities=29%  Similarity=0.591  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+++|++|+||+||+++++..
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            899999999999999999853

>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=96.07  E-value=0.0015  Score=50.51  Aligned_cols=70  Identities=7%  Similarity=-0.183  Sum_probs=38.4

Q ss_pred             EEEEEeeCCCccccchhhhh---c--ccCCcEEEEEEecC---cHhhHH-HHHHHHHHhcCCcceeeecccccCCCCCc
Q psy5781          70 VKLQIWDTAGQERFRTITQS---Y--YRSANGVIIEVTSV---EYCYQR-NWHKQAVTLFDKYKFGHAFSTSLAMPQVR  139 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~~~---~--~~~ad~vIlV~dit---Sf~~l~-~w~~~i~~~~~~~~~~~vv~~k~dl~~~~  139 (231)
                      ..+.+.|++|+..+......   .  ....+.++++.|..   ...... .++........-....+++.||.|+....
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D~~~~~  173 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEE  173 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHH
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHHhCCCceeeeeccccccHH
Confidence            35788899998764332111   1  22456889999987   222221 12111111122234456889999988743

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.06  E-value=0.0017  Score=49.23  Aligned_cols=20  Identities=35%  Similarity=0.640  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      |||+|++|||||||+++++.
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999999864

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.05  E-value=0.0036  Score=49.38  Aligned_cols=35  Identities=29%  Similarity=0.407  Sum_probs=27.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      -+.++|++|+|||||++.+.+-     ..|+.|      .+.++|+
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl-----~~p~sG------~I~~~g~   67 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLL-----ERPTEG------SVLVDGQ   67 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCCCHHHHHHHHcCC-----ccccCC------ceEEcCe
Confidence            4789999999999999988753     346666      4667774

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.01  E-value=0.0019  Score=51.98  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      =++++||++|||||+++..+...-
T Consensus        40 ~n~lLVG~~GvGKTalv~~la~ri   63 (268)
T d1r6bx2          40 NNPLLVGESGVGKTAIAEGLAWRI   63 (268)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEECCCCCcHHHHHHHHHHHH
Confidence            478999999999999998887543

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.98  E-value=0.0021  Score=48.29  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +.+|+++|++|+||||+..++..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998864

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.98  E-value=0.0019  Score=47.35  Aligned_cols=21  Identities=24%  Similarity=0.433  Sum_probs=18.4

Q ss_pred             EE-EEEcCCCCcHHHHHHHHHc
Q psy5781          23 KV-VLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kI-vvlG~~~vGKTSLl~~~~~   43 (231)
                      || .|+|.+|+|||||+.+++.
T Consensus         2 kii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            44 4999999999999999974

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.96  E-value=0.002  Score=47.38  Aligned_cols=20  Identities=35%  Similarity=0.348  Sum_probs=17.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      |+|.|.+|+||||+++++..
T Consensus         4 I~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67889999999999998853

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.96  E-value=0.0019  Score=49.70  Aligned_cols=21  Identities=14%  Similarity=0.387  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+++|++|||||||+++++..
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            689999999999999999854

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.94  E-value=0.0034  Score=50.58  Aligned_cols=61  Identities=16%  Similarity=0.124  Sum_probs=41.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHcCCCCC-----CcccceeeEEEEEEEEECCeEEEEEEeeCCCcc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRSGDFVE-----KTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQE   81 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~~~f~~-----~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~   81 (231)
                      ...=|.|+|+.++|||+|+|++++..+.-     ....|.|+......+ .++....+-++||-|..
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~-~~~~~~~~~~lDteG~~   96 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH-PKKPGHILVLLDTEGLG   96 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC-SSSTTCEEEEEEECCBC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeec-cCCCCceEEEEeccccc
Confidence            35567899999999999999999766421     223567754432222 24556678899998854

>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=95.91  E-value=0.0021  Score=53.14  Aligned_cols=24  Identities=21%  Similarity=0.401  Sum_probs=22.1

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHH
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      .+-++|.|.|.+|||||||+++++
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~   75 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFG   75 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHH
Confidence            457899999999999999999997

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=95.91  E-value=0.0032  Score=49.39  Aligned_cols=36  Identities=28%  Similarity=0.405  Sum_probs=27.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK   69 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~   69 (231)
                      -+.++|++|+|||||++.+.+=     ..|+.|      .+.++|+.
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl-----~~p~sG------~I~~~G~~   63 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGF-----HVPDSG------RILLDGKD   63 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS-----SCCSEE------EEEETTEE
T ss_pred             EEEEECCCCCcHHHHHHHHhcC-----cCCCCC------EEEEccEe
Confidence            3789999999999999999864     345655      55677753

>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=95.89  E-value=0.0033  Score=46.85  Aligned_cols=23  Identities=26%  Similarity=0.274  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..=|+++|.+|+||||++.++..
T Consensus        14 p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          14 PEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999864

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=95.89  E-value=0.004  Score=49.10  Aligned_cols=35  Identities=29%  Similarity=0.426  Sum_probs=26.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      -+.++|++|+|||||++.+.+-     ..|+.|      .+.++|+
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl-----~~p~~G------~I~~~G~   68 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGL-----VRAQKG------KIIFNGQ   68 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEEECCCCCcHHHHHHHHhCC-----CCCCcc------EEEeccc
Confidence            3689999999999999998854     345555      4566664

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.86  E-value=0.0023  Score=46.64  Aligned_cols=21  Identities=33%  Similarity=0.491  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      =|++.|.+|+||||+.+.+..
T Consensus         8 iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            366799999999999999864

