Psyllid ID: psy12927

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70-----
Protein Sequence
MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDKI
Secondary Structure (PSIPRED)
cccccEEEEEEEEccccccHHHHHHHHcccccccccccEEEEEEEEEEEEEccEEEEEEEEEcccccEEcccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHEEEEEEccccccHHHHHHHHHHccccccccccccEEEEEEEEEEccEEEEEEEEcccccHHEEEEccc
Coil and Loop (DISEMBL)
MADCNQTYKILVlgdsnvgktcivhrfcdetyydtyistigidfkqkiidlddvptkLQIWTLNALLTYLLLDKI
Flexible Loop (DISEMBL)
MADCNQTYKIlvlgdsnvgkTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDKI
Low Complexity Region (SEG)
MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTlnalltylllDKI
Disordered region (IsUnstruct)
****NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL***
Disordered Region (DISOPRED)
*ADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDKI
Disordered Region (DISEMBL)
MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDKI
Disordered Region (DISPRO)
*ADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDKI
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDKI
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	75	2.2.26 [Sep-21-2011]
P33723	203	GTP-binding protein ypt1	N/A	N/A	0.72	0.266	0.574	7e-13
Q01890	201	Ras-like GTP-binding prot	N/A	N/A	0.72	0.268	0.574	7e-13
P10536	201	Ras-related protein Rab-1	no	N/A	0.72	0.268	0.574	8e-13
Q5RE13	201	Ras-related protein Rab-1	no	N/A	0.72	0.268	0.574	8e-13
Q9H0U4	201	Ras-related protein Rab-1	yes	N/A	0.72	0.268	0.574	8e-13
Q05974	205	Ras-related protein Rab-1	N/A	N/A	0.72	0.263	0.574	8e-13
Q06AU7	201	Ras-related protein Rab-1	yes	N/A	0.72	0.268	0.574	8e-13
Q9D1G1	201	Ras-related protein Rab-1	yes	N/A	0.72	0.268	0.574	8e-13
Q4R8X3	201	Ras-related protein Rab-1	N/A	N/A	0.72	0.268	0.574	8e-13
Q6NYB7	205	Ras-related protein Rab-1	no	N/A	0.72	0.263	0.574	8e-13

>sp|P33723|YPT1_NEUCR GTP-binding protein ypt1 OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=ypt-1 PE=3 SV=1

 Score = 72.4 bits (176), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 9  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIW 62

Protein transport. Probably involved in vesicular traffic.
Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (taxid: 367110)

>sp|Q01890|YPT1_PHYIN Ras-like GTP-binding protein YPT1 OS=Phytophthora infestans GN=YPT1 PE=3 SV=1

 Score = 72.4 bits (176), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 9  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 62

Protein transport. Probably involved in vesicular traffic from ER to Golgi.

Phytophthora infestans (taxid: 4787)

>sp|P10536|RAB1B_RAT Ras-related protein Rab-1B OS=Rattus norvegicus GN=Rab1b PE=1 SV=1

 Score = 72.4 bits (176), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 9  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 62

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

Rattus norvegicus (taxid: 10116)

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

 Score = 72.4 bits (176), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 9  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 62

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

Pongo abelii (taxid: 9601)

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

 Score = 72.4 bits (176), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 9  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 62

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

Homo sapiens (taxid: 9606)

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

 Score = 72.4 bits (176), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 12 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 65

Probably required for transit of protein from the ER through Golgi compartment.

Lymnaea stagnalis (taxid: 6523)

>sp|Q06AU7|RAB1B_PIG Ras-related protein Rab-1B OS=Sus scrofa GN=RAB1B PE=2 SV=1

 Score = 72.4 bits (176), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 9  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 62

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

Sus scrofa (taxid: 9823)

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

 Score = 72.4 bits (176), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 9  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 62

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

Mus musculus (taxid: 10090)

>sp|Q4R8X3|RAB1B_MACFA Ras-related protein Rab-1B OS=Macaca fascicularis GN=RAB1B PE=2 SV=1

 Score = 72.4 bits (176), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 9  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 62

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

Macaca fascicularis (taxid: 9541)

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

 Score = 72.4 bits (176), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 12 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 65

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

Rattus norvegicus (taxid: 10116)

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	75
383852599	739	PREDICTED: uncharacterized protein LOC10	0.786	0.079	0.830	4e-23
328785884	760	PREDICTED: LOW QUALITY PROTEIN: hypothet	0.786	0.077	0.830	4e-23
307197094	760	Ras-related protein Rab-8A [Harpegnathos	0.786	0.077	0.830	4e-23
307180592	279	Ras-related protein Rab-8A [Camponotus f	0.786	0.211	0.830	4e-23
91077598	220	PREDICTED: similar to RabX4 CG31118-PA [	0.786	0.268	0.864	2e-22
322794138	207	hypothetical protein SINV_09491 [Solenop	0.786	0.285	0.830	9e-22
345494263	208	PREDICTED: ras-related protein Rab-8A-li	0.786	0.283	0.830	1e-21
125772885	213	GA16022 [Drosophila pseudoobscura pseudo	0.733	0.258	0.890	1e-21
332028544	208	Ras-related protein Rab-8A [Acromyrmex e	0.786	0.283	0.830	1e-21
195452572	213	GK13164 [Drosophila willistoni] gi|19416	0.733	0.258	0.872	1e-21

>gi|383852599|ref|XP_003701814.1| PREDICTED: uncharacterized protein LOC100884103 [Megachile rotundata]

 Score =  111 bits (278), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 49/59 (83%), Positives = 52/59 (88%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D   TYK+LVLGDSNVGKTCIVHR+CDE YYDTYISTIGIDFKQKII+LD  P KLQIW
Sbjct: 4  DFAATYKVLVLGDSNVGKTCIVHRYCDERYYDTYISTIGIDFKQKIINLDGTPIKLQIW 62

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328785884|ref|XP_392879.2| PREDICTED: LOW QUALITY PROTEIN: hypothetical protein LOC409364 isoform 1 [Apis mellifera]

 Score =  111 bits (278), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 49/59 (83%), Positives = 52/59 (88%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D   TYK+LVLGDSNVGKTCIVHR+CDE YYDTYISTIGIDFKQKII+LD  P KLQIW
Sbjct: 4  DFAATYKVLVLGDSNVGKTCIVHRYCDERYYDTYISTIGIDFKQKIINLDGTPIKLQIW 62

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307197094|gb|EFN78462.1| Ras-related protein Rab-8A [Harpegnathos saltator]

 Score =  111 bits (278), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 49/59 (83%), Positives = 52/59 (88%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D   TYK+LVLGDSNVGKTCIVHR+CDE YYDTYISTIGIDFKQKII+LD  P KLQIW
Sbjct: 4  DFAATYKVLVLGDSNVGKTCIVHRYCDERYYDTYISTIGIDFKQKIINLDGTPIKLQIW 62

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307180592|gb|EFN68547.1| Ras-related protein Rab-8A [Camponotus floridanus]

 Score =  111 bits (278), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 49/59 (83%), Positives = 52/59 (88%)

Query: 3   DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           D   TYK+LVLGDSNVGKTCIVHR+CDE YYDTYISTIGIDFKQKII+LD  P KLQIW
Sbjct: 67  DFAATYKVLVLGDSNVGKTCIVHRYCDERYYDTYISTIGIDFKQKIINLDGTPIKLQIW 125

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91077598|ref|XP_973418.1| PREDICTED: similar to RabX4 CG31118-PA [Tribolium castaneum] gi|270002179|gb|EEZ98626.1| hypothetical protein TcasGA2_TC001149 [Tribolium castaneum]

 Score =  109 bits (273), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 51/59 (86%), Positives = 53/59 (89%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D   TYKILVLGDSNVGKTCIVHRFCDE YYDTYISTIGIDFKQKI++LD VP KLQIW
Sbjct: 4  DFAATYKILVLGDSNVGKTCIVHRFCDERYYDTYISTIGIDFKQKIVNLDGVPIKLQIW 62

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322794138|gb|EFZ17347.1| hypothetical protein SINV_09491 [Solenopsis invicta]

 Score =  107 bits (267), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 49/59 (83%), Positives = 52/59 (88%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D   TYK+LVLGDSNVGKTCIVHR+CDE YYDTYISTIGIDFKQKII+LD  P KLQIW
Sbjct: 4  DFAATYKVLVLGDSNVGKTCIVHRYCDERYYDTYISTIGIDFKQKIINLDGTPIKLQIW 62

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345494263|ref|XP_001605584.2| PREDICTED: ras-related protein Rab-8A-like [Nasonia vitripennis]

 Score =  107 bits (266), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 49/59 (83%), Positives = 52/59 (88%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D   TYK+LVLGDSNVGKTCIVHR+CDE YYDTYISTIGIDFKQKII+LD  P KLQIW
Sbjct: 4  DFAATYKVLVLGDSNVGKTCIVHRYCDERYYDTYISTIGIDFKQKIINLDGTPIKLQIW 62

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|125772885|ref|XP_001357701.1| GA16022 [Drosophila pseudoobscura pseudoobscura] gi|195158653|ref|XP_002020200.1| GL13857 [Drosophila persimilis] gi|54637433|gb|EAL26835.1| GA16022 [Drosophila pseudoobscura pseudoobscura] gi|194116969|gb|EDW39012.1| GL13857 [Drosophila persimilis]

 Score =  107 bits (266), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 49/55 (89%), Positives = 52/55 (94%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          TYKILVLGDSNVGKTCIVHR+CDE YYDTYISTIGIDFKQK+I+LD VP KLQIW
Sbjct: 8  TYKILVLGDSNVGKTCIVHRYCDEKYYDTYISTIGIDFKQKLINLDGVPIKLQIW 62

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332028544|gb|EGI68581.1| Ras-related protein Rab-8A [Acromyrmex echinatior]

 Score =  107 bits (266), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 49/59 (83%), Positives = 52/59 (88%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D   TYK+LVLGDSNVGKTCIVHR+CDE YYDTYISTIGIDFKQKII+LD  P KLQIW
Sbjct: 4  DFAATYKVLVLGDSNVGKTCIVHRYCDERYYDTYISTIGIDFKQKIINLDGTPIKLQIW 62

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195452572|ref|XP_002073412.1| GK13164 [Drosophila willistoni] gi|194169497|gb|EDW84398.1| GK13164 [Drosophila willistoni]

 Score =  107 bits (266), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 48/55 (87%), Positives = 52/55 (94%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          TYK+LVLGDSNVGKTCIVHR+CDE YYDTYISTIGIDFKQK+I+LD VP KLQIW
Sbjct: 8  TYKVLVLGDSNVGKTCIVHRYCDEKYYDTYISTIGIDFKQKLINLDGVPIKLQIW 62

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	75
FB|FBgn0051118	213	RabX4 "RabX4" [Drosophila mela	0.733	0.258	0.872	3.8e-23
ASPGD|ASPL0000016908	201	srgB [Emericella nidulans (tax	0.72	0.268	0.574	7.9e-14
FB|FBgn0016700	205	Rab1 "Rab1" [Drosophila melano	0.72	0.263	0.574	1e-13
UNIPROTKB|F1NNL7	205	RAB1A "Uncharacterized protein	0.72	0.263	0.574	1e-13
UNIPROTKB|A1L528	205	RAB1A "RAB1A, member RAS oncog	0.72	0.263	0.574	1e-13
UNIPROTKB|G3MYN4	197	RAB1B "Ras-related protein Rab	0.72	0.274	0.574	1e-13
UNIPROTKB|Q2HJH2	201	RAB1B "Ras-related protein Rab	0.72	0.268	0.574	1e-13
UNIPROTKB|F1PVP9	203	RAB1B "Uncharacterized protein	0.72	0.266	0.574	1e-13
UNIPROTKB|F1Q0H3	250	RAB1A "Ras-related protein Rab	0.72	0.216	0.574	1e-13
UNIPROTKB|P62822	205	RAB1A "Ras-related protein Rab	0.72	0.263	0.574	1e-13

FB|FBgn0051118 RabX4 "RabX4" [Drosophila melanogaster (taxid:7227)]

 Score = 267 (99.0 bits), Expect = 3.8e-23, P = 3.8e-23
 Identities = 48/55 (87%), Positives = 52/55 (94%)

Query:     7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             TYK+LVLGDSNVGKTCIVHR+CDE YYDTYISTIGIDFKQK+I+LD VP KLQIW
Sbjct:     8 TYKVLVLGDSNVGKTCIVHRYCDEKYYDTYISTIGIDFKQKLINLDGVPIKLQIW 62

GO:0003924 "GTPase activity" evidence=ISS

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

GO:0031982 "vesicle" evidence=ISS

ASPGD|ASPL0000016908 srgB [Emericella nidulans (taxid:162425)]

 Score = 179 (68.1 bits), Expect = 7.9e-14, P = 7.9e-14
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query:     8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct:     9 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIW 62

GO:0006995 "cellular response to nitrogen starvation" evidence=IEA

GO:0070317 "negative regulation of G0 to G1 transition" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

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

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query:     8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct:    12 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 65

GO:0003924 "GTPase activity" evidence=ISS

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

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

GO:0007015 "actin filament organization" evidence=IMP

GO:0007155 "cell adhesion" evidence=IMP

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

GO:0005525 "GTP binding" evidence=IEA

GO:0005811 "lipid particle" evidence=IDA

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

GO:0031982 "vesicle" evidence=ISS

GO:0009306 "protein secretion" evidence=IMP

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

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

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query:     8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct:    12 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 65

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

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

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query:     8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct:    12 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 65

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|G3MYN4 RAB1B "Ras-related protein Rab-1B" [Bos taurus (taxid:9913)]

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query:     8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct:     4 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 57

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|Q2HJH2 RAB1B "Ras-related protein Rab-1B" [Bos taurus (taxid:9913)]

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query:     8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct:     9 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 62

GO:0005525 "GTP binding" evidence=ISS

GO:0016020 "membrane" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|F1PVP9 RAB1B "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query:     8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct:    11 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 64

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|F1Q0H3 RAB1A "Ras-related protein Rab-1A" [Canis lupus familiaris (taxid:9615)]

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query:     8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct:    57 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 110

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|P62822 RAB1A "Ras-related protein Rab-1A" [Canis lupus familiaris (taxid:9615)]

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query:     8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct:    12 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 65

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P34140	RAB1B_DICDI	No assigned EC number	0.5740	0.72	0.2621	yes	N/A
Q9SEH3	RAD2C_ARATH	No assigned EC number	0.5370	0.72	0.2673	yes	N/A
Q06AU7	RAB1B_PIG	No assigned EC number	0.5740	0.72	0.2686	yes	N/A
Q9D1G1	RAB1B_MOUSE	No assigned EC number	0.5740	0.72	0.2686	yes	N/A
Q92928	RAB1C_HUMAN	No assigned EC number	0.5555	0.72	0.2686	yes	N/A
P01123	YPT1_YEAST	No assigned EC number	0.5555	0.72	0.2621	yes	N/A
Q9H0U4	RAB1B_HUMAN	No assigned EC number	0.5740	0.72	0.2686	yes	N/A
P11620	YPT1_SCHPO	No assigned EC number	0.5370	0.72	0.2660	yes	N/A
Q2HJH2	RAB1B_BOVIN	No assigned EC number	0.5740	0.72	0.2686	yes	N/A
Q9FPJ4	RAD2B_ARATH	No assigned EC number	0.5370	0.72	0.2673	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	75
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	2e-24
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	4e-24
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	9e-22
pfam00071	162	pfam00071, Ras, Ras family	1e-20
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	3e-20
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	8e-19
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	3e-17
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	4e-17
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	1e-16
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	3e-15
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	4e-15
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	7e-15
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	1e-14
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	3e-14
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	1e-13
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	3e-13
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	1e-12
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	3e-12
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	3e-12
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	4e-12
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	4e-12
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	1e-11
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	1e-11
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	1e-11
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	4e-11
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	4e-11
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	5e-11
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	7e-11
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	9e-11
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	1e-10
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	3e-10
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	3e-09
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	7e-09
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	2e-08
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	9e-08
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	6e-07
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	1e-06
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	1e-06
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	2e-06
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	5e-06
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	6e-06
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	8e-06
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	1e-05
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	1e-05
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	2e-05
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	2e-05
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	3e-05
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	4e-05
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	6e-05
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	1e-04
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	2e-04
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	2e-04
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	2e-04
pfam08477	116	pfam08477, Miro, Miro-like protein	2e-04
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	3e-04
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	3e-04
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	3e-04
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	4e-04
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	4e-04
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	6e-04
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	0.001
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	0.002
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	0.003
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	0.004

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

 Score = 88.7 bits (221), Expect = 2e-24
 Identities = 27/54 (50%), Positives = 39/54 (72%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +KI+++GDS VGK+ ++ RF D  + + Y STIG+DFK K I++D    KLQIW
Sbjct: 1  FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIW 54

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 87.9 bits (219), Expect = 4e-24
 Identities = 28/54 (51%), Positives = 39/54 (72%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +KI+++GDS VGKT ++ RF D  + + Y STIG+DFK K I++D    KLQIW
Sbjct: 1  FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIW 54

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

 Score = 82.4 bits (204), Expect = 9e-22
 Identities = 31/54 (57%), Positives = 44/54 (81%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 3  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIW 56

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|215692 pfam00071, Ras, Ras family

 Score = 79.1 bits (196), Expect = 1e-20
 Identities = 23/53 (43%), Positives = 35/53 (66%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K++++GD  VGK+ ++ RF    + + YI TIG+DF  K I++D    KLQIW
Sbjct: 1  KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIW 53

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

 Score = 78.5 bits (194), Expect = 3e-20
 Identities = 28/54 (51%), Positives = 43/54 (79%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF ++++  ++ISTIGIDFK + I+LD    KLQIW
Sbjct: 4  FKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIW 57

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

 Score = 74.8 bits (184), Expect = 8e-19
 Identities = 24/56 (42%), Positives = 42/56 (75%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + +KI+V+GDSNVGKTC+ +RFC   + +   +TIG+DF+++ +++D    K+Q+W
Sbjct: 1  RIFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLW 56

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

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

 Score = 70.4 bits (172), Expect = 3e-17
 Identities = 26/54 (48%), Positives = 43/54 (79%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +++L++GDS VGKTC++ RF D  ++ ++ISTIG+DFK K I++D +  ++QIW
Sbjct: 1  FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIW 54

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

 Score = 70.3 bits (173), Expect = 4e-17
 Identities = 25/54 (46%), Positives = 38/54 (70%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++ LGD +VGKT I+ RF  +T+ + Y +TIGIDF  K + +DD   +LQ+W
Sbjct: 1  HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLW 54

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

 Score = 69.0 bits (169), Expect = 1e-16
 Identities = 26/54 (48%), Positives = 38/54 (70%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +KI+++GDSNVGKTC+V RF   T+ +   +TIG+DF  K +++     KLQIW
Sbjct: 4  FKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIW 57

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

 Score = 66.0 bits (161), Expect = 3e-15
 Identities = 26/59 (44%), Positives = 43/59 (72%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D +  +K+L++GDS VGK+ ++ RF D T+  +YI+TIG+DFK + ++++    KLQIW
Sbjct: 2  DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIW 60

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

 Score = 65.0 bits (159), Expect = 4e-15
 Identities = 26/54 (48%), Positives = 37/54 (68%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           KIL++GDS VGK+ ++ RF D+T+ +   STIG+DFK K + +D    KL IW
Sbjct: 1  LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIW 54

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

 Score = 64.5 bits (158), Expect = 7e-15
 Identities = 23/55 (41%), Positives = 35/55 (63%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           +K+++LGDS+VGK+ IV RF    + +   STIG  F  + ++LDD   K +IW
Sbjct: 1  QFKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIW 55

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

 Score = 64.2 bits (157), Expect = 1e-14
 Identities = 22/54 (40%), Positives = 37/54 (68%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           K+++LGDS VGKT +++++ ++ + + Y +TIG DF  K + +DD    LQIW
Sbjct: 1  LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIW 54

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

 Score = 63.1 bits (154), Expect = 3e-14
 Identities = 23/55 (41%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDD-VPTKLQIW 61
          +K+LV+GD  VGKT I+ R+    +   Y +TIG+DF  K+I+ D     +LQ+W
Sbjct: 1  FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLW 55

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

 Score = 60.9 bits (148), Expect = 1e-13
 Identities = 17/54 (31%), Positives = 34/54 (62%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K L++G +  GK+C++H+F +  +      TIG++F  +++++     KLQIW
Sbjct: 1  FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIW 54

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

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

 Score = 59.9 bits (145), Expect = 3e-13
 Identities = 24/54 (44%), Positives = 40/54 (74%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++G+S+VGKT  + R+ D+++   ++ST+GIDFK K +  +D   KLQIW
Sbjct: 2  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIW 55

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

 Score = 58.9 bits (143), Expect = 1e-12
 Identities = 20/62 (32%), Positives = 38/62 (61%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT 68
          K++ +G+S VGK+CI+ R+C+  +   Y+ TIGID+  K + + +   ++  + L+    
Sbjct: 2  KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPE 61

Query: 69 YL 70
          YL
Sbjct: 62 YL 63

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

 Score = 57.9 bits (140), Expect = 3e-12
 Identities = 19/39 (48%), Positives = 29/39 (74%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQK 47
          K+L LGDS VGKT  ++R+ D  +   +I+T+GIDF++K
Sbjct: 6  KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREK 44

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

 Score = 58.0 bits (140), Expect = 3e-12
 Identities = 25/55 (45%), Positives = 40/55 (72%), Gaps = 1/55 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GDS VGKTC++ RF D  +   ++I+T+GI F  K++ +D V  KLQIW
Sbjct: 1  FKVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIW 55

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

 Score = 57.9 bits (140), Expect = 4e-12
 Identities = 23/55 (41%), Positives = 32/55 (58%), Gaps = 1/55 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDL-DDVPTKLQIW 61
           KI+VLGD   GKT ++ RF  E +  +Y  TIG+DF  + I L   +   LQ+W
Sbjct: 1  IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVW 55

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

 Score = 57.2 bits (138), Expect = 4e-12
 Identities = 23/53 (43%), Positives = 39/53 (73%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K++V+GD +VGKTC+++RFC + +   Y +TIG+DF+ +  ++  VP  LQ+W
Sbjct: 2  KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLW 54

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

 Score = 56.0 bits (135), Expect = 1e-11
 Identities = 20/54 (37%), Positives = 37/54 (68%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K +++GD  VGK+C++H+F ++ +      TIG++F  +II+++    KLQIW
Sbjct: 3  FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIW 56

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 56.5 bits (136), Expect = 1e-11
 Identities = 21/54 (38%), Positives = 39/54 (72%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K +++GD+ VGK+C++ +F D+ +   +  TIG++F  ++I +D+ P KLQIW
Sbjct: 7  FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIW 60

Length = 210

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

 Score = 56.7 bits (137), Expect = 1e-11
 Identities = 19/55 (34%), Positives = 38/55 (69%), Gaps = 1/55 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDD-VPTKLQIW 61
          ++++V+GDS VGK+ ++ RF +  + +    T+G+DF  ++I+++  V  KLQ+W
Sbjct: 3  FRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLW 57

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

 Score = 55.4 bits (133), Expect = 4e-11
 Identities = 21/55 (38%), Positives = 31/55 (56%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           +KI+VLGD  VGKT +++R   + + + Y  TIG     K I+      KLQ+W
Sbjct: 5  EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLW 59

Length = 219

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

 Score = 54.5 bits (132), Expect = 4e-11
 Identities = 23/55 (41%), Positives = 36/55 (65%), Gaps = 2/55 (3%)

Query: 8  YKILVLGDSNVGKTCIVHRFC-DETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +KI+++GDS VGK+ ++ RF  +E   D+  STIG++F  + I +D    K QIW
Sbjct: 4  FKIVLIGDSGVGKSNLLSRFTRNEFNLDSK-STIGVEFATRTIQIDGKTIKAQIW 57

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

 Score = 54.2 bits (131), Expect = 5e-11
 Identities = 17/54 (31%), Positives = 31/54 (57%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+  VGKT +V R+ +  + + + ST    F QK +++      L IW
Sbjct: 1  FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIW 54

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

 Score = 54.1 bits (131), Expect = 7e-11
 Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          K++VLG   VGK+ +  RF    + + Y  TI  D  +K I +D     L I
Sbjct: 1  KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDI 51

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

 Score = 53.7 bits (129), Expect = 9e-11
 Identities = 24/61 (39%), Positives = 38/61 (62%)

Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          M D +  +KI+++G++ VGKTC+V RF    +     +TIG+DF  K +++     KLQI
Sbjct: 1  MEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQI 60

Query: 61 W 61
          W
Sbjct: 61 W 61

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

 Score = 53.2 bits (128), Expect = 1e-10
 Identities = 20/55 (36%), Positives = 32/55 (58%), Gaps = 2/55 (3%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPT--KLQIW 61
          K++V+G+ NVGK+ ++ RF    +   Y  TIG+DF +K I L       +L +W
Sbjct: 2  KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLW 56

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

 Score = 52.4 bits (126), Expect = 3e-10
 Identities = 20/54 (37%), Positives = 37/54 (68%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K +++GD+ VGK+C++ +F D+ +   +  TIG++F  ++I +D    KLQIW
Sbjct: 5  FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIW 58

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

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

 Score = 49.5 bits (119), Expect = 3e-09
 Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
           YK++VLG   VGK+ +  +F    + D Y  TI  D  +K I++D     L I
Sbjct: 2  EYKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEIDGEVCLLDI 54

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

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

 Score = 48.7 bits (117), Expect = 7e-09
 Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          YK++VLG   VGK+ +  +F    + D Y  TI  D  +K I++D     L I
Sbjct: 1  YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDI 52

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

 Score = 47.7 bits (113), Expect = 2e-08
 Identities = 21/53 (39%), Positives = 36/53 (67%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +++++G   VGKT ++ RF D+T+ +   ST+G+DFK K ++L     +LQIW
Sbjct: 2  QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIW 54

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

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

 Score = 46.5 bits (110), Expect = 9e-08
 Identities = 20/54 (37%), Positives = 33/54 (61%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +KI+++GDS VGK+ I+ RF    +     STIG++F  + + ++    K QIW
Sbjct: 13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIW 66

Length = 216

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

 Score = 43.7 bits (103), Expect = 6e-07
 Identities = 18/53 (33%), Positives = 32/53 (60%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K+++LGD  VGK+ +++R+    +      TIG++F  K +++D     LQIW
Sbjct: 7  KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIW 59

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

 Score = 42.9 bits (101), Expect = 1e-06
 Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          YK++VLG   VGK+ +  +F    + D Y  TI  D  +K I++D     L+I
Sbjct: 2  YKLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIE-DSYRKQIEVDCQQCMLEI 53

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 43.5 bits (102), Expect = 1e-06
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 1/55 (1%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          ++KIL++GDS VGK+ ++  F   +  D    TIG+DFK K + +     KL IW
Sbjct: 14 SFKILLIGDSGVGKSSLLVSFISSSVEDL-APTIGVDFKIKQLTVGGKRLKLTIW 67

Length = 211

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

 Score = 42.8 bits (101), Expect = 2e-06
 Identities = 18/55 (32%), Positives = 33/55 (60%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTL 63
          KI +LGD+ +GKT ++ ++ +  + + YI T+G++F +K I +        IW L
Sbjct: 2  KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDL 56

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

 Score = 41.5 bits (97), Expect = 5e-06
 Identities = 22/53 (41%), Positives = 30/53 (56%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K L++GDS+VGK  I+    D +    Y   +GID+K   I LD    KLQ+W
Sbjct: 8  KFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLW 60

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

 Score = 41.0 bits (96), Expect = 6e-06
 Identities = 21/53 (39%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          YK++VLG   VGK+ +  +F   T+ + Y  TI  DF +K I++D  P+ L+I
Sbjct: 2  YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEI 53

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

 Score = 40.6 bits (96), Expect = 8e-06
 Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          KI+V+GD  VGKTC++  +    +   Y+ T+  D     + +D     L +W
Sbjct: 2  KIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV-FDNYSANVTVDGKQVNLGLW 53

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

 Score = 40.7 bits (95), Expect = 1e-05
 Identities = 18/39 (46%), Positives = 28/39 (71%), Gaps = 1/39 (2%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQK 47
          K+++LGD NVGKT ++HR+ +  + DT +ST+G  F  K
Sbjct: 2  KVVLLGDMNVGKTSLLHRYMERRFKDT-VSTVGGAFYLK 39

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

 Score = 40.0 bits (94), Expect = 1e-05
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGI---DFKQKIIDLDDVPTKLQIW 61
          K++++G   VGKT +  +   E +     ST GI   D+K    +   +  +L +W
Sbjct: 3  KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKI--RLNVW 56

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

 Score = 39.7 bits (93), Expect = 2e-05
 Identities = 16/61 (26%), Positives = 27/61 (44%)

Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
            D    +K++++GD  VGKT  V R     +   YI T+G++        +  P    +
Sbjct: 3  QMDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNV 62

Query: 61 W 61
          W
Sbjct: 63 W 63

Length = 215

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

 Score = 39.4 bits (92), Expect = 2e-05
 Identities = 17/52 (32%), Positives = 32/52 (61%), Gaps = 1/52 (1%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          K++VLGD  VGKT +  + C   + +TY  TI   ++++++ +D  P  L++
Sbjct: 1  KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVV-VDGQPCMLEV 51

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

 Score = 39.5 bits (92), Expect = 3e-05
 Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYD-TYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K+++LG  +VGKT +V R+    +    Y +TIG  F  K + + +    L IW
Sbjct: 2  KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIW 55