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=95.84  E-value=0.0023  Score=51.03  Aligned_cols=35  Identities=29%  Similarity=0.442  Sum_probs=26.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      +++++|.+|+|||||++-+.+     -+.|+.|      .+.++|.
T Consensus        46 ~vaivG~sGsGKSTLl~ll~g-----l~~p~~G------~I~i~g~   80 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPR-----FYDVTSG------QILIDGH   80 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT-----SSCCSEE------EEEETTE
T ss_pred             EEEEECCCCCcHHHHHHHHHh-----cCCcccc------ccccCCE
Confidence            789999999999999886653     2556666      4566664

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=95.77  E-value=0.0024  Score=46.91  Aligned_cols=22  Identities=27%  Similarity=0.522  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +|+++|.+|+||||+.+.+...
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999888643

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.75  E-value=0.0049  Score=48.98  Aligned_cols=35  Identities=23%  Similarity=0.382  Sum_probs=26.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeE
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK   69 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~   69 (231)
                      +.++|++|+|||||++.+.+-     +.|+.|      .+.++|+.
T Consensus        33 ~~liG~nGaGKSTLl~~i~Gl-----~~p~~G------~I~~~g~~   67 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVITGF-----LKADEG------RVYFENKD   67 (254)
T ss_dssp             EEEECSTTSSHHHHHHHHTTS-----SCCSEE------EEEETTEE
T ss_pred             EEEECCCCCcHHHHHHHHHCC-----CcCCCc------EEEECCEe
Confidence            689999999999999998865     345555      45666653

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=95.71  E-value=0.0029  Score=46.14  Aligned_cols=21  Identities=24%  Similarity=0.430  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |++.|.+|+||||+.+.+...
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            778899999999999888643

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=95.67  E-value=0.0029  Score=46.01  Aligned_cols=21  Identities=29%  Similarity=0.498  Sum_probs=17.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |++.|.+|+||||+.+.+...
T Consensus         6 I~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            445599999999999998753

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=95.67  E-value=0.0046  Score=48.82  Aligned_cols=36  Identities=19%  Similarity=0.334  Sum_probs=27.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKK   69 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~   69 (231)
                      .+.++|++|+|||||++.+.+=     ..|+.|      .+.++|+.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl-----~~p~~G------~I~~~g~~   68 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGL-----DVPSTG------ELYFDDRL   68 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS-----SCCSEE------EEEETTEE
T ss_pred             EEEEECCCCCcHHHHHHHHHcC-----cCCCCc------eEEECCEE
Confidence            5789999999999999998863     345666      45667753

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=95.66  E-value=0.0037  Score=49.02  Aligned_cols=23  Identities=26%  Similarity=0.254  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      --|++.|++|+|||+|++.+...
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            34999999999999999998754

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=95.64  E-value=0.0068  Score=47.67  Aligned_cols=34  Identities=32%  Similarity=0.400  Sum_probs=25.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCe
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGK   68 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~   68 (231)
                      +.++|++|+|||||++.+.+-     +.|+.|      .+.++|+
T Consensus        31 ~glvG~nGaGKSTLl~~l~G~-----~~p~~G------~i~i~G~   64 (238)
T d1vpla_          31 FGLIGPNGAGKTTTLRIISTL-----IKPSSG------IVTVFGK   64 (238)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS-----SCCSEE------EEEETTE
T ss_pred             EEEECCCCCCHHHHHHHHhcC-----CCCCCC------EEEECcE
Confidence            679999999999999988865     345555      4555664

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.59  E-value=0.0033  Score=49.36  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -+.++|++|+|||||++.+.+-
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4789999999999999988753

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=95.55  E-value=0.0031  Score=49.19  Aligned_cols=21  Identities=14%  Similarity=0.205  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -|+|.|++|+|||||+++++.
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            477889999999999999874

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.52  E-value=0.0054  Score=44.57  Aligned_cols=24  Identities=21%  Similarity=0.349  Sum_probs=19.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .-+-|.++|.+|+||||+.+.+..
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            336688999999999999887763

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.49  E-value=0.0035  Score=47.14  Aligned_cols=21  Identities=19%  Similarity=0.419  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -|+++|++|+||||+...+..
T Consensus        10 iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999975

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=95.48  E-value=0.0034  Score=46.21  Aligned_cols=20  Identities=35%  Similarity=0.577  Sum_probs=17.1

Q ss_pred             EEE-EEcCCCCcHHHHHHHHH
Q psy5781          23 KVV-LIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        23 kIv-vlG~~~vGKTSLl~~~~   42 (231)
                      ||+ +.|.+||||||+++.+.
T Consensus         2 kiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            565 56999999999998886

>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=95.46  E-value=0.004  Score=51.31  Aligned_cols=61  Identities=5%  Similarity=-0.128  Sum_probs=33.6

Q ss_pred             EEEEEeeCCCccccchhhhhcccCCcEEEEEEecCcHhhHHHHHHHHHHhcCCcceeeecccccCCCCC
Q psy5781          70 VKLQIWDTAGQERFRTITQSYYRSANGVIIEVTSVEYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQV  138 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vIlV~ditSf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~~  138 (231)
                      +.+.|.+|.|.-...   .....-+|.+++|.....-+.++..+..+.+     ...+++.||.|+...
T Consensus       144 ~d~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ~~k~gilE-----~aDi~vvNKaD~~~~  204 (323)
T d2qm8a1         144 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKGIFE-----LADMIAVNKADDGDG  204 (323)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTTHHH-----HCSEEEEECCSTTCC
T ss_pred             CCeEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhhhhhhhHhh-----hhheeeEeccccccc
Confidence            456677776643222   2233458999999999866665544444433     235678889887654