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

 Score = 39.0 bits (91), Expect = 4e-05
 Identities = 19/41 (46%), Positives = 26/41 (63%), Gaps = 1/41 (2%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKI 48
          Y+++VLG S VGKT IV RF    + + Y  TI  DF +K+
Sbjct: 1  YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKL 40

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 = 38.3 bits (89), Expect = 6e-05
 Identities = 16/41 (39%), Positives = 26/41 (63%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKI 48
          Y+++V G   VGK+ +V RF   T+ ++YI TI   ++Q I
Sbjct: 2  YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYRQVI 42

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

 Score = 37.2 bits (87), Expect = 1e-04
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 11/53 (20%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTI-----------GIDFKQKIID 50
          KI VLG  +VGK+ +  +F +  + ++Y  TI           G ++  +I+D
Sbjct: 3  KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFSKIITYKGQEYHLEIVD 55

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

 Score = 37.0 bits (86), Expect = 2e-04
 Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 1/56 (1%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDT-YISTIGIDFKQKIIDLDDVPTKLQIW 61
            KI+++GD NVGK+ +++R        T Y      ++   +I+ D    K  + 
Sbjct: 1  EIKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLL 56

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|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score = 37.0 bits (85), Expect = 2e-04
 Identities = 16/32 (50%), Positives = 23/32 (71%)

Query: 30 ETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +T+ + Y STIGIDF  K + LD+ P +LQ+W
Sbjct: 3  DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLW 34

Length = 176

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

 Score = 37.1 bits (86), Expect = 2e-04
 Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 2/47 (4%)

Query: 9  KILVLGDSNVGKTCIVHRFCDE--TYYDTYISTIGIDFKQKIIDLDD 53
          +  V+GD  VGK+ +V  F  +  T+   Y  T G D   K + + D
Sbjct: 2  QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPD 48

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|219856 pfam08477, Miro, Miro-like protein

 Score = 36.6 bits (85), Expect = 2e-04
 Identities = 11/53 (20%), Positives = 23/53 (43%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K++V+GD   GK+ ++ +     +    +   G       +++D     L IW
Sbjct: 1  KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIW 53

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|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 36.5 bits (84), Expect = 3e-04
 Identities = 16/53 (30%), Positives = 32/53 (60%), Gaps = 1/53 (1%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          KI+V+GD+  GKT ++H F  + Y ++Y+ T+  ++     ++D    +L +W
Sbjct: 3  KIVVVGDTQCGKTALLHVFAKDNYPESYVPTVFENYTAS-FEIDKHRIELNMW 54

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|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 = 36.4 bits (84), Expect = 3e-04
 Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          YKI++LG   VGK+ +  +F   ++ D +  TI   +K +   +D+ P  L I
Sbjct: 3  YKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKTQAR-IDNEPALLDI 54

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

 Score = 36.3 bits (84), Expect = 3e-04
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 5/54 (9%)

Query: 11 LVLGDSNVGKTCIVHRFCDETYY---DTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +V+G   VGK+ +++           D   +T   D   K +D   V  KL + 
Sbjct: 1  VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKGKV--KLVLV 52

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

 Score = 36.2 bits (84), Expect = 4e-04
 Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 1/55 (1%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
           TYK++V+G   VGK+ +  +F    +   Y  TI  D   K  ++D    +L I
Sbjct: 1  PTYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCEIDGQWARLDI 54

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

 Score = 36.0 bits (83), Expect = 4e-04
 Identities = 15/42 (35%), Positives = 20/42 (47%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIID 50
          K+LVLGDS VGK+ +VH  C          T+G     +   
Sbjct: 2  KVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHT 43

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|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score = 35.5 bits (82), Expect = 6e-04
 Identities = 18/53 (33%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          YKI+VLG   VGK+ +  +F    + ++Y  TI  D  +K +++D     L+I
Sbjct: 2  YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIE-DSYRKQVEIDGRQCDLEI 53

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

 Score = 35.0 bits (80), Expect = 0.001
 Identities = 16/53 (30%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          KI+V+GDS  GKT ++H F  + + + Y+ T+  ++     ++D    +L +W
Sbjct: 7  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTAS-FEIDTQRIELSLW 58

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

 Score = 34.6 bits (79), Expect = 0.002
 Identities = 13/35 (37%), Positives = 21/35 (60%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTI 40
          Q+ K +V+GD  VGKTC++  +    +   YI T+
Sbjct: 2  QSIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTV 36

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

 Score = 33.9 bits (78), Expect = 0.003
 Identities = 15/53 (28%), Positives = 28/53 (52%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          Y++++LGDS VGK+ + + F    Y D+     G D  ++ + +D     L +
Sbjct: 1  YRVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVV 53

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

 Score = 33.4 bits (77), Expect = 0.004
 Identities = 16/54 (29%), Positives = 30/54 (55%), Gaps = 5/54 (9%)

Query: 10 ILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDL--DDVPTKLQIW 61
          ++V+GD  VGKTC++  +    + + Y+ T+   F+    D+  D  P +L +W
Sbjct: 1  LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTV---FENYSADVEVDGKPVELGLW 51

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	75
KOG0084|consensus	205		99.95
KOG0094|consensus	221		99.94
KOG0095|consensus	213		99.93
KOG0080|consensus	209		99.92
KOG0092|consensus	200		99.92
KOG0098|consensus	216		99.92
KOG0394|consensus	210		99.92
KOG0078|consensus	207		99.91
KOG0087|consensus	222		99.91
KOG0086|consensus	214		99.9
KOG0079|consensus	198		99.88
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.88
KOG0091|consensus	213		99.87
KOG0097|consensus	215		99.87
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.86
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.86
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.86
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.86
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.86
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.86
KOG0093|consensus	193		99.86
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.85
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.84
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.84
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.84
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.84
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.83
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.83
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.83
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.83
KOG0393|consensus	198		99.83
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.83
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.83
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.82
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.82
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.82
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.82
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.82
KOG0081|consensus	219		99.82
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.82
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.82
PLN00023	334	GTP-binding protein; Provisional	99.82
PLN03110	216	Rab GTPase; Provisional	99.82
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.82
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.82
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.81
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.81
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.81
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.81
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.81
PTZ00369	189	Ras-like protein; Provisional	99.81
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.81
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.8
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.8
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.8
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.8
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.8
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.8
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.8
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.8
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.8
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.79
PLN03108	210	Rab family protein; Provisional	99.79
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.79
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.79
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.79
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.79
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.78
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.78
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.78
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.77
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.77
KOG0088|consensus	218		99.77
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.77
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.77
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.77
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.77
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.77
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.77
PLN03118	211	Rab family protein; Provisional	99.77
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.77
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.76
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.76
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.76
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.76
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.76
COG1100	219	GTPase SAR1 and related small G proteins [General	99.75
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.75
KOG0083|consensus	192		99.75
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.74
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.73
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.72
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.71
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.71
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.71
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.71
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.7
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.69
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.69
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.69
PLN00223	181	ADP-ribosylation factor; Provisional	99.69
PTZ00133	182	ADP-ribosylation factor; Provisional	99.68
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.68
KOG0395|consensus	196		99.68
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.68
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.68
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.68
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.67
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.67
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.67
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.66
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.65
KOG4252|consensus	246		99.65
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.64
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.63
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.63
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.62
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.58
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.58
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.57
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.56
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.56
KOG0070|consensus	181		99.55
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.55
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.55
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.53
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.53
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.52
KOG0073|consensus	185		99.52
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.51
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.51
KOG0096|consensus	216		99.51
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.5
KOG1673|consensus	205		99.49
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.49
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.48
PRK04213	201	GTP-binding protein; Provisional	99.47
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.46
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.45
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.42
KOG0071|consensus	180		99.41
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.4
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.39
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.36
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.34
KOG0075|consensus	186		99.34
PRK15494	339	era GTPase Era; Provisional	99.33
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.32
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.31
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.29
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.29
KOG0074|consensus	185		99.28
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.28
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.27
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.25
KOG4423|consensus	229		99.25
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.23
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.22
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	99.21
PRK03003	472	GTP-binding protein Der; Reviewed	99.21
PRK00093	435	GTP-binding protein Der; Reviewed	99.19
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.18
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.17
cd00881	189	GTP_translation_factor GTP translation factor fami	99.17
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.16
PRK03003	472	GTP-binding protein Der; Reviewed	99.16
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.16
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.16
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.15
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.15
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.15
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.14
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.14
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.13
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.11
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.11
PRK05306	787	infB translation initiation factor IF-2; Validated	99.09
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.09
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.09
CHL00189	742	infB translation initiation factor 2; Provisional	99.09
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.09
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.09
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	99.07
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.07
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.06
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.06
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.03
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.02
PRK10218	607	GTP-binding protein; Provisional	99.02
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.02
PRK11058	426	GTPase HflX; Provisional	99.01
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.01
COG0486	454	ThdF Predicted GTPase [General function prediction	98.99
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.97
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	98.96
PRK00089	292	era GTPase Era; Reviewed	98.95
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.95
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	98.94
PRK00093	435	GTP-binding protein Der; Reviewed	98.94
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	98.94
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	98.92
PTZ00099	176	rab6; Provisional	98.92
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.92
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.9
PRK05433	600	GTP-binding protein LepA; Provisional	98.89
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.89
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.89
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.88
PRK04004	586	translation initiation factor IF-2; Validated	98.88
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.88
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	98.87
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.84
PRK09602	396	translation-associated GTPase; Reviewed	98.84
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.83
KOG2655|consensus	366		98.83
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.82
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.8
COG3596	296	Predicted GTPase [General function prediction only	98.79
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.79
PRK15467	158	ethanolamine utilization protein EutP; Provisional	98.78
PF09439	181	SRPRB: Signal recognition particle receptor beta s	98.78
PRK12317	425	elongation factor 1-alpha; Reviewed	98.78
COG2229	187	Predicted GTPase [General function prediction only	98.78
PRK12296	500	obgE GTPase CgtA; Reviewed	98.77
COG0218	200	Predicted GTPase [General function prediction only	98.75
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	98.72
COG1161	322	Predicted GTPases [General function prediction onl	98.71
KOG3883|consensus	198		98.71
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	98.7
PRK12299	335	obgE GTPase CgtA; Reviewed	98.69
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.68
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.68
KOG1547|consensus	336		98.67
PRK12297	424	obgE GTPase CgtA; Reviewed	98.67
KOG1707|consensus	625		98.64
TIGR00485	394	EF-Tu translation elongation factor TU. This align	98.64
KOG0076|consensus	197		98.63
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	98.62
KOG1191|consensus	531		98.62
KOG0072|consensus	182		98.61
PLN03126	478	Elongation factor Tu; Provisional	98.61
PRK12735	396	elongation factor Tu; Reviewed	98.61
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.61
PRK00741	526	prfC peptide chain release factor 3; Provisional	98.6
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.6
PRK13351	687	elongation factor G; Reviewed	98.58
PTZ00258	390	GTP-binding protein; Provisional	98.58
COG1160	444	Predicted GTPases [General function prediction onl	98.55
COG1159	298	Era GTPase [General function prediction only]	98.54
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.54
PRK09601	364	GTP-binding protein YchF; Reviewed	98.53
COG1084	346	Predicted GTPase [General function prediction only	98.52
PRK12298	390	obgE GTPase CgtA; Reviewed	98.52
KOG3859|consensus	406		98.52
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.51
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	98.51
KOG1423|consensus	379		98.51
COG1160	444	Predicted GTPases [General function prediction onl	98.5
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.5
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.49
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	98.49
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.48
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	98.48
PRK12288	347	GTPase RsgA; Reviewed	98.48
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	98.47
PRK04000	411	translation initiation factor IF-2 subunit gamma;	98.46
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	98.45
PRK12736	394	elongation factor Tu; Reviewed	98.44
CHL00071	409	tufA elongation factor Tu	98.42
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	98.4
PRK12289	352	GTPase RsgA; Reviewed	98.4
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.38
PTZ00141	446	elongation factor 1- alpha; Provisional	98.37
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.36
PRK13796	365	GTPase YqeH; Provisional	98.35
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.34
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.34
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	98.34
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.33
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	98.32
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.32
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.31
COG1163	365	DRG Predicted GTPase [General function prediction	98.28
PRK00049	396	elongation factor Tu; Reviewed	98.27
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	98.27
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.26
PRK00098	298	GTPase RsgA; Reviewed	98.24
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	98.21
PLN03127	447	Elongation factor Tu; Provisional	98.19
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	98.17
COG1162	301	Predicted GTPases [General function prediction onl	98.15
KOG0077|consensus	193		98.12
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	98.09
PRK08118	167	topology modulation protein; Reviewed	98.09
PLN00043	447	elongation factor 1-alpha; Provisional	98.08
KOG3886|consensus	295		98.07
KOG0090|consensus	238		98.06
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	98.03
PRK07261	171	topology modulation protein; Provisional	98.02
KOG1491|consensus	391		97.99
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.98
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.96
PRK12739	691	elongation factor G; Reviewed	97.96
PLN00116	843	translation elongation factor EF-2 subunit; Provis	97.91
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.9
PTZ00416	836	elongation factor 2; Provisional	97.88
PF00004	132	AAA: ATPase family associated with various cellula	97.87
PRK00007	693	elongation factor G; Reviewed	97.83
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.83
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	97.83
smart00382	148	AAA ATPases associated with a variety of cellular	97.82
PRK14738	206	gmk guanylate kinase; Provisional	97.82
PRK06217	183	hypothetical protein; Validated	97.8
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.8
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.78
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.78
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.76
PRK07560	731	elongation factor EF-2; Reviewed	97.76
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	97.74
PF05729	166	NACHT: NACHT domain	97.74
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.74
KOG1707|consensus	625		97.73
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.73
PRK03839	180	putative kinase; Provisional	97.72
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.72
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.72
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.72
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.72
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.72
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.71
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.7
PRK14530	215	adenylate kinase; Provisional	97.7
PRK05541	176	adenylylsulfate kinase; Provisional	97.7
KOG1424|consensus	562		97.7
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.7
PRK14532	188	adenylate kinase; Provisional	97.7
TIGR00101	199	ureG urease accessory protein UreG. This model rep	97.69
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	97.68
KOG0705|consensus	749		97.68
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.68
PRK13949	169	shikimate kinase; Provisional	97.68
PF13173	128	AAA_14: AAA domain	97.67
PRK13695	174	putative NTPase; Provisional	97.66
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.66
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.64
PRK14737	186	gmk guanylate kinase; Provisional	97.64
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.64
PRK12740	668	elongation factor G; Reviewed	97.64
KOG1486|consensus	364		97.63
PRK02496	184	adk adenylate kinase; Provisional	97.63
PRK00300	205	gmk guanylate kinase; Provisional	97.63
KOG3905|consensus	473		97.63
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.63
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.62
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	97.62
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	97.62
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.61
PRK14531	183	adenylate kinase; Provisional	97.61
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	97.6
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	97.59
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.59
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	97.59
PRK05480	209	uridine/cytidine kinase; Provisional	97.58
PTZ00088	229	adenylate kinase 1; Provisional	97.58
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	97.58
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.57
PRK08233	182	hypothetical protein; Provisional	97.57
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.57
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.56
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	97.56
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	97.56
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	97.55
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.55
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.55
COG3638	258	ABC-type phosphate/phosphonate transport system, A	97.54
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	97.54
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	97.54
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	97.53
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	97.53
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	97.53
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	97.53
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	97.53
PRK05057	172	aroK shikimate kinase I; Reviewed	97.53
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	97.53
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.53
cd03269	210	ABC_putative_ATPase This subfamily is involved in	97.52
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	97.52
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	97.52
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.52
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	97.52
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	97.52
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	97.52
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	97.51
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	97.51
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.51
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.51
PHA00729	226	NTP-binding motif containing protein	97.51
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	97.51
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	97.5
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.5
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	97.5
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	97.5
COG4525	259	TauB ABC-type taurine transport system, ATPase com	97.49
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	97.49
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	97.49
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	97.49
PRK00279	215	adk adenylate kinase; Reviewed	97.49
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	97.49
PRK00625	173	shikimate kinase; Provisional	97.48
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.48
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	97.48
KOG2485|consensus	335		97.48
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	97.48
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.48
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	97.47
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	97.47
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.47
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	97.47
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	97.46
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.46
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	97.46
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	97.46
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	97.46
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	97.46
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	97.46
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.45
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	97.45
PRK10908	222	cell division protein FtsE; Provisional	97.45
PRK14527	191	adenylate kinase; Provisional	97.45
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	97.45
KOG3347|consensus	176		97.45
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	97.45
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.45
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	97.44
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	97.44
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	97.44
cd03215	182	ABC_Carb_Monos_II This family represents domain II	97.44
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	97.43
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.43
PRK14526	211	adenylate kinase; Provisional	97.43
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	97.43
PRK14528	186	adenylate kinase; Provisional	97.43
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	97.43
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	97.43
PRK13851	344	type IV secretion system protein VirB11; Provision	97.42
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	97.42
cd01128	249	rho_factor Transcription termination factor rho is	97.42
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.42
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	97.42
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	97.42
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.42
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	97.41
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.41
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	97.41
KOG2484|consensus	435		97.41
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.41
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	97.41
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	97.41
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	97.41
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.41
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	97.41
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	97.4
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.4
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.4
PRK06762	166	hypothetical protein; Provisional	97.4
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.4
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.4
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	97.4
COG0488	530	Uup ATPase components of ABC transporters with dup	97.4
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.4
PRK14529	223	adenylate kinase; Provisional	97.4
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	97.4
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	97.4
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	97.39
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	97.39
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	97.39
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	97.39
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	97.39
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	97.39
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	97.39
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	97.39
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	97.39
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	97.39
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	97.38
PRK13947	171	shikimate kinase; Provisional	97.38
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	97.38
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	97.38
PRK06547	172	hypothetical protein; Provisional	97.38
cd03246	173	ABCC_Protease_Secretion This family represents the	97.38
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	97.38
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	97.38
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	97.38
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	97.38
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	97.37
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	97.37
COG4559	259	ABC-type hemin transport system, ATPase component	97.37
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	97.37
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	97.37
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	97.37
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	97.37

>KOG0084|consensus

Probab=99.95  E-value=4.4e-28  Score=138.14  Aligned_cols=71  Identities=42%  Similarity=0.824  Sum_probs=68.3

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..++.+||+++|++|||||+|+.||+.+.|++.+..|+|+++..+.+.++++.++|+||||+|||||+++.
T Consensus         5 ~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit   75 (205)
T KOG0084|consen    5 EYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTIT   75 (205)
T ss_pred             ccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhh
Confidence            56889999999999999999999999999999999999999999999999999999999999999999864

>KOG0094|consensus

Probab=99.94  E-value=1.7e-26  Score=131.85  Aligned_cols=69  Identities=38%  Similarity=0.664  Sum_probs=66.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      -..+|++++|+.+||||||+.||+.+.|...|.+|+|++|..+.+.+.+..++|++|||+|||||++|.
T Consensus        20 ~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrsli   88 (221)
T KOG0094|consen   20 LKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI   88 (221)
T ss_pred             ceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhh
Confidence            446999999999999999999999999999999999999999999999999999999999999999885

>KOG0095|consensus

Probab=99.93  E-value=1.1e-25  Score=124.70  Aligned_cols=73  Identities=33%  Similarity=0.605  Sum_probs=70.6

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      |.++.+.+||+++|+.|||||+|..+|..+-||+....|+|++|..+++++++..++|+||||+|||||++++
T Consensus         1 medykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsit   73 (213)
T KOG0095|consen    1 MEDYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSIT   73 (213)
T ss_pred             CcccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHH
Confidence            7889999999999999999999999999999999999999999999999999999999999999999999875

>KOG0080|consensus

Probab=99.92  E-value=8.5e-25  Score=122.14  Aligned_cols=70  Identities=37%  Similarity=0.665  Sum_probs=66.3

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +...+|++++|++|||||||+.+|..+.|.+..+.|+|.+|..+.+.++++.+++-||||+|||+||.|+
T Consensus         8 ~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLT   77 (209)
T KOG0080|consen    8 YDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLT   77 (209)
T ss_pred             cceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccC
Confidence            3567999999999999999999999999988888889999999999999999999999999999999986

>KOG0092|consensus

Probab=99.92  E-value=3.9e-25  Score=125.75  Aligned_cols=71  Identities=32%  Similarity=0.619  Sum_probs=67.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccccC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDKI   75 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~   75 (75)
                      ...+|++++|+.+||||||+.||..++|.+...||+|.-|.++.+.+++..++++||||+|||||+++..|
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapM   73 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPM   73 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccc
Confidence            46799999999999999999999999999888999999999999999999999999999999999999875

>KOG0098|consensus

Probab=99.92  E-value=8.8e-25  Score=124.15  Aligned_cols=71  Identities=28%  Similarity=0.627  Sum_probs=67.7

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +.+.+|++++||.|||||+|+.+|++..|.+.+..|+|+++....+++|+++++|+||||+|||+|+++++
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~   73 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTR   73 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHH
Confidence            57889999999999999999999999999999999999999999999999999999999999999998753

>KOG0394|consensus

Probab=99.92  E-value=4.5e-25  Score=125.07  Aligned_cols=69  Identities=33%  Similarity=0.640  Sum_probs=66.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+|++++|++|||||||+++|...+|...|..|+|.+|.++.+.+|++.+.++||||+|||||++|.
T Consensus         7 ~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg   75 (210)
T KOG0394|consen    7 RTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLG   75 (210)
T ss_pred             ccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcc
Confidence            557999999999999999999999999999999999999999999999999999999999999999874

>KOG0078|consensus

Probab=99.91  E-value=2.2e-24  Score=124.00  Aligned_cols=71  Identities=45%  Similarity=0.827  Sum_probs=68.1

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ++++.+|++++||++||||+++.+|.++.|...+..|+|++|..+.+.++++.+.+++|||+||++|+.+.
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~   78 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTIT   78 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHH
Confidence            56889999999999999999999999999999999999999999999999999999999999999999874

>KOG0087|consensus

Probab=99.91  E-value=4.5e-24  Score=122.87  Aligned_cols=71  Identities=30%  Similarity=0.573  Sum_probs=67.8

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..++.+|++++||++||||.|+.||..++|..+..+|+|+++.+..+.++++.++.+||||+|||||+++.
T Consensus        10 ~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAit   80 (222)
T KOG0087|consen   10 EYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAIT   80 (222)
T ss_pred             ccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhcccc
Confidence            46789999999999999999999999999999999999999999999999999999999999999999875

>KOG0086|consensus

Probab=99.90  E-value=6.9e-24  Score=117.93  Aligned_cols=72  Identities=28%  Similarity=0.649  Sum_probs=68.1

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+++.+|++++|+.|.|||+|+++|..++|..+...|+|++|.++.+.+.++.++|+||||+|||+|++.++
T Consensus         5 tYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtR   76 (214)
T KOG0086|consen    5 TYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTR   76 (214)
T ss_pred             hhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHH
Confidence            467899999999999999999999999999999999999999999999999999999999999999998754

>KOG0079|consensus

Probab=99.88  E-value=2e-23  Score=115.44  Aligned_cols=70  Identities=37%  Similarity=0.768  Sum_probs=65.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ....+|.+++||+|||||+|+.+|..+.|..+|..|+|.++..+++.+++..++|+|||++|||+|+.+.
T Consensus         5 ~dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtit   74 (198)
T KOG0079|consen    5 YDHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTIT   74 (198)
T ss_pred             HHHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHH
Confidence            3456889999999999999999999999999999999999999999999999999999999999999764

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.88  E-value=6.7e-22  Score=112.99  Aligned_cols=70  Identities=26%  Similarity=0.500  Sum_probs=62.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +...+|++++|+++||||||+.+|..+.|...+.||++..+ .+.+.+++..+.+++|||+|+++|+.+++
T Consensus         2 ~~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~~~~~~~l~iwDtaG~e~~~~~~~   71 (182)
T cd04172           2 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRP   71 (182)
T ss_pred             CcceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEECCEEEEEEEEECCCchhhHhhhh
Confidence            46689999999999999999999999999999999998655 56778899999999999999999988754

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

>KOG0091|consensus

Probab=99.87  E-value=1.6e-23  Score=117.29  Aligned_cols=71  Identities=27%  Similarity=0.576  Sum_probs=65.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEe-CCeEEEEEEEeCCCccccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDL-DDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ..++++++++||+-||||+|++.|..++|.+-.+||+|++|+...+++ ++..++|++|||+|||+|+++++
T Consensus         5 f~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitk   76 (213)
T KOG0091|consen    5 FHYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITK   76 (213)
T ss_pred             eEEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHH
Confidence            468999999999999999999999999999989999999999888776 68899999999999999999864

>KOG0097|consensus

Probab=99.87  E-value=2.1e-22  Score=111.10  Aligned_cols=72  Identities=28%  Similarity=0.665  Sum_probs=67.6

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ++++.+|.+++|+-|||||+|+++|...+|..+.+.|+|++|.+..+++.++.++++||||+|||+|++.++
T Consensus         7 nysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtr   78 (215)
T KOG0097|consen    7 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTR   78 (215)
T ss_pred             chhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHH
Confidence            457899999999999999999999999999999999999999999999999999999999999999998653

>cd04128 Spg1 Spg1p

Probab=99.86  E-value=1.5e-21  Score=111.34  Aligned_cols=66  Identities=27%  Similarity=0.629  Sum_probs=61.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +|++++|+.+||||||+++|+.++|..++.||++.++..+.+.+++..+.+++||++|+++|+.+.
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~   66 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINML   66 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhh
Confidence            589999999999999999999999999999999999988888899999999999999999998764

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

>cd01875 RhoG RhoG subfamily

Probab=99.86  E-value=2.5e-21  Score=110.99  Aligned_cols=67  Identities=25%  Similarity=0.482  Sum_probs=60.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+|++++|+.+||||||+.+|..+.|+..+.||++..+ .+.+.+++..+.+++|||+|+++|+.+++
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~   69 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVDGRTVSLNLWDTAGQEEYDRLRT   69 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEECCEEEEEEEEECCCchhhhhhhh
Confidence            58999999999999999999999999999999998655 45667899999999999999999998764

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

>cd04121 Rab40 Rab40 subfamily

Probab=99.86  E-value=3.1e-21  Score=110.83  Aligned_cols=71  Identities=31%  Similarity=0.450  Sum_probs=64.7

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +..+.+||+++|+.+||||||+.+|..+.|...+.++++.++..+.+.+++..+.+++||++|+++|+.+.
T Consensus         2 ~~~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~   72 (189)
T cd04121           2 AYDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIF   72 (189)
T ss_pred             CCCceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHH
Confidence            35678999999999999999999999999988888999999888888889999999999999999998764

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=99.86  E-value=2.1e-21  Score=112.55  Aligned_cols=66  Identities=30%  Similarity=0.650  Sum_probs=61.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.|+++|+.|||||||+.+|..+.|...+.+|++.++..+.+.+++..+.+++||++|+++|+++.
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~   66 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSIT   66 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHH
Confidence            468999999999999999999999999999999999988889999999999999999999998765

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

>cd04133 Rop_like Rop subfamily

Probab=99.86  E-value=4.7e-21  Score=109.06  Aligned_cols=66  Identities=26%  Similarity=0.484  Sum_probs=60.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +|++++|+++||||||+.+|+.+.|..++.||++..+ .+.+.+++..+.+++|||+|+++|+.+++
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~   67 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLWDTAGQEDYNRLRP   67 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEEECCCCccccccch
Confidence            6999999999999999999999999999999998665 55677899999999999999999998764

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,

>cd04131 Rnd Rnd subfamily

Probab=99.86  E-value=5e-21  Score=108.97  Aligned_cols=67  Identities=25%  Similarity=0.519  Sum_probs=60.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ++|++++|+++||||||+++|+.+.|+..+.||++.++ .+.+.+++..+.+++|||+|+++|+.++.
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~iwDt~G~~~~~~~~~   67 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENY-TASFEIDEQRIELSLWDTSGSPYYDNVRP   67 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEECCEEEEEEEEECCCchhhhhcch
Confidence            47999999999999999999999999999999998665 56778899999999999999999987654

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.