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.45  E-value=0.0039  Score=50.38  Aligned_cols=28  Identities=21%  Similarity=0.344  Sum_probs=23.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCccccee
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIG   55 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~   55 (231)
                      +++++|++|+|||||++.+++-     +.|+.|
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl-----~~p~~G   91 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGE-----LEASEG   91 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS-----SCCSEE
T ss_pred             EEEEECCCCChHHHHHHHHhCC-----CcCCCc
Confidence            6899999999999999998853     456665

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.43  E-value=0.0077  Score=47.95  Aligned_cols=37  Identities=19%  Similarity=0.422  Sum_probs=27.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcccceeeEEEEEEEEECCeEE
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDFVEKTGNTIGVDFSMKTVNIDGKKV   70 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~   70 (231)
                      -+.++|++|+|||||++.+.+=     ..|+.|      .+.++|+.+
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl-----~~p~~G------~I~~~G~~i   66 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFL-----EKPSEG------AIIVNGQNI   66 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS-----SCCSEE------EEEETTEEC
T ss_pred             EEEEECCCCCcHHHHHHHHHcC-----ccCCCC------CEEECCEEe
Confidence            4789999999999999988743     346666      556677543

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=95.41  E-value=0.0038  Score=48.41  Aligned_cols=22  Identities=32%  Similarity=0.569  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+++.|++|+|||++++.+...
T Consensus        37 ~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          37 HLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999998754

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=95.38  E-value=0.0045  Score=45.56  Aligned_cols=20  Identities=25%  Similarity=0.489  Sum_probs=17.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      |+++|.+|+||||+.+.+..
T Consensus         5 Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998863

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=95.27  E-value=0.0045  Score=47.92  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+++.|++|+|||++++.+...
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHhc
Confidence            4899999999999999998753

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=95.20  E-value=0.0048  Score=46.39  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|+++|++|+||||+..++...
T Consensus        10 iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999999753

>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=95.15  E-value=0.011  Score=45.69  Aligned_cols=27  Identities=22%  Similarity=0.346  Sum_probs=22.0

Q ss_pred             CCCceeeEEEEEcCCCCcHHHHHHHHH
Q psy5781          16 DSYDFLFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        16 ~~~~~~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      .....+.-|+++|+.||||||.+-++.
T Consensus         6 ~~~~~p~vi~lvGptGvGKTTTiAKLA   32 (213)
T d1vmaa2           6 VPPEPPFVIMVVGVNGTGKTTSCGKLA   32 (213)
T ss_dssp             CCSSSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHH
Confidence            345667789999999999999876665

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=95.05  E-value=0.0058  Score=47.53  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      --+++.|++|+|||++++.+...
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999988754

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=94.97  E-value=0.0073  Score=45.99  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=20.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +.++|++-|++|+||||+...+..
T Consensus         2 k~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           2 KTIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            347888999999999999998864

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=94.94  E-value=0.0046  Score=48.40  Aligned_cols=21  Identities=29%  Similarity=0.561  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -+.++|++|+|||||++.+.+
T Consensus        27 i~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            378999999999999999886

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=94.92  E-value=0.0098  Score=43.95  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=20.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..+=|.|-|.+|+|||||.+++..
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            456688999999999999999863

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=94.89  E-value=0.012  Score=43.17  Aligned_cols=23  Identities=39%  Similarity=0.566  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .=|.+-|+=|+|||+|++.++..
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEecCCCccHHHHHHHHHhh
Confidence            34788999999999999999864

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=94.84  E-value=0.0069  Score=49.32  Aligned_cols=23  Identities=35%  Similarity=0.573  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      --|+++|++|||||.|++.+...
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhhc
Confidence            35789999999999999998854

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.83  E-value=0.004  Score=46.23  Aligned_cols=22  Identities=36%  Similarity=0.422  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .-|.++|.+|+||||+.+.+..
T Consensus        20 ~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999998864

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=94.80  E-value=0.0049  Score=52.00  Aligned_cols=22  Identities=45%  Similarity=0.629  Sum_probs=18.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      +=++++||++|||||+++..+.
T Consensus        43 k~n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          43 KNNPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHH
T ss_pred             CCCCeEECCCCCCHHHHHHHHH
Confidence            3457999999999999986555

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.79  E-value=0.0075  Score=46.38  Aligned_cols=22  Identities=27%  Similarity=0.427  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+++.|++|+|||++++.+...
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4899999999999999998764

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.71  E-value=0.0078  Score=46.74  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+++.|++|+|||++++.++..
T Consensus        54 ~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          54 AAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999864

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.65  E-value=0.0081  Score=44.88  Aligned_cols=26  Identities=31%  Similarity=0.496  Sum_probs=22.1

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..+.+-|++-|..||||||+++.+..
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHH
Confidence            34567899999999999999998864

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=94.59  E-value=0.011  Score=46.02  Aligned_cols=20  Identities=30%  Similarity=0.345  Sum_probs=16.9

Q ss_pred             EEEcCCCCcHHHHHHHHHcC
Q psy5781          25 VLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        25 vvlG~~~vGKTSLl~~~~~~   44 (231)
                      ++.|++|+|||++++.+...
T Consensus        50 ~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          50 GSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             ECTTCCSSSHHHHHHHHHHH
T ss_pred             EeECCCCCCHHHHHHHHHHH
Confidence            44599999999999998754

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=94.51  E-value=0.0093  Score=46.93  Aligned_cols=23  Identities=30%  Similarity=0.411  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .-.|++.|++|+|||+|++.+..
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHhh
Confidence            45699999999999999999975