>KOG0093|consensus

Probab=99.86  E-value=1.9e-21  Score=107.50  Aligned_cols=71  Identities=35%  Similarity=0.697  Sum_probs=66.4

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.++.+|++++|+..||||||+.+++++.|...+.+|+|++|..+++....+.+.+++|||+|||+|+.++
T Consensus        17 nFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiT   87 (193)
T KOG0093|consen   17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTIT   87 (193)
T ss_pred             cccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHH
Confidence            35678999999999999999999999999999999999999999999888889999999999999999875

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.85  E-value=1.6e-20  Score=106.48  Aligned_cols=66  Identities=23%  Similarity=0.433  Sum_probs=58.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +|++++|++|||||||+++|..+.|+..+.||++..+ ...+.+++..+.+++||++|+++|+.++.
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~   67 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRP   67 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeee-EEEEEECCEEEEEEEEECCCccchhhhhh
Confidence            7999999999999999999999999889999998665 45567888999999999999999987653

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.84  E-value=1.3e-20  Score=111.18  Aligned_cols=67  Identities=19%  Similarity=0.445  Sum_probs=60.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+||+++|+.+||||||+.+|+.+.|...+.||++.++ ...+.+++..+.++||||+|+++|+.+.
T Consensus        12 ~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~-~~~i~~~~~~v~l~iwDTaG~e~~~~~~   78 (232)
T cd04174          12 MRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TAGLETEEQRVELSLWDTSGSPYYDNVR   78 (232)
T ss_pred             eeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeee-EEEEEECCEEEEEEEEeCCCchhhHHHH
Confidence            578999999999999999999999999999999998666 5567889999999999999999998764

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.84  E-value=1e-20  Score=111.07  Aligned_cols=67  Identities=24%  Similarity=0.506  Sum_probs=59.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+||+++|+++||||||+.+|..+.|+..|.||++.++ ...+.+++..+.|.+|||+|+++|+.++.
T Consensus         1 ~~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~-~~~~~~~~~~v~L~iwDt~G~e~~~~l~~   67 (222)
T cd04173           1 RCKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENY-TASFEIDKRRIELNMWDTSGSSYYDNVRP   67 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccce-EEEEEECCEEEEEEEEeCCCcHHHHHHhH
Confidence            37999999999999999999999999999999998655 46778899999999999999999987653

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.84  E-value=1.9e-20  Score=104.80  Aligned_cols=67  Identities=30%  Similarity=0.705  Sum_probs=61.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+||+++|+++||||||++++..+.|...+.+|++.++..+.+.+++..+.+++||++|+++|+.+.
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   68 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVT   68 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHH
Confidence            4899999999999999999999999988899999988888888889999999999999999987653

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.84  E-value=2.4e-20  Score=105.30  Aligned_cols=65  Identities=35%  Similarity=0.798  Sum_probs=60.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ||+++|+++||||||+++|+.+.|...|.||++.++..+.+.+++..+.+++||++|+++|..+.
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   66 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIA   66 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhH
Confidence            89999999999999999999999999999999999888888889989999999999999987654

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=99.83  E-value=3e-20  Score=107.05  Aligned_cols=66  Identities=35%  Similarity=0.688  Sum_probs=60.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC-CeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD-DVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|++|||||||+++|..+.|...+.||++.++..+.+.++ +..+.+++||++|+++|+.+.
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~   67 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMT   67 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhH
Confidence            589999999999999999999999988899999998888888887 889999999999999998764

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.

>cd04116 Rab9 Rab9 subfamily

Probab=99.83  E-value=7.1e-20  Score=102.66  Aligned_cols=70  Identities=27%  Similarity=0.535  Sum_probs=63.2

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+..+|++++|+++||||||++++..+.+...+.++++.++..+.+.+++..+.+++||++|+++|+.+.
T Consensus         2 ~~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~   71 (170)
T cd04116           2 KSSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLR   71 (170)
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhH
Confidence            3567999999999999999999999999988888999988888888889999999999999999987664

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.83  E-value=5.5e-20  Score=107.54  Aligned_cols=69  Identities=20%  Similarity=0.345  Sum_probs=63.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+|++++|++|||||||+++++.++|...+.||++.++....+..++..+.+.+||++|+++|+.+.
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   79 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLR   79 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhh
Confidence            567999999999999999999999999999999999999888888778888999999999999998765

>cd04136 Rap_like Rap-like subfamily

Probab=99.83  E-value=3.2e-20  Score=103.10  Aligned_cols=66  Identities=27%  Similarity=0.472  Sum_probs=58.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+||+++|++|||||||+++++.+.|...+.||.+ +.+.+.+.+++..+.+++||++|+++|+++.
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   66 (163)
T cd04136           1 EYKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVDGQQCMLEILDTAGTEQFTAMR   66 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCccccchHH
Confidence            37999999999999999999999999888889987 4556777789999999999999999998765

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.

>KOG0393|consensus

Probab=99.83  E-value=3.7e-21  Score=110.67  Aligned_cols=68  Identities=26%  Similarity=0.517  Sum_probs=63.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC-CeEEEEEEEeCCCccccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD-DVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ..+|+++|||++||||+|+..|..+.|++.|.||+. +.+...+.++ ++.+.+.+|||+||+.|..++.
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwDTAGqedYDrlRp   71 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWDTAGQEDYDRLRP   71 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeeecCCCcccccccc
Confidence            568999999999999999999999999999999995 7778899995 9999999999999999988764

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.83  E-value=5.5e-20  Score=102.27  Aligned_cols=66  Identities=30%  Similarity=0.737  Sum_probs=60.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|+++||||||+++++.+++...+.|+++.++..+.+.+++..+.+++||++|+++|..+.
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   66 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVR   66 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHH
Confidence            589999999999999999999999999999999999888888888999999999999999877653

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.

>cd04117 Rab15 Rab15 subfamily

Probab=99.83  E-value=6.6e-20  Score=102.48  Aligned_cols=66  Identities=41%  Similarity=0.839  Sum_probs=60.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|++|||||||++++..+.|...+.||++.++..+.+.+++..+.+++||++|+++|..+.
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   66 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTIT   66 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhH
Confidence            589999999999999999999999988899999988888888888889999999999999987654

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.82  E-value=4.8e-20  Score=106.91  Aligned_cols=66  Identities=23%  Similarity=0.383  Sum_probs=59.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC-----CeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD-----DVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|+++||||||+++++.+.|...+.||++.++..+.+.++     ++.+.+++||++|+++|+.++
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~   71 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTR   71 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHH
Confidence            589999999999999999999999999999999988877777663     578999999999999998765

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.

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

Probab=99.82  E-value=6.8e-20  Score=101.88  Aligned_cols=65  Identities=38%  Similarity=0.682  Sum_probs=61.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ||+++|+++||||||+++|..+.|++.+.+|++.+...+.+.+++..+.+++||++|+++|..++
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   65 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLR   65 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHhhccccccccccccccccccccccccccccccccccccccccccc
Confidence            89999999999999999999999999999999999999999999999999999999999987654

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>cd04110 Rab35 Rab35 subfamily

Probab=99.82  E-value=1e-19  Score=104.88  Aligned_cols=70  Identities=36%  Similarity=0.755  Sum_probs=63.0

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .++.+||+++|++|||||||+++|..+.|...+.||++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         3 ~~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~   72 (199)
T cd04110           3 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTIT   72 (199)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHH
Confidence            4567999999999999999999999999988899999988888888888888999999999999987654

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.82  E-value=8.7e-20  Score=103.16  Aligned_cols=67  Identities=24%  Similarity=0.428  Sum_probs=59.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+||+++|++|||||||+++|..++|+..+.||++..+ .+.+.+++..+.+++||++|+++|+.+.+
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~   68 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDILDTAGQAEFTAMRD   68 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEEeCCCchhhHHHhH
Confidence            47999999999999999999999999888999998555 45677899999999999999999987653

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.82  E-value=1.4e-19  Score=101.13  Aligned_cols=66  Identities=24%  Similarity=0.430  Sum_probs=59.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|++|||||||++++..+.|...+.++.+.+++.+.+.+++..+.+++||++|+++|+.+.
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   66 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMH   66 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhh
Confidence            589999999999999999999999988888888877777777788899999999999999998765

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

>KOG0081|consensus

Probab=99.82  E-value=1.9e-22  Score=112.80  Aligned_cols=71  Identities=34%  Similarity=0.594  Sum_probs=64.3

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC---------CeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD---------DVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~---------~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ++++.+|++.+||+|||||++++++.++.|.....+|+|++|..+.+.++         +..+.|++|||+|||+|++++
T Consensus         5 dydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLT   84 (219)
T KOG0081|consen    5 DYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLT   84 (219)
T ss_pred             cHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHH
Confidence            45678899999999999999999999999999999999999998888763         356999999999999999985

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.82  E-value=1.3e-19  Score=102.68  Aligned_cols=67  Identities=28%  Similarity=0.496  Sum_probs=58.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+|++++|+++||||||+.+++.+.|..++.||++ +.+...+.+++..+.+++|||+|+++|+.+++
T Consensus         1 ~~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~   67 (174)
T cd01871           1 AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRP   67 (174)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcce-eeeEEEEEECCEEEEEEEEECCCchhhhhhhh
Confidence            37999999999999999999999999999999986 44456677889999999999999999987654

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=99.82  E-value=1e-19  Score=101.32  Aligned_cols=67  Identities=31%  Similarity=0.575  Sum_probs=59.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ++||+++|++|||||||+++++.+.+...+.||++ +++...+.+++..+.+++||++|+++|+.+.+
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~   67 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRD   67 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHH
Confidence            47999999999999999999999999888888886 56667788899999999999999999987753

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.82  E-value=1.1e-19  Score=111.30  Aligned_cols=71  Identities=24%  Similarity=0.322  Sum_probs=62.5

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC-------------CeEEEEEEEeCCCccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD-------------DVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-------------~~~~~l~i~D~~g~~~~~   70 (75)
                      +...+||+++|+.|||||||+++|+.+.|...+.+|+|.++..+.+.++             ++.+.++|||++|+++|+
T Consensus        18 ~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfr   97 (334)
T PLN00023         18 PCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYK   97 (334)
T ss_pred             CccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhh
Confidence            3457999999999999999999999999988899999999887777764             357899999999999999


Q ss_pred             cccc
Q psy12927         71 LLDK   74 (75)
Q Consensus        71 ~~~~   74 (75)
                      .+..
T Consensus        98 sL~~  101 (334)
T PLN00023         98 DCRS  101 (334)
T ss_pred             hhhH
Confidence            8754

>PLN03110 Rab GTPase; Provisional

Probab=99.82  E-value=1.7e-19  Score=105.23  Aligned_cols=70  Identities=30%  Similarity=0.567  Sum_probs=63.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+.+|++++|++|||||||+++|..+.+...+.+|++.++..+.+.+++..+.+++||++|+++|.++.
T Consensus         9 ~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~   78 (216)
T PLN03110          9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAIT   78 (216)
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHH
Confidence            3467999999999999999999999999988889999999988888899999999999999999987754

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.82  E-value=1.4e-19  Score=101.46  Aligned_cols=68  Identities=41%  Similarity=0.812  Sum_probs=61.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.+||+++|+++||||||++++..++|...+.|+.+.++....+..++..+.+++||++|+++|..+.
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~   69 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTIT   69 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHH
Confidence            56899999999999999999999999999999999988887888888888999999999999887653

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.82  E-value=1.5e-19  Score=101.13  Aligned_cols=66  Identities=38%  Similarity=0.746  Sum_probs=59.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +|++++|+++||||||++++..++|...+.|+.+.++....+..++..+.+++||++|+++|+.+.
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~   67 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTIT   67 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHH
Confidence            799999999999999999999999988899999988877777778888999999999999887653

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.81  E-value=1.3e-19  Score=102.31  Aligned_cols=69  Identities=32%  Similarity=0.593  Sum_probs=60.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC----------CeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD----------DVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~----------~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ++.+|++++|+++||||||++++..+.|...+.+|++.++....+...          +..+.+++||++|+++|+.+.
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   80 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLT   80 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHH
Confidence            467999999999999999999999999999999999988877666554          457899999999999987654

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

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

Probab=99.81  E-value=1.7e-19  Score=99.75  Aligned_cols=66  Identities=24%  Similarity=0.424  Sum_probs=57.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+||+++|++|||||||+++++.++|...+.||.+..+ .+.+.+++..+.+++||++|+++|+.+.
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~l~   66 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMR   66 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCCcchHHHH
Confidence            37999999999999999999999999888889987544 5667788888999999999999988764

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.81  E-value=2.2e-19  Score=100.32  Aligned_cols=67  Identities=46%  Similarity=0.889  Sum_probs=60.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+|++++|++|||||||++++.++.+...+.++.+.++..+.+.+++..+.+++||++|+++|..+.
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   68 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTIT   68 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHH
Confidence            4899999999999999999999999988888999988888888888889999999999999887653

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.81  E-value=2.4e-19  Score=100.18  Aligned_cols=68  Identities=38%  Similarity=0.708  Sum_probs=61.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.+|++++|++|+|||||++++..+.+...+.++.+.++..+.+.+++..+.+++||++|+++|..+.
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~   69 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTIT   69 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHH
Confidence            57899999999999999999999999988888998888888888888888999999999999887653

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.

>cd04175 Rap1 Rap1 subgroup

Probab=99.81  E-value=2e-19  Score=100.30  Aligned_cols=67  Identities=24%  Similarity=0.471  Sum_probs=58.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ++||+++|++|||||||+++++.+.+...+.||++..+ .+.+.+++..+.+++||++|+++|+++.+
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~   67 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRD   67 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHH
Confidence            47999999999999999999999999888889987554 46777888899999999999999987653

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

>PTZ00369 Ras-like protein; Provisional

Probab=99.81  E-value=2.3e-19  Score=102.60  Aligned_cols=68  Identities=25%  Similarity=0.437  Sum_probs=60.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||++++..+.|...+.||.+..+ .+.+.+++..+.+++|||+|+++|+.+.
T Consensus         3 ~~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~   70 (189)
T PTZ00369          3 STEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMR   70 (189)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhH
Confidence            4568999999999999999999999999888899987655 5677789999999999999999998764

>cd01866 Rab2 Rab2 subfamily

Probab=99.81  E-value=3.5e-19  Score=99.99  Aligned_cols=69  Identities=29%  Similarity=0.628  Sum_probs=62.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+.+||+++|+++||||||++++..+.+...+.++.+.++....+.+++..+.+.+||++|+++|..+.
T Consensus         2 ~~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   70 (168)
T cd01866           2 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSIT   70 (168)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHH
Confidence            467899999999999999999999999888888999988888888889989999999999999887654

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

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

Probab=99.80  E-value=5.6e-19  Score=99.27  Aligned_cols=66  Identities=20%  Similarity=0.454  Sum_probs=59.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +|++++|++|||||||++++..+.+...+.||++.++....+..++..+.+.+||++|+++|..+.
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   66 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLR   66 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhcccc
Confidence            589999999999999999999999888899999988887777778889999999999999988764

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.80  E-value=4.6e-19  Score=101.28  Aligned_cols=66  Identities=29%  Similarity=0.522  Sum_probs=59.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCC-CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYD-TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|+++||||||+++|+.++|.. .+.+|++.++..+.+.+++..+.+++||++|+++|+.+.
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~   67 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMS   67 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhh
Confidence            589999999999999999999999874 688999988878888889999999999999999987664

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.80  E-value=3.1e-19  Score=103.88  Aligned_cols=68  Identities=28%  Similarity=0.638  Sum_probs=60.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEe-CCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDL-DDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.+||+++|+++||||||++++..+.+...+.||++.++..+.+.+ ++..+.+++||++|+++|..+.
T Consensus         1 ~~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~   69 (211)
T cd04111           1 YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSIT   69 (211)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHH
Confidence            3689999999999999999999999998888999999988888877 4678999999999999987654

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.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.80  E-value=3.7e-19  Score=98.84  Aligned_cols=66  Identities=32%  Similarity=0.619  Sum_probs=59.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC--CeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD--DVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|++++|||||++++..+.+...+.+|++.++..+.+.++  +..+.+++||++|+++|+.+.
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   68 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAIT   68 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhH
Confidence            589999999999999999999999988889999988877777776  778999999999999987754

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.80  E-value=6.6e-19  Score=99.27  Aligned_cols=69  Identities=17%  Similarity=0.342  Sum_probs=61.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+|++++|++|||||||+++|+.+.|. .++.||++.++....+.+++..+.+.+||++|+++++.+.
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~   71 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLN   71 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccc
Confidence            45789999999999999999999999998 8899999888877777888888999999999999887654

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.

>cd04134 Rho3 Rho3 subfamily

Probab=99.80  E-value=6.8e-19  Score=100.70  Aligned_cols=66  Identities=24%  Similarity=0.401  Sum_probs=58.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .||+++|++|||||||+++|..+.|+..+.||++.++ ...+.+++..+.+++||++|+++|+.+++
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~-~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~   66 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENY-VHDIFVDGLHIELSLWDTAGQEEFDRLRS   66 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeee-EEEEEECCEEEEEEEEECCCChhcccccc
Confidence            3899999999999999999999999988999997665 45666788889999999999999987764

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.

>cd04109 Rab28 Rab28 subfamily

Probab=99.80  E-value=4.5e-19  Score=103.23  Aligned_cols=66  Identities=36%  Similarity=0.611  Sum_probs=59.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCC-eEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDD-VPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +|++++|+++||||||+++|..+.|...+.||++.+++.+.+.+++ ..+.+++||++|++.|+.+.
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~   67 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKML   67 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHH
Confidence            5899999999999999999999999999999999999888888864 67999999999999877653

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

>cd01868 Rab11_like Rab11-like

Probab=99.80  E-value=5.8e-19  Score=98.48  Aligned_cols=68  Identities=32%  Similarity=0.577  Sum_probs=61.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.+|++++|+++||||||++++..+.+...+.|+.+.++..+.+..++..+.+++||++|+++|..+.
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~   69 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAIT   69 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHH
Confidence            45899999999999999999999999888888999988888888888888999999999999887654

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.80  E-value=5.9e-19  Score=100.63  Aligned_cols=66  Identities=35%  Similarity=0.704  Sum_probs=59.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|+++||||||++++..+.|...+.+|++.++..+.+.+++..+.+++||++|+++|+.+.
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~   66 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLN   66 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhH
Confidence            589999999999999999999999988789999988888888888889999999999999887543

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.

>cd04113 Rab4 Rab4 subfamily

Probab=99.79  E-value=6.6e-19  Score=97.91  Aligned_cols=65  Identities=32%  Similarity=0.710  Sum_probs=59.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +|++++|+++||||||++++..+.+...+.++.+.++....+.+++..+.+++||++|+++|+.+
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~   65 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSV   65 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHh
Confidence            58999999999999999999999998888899988888888888888899999999999988764

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

>PLN03108 Rab family protein; Provisional

Probab=99.79  E-value=7.5e-19  Score=102.11  Aligned_cols=70  Identities=30%  Similarity=0.664  Sum_probs=63.1

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+.+||+++|+++||||||++++..+.|...+.++++.++....+.+++..+.+++||++|+++|..+.
T Consensus         3 ~~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~   72 (210)
T PLN03108          3 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSIT   72 (210)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHH
Confidence            3567999999999999999999999999988888999998888888889999999999999999887654

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.79  E-value=1.1e-18  Score=98.09  Aligned_cols=64  Identities=38%  Similarity=0.807  Sum_probs=59.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      .+||+++|++|||||||++++..+.++..+.++++.++..+.+.+++..+.+++||++|+++|+
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~   65 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFR   65 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHH
Confidence            5899999999999999999999999988889999988888888889999999999999999886

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=99.79  E-value=3.1e-19  Score=106.15  Aligned_cols=66  Identities=32%  Similarity=0.561  Sum_probs=59.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +||+++|+++||||||+++|+.++|...+.||++ +++.+.+.+++..+.++||||+|++.|..+++
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~   66 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRR   66 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHH
Confidence            5899999999999999999999999888999986 67777888899999999999999999877643

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.79  E-value=1.6e-18  Score=97.75  Aligned_cols=66  Identities=24%  Similarity=0.371  Sum_probs=58.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +|++++|++|||||||+.++..+.|..++.||.. +.+...+.+++..+.+++||++|+++|..++.
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   66 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAF-DNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRP   66 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeeEEEEECCEEEEEEEEECCCChhhccccc
Confidence            5899999999999999999999999999999874 56666777888899999999999999987754

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,

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.79  E-value=1.7e-18  Score=100.70  Aligned_cols=71  Identities=24%  Similarity=0.432  Sum_probs=63.7

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .....+|++++|++|||||||+++++.+.+...+.+|++.++....+..++..+.+++||++|+++|..++
T Consensus         5 ~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~   75 (215)
T PTZ00132          5 DEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLR   75 (215)
T ss_pred             cCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhh
Confidence            45678999999999999999999999999988999999999888887778899999999999999887653

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.78  E-value=1.1e-18  Score=99.26  Aligned_cols=65  Identities=25%  Similarity=0.447  Sum_probs=56.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC-CeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD-DVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|+++||||||++++..+.|...+.|+++.++.. .+... +..+.+++|||+|+++|..+.
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~-~i~~~~~~~~~l~i~Dt~G~~~~~~~~   66 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVT-NIQGPNGKIIELALWDTAGQEEYDRLR   66 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEE-EEEecCCcEEEEEEEECCCchhHHHHH
Confidence            589999999999999999999999999999998876643 45554 788999999999999887654

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.78  E-value=1.6e-18  Score=96.38  Aligned_cols=67  Identities=36%  Similarity=0.660  Sum_probs=60.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ++|++++|+++||||||++++..+++...+.++.+..+..+.+.+++..+.+.+||++|+++|+.+.
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~   67 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLA   67 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHH
Confidence            4799999999999999999999999887788998888888888889999999999999999887654

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.78  E-value=2e-18  Score=95.78  Aligned_cols=65  Identities=40%  Similarity=0.687  Sum_probs=59.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +|++++|+++||||||++++...++...+.++.+.++..+.+.+++..+.+++||++|+++|+.+
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~   65 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSL   65 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHH
Confidence            48999999999999999999999998888899998888888888888899999999999988764

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.77  E-value=5.1e-18  Score=94.87  Aligned_cols=72  Identities=33%  Similarity=0.622  Sum_probs=63.8

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      |......+|++++|++|||||||++++..+.+...+.++++.++..+.+.+++..+.+.+||++|+++|+..
T Consensus         1 ~~~~~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~   72 (169)
T cd04114           1 MEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSI   72 (169)
T ss_pred             CCCCCceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHH
Confidence            665567899999999999999999999988888788899988888888888998999999999999887764

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.77  E-value=1.6e-18  Score=96.47  Aligned_cols=65  Identities=29%  Similarity=0.469  Sum_probs=56.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|++|||||||+++++.+.+...+.++.+ +.+.+.+.+++..+.+++||++|+++|+.+.
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~   65 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEEFSAMR   65 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCcccchHHH
Confidence            5899999999999999999999999888888876 4445666778889999999999999987764

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

>KOG0088|consensus

Probab=99.77  E-value=1.1e-19  Score=101.63  Aligned_cols=72  Identities=26%  Similarity=0.523  Sum_probs=66.5

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+.+.+|++++|+..||||||.-+|+.++|.....+|+...|..+.+.+.+....|.||||+|||+|+++-.
T Consensus         9 g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGP   80 (218)
T KOG0088|consen    9 GKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGP   80 (218)
T ss_pred             CCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCc
Confidence            357899999999999999999999999999998889998889899999988999999999999999998854

>cd04112 Rab26 Rab26 subfamily

Probab=99.77  E-value=1.9e-18  Score=98.96  Aligned_cols=66  Identities=41%  Similarity=0.859  Sum_probs=58.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCC-CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYD-TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|+++||||||++++..+++.. .+.+|.+.++..+.+.+++..+.++|||++|+++|..+.
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   67 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVT   67 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhh
Confidence            589999999999999999999998864 678888888877778889999999999999999887653

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.

>cd04177 RSR1 RSR1 subgroup

Probab=99.77  E-value=3.2e-18  Score=95.99  Aligned_cols=67  Identities=25%  Similarity=0.474  Sum_probs=58.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+|++++|++|||||||++++..+.+...+.|+++.. +.+.+.+++..+.+++||++|+++|+.+.+
T Consensus         1 ~~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   67 (168)
T cd04177           1 DYKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDS-YRKQVEIDGRQCDLEILDTAGTEQFTAMRE   67 (168)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchhe-EEEEEEECCEEEEEEEEeCCCcccchhhhH
Confidence            4799999999999999999999999988888998744 456777888889999999999999987754

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

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

Probab=99.77  E-value=3.2e-18  Score=95.13  Aligned_cols=66  Identities=24%  Similarity=0.361  Sum_probs=57.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+|++++|+++||||||+++++.+.+...+.++.+.. +...+.+++..+.+++||++|+++|+.+.
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   67 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDS-YTKQCEIDGQWAILDILDTAGQEEFSAMR   67 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccce-EEEEEEECCEEEEEEEEECCCCcchhHHH
Confidence            5899999999999999999999998888888888744 45566788889999999999999987764

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.77  E-value=1.2e-18  Score=99.75  Aligned_cols=64  Identities=31%  Similarity=0.533  Sum_probs=55.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ||+++|++|||||||+++|+.+.|...+.||++..+ ...+.+++..+.+++||++|+++|+.++
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   64 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVLDTAGQEEYTALR   64 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEEEEEEEECCCchhhHHHH
Confidence            689999999999999999999999888889987554 4556678888999999999999988764

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.

>cd04135 Tc10 TC10 subfamily

Probab=99.77  E-value=6.3e-18  Score=94.95  Aligned_cols=66  Identities=23%  Similarity=0.432  Sum_probs=57.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +||+++|++++|||||+++|+.+.|...+.|+.+ +.+...+.+++..+.+.+||++|+++|+.+++
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   66 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRP   66 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCccccccccc
Confidence            5899999999999999999999999888888876 44455677888899999999999999877654

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.77  E-value=2.7e-18  Score=95.57  Aligned_cols=66  Identities=30%  Similarity=0.448  Sum_probs=57.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC--CCCCCccceeeEEEEEEEEEeC-CeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE--TYYDTYISTIGIDFKQKIIDLD-DVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~--~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|+++||||||++++..+  .|+.++.++.+.++..+.+.++ +..+.+.+||++|+++|+.+.
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   69 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMV   69 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHH
Confidence            58999999999999999999865  6888999999988877777665 577999999999999887653

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

>PLN03118 Rab family protein; Provisional

Probab=99.77  E-value=5.2e-18  Score=98.45  Aligned_cols=69  Identities=32%  Similarity=0.578  Sum_probs=60.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ....+||+++|++|||||||++++..+.+ ..+.|+.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        11 ~~~~~kv~ivG~~~vGKTsli~~l~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~   79 (211)
T PLN03118         11 YDLSFKILLIGDSGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLT   79 (211)
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCC-CCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHH
Confidence            45689999999999999999999998877 4678898888888888888888999999999999987653

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.77  E-value=4.6e-18  Score=95.57  Aligned_cols=65  Identities=25%  Similarity=0.539  Sum_probs=57.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .|++++|+++||||||++++..+.|+..+.||++..+ ...+.+++..+.+.+|||+|+++|+.+.
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   66 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLR   66 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccce-EEEEEECCEEEEEEEEeCCCchhhhhcc
Confidence            5899999999999999999999999888999987555 3466778889999999999999988764

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.76  E-value=4.5e-18  Score=95.20  Aligned_cols=65  Identities=28%  Similarity=0.517  Sum_probs=56.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|++|||||||+++++.+.|...+.|+.+..+ .+.+..+...+.+++||++|+++|..+.
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   66 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQ   66 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHH
Confidence            7999999999999999999999999888888887444 5556667888999999999999988764

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

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

Probab=99.76  E-value=3.4e-18  Score=99.06  Aligned_cols=61  Identities=21%  Similarity=0.493  Sum_probs=56.7

Q ss_pred             EcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927         13 LGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus        13 ~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +|+.+||||||+++|+.+.|...+.||++.++..+.+.+++..+.+++||++|+++|+.++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~   61 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLR   61 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhh
Confidence            6999999999999999999988899999999988888889999999999999999998765

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

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

Probab=99.76  E-value=7.6e-18  Score=94.62  Aligned_cols=64  Identities=25%  Similarity=0.586  Sum_probs=55.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      |+++|++|||||||+++|..+.|...+.++.+..+ ...+.+++..+.+++|||+|+++|+.+++
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   64 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRP   64 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhch
Confidence            58999999999999999999999888888886544 55677889999999999999999887654

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.76  E-value=6.2e-18  Score=97.70  Aligned_cols=63  Identities=27%  Similarity=0.415  Sum_probs=55.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      +||+++|+++||||||+++|..++|...+.|+.+.+++...+.++++.+.+++|||+|.++|.
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~   63 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYP   63 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCC
Confidence            589999999999999999999999988899999877776777788999999999999976553

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.

>cd01862 Rab7 Rab7 subfamily

Probab=99.76  E-value=7.3e-18  Score=94.28  Aligned_cols=66  Identities=35%  Similarity=0.663  Sum_probs=59.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|+++||||||++++.++.+...+.++++.++..+.+.+++..+.+++||++|++.|..+.
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~   66 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLG   66 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHH
Confidence            589999999999999999999998888888898888888888888889999999999998877543

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-

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.75  E-value=5.1e-18  Score=98.37  Aligned_cols=67  Identities=34%  Similarity=0.513  Sum_probs=59.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+|++++|++|||||||++++..+.+...+.+|++..+........+..+.+.+||++||++|+.+.
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~   71 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLR   71 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHH
Confidence            4899999999999999999999999999999999888777776666668999999999999998764

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.75  E-value=1e-17  Score=92.95  Aligned_cols=66  Identities=41%  Similarity=0.769  Sum_probs=59.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +|++++|+++||||||++++....+...+.++.+.++....+..++..+.+.+||++|+++|..+.
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~   66 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSIT   66 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHH
Confidence            589999999999999999999988888888999888888888888888999999999998877543

Rab GTPases are implicated in vesicle trafficking.