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.23  E-value=0.0097  Score=46.10  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+++.|++|+|||++++.++..
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            4899999999999999998764

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.23  E-value=0.012  Score=45.06  Aligned_cols=22  Identities=32%  Similarity=0.529  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+++.|++|+||||+++.+...
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHHH
Confidence            3899999999999999988743

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.19  E-value=0.012  Score=45.04  Aligned_cols=21  Identities=24%  Similarity=0.449  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +++.|++|+|||++++.++..
T Consensus        36 lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            899999999999999998754

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=94.06  E-value=0.012  Score=48.31  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +|+|.|..|+|||||++.++..
T Consensus       168 nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             CEEEEeeccccchHHHHHHhhh
Confidence            5999999999999999999854

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.95  E-value=0.014  Score=44.53  Aligned_cols=22  Identities=23%  Similarity=0.428  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+++.|++|+|||++++.++..
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            3899999999999999999864

>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=93.91  E-value=0.025  Score=43.46  Aligned_cols=23  Identities=30%  Similarity=0.595  Sum_probs=19.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      .+.-|+++|++||||||.+-++.
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA   30 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLA   30 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            34568899999999999998876

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=93.89  E-value=0.015  Score=45.71  Aligned_cols=22  Identities=36%  Similarity=0.546  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|++.|++|+|||+|++.+...
T Consensus        44 giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHHH
Confidence            4899999999999999999953

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.77  E-value=0.02  Score=43.37  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ++-|.+-|..|+|||||.+.+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            46788999999999999998853

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.71  E-value=0.019  Score=42.46  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      +.+.|++|+|||+|+.+++.+.
T Consensus        26 ~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          26 TEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEeCCCCCHHHHHHHHHHHH
Confidence            6789999999999999998543

>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=93.69  E-value=0.029  Score=43.08  Aligned_cols=64  Identities=17%  Similarity=0.167  Sum_probs=36.6

Q ss_pred             EEEEEeeCCCccccch------hhhhcc--cCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCCC
Q psy5781          70 VKLQIWDTAGQERFRT------ITQSYY--RSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMPQ  137 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~------~~~~~~--~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~~  137 (231)
                      +.+.|.||+|...+..      ....+.  ...+-++||.|.+ ..+.+.......    ....+..++.+|+|-..
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~----~~~~~~~lI~TKlDet~  167 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFN----QASKIGTIIITKMDGTA  167 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHH----HHCTTEEEEEECTTSCS
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhh----cccCcceEEEecccCCC
Confidence            4789999999643321      111111  2356789999999 555554443332    22334456778877644

>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=93.66  E-value=0.02  Score=43.94  Aligned_cols=62  Identities=13%  Similarity=0.021  Sum_probs=34.7

Q ss_pred             EEEEEeeCCCccccchh----hhhc--ccCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCC
Q psy5781          70 VKLQIWDTAGQERFRTI----TQSY--YRSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAM  135 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~----~~~~--~~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl  135 (231)
                      +.+.|+||+|...+...    +..+  ..+.+-+++|.|.+ ..+.+ .......+..   .+..++.+|+|-
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~-~~~~~f~~~~---~~~~~I~TKlDe  161 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEAL-SVARAFDEKV---GVTGLVLTKLDG  161 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHH-HHHHHHHHHT---CCCEEEEECGGG
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHH-HHHHHHHhhC---CCCeeEEeecCc
Confidence            46889999996543321    1111  23557889999998 43333 3333333222   344466777764

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.63  E-value=0.018  Score=43.15  Aligned_cols=21  Identities=24%  Similarity=0.445  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -|+|-|..|+||||+++.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999988763

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=93.53  E-value=0.02  Score=43.15  Aligned_cols=20  Identities=20%  Similarity=0.434  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      |++.|++|+||+|+...+..
T Consensus         6 I~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            55669999999999988864

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=93.52  E-value=0.019  Score=44.14  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      =++|.|++|+|||+|..+|+...
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            36899999999999999998543

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=93.47  E-value=0.027  Score=43.17  Aligned_cols=64  Identities=16%  Similarity=0.037  Sum_probs=36.0

Q ss_pred             EEEEEeeCCCccccchh----hhhcc--------cCCcEEEEEEecC-cHhhHHHHHHHHHHhcCCcceeeecccccCCC
Q psy5781          70 VKLQIWDTAGQERFRTI----TQSYY--------RSANGVIIEVTSV-EYCYQRNWHKQAVTLFDKYKFGHAFSTSLAMP  136 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~----~~~~~--------~~ad~vIlV~dit-Sf~~l~~w~~~i~~~~~~~~~~~vv~~k~dl~  136 (231)
                      +.+.|.||+|...+...    ...+.        ...+-++||.|.+ ..+.+.........    -.+..++.+|+|-.
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~----~~~~~lI~TKlDet  164 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEA----VGLTGVIVTKLDGT  164 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHH----HCCSEEEEECTTSS
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhc----cCCceEEEeccCCC
Confidence            46889999996543321    11111        1346789999999 55544433333222    23445677887754


Q ss_pred             C
Q psy5781         137 Q  137 (231)
Q Consensus       137 ~  137 (231)
                      .
T Consensus       165 ~  165 (207)
T d1okkd2         165 A  165 (207)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.42  E-value=0.019  Score=43.69  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      ++|.|++|+|||+|+.+|+...
T Consensus        37 ~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          37 TELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             EEEEESTTSSHHHHHHHHTTTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6889999999999999998553