>KOG0083|consensus

Probab=99.75  E-value=6.1e-20  Score=100.41  Aligned_cols=64  Identities=44%  Similarity=0.823  Sum_probs=58.3

Q ss_pred             EEEcCCCCcHHHHHHHHHhCCCCC-CccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927         11 LVLGDSNVGKTCIVHRFCDETYYD-TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus        11 ~~~G~~~~GKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +++|++++|||+|+.+|.++.|.. +..+|+|++|..+.+.++++.+++++|||+|||+|++.++
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~   65 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTH   65 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhH
Confidence            368999999999999999988764 6789999999999999999999999999999999998753

>cd01863 Rab18 Rab18 subfamily

Probab=99.74  E-value=2.3e-17  Score=91.61  Aligned_cols=65  Identities=40%  Similarity=0.690  Sum_probs=57.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +|++++|+++||||||++++..+.+...+.|+.+.++....+.+++..+.+.+||++|+++|..+
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~   65 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTL   65 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhh
Confidence            58999999999999999999999887778899888887777778888899999999999988665

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.73  E-value=4.1e-17  Score=91.32  Aligned_cols=60  Identities=23%  Similarity=0.325  Sum_probs=51.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      +|++++|++|||||||+.+|+.+.|...+.|+.+ .+ ...+.+++..+.+++||++|+++.
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~~~-~~-~~~i~~~~~~~~l~i~D~~g~~~~   60 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPEGG-RF-KKEVLVDGQSHLLLIRDEGGAPDA   60 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCCcc-ce-EEEEEECCEEEEEEEEECCCCCch
Confidence            5899999999999999999999999887766643 44 467788999999999999999753

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.

>cd04123 Rab21 Rab21 subfamily

Probab=99.72  E-value=7.2e-17  Score=89.24  Aligned_cols=66  Identities=29%  Similarity=0.540  Sum_probs=57.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +|++++|++|||||||++++..+.+...+.++.+..+....+...+..+.+.+||++|+++|..+.
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~   66 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALG   66 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhh
Confidence            589999999999999999999998877777777777767777777888999999999999887654

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.71  E-value=2.8e-17  Score=93.65  Aligned_cols=66  Identities=21%  Similarity=0.388  Sum_probs=54.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEe-CCeEEEEEEEeCCCccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDL-DDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +.+||+++|++|||||||++++..+.+... .||.+.+.....+.. ++..+.+.+||++|+++|+.+
T Consensus         2 ~~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~   68 (183)
T cd04152           2 QSLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPL   68 (183)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHH
Confidence            468999999999999999999998888654 688777666555544 446789999999999988764

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.

>cd00154 Rab Rab family

Probab=99.71  E-value=7.7e-17  Score=88.38  Aligned_cols=65  Identities=43%  Similarity=0.783  Sum_probs=58.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +|++++|+++||||||++++..+.+...+.++.+.++....+..++..+.+.+||++|++++..+
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~   65 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSI   65 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHH
Confidence            58999999999999999999999998888899998888888888888899999999999887654

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

>cd00157 Rho Rho (Ras homology) family

Probab=99.71  E-value=1.6e-16  Score=88.73  Aligned_cols=65  Identities=28%  Similarity=0.507  Sum_probs=55.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +|++++|++|||||||++++..+.+...+.++.. +.....+..++..+.+++||++|+++|..+.
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~   65 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVF-DNYSATVTVDGKQVNLGLWDTAGQEEYDRLR   65 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccc
Confidence            5899999999999999999999998777778875 4445566678889999999999999876654

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

>cd04126 Rab20 Rab20 subfamily

Probab=99.71  E-value=6.1e-17  Score=95.02  Aligned_cols=61  Identities=34%  Similarity=0.592  Sum_probs=51.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|+++||||||+++|..++|.. +.||++.++.....    ..+.+.+||++|+++|+.+.
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~   61 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLG   61 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhH
Confidence            589999999999999999999999875 67888877655432    56889999999999998764

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

>cd04148 RGK RGK subfamily

Probab=99.70  E-value=1.2e-16  Score=93.55  Aligned_cols=60  Identities=20%  Similarity=0.367  Sum_probs=53.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      +||+++|++|||||||+++|..+.+. ..+.++.+.+++.+.+.+++..+.+.+||++|++
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~   61 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQE   61 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcc
Confidence            58999999999999999999988886 6777887667778888889999999999999998

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.69  E-value=1.3e-16  Score=92.05  Aligned_cols=62  Identities=29%  Similarity=0.419  Sum_probs=47.8

Q ss_pred             eeEEEEEcCCCCcHHHHHH-HHHhC-----CCCCCccceeeE-EEEEEE--------EEeCCeEEEEEEEeCCCccc
Q psy12927          7 TYKILVLGDSNVGKTCIVH-RFCDE-----TYYDTYISTIGI-DFKQKI--------IDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~-~~~~~-----~~~~~~~~t~~~-~~~~~~--------~~~~~~~~~l~i~D~~g~~~   68 (75)
                      .+||+++|+.+||||||+. ++..+     .|...+.||++. +.+...        +.+++..+.+++|||+|+++
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~   78 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD   78 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh
Confidence            4799999999999999996 56544     355678899863 333322        25688999999999999975

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.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.69  E-value=1.3e-16  Score=88.51  Aligned_cols=65  Identities=25%  Similarity=0.418  Sum_probs=55.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|++|||||||+++++.+.+...+.++.+.. +.+....++..+.+.+||++|+++|..++
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   65 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADS-YRKKVVLDGEDVQLNILDTAGQEDYAAIR   65 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhh-EEEEEEECCEEEEEEEEECCChhhhhHHH
Confidence            589999999999999999999999988888887643 45666778899999999999999887653

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.69  E-value=4.1e-17  Score=91.59  Aligned_cols=60  Identities=20%  Similarity=0.335  Sum_probs=51.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ++++|++|||||||+++|..+.+...+.||++.+.    ..++...+.+.+||++|+++|+.+.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~----~~i~~~~~~l~i~Dt~G~~~~~~~~   61 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS----VAIPTQDAIMELLEIGGSQNLRKYW   61 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcce----EEEeeCCeEEEEEECCCCcchhHHH
Confidence            78999999999999999999888888899988653    2345667899999999999988654

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.

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.69  E-value=4.5e-17  Score=92.87  Aligned_cols=64  Identities=22%  Similarity=0.322  Sum_probs=52.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|+.+||||||++++..+++. .+.||++.++.  .+  +...+.+++||++|+++|+.+.
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~--~~~~~~~~i~D~~Gq~~~~~~~   78 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TV--EYKNISFTVWDVGGQDKIRPLW   78 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EE--EECCEEEEEEECCCCHHHHHHH
Confidence            34689999999999999999999988886 46899886653  23  3346889999999999987653

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.68  E-value=4.9e-17  Score=92.74  Aligned_cols=63  Identities=22%  Similarity=0.348  Sum_probs=51.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ...+||+++|+++||||||++++..+.+.. +.||++.++.  .+  +...+.+++||++|+++|+.+
T Consensus        15 ~~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~--~~~~~~~~l~D~~G~~~~~~~   77 (182)
T PTZ00133         15 KKEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TV--EYKNLKFTMWDVGGQDKLRPL   77 (182)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EE--EECCEEEEEEECCCCHhHHHH
Confidence            346899999999999999999999888864 6788886654  22  335588999999999988765

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.68  E-value=4.1e-17  Score=91.13  Aligned_cols=60  Identities=23%  Similarity=0.376  Sum_probs=49.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +||+++|+++||||||++++..+.+. .+.||++.++.  .+..  ..+.+++||++|+++|+.+
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~--~~~~--~~~~~~l~D~~G~~~~~~~   60 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPL   60 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEE--CCEEEEEEECCCCHhHHHH
Confidence            58999999999999999999988886 47888886653  2333  4688999999999988765

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

>KOG0395|consensus

Probab=99.68  E-value=4.9e-17  Score=94.06  Aligned_cols=68  Identities=25%  Similarity=0.414  Sum_probs=63.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ..+|++++|.+|||||+|..+|..+.|.+.|.||++ +.+.+.+.++++.+.++|+||+|+++|..+.+
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~   69 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRD   69 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHH
Confidence            368999999999999999999999999999999997 77889999999999999999999999988754

>cd04149 Arf6 Arf6 subfamily

Probab=99.68  E-value=4.8e-17  Score=91.66  Aligned_cols=63  Identities=25%  Similarity=0.384  Sum_probs=51.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ...+||+++|+++||||||++++..+.+. .+.||++.++..  +.  ...+.+++||++|+++|+.+
T Consensus         7 ~~~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~~--~~--~~~~~~~l~Dt~G~~~~~~~   69 (168)
T cd04149           7 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVET--VT--YKNVKFNVWDVGGQDKIRPL   69 (168)
T ss_pred             CCccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceEE--EE--ECCEEEEEEECCCCHHHHHH
Confidence            35789999999999999999999988775 467888876542  22  34688999999999998765

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.68  E-value=1.5e-16  Score=91.59  Aligned_cols=64  Identities=22%  Similarity=0.475  Sum_probs=55.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ||+++|++|||||||+++++.+.+...+.++.. ++....+.+++..+.+++||++|+++|..+.
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~   64 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMR   64 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHH
Confidence            689999999999999999999999888888875 4556677788888999999999999887654

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.68  E-value=4.4e-16  Score=84.93  Aligned_cols=66  Identities=21%  Similarity=0.424  Sum_probs=57.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      .+||+++|.+|+|||||++++....++..+.++.+.++....+..++..+.+.+||++|+++++.+
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~   66 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAI   66 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHH
Confidence            379999999999999999999988888788888888877766777777789999999999888654

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.67  E-value=2.3e-16  Score=88.13  Aligned_cols=59  Identities=27%  Similarity=0.441  Sum_probs=51.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ||+++|+++||||||+++++.+.|...+.++.+..+ ...+.+++..+.+++||++|+++
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~   59 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQVSLEILDTAGQQQ   59 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEEEEEEEECCCCcc
Confidence            689999999999999999999988888888875444 45667889999999999999985

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

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

Probab=99.67  E-value=9.6e-17  Score=90.89  Aligned_cols=63  Identities=24%  Similarity=0.368  Sum_probs=51.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ...+||+++|+++||||||++++..+++. .+.||++.++..  +..  ..+.+++||++|+++|+.+
T Consensus        11 ~~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~~--~~~--~~~~l~l~D~~G~~~~~~~   73 (175)
T smart00177       11 NKEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVET--VTY--KNISFTVWDVGGQDKIRPL   73 (175)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceEE--EEE--CCEEEEEEECCCChhhHHH
Confidence            34799999999999999999999888874 577898876643  223  4588999999999998765

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).

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

Probab=99.67  E-value=4e-16  Score=88.18  Aligned_cols=64  Identities=31%  Similarity=0.478  Sum_probs=54.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      .||+++|++|||||||++++..+.+...+.|+.+..+ ...+.+++..+.+++||++|+++|+.+
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~   65 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSIL   65 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHH
Confidence            6899999999999999999999988887888876444 456667888899999999999988754

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.66  E-value=1.4e-15  Score=86.85  Aligned_cols=65  Identities=23%  Similarity=0.429  Sum_probs=55.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .|++++|++|||||||++++..+.++..+.+++...+ ...+.+++..+.+.+||++|+++|..+.
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~g~~~~~~~~   66 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENY-VTDCRVDGKPVQLALWDTAGQEEYERLR   66 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceE-EEEEEECCEEEEEEEEECCCChhccccc
Confidence            6999999999999999999998988888888876554 4466678888999999999999887553

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).

>cd01893 Miro1 Miro1 subfamily

Probab=99.65  E-value=6.5e-16  Score=86.57  Aligned_cols=62  Identities=15%  Similarity=0.229  Sum_probs=49.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      +|++++|+++||||||++++..++|+..++++.. ++ .....+++..+.+.+||++|+++++.
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~   62 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLP-EI-TIPADVTPERVPTTIVDTSSRPQDRA   62 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCccc-ce-EeeeeecCCeEEEEEEeCCCchhhhH
Confidence            4899999999999999999999999776554432 22 34445677889999999999987754

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.

>KOG4252|consensus

Probab=99.65  E-value=1.1e-18  Score=99.35  Aligned_cols=70  Identities=21%  Similarity=0.535  Sum_probs=65.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+.-+|++++|..+|||+|++.+||.+-|...|..|+|.++...++.++.+.+++.+||++||++|.+++
T Consensus        17 ~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaIt   86 (246)
T KOG4252|consen   17 YERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAIT   86 (246)
T ss_pred             hhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHH
Confidence            4567999999999999999999999999999999999999998888899999999999999999998874

>cd00876 Ras Ras family

Probab=99.64  E-value=7.5e-16  Score=85.01  Aligned_cols=63  Identities=30%  Similarity=0.436  Sum_probs=54.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ||+++|+++||||||++++..+.+...+.++.+ +.....+..++..+.+++||++|++.+..+
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~   63 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAM   63 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHH
Confidence            689999999999999999998888888888876 556667777888899999999999877654

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

>cd04158 ARD1 ARD1 subfamily

Probab=99.63  E-value=6.1e-16  Score=87.01  Aligned_cols=59  Identities=24%  Similarity=0.473  Sum_probs=48.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      |++++|+++||||||++++..+.+.. +.||++.++..  +  +...+.+.+||++|+++++.+
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~~--~--~~~~~~i~l~Dt~G~~~~~~~   59 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVET--V--EYKNLKFTIWDVGGKHKLRPL   59 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEEE--E--EECCEEEEEEECCCChhcchH
Confidence            68999999999999999999887754 78888866642  2  334678999999999988754

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=99.63  E-value=3.4e-16  Score=86.78  Aligned_cols=61  Identities=23%  Similarity=0.342  Sum_probs=48.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC-CCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET-YYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +|+++|+++||||||++++..+. +...+.||++.....  +  ....+.+++||++|+++|+.+.
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~--~--~~~~~~~~l~Dt~G~~~~~~~~   62 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVES--F--EKGNLSFTAFDMSGQGKYRGLW   62 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceEE--E--EECCEEEEEEECCCCHhhHHHH
Confidence            58999999999999999999875 456778888754432  2  2346789999999999887653

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

>cd04154 Arl2 Arl2 subfamily

Probab=99.62  E-value=1.3e-15  Score=85.85  Aligned_cols=64  Identities=31%  Similarity=0.515  Sum_probs=50.2

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ....+|++++|+++||||||++++....+ ..+.||++...  ..+.++  .+.+.+||++|+++++.+
T Consensus        11 ~~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~~~--~~~~~~--~~~l~l~D~~G~~~~~~~   74 (173)
T cd04154          11 KEREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGFQI--KTLEYE--GYKLNIWDVGGQKTLRPY   74 (173)
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccccce--EEEEEC--CEEEEEEECCCCHHHHHH
Confidence            35678999999999999999999997754 45778887443  344454  478999999999987654

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.58  E-value=1.6e-15  Score=84.28  Aligned_cols=59  Identities=32%  Similarity=0.452  Sum_probs=46.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      |++++|+++||||||++++..+.+. .+.||++.++..  +  +...+.+++||++|+++|+.+
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~-~~~~t~~~~~~~--~--~~~~~~~~i~Dt~G~~~~~~~   59 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVV-TTIPTIGFNVET--V--TYKNLKFQVWDLGGQTSIRPY   59 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCc-CcCCccCcCeEE--E--EECCEEEEEEECCCCHHHHHH
Confidence            6899999999999999999887775 456787765532  2  334578999999999988764