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=93.42  E-value=0.018  Score=49.28  Aligned_cols=22  Identities=36%  Similarity=0.665  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      =+|+++|++|||||-|++++..
T Consensus        50 sNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccEEEECCCCCCHHHHHHHHHH
Confidence            3899999999999999999974

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=93.33  E-value=0.022  Score=45.08  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+++.|++|+|||++++.+...
T Consensus        47 ~iLL~GppGtGKT~la~~iA~~   68 (256)
T d1lv7a_          47 GVLMVGPPGTGKTLLAKAIAGE   68 (256)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEeeCCCCCCccHHHHHHHHH
Confidence            4899999999999999999853

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.28  E-value=0.022  Score=44.87  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .|++.|++|+|||+|++.+...
T Consensus        40 giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          40 GILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eeEEecCCCCCchHHHHHHHHH
Confidence            5899999999999999998864

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=92.83  E-value=0.035  Score=41.37  Aligned_cols=24  Identities=29%  Similarity=0.470  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF   46 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f   46 (231)
                      =|++.|++|+|||++...++.+.+
T Consensus        16 gvl~~G~sG~GKStlal~l~~~g~   39 (176)
T d1kkma_          16 GVLITGDSGVGKSETALELVQRGH   39 (176)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHcCC
Confidence            478999999999999999987653

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=92.81  E-value=0.028  Score=44.72  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|+|.|.+|+|||+|+..+.+.
T Consensus        46 ~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          46 FLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4789999999999999988753

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=92.76  E-value=0.031  Score=42.57  Aligned_cols=26  Identities=15%  Similarity=0.179  Sum_probs=21.2

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      .+..=|.+.|.+|+|||||.+.+...
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~   47 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQ   47 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34456999999999999999888743

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=92.74  E-value=0.043  Score=40.56  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=20.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .++=|.|.|..|+||||+++.|..
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            356788999999999999988754

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=92.62  E-value=0.03  Score=42.23  Aligned_cols=20  Identities=30%  Similarity=0.340  Sum_probs=17.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      |++-|..|+||||+++.+..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77889999999999988763

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=92.61  E-value=0.032  Score=42.75  Aligned_cols=22  Identities=36%  Similarity=0.599  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -+++.|++|+|||+|+.+++.+
T Consensus        28 l~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          28 IILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4789999999999999999855

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=92.53  E-value=0.032  Score=42.27  Aligned_cols=22  Identities=27%  Similarity=0.309  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSGD   45 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~~   45 (231)
                      ++|.|++|+|||+|+.+++.+.
T Consensus        37 ~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          37 TEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEeCCCCCHHHHHHHHHHHH
Confidence            6789999999999999998544

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=92.53  E-value=0.017  Score=47.11  Aligned_cols=20  Identities=35%  Similarity=0.639  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy5781          23 KVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~   42 (231)
                      .|+++|++|+|||+|++++.
T Consensus        30 ~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHH
Confidence            58999999999999999986

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.33  E-value=0.022  Score=43.50  Aligned_cols=21  Identities=24%  Similarity=0.504  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .|++-|..||||||+++.+..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998764

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.25  E-value=0.041  Score=42.05  Aligned_cols=22  Identities=23%  Similarity=0.267  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      =++|.|++|+|||+|..+|+..
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999854

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.24  E-value=0.031  Score=44.20  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -|++.|++|+|||+|++.+...
T Consensus        43 giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          43 GVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             EEEEBCCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcchhHHHHHHHH
Confidence            4899999999999999999854

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=92.20  E-value=0.0078  Score=44.27  Aligned_cols=18  Identities=33%  Similarity=0.553  Sum_probs=16.0

Q ss_pred             EEEcCCCCcHHHHHHHHH
Q psy5781          25 VLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        25 vvlG~~~vGKTSLl~~~~   42 (231)
                      +++|++|+|||||+..+.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            567999999999998884

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=92.17  E-value=0.046  Score=40.72  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF   46 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f   46 (231)
                      =|++.|++|+|||++...++.+.+
T Consensus        17 gvli~G~sG~GKS~lal~l~~~G~   40 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINKNH   40 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTTTC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHcCC
Confidence            378999999999999999997654

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.97  E-value=0.04  Score=41.92  Aligned_cols=20  Identities=25%  Similarity=0.321  Sum_probs=16.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      |++-|..|+||||++..+..
T Consensus         6 I~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67779999999998887753

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=91.91  E-value=0.057  Score=43.80  Aligned_cols=26  Identities=15%  Similarity=0.363  Sum_probs=21.7

Q ss_pred             CCceeeEEEEEcCCCCcHHHHHHHHH
Q psy5781          17 SYDFLFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        17 ~~~~~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      .....+=|.|-|.+|+||||+.+.+.
T Consensus        76 ~~k~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          76 GQRIPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             -CCCCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCCCcHHHHHHH
Confidence            45567889999999999999987775

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=91.70  E-value=0.03  Score=44.54  Aligned_cols=17  Identities=24%  Similarity=0.632  Sum_probs=15.6

Q ss_pred             EEEcCCCCcHHHHHHHH
Q psy5781          25 VLIGDCGVGKTCVVHRF   41 (231)
Q Consensus        25 vvlG~~~vGKTSLl~~~   41 (231)
                      +++|+.|+|||+++..+
T Consensus        28 vlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEECCTTTCSTHHHHHH
T ss_pred             EEECCCCCcHHHHHHHH
Confidence            78999999999999766

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=91.56  E-value=0.057  Score=39.90  Aligned_cols=24  Identities=25%  Similarity=0.459  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCCC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSGDF   46 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~~f   46 (231)
                      =|++.|++|+|||++...++.+.+
T Consensus        17 gvli~G~sg~GKS~la~~l~~~g~   40 (169)
T d1ko7a2          17 GVLITGDSGIGKSETALELIKRGH   40 (169)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHTTC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHcCC
Confidence            589999999999999999887653

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=91.48  E-value=0.068  Score=43.77  Aligned_cols=25  Identities=24%  Similarity=0.333  Sum_probs=22.4

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ...++|+|=|.-||||||+++.+..
T Consensus         4 ~~~~rI~iEG~iGsGKSTl~~~L~~   28 (333)
T d1p6xa_           4 VTIVRIYLDGVYGIGKSTTGRVMAS   28 (333)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHS
T ss_pred             CceEEEEEECCccCCHHHHHHHHHH
Confidence            3578999999999999999998875

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=91.45  E-value=0.046  Score=45.36  Aligned_cols=23  Identities=30%  Similarity=0.505  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .-.|+++|+.|||||-|.+++..
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcceeeeCCCCccHHHHHHHHHh
Confidence            34599999999999999999864

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=91.44  E-value=0.053  Score=43.99  Aligned_cols=21  Identities=33%  Similarity=0.520  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .++++|++|||||.|++.+..
T Consensus        54 ~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          54 SFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCcchhHHHHHHHHh
Confidence            588999999999999999874

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=91.30  E-value=0.055  Score=40.69  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -+++.|++|+|||+|+.+++.
T Consensus        28 ~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            467889999999999988763

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=90.84  E-value=0.057  Score=44.26  Aligned_cols=26  Identities=27%  Similarity=0.411  Sum_probs=23.0

Q ss_pred             ceeeEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          19 DFLFKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        19 ~~~~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -..++|+|=|.-|+||||+++.+...
T Consensus         3 m~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           3 MGVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999998754

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.65  E-value=0.065  Score=40.93  Aligned_cols=21  Identities=24%  Similarity=0.474  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -|+|=|..||||||+++.+..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            588899999999999998874

>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=90.63  E-value=0.056  Score=41.47  Aligned_cols=21  Identities=29%  Similarity=0.445  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +++.|--|+|||||+++++..
T Consensus         6 ~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEeeCCCCCHHHHHHHHHhc
Confidence            567788999999999999875

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=90.55  E-value=0.074  Score=40.23  Aligned_cols=21  Identities=10%  Similarity=0.271  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -+++.|++|+|||+++..+..
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            489999999999999998875

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=90.49  E-value=0.068  Score=43.56  Aligned_cols=21  Identities=33%  Similarity=0.536  Sum_probs=17.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +++.|+||+|||.|++.+...
T Consensus       126 ~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHH
Confidence            344699999999999999853

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=90.33  E-value=0.076  Score=40.90  Aligned_cols=21  Identities=29%  Similarity=0.483  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -+++.|++|+|||++++.+..
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            378899999999999998764

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=90.29  E-value=0.079  Score=43.31  Aligned_cols=24  Identities=29%  Similarity=0.452  Sum_probs=21.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          20 FLFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        20 ~~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      ..++|+|=|.-||||||+++.+..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            467899999999999999998864

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=90.29  E-value=0.073  Score=44.09  Aligned_cols=21  Identities=19%  Similarity=0.211  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -+++.|++|+|||+|++.+++
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998874

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.10  E-value=0.077  Score=40.30  Aligned_cols=20  Identities=20%  Similarity=0.215  Sum_probs=17.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      |++=|..|+||||+++.+..
T Consensus         6 I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            88999999999999988763

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=90.01  E-value=0.087  Score=41.15  Aligned_cols=20  Identities=20%  Similarity=0.431  Sum_probs=17.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHc
Q psy5781          24 VVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~   43 (231)
                      +++.|.+|+|||+|+.+++.
T Consensus        38 ~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            68999999999999988874

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=89.80  E-value=0.13  Score=38.73  Aligned_cols=25  Identities=32%  Similarity=0.529  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcCCC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSGDF   46 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~~f   46 (231)
                      |-|.|.|..|+||||+++.|....+
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~G~   28 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADLGI   28 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEECCCcCCHHHHHHHHHHCCC
Confidence            5678999999999999998864433

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=89.29  E-value=0.099  Score=40.61  Aligned_cols=19  Identities=21%  Similarity=0.380  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy5781          24 VVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~   42 (231)
                      .++.|++|+|||+|+.+++
T Consensus        32 ~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHH
Confidence            6689999999999998875

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.20  E-value=0.095  Score=43.05  Aligned_cols=19  Identities=26%  Similarity=0.506  Sum_probs=16.3

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy5781          24 VVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~   42 (231)
                      -+++|+.|+|||+++..+.
T Consensus        28 ~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            3588999999999998873

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=88.99  E-value=0.17  Score=37.81  Aligned_cols=22  Identities=36%  Similarity=0.591  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHc
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      +-|.+.|..|+||||+++.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5688999999999999987754

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=88.30  E-value=0.14  Score=40.99  Aligned_cols=22  Identities=14%  Similarity=0.309  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+.++|++|+|||+|+..+..+
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHH
Confidence            8999999999999999888753

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.30  E-value=0.2  Score=39.94  Aligned_cols=25  Identities=16%  Similarity=0.204  Sum_probs=20.4

Q ss_pred             CceeeEEEEEcCCCCcHHHHHHHHH
Q psy5781          18 YDFLFKVVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        18 ~~~~~kIvvlG~~~vGKTSLl~~~~   42 (231)
                      ....+=|.|-|.+|+|||||...+.
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHH
Confidence            3456888999999999999887653

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=88.29  E-value=0.13  Score=39.04  Aligned_cols=21  Identities=24%  Similarity=0.493  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      +.+.|++|+|||-|++.+...
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~   59 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNE   59 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            789999999999999988754

>d1y7ta1 c.2.1.5 (A:0-153) Malate dehydrogenase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Thermus thermophilus [TaxId: 274]

Probab=88.18  E-value=0.46  Score=33.90  Aligned_cols=47  Identities=6%  Similarity=-0.074  Sum_probs=30.5

Q ss_pred             hhcccCCcEEEEEEecC-----c--------HhhHHHHHHHHHHhcCCcceeeecccccC
Q psy5781          88 QSYYRSANGVIIEVTSV-----E--------YCYQRNWHKQAVTLFDKYKFGHAFSTSLA  134 (231)
Q Consensus        88 ~~~~~~ad~vIlV~dit-----S--------f~~l~~w~~~i~~~~~~~~~~~vv~~k~d  134 (231)
                      ...++++|++|+.....     +        ..-++++.+.+.++.+++...+++.|..|
T Consensus        75 ~~~~~~advViitaG~~~~pg~~r~dl~~~N~~i~~~~~~~i~k~a~~~~~vivvsNPvD  134 (154)
T d1y7ta1          75 KVAFKDADYALLVGAAPRKAGMERRDLLQVNGKIFTEQGRALAEVAKKDVKVLVVGNPAN  134 (154)
T ss_dssp             HHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHH
T ss_pred             hhhcccccEEEeecCcCCCCCCcHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEecCcHH
Confidence            34578999999988765     2        22334666777777666665656666544

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=88.01  E-value=0.064  Score=43.05  Aligned_cols=19  Identities=32%  Similarity=0.686  Sum_probs=14.6

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy5781          24 VVLIGDCGVGKTCVVHRFR   42 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~   42 (231)
                      |.|.|.+|+||||+.+.|.
T Consensus         7 IgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             EEEESCC---CCTHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            8999999999999998775

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=87.12  E-value=0.19  Score=39.03  Aligned_cols=68  Identities=12%  Similarity=0.041  Sum_probs=40.1

Q ss_pred             EEEEEeeCCCcccc-chhhhhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCCcce--eeecccccCCCC
Q psy5781          70 VKLQIWDTAGQERF-RTITQSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDKYKF--GHAFSTSLAMPQ  137 (231)
Q Consensus        70 ~~l~i~D~~G~~~~-~~~~~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~~~~--~~vv~~k~dl~~  137 (231)
                      +.+.+.|+++.-.. ..........||.++++.+..  ++.......+.+.........  ..++.|..+...
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~  188 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVAN  188 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSSHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSC
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccchhhhHHHHHHHHHHHHHhhccccceeccceEEeeecCCC
Confidence            56778888654321 112223334578899998887  777777777777665543332  335566654443

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=85.46  E-value=0.19  Score=40.57  Aligned_cols=22  Identities=27%  Similarity=0.534  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -++++|++|||||.+++.+...
T Consensus        55 ~~lf~Gp~G~GKt~lak~la~~   76 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLAAT   76 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHHHH
Confidence            4788899999999999988643

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=85.17  E-value=0.23  Score=41.15  Aligned_cols=23  Identities=17%  Similarity=0.388  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHcC
Q psy5781          22 FKVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        22 ~kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      -.++|+|.+|+|||+++..++..
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHH
Confidence            35899999999999998877644

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=84.97  E-value=0.19  Score=39.72  Aligned_cols=15  Identities=33%  Similarity=0.687  Sum_probs=13.3

Q ss_pred             EEEEcCCCCcHHHHH
Q psy5781          24 VVLIGDCGVGKTCVV   38 (231)
Q Consensus        24 IvvlG~~~vGKTSLl   38 (231)
                      ++|.|.+|+|||+.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            789999999999765

>d7mdha1 c.2.1.5 (A:23-197) Malate dehydrogenase {Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]

Probab=84.90  E-value=1.3  Score=32.26  Aligned_cols=100  Identities=10%  Similarity=0.115  Sum_probs=56.3

Q ss_pred             CCCceeeEEEEEcC-CCCcHHHHHHHHHcCC-CCCCcccceeeEEEEEEEEECCeEEEEEEeeCCCccc-----------
Q psy5781          16 DSYDFLFKVVLIGD-CGVGKTCVVHRFRSGD-FVEKTGNTIGVDFSMKTVNIDGKKVKLQIWDTAGQER-----------   82 (231)
Q Consensus        16 ~~~~~~~kIvvlG~-~~vGKTSLl~~~~~~~-f~~~~~pt~~~~~~~~~~~~~~~~~~l~i~D~~G~~~-----------   82 (231)
                      ++..+.+||.|+|. .++|-+ |+.++..+. |..+                  +.+.|.++|......           
T Consensus        19 ~~~k~~~kV~I~GA~G~Ig~~-l~~~La~g~v~g~~------------------~~i~L~L~di~~~~~~l~g~~mdl~d   79 (175)
T d7mdha1          19 KSWKKLVNIAVSGAAGMISNH-LLFKLASGEVFGQD------------------QPIALKLLGSERSFQALEGVAMELED   79 (175)
T ss_dssp             --CCCCEEEEEETTTSHHHHH-HHHHHHHTTTTCTT------------------CCEEEEEECCGGGHHHHHHHHHHHHT
T ss_pred             hccCCCcEEEEECCCcHHHHH-HHHHHHcCcccCCC------------------ceEEEEEecCccccchhcchhhhhcc
Confidence            34457899999996 788855 556666554 3221                  113344555443211           


Q ss_pred             ----------cchhhhhcccCCcEEEEEEecC-----cHhh--------HHHHHHHHHHhcCCcceeeecccccC
Q psy5781          83 ----------FRTITQSYYRSANGVIIEVTSV-----EYCY--------QRNWHKQAVTLFDKYKFGHAFSTSLA  134 (231)
Q Consensus        83 ----------~~~~~~~~~~~ad~vIlV~dit-----Sf~~--------l~~w~~~i~~~~~~~~~~~vv~~k~d  134 (231)
                                ...-....+.++|++|++-...     +..+        ++++.+.+.++.+++..+++++|..|
T Consensus        80 ~a~~~~~~~~~~~~~~~~~~~aDvVvi~ag~~rkpg~tR~Dll~~N~~I~k~~~~~i~~~a~~~~~vlvv~NPvd  154 (175)
T d7mdha1          80 SLYPLLREVSIGIDPYEVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASKNVKVLVVGNPCN  154 (175)
T ss_dssp             TTCTTEEEEEEESCHHHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHH
T ss_pred             cccccccCccccccchhhccCCceEEEeeccCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCcEEEEecCcHH
Confidence                      0011233477899999987665     3322        23555666666666666667776654

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=84.84  E-value=0.28  Score=38.47  Aligned_cols=66  Identities=14%  Similarity=0.136  Sum_probs=35.9

Q ss_pred             EEEEEeeCCCccccchhh-hhcccCCcEEEEEEecC--cHhhHHHHHHHHHHhcCC--cceeeecccccCC
Q psy5781          70 VKLQIWDTAGQERFRTIT-QSYYRSANGVIIEVTSV--EYCYQRNWHKQAVTLFDK--YKFGHAFSTSLAM  135 (231)
Q Consensus        70 ~~l~i~D~~G~~~~~~~~-~~~~~~ad~vIlV~dit--Sf~~l~~w~~~i~~~~~~--~~~~~vv~~k~dl  135 (231)
                      +.+.++|+++.-...... ......++.++++....  +...+....+.+.+....  .++..++.|+.+.
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~  189 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNT  189 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECSSHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCC
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccchhHHHHHHHHHHHHHHHhhhhcccccccceeehhhcc
Confidence            566777876543211111 11223567787777666  666666666666554433  2333456666543

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=84.71  E-value=0.25  Score=41.20  Aligned_cols=21  Identities=19%  Similarity=0.301  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q psy5781          24 VVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+|.|+.|+||||.++.++..
T Consensus       161 iLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         161 ILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEcCCCCCccHHHHHHhhh
Confidence            899999999999999999864

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=84.63  E-value=0.18  Score=39.49  Aligned_cols=15  Identities=33%  Similarity=0.660  Sum_probs=13.0

Q ss_pred             EEEEcCCCCcHHHHH
Q psy5781          24 VVLIGDCGVGKTCVV   38 (231)
Q Consensus        24 IvvlG~~~vGKTSLl   38 (231)
                      ++|+|.+|+|||+.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            678899999999764

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=83.77  E-value=0.34  Score=38.38  Aligned_cols=22  Identities=36%  Similarity=0.643  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRSG   44 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~~   44 (231)
                      |+.++|++|+|||+|+..++.+
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHH
Confidence            8999999999999999998754

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=82.98  E-value=0.38  Score=35.37  Aligned_cols=20  Identities=25%  Similarity=0.305  Sum_probs=16.9

Q ss_pred             EEEEEcCC-CCcHHHHHHHHH
Q psy5781          23 KVVLIGDC-GVGKTCVVHRFR   42 (231)
Q Consensus        23 kIvvlG~~-~vGKTSLl~~~~   42 (231)
                      |+.|.|-. |||||++.--+.
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHH
Confidence            78899996 999999886664

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=82.26  E-value=0.4  Score=37.24  Aligned_cols=18  Identities=33%  Similarity=0.534  Sum_probs=14.6

Q ss_pred             EEEEcCCCCcHHHHHHHH
Q psy5781          24 VVLIGDCGVGKTCVVHRF   41 (231)
Q Consensus        24 IvvlG~~~vGKTSLl~~~   41 (231)
                      |++.|-.||||||+.-.+
T Consensus        11 i~~sGKGGVGKTTvaa~l   28 (296)
T d1ihua1          11 LFFTGKGGVGKTSISCAT   28 (296)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHH
Confidence            467999999999966554

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=81.88  E-value=0.42  Score=36.93  Aligned_cols=20  Identities=30%  Similarity=0.625  Sum_probs=14.9

Q ss_pred             eEEEEE-cCCCCcHHHHHHHH
Q psy5781          22 FKVVLI-GDCGVGKTCVVHRF   41 (231)
Q Consensus        22 ~kIvvl-G~~~vGKTSLl~~~   41 (231)
                      .||+++ |-.||||||+.-.+
T Consensus        20 ~~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            455555 99999999975544

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=81.61  E-value=0.31  Score=36.80  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=19.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHc
Q psy5781          21 LFKVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        21 ~~kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      .==+++.|+++.|||.|+..++.
T Consensus        53 kn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          53 KNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHH
Confidence            34589999999999999988764

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=81.06  E-value=0.46  Score=35.91  Aligned_cols=21  Identities=24%  Similarity=0.166  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q psy5781          23 KVVLIGDCGVGKTCVVHRFRS   43 (231)
Q Consensus        23 kIvvlG~~~vGKTSLl~~~~~   43 (231)
                      -|.+.|..|+||||+.+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478899999999999998864