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

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.58  E-value=2.5e-15  Score=84.47  Aligned_cols=59  Identities=22%  Similarity=0.280  Sum_probs=47.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +|+++|+++||||||++++..+ +...+.||++...  ..+..  ..+.+++||++|+++++.+
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~~--~~~~~--~~~~~~i~D~~G~~~~~~~   59 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFTP--TKLRL--DKYEVCIFDLGGGANFRGI   59 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccceE--EEEEE--CCEEEEEEECCCcHHHHHH
Confidence            4899999999999999999866 7778889988653  34434  4578999999999887765

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.57  E-value=3e-15  Score=82.10  Aligned_cols=59  Identities=22%  Similarity=0.492  Sum_probs=49.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ++++|++|||||||++++...++...+.|+++.++..  +..+  .+.+.+||++|+++|+.+
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~~~D~~g~~~~~~~   60 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTKG--NVTLKVWDLGGQPRFRSM   60 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEEC--CEEEEEEECCCCHhHHHH
Confidence            7899999999999999999999998899998876643  3333  378999999999888754

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.56  E-value=9.5e-15  Score=82.55  Aligned_cols=62  Identities=23%  Similarity=0.372  Sum_probs=49.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ..+||+++|++++|||||++++..+++.. +.||++.++.  .+..+  .+.+.+||++|+++|+.+
T Consensus        14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~~--~~~~~l~D~~G~~~~~~~   75 (174)
T cd04153          14 KEYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVE--EIVYK--NIRFLMWDIGGQESLRSS   75 (174)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceE--EEEEC--CeEEEEEECCCCHHHHHH
Confidence            46899999999999999999999888865 5788876553  23333  578999999999987654

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.56  E-value=8.9e-15  Score=81.11  Aligned_cols=60  Identities=18%  Similarity=0.438  Sum_probs=47.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +|+++|++|||||||++++..+.+.. ..||.+.++.  .+.. +..+.+.+||++|+++++.+
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~~--~~~~-~~~~~l~i~D~~G~~~~~~~   60 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNVE--MLQL-EKHLSLTVWDVGGQEKMRTV   60 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcceE--EEEe-CCceEEEEEECCCCHhHHHH
Confidence            58999999999999999999988764 4678775543  3333 34588999999999887654

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

>KOG0070|consensus

Probab=99.55  E-value=1.8e-15  Score=85.87  Aligned_cols=65  Identities=22%  Similarity=0.366  Sum_probs=55.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ..+.+|+++|..++||||+++++..++.... .||+|++...  +.+  +.+.+.+||.+||+++|.+.+
T Consensus        15 ~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiGfnVE~--v~y--kn~~f~vWDvGGq~k~R~lW~   79 (181)
T KOG0070|consen   15 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIGFNVET--VEY--KNISFTVWDVGGQEKLRPLWK   79 (181)
T ss_pred             cceEEEEEEeccCCCceeeeEeeccCCcccC-CCccccceeE--EEE--cceEEEEEecCCCcccccchh
Confidence            5689999999999999999999999988765 8999966544  434  478999999999999988754

>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=99.55  E-value=2.5e-14  Score=76.17  Aligned_cols=64  Identities=31%  Similarity=0.514  Sum_probs=44.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ||+++|+.|||||||+++++...+.  ..+.+..+.++.............+++||++|++++...
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~   66 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQ   66 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCT
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceeccc
Confidence            7999999999999999999988876  111222222233334456777767999999999887653

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.

>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=99.55  E-value=1.8e-14  Score=81.78  Aligned_cols=66  Identities=30%  Similarity=0.437  Sum_probs=53.1

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ....+||+++|..++||||+++++..+.+. ...||.|++..  .+..+  .+.+.+||.+|+++++.+.+
T Consensus        11 ~~~~~~ililGl~~sGKTtll~~l~~~~~~-~~~pT~g~~~~--~i~~~--~~~~~~~d~gG~~~~~~~w~   76 (175)
T PF00025_consen   11 KKKEIKILILGLDGSGKTTLLNRLKNGEIS-ETIPTIGFNIE--EIKYK--GYSLTIWDLGGQESFRPLWK   76 (175)
T ss_dssp             TTSEEEEEEEESTTSSHHHHHHHHHSSSEE-EEEEESSEEEE--EEEET--TEEEEEEEESSSGGGGGGGG
T ss_pred             cCcEEEEEEECCCccchHHHHHHhhhcccc-ccCcccccccc--eeeeC--cEEEEEEeccccccccccce
Confidence            477899999999999999999999977654 47789886654  34444  46789999999999887654

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 ....

>cd00879 Sar1 Sar1 subfamily

Probab=99.53  E-value=3e-14  Score=81.17  Aligned_cols=64  Identities=25%  Similarity=0.327  Sum_probs=49.7

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      .....|++++|++|||||||++++..+.+. .+.||.+...  ..+.+++  +.+.+||++|+++++.+
T Consensus        16 ~~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~~--~~i~~~~--~~~~l~D~~G~~~~~~~   79 (190)
T cd00879          16 YNKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPTS--EELTIGN--IKFKTFDLGGHEQARRL   79 (190)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcce--EEEEECC--EEEEEEECCCCHHHHHH
Confidence            456789999999999999999999988764 5677776433  3444554  67899999999887643

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.53  E-value=2e-14  Score=80.15  Aligned_cols=60  Identities=23%  Similarity=0.423  Sum_probs=45.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC------CCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET------YYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~------~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +|+++|++|||||||++++....      +...+.+|++.++..  +..+  ...+.+||++|+++|..+
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~l~Dt~G~~~~~~~   66 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGT--IEVG--NARLKFWDLGGQESLRSL   66 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEE--EEEC--CEEEEEEECCCChhhHHH
Confidence            58999999999999999987532      233556777766543  3344  468899999999987764

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.

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

Probab=99.52  E-value=2.2e-14  Score=79.43  Aligned_cols=59  Identities=25%  Similarity=0.415  Sum_probs=46.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      |++++|++|||||||+++++.+.+ ..+.++++.....  +.++  .+.+.+||++|+++|+.+
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~~~--~~~~--~~~~~i~D~~G~~~~~~~   59 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNVET--VEYK--NVSFTVWDVGGQDKIRPL   59 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcceEE--EEEC--CEEEEEEECCCChhhHHH
Confidence            689999999999999999998874 4567787755433  3333  578999999999987654

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=99.52  E-value=1.9e-14  Score=80.80  Aligned_cols=65  Identities=31%  Similarity=0.439  Sum_probs=53.0

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+.+++|+++|..|+|||+++++|.... ++...||.|++..+  +.+  +.+.+++||.+||..+++..
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~gf~Ikt--l~~--~~~~L~iwDvGGq~~lr~~W   77 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLGFQIKT--LEY--KGYTLNIWDVGGQKTLRSYW   77 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccceeeEE--EEe--cceEEEEEEcCCcchhHHHH
Confidence            4569999999999999999999999655 56788999866554  333  66889999999998877643

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

Probab=99.51  E-value=1.9e-14  Score=82.59  Aligned_cols=64  Identities=19%  Similarity=0.175  Sum_probs=48.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh--CCCCCCc------------cceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD--ETYYDTY------------ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +++++|+.+||||||+++++.  +.|...+            .++.+..+..+...++...+.+.+|||+|+++|..+
T Consensus         4 ~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~   81 (194)
T cd01891           4 NIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGE   81 (194)
T ss_pred             EEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHH
Confidence            789999999999999999996  5554433            233455555555556666788999999999988754

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

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

Probab=99.51  E-value=2.4e-14  Score=81.71  Aligned_cols=64  Identities=23%  Similarity=0.241  Sum_probs=48.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +...+|++++|++|||||||++++..+.+. .+.||.+....  .+.++  .+.+.+||++|+++++.+
T Consensus        14 ~~~~~~i~ivG~~~~GKTsli~~l~~~~~~-~~~~t~~~~~~--~~~~~--~~~~~~~D~~G~~~~~~~   77 (184)
T smart00178       14 WNKHAKILFLGLDNAGKTTLLHMLKNDRLA-QHQPTQHPTSE--ELAIG--NIKFTTFDLGGHQQARRL   77 (184)
T ss_pred             ccccCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccccceE--EEEEC--CEEEEEEECCCCHHHHHH
Confidence            466799999999999999999999987764 34566654332  23333  478899999999887654

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

>KOG0096|consensus

Probab=99.51  E-value=7.4e-14  Score=80.03  Aligned_cols=68  Identities=24%  Similarity=0.449  Sum_probs=59.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+|++++|+.|.|||++.++...++|...+.+|+|.+.+...+.-+...+++..|||+|||.|-.++
T Consensus         9 ~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglr   76 (216)
T KOG0096|consen    9 LTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLR   76 (216)
T ss_pred             ceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccc
Confidence            47999999999999999999999999999999999998877666555557999999999999876554

>cd04171 SelB SelB subfamily

Probab=99.50  E-value=8.1e-14  Score=77.20  Aligned_cols=62  Identities=18%  Similarity=0.236  Sum_probs=41.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh---CCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD---ETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~---~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      .++++|+++||||||++++.+   +.++.++.++...+.....+...+ ...+.+|||+|+++|..
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~   66 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIK   66 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHH
Confidence            588999999999999999985   334333333222233223344432 35789999999998753

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

>KOG1673|consensus

Probab=99.49  E-value=1.9e-14  Score=80.55  Aligned_cols=69  Identities=23%  Similarity=0.575  Sum_probs=64.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      -.+|+-++||+.+|||||+-.|.++++.+++..+.|.++..+.+.+.+..+.+.|||..||++|..+..
T Consensus        19 Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lP   87 (205)
T KOG1673|consen   19 VSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLP   87 (205)
T ss_pred             eEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCc
Confidence            378999999999999999999999999888999999999999999999999999999999999877643

>cd01850 CDC_Septin CDC/Septin

Probab=99.49  E-value=5.7e-13  Score=80.51  Aligned_cols=63  Identities=19%  Similarity=0.327  Sum_probs=51.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCC----------ccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDT----------YISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~----------~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ...++|+++|++|+|||||+++++...+...          ..+|+..+.....+..++..+.+.+|||+|-.
T Consensus         2 g~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfg   74 (276)
T cd01850           2 GFQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFG   74 (276)
T ss_pred             CcEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCcc
Confidence            3578999999999999999999998776543          45666666666677778888999999999954

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.

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.48  E-value=1.4e-13  Score=79.77  Aligned_cols=63  Identities=19%  Similarity=0.254  Sum_probs=46.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +++++|+++||||+|++++..+++...+.++ ............+....+.+||++|+++++..
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~   64 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSEGKGKKFRLVDVPGHPKLRDK   64 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecCCCCceEEEEECCCCHHHHHH
Confidence            5899999999999999999998887766554 22332222222245678999999999988653

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

>PRK04213 GTP-binding protein; Provisional

Probab=99.47  E-value=1.7e-13  Score=78.74  Aligned_cols=55  Identities=20%  Similarity=0.253  Sum_probs=41.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNA   65 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g   65 (75)
                      ...++|+++|++|||||||++++.+..+...+.|+..  +....+..+    .+.+|||+|
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t--~~~~~~~~~----~~~l~Dt~G   61 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVT--RKPNHYDWG----DFILTDLPG   61 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCcee--eCceEEeec----ceEEEeCCc
Confidence            4578999999999999999999998877655555443  333333333    589999999

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

Probab=99.46  E-value=2.3e-13  Score=75.75  Aligned_cols=64  Identities=9%  Similarity=0.066  Sum_probs=45.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC-CeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD-DVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~~~~   72 (75)
                      .++++|++++|||||++++..+.+.....++...+.....+..+ .....+.+|||+|++.|..+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~   66 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNM   66 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHH
Confidence            48999999999999999999887765433333223322333333 24578899999999887654

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.

>cd01890 LepA LepA subfamily

Probab=99.45  E-value=1.9e-13  Score=76.97  Aligned_cols=64  Identities=16%  Similarity=0.280  Sum_probs=44.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC-------CCCCccce------eeEEEEEEEEEe-----CCeEEEEEEEeCCCccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET-------YYDTYIST------IGIDFKQKIIDL-----DDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~-------~~~~~~~t------~~~~~~~~~~~~-----~~~~~~l~i~D~~g~~~~~   70 (75)
                      +++++|+.+||||||+.+++...       +...+.++      .+..+..+.+..     ++..+.+.+|||+|+++|.
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            58999999999999999998632       22222222      233343333322     6678899999999999886


Q ss_pred             cc
Q psy12927         71 LL   72 (75)
Q Consensus        71 ~~   72 (75)
                      .+
T Consensus        82 ~~   83 (179)
T cd01890          82 YE   83 (179)
T ss_pred             HH
Confidence            54

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=99.42  E-value=3.3e-13  Score=75.67  Aligned_cols=62  Identities=27%  Similarity=0.462  Sum_probs=47.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ...+|++++|++|||||||++++.+..+. .+.|+.+.+..  .+..++  ..+.+||++|++++..
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~~--~i~~~~--~~~~~~D~~G~~~~~~   73 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNIK--TVQSDG--FKLNVWDIGGQRAIRP   73 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEECC--EEEEEEECCCCHHHHH
Confidence            45799999999999999999999987653 45677775443  333444  6789999999987643

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.

>KOG0071|consensus

Probab=99.41  E-value=3.3e-13  Score=74.48  Aligned_cols=64  Identities=25%  Similarity=0.356  Sum_probs=52.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .++++++++|..++||||+++.++.++. ....||+|++...  ++.  +.+++.+||.+||++.|.+.
T Consensus        15 ~KE~~ilmlGLd~aGKTtiLyKLkl~~~-~~~ipTvGFnvet--Vty--kN~kfNvwdvGGqd~iRplW   78 (180)
T KOG0071|consen   15 NKEMRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVGFNVET--VTY--KNVKFNVWDVGGQDKIRPLW   78 (180)
T ss_pred             cccceEEEEecccCCceehhhHHhcCCC-cccccccceeEEE--EEe--eeeEEeeeeccCchhhhHHH
Confidence            4589999999999999999999997765 3567999866544  333  67899999999999988764

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.40  E-value=9.8e-13  Score=75.08  Aligned_cols=59  Identities=20%  Similarity=0.287  Sum_probs=43.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ....+++++|++|||||||+++++..++...+.++.+..........   ...+.+|||+|.
T Consensus        22 ~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~   80 (196)
T PRK00454         22 DDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGY   80 (196)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCC
Confidence            45689999999999999999999987665555666554332222222   257899999994

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

Probab=99.39  E-value=8.7e-13  Score=72.74  Aligned_cols=59  Identities=17%  Similarity=0.246  Sum_probs=43.4

Q ss_pred             EEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927         12 VLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus        12 ~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ++|++|||||||++++.+..+.....++...+.....+.+++  ..+.+|||+|++.+..+
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~   59 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPY   59 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCC
Confidence            589999999999999998765444444444455555566665  46899999999877653

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.36  E-value=4.7e-12  Score=71.87  Aligned_cols=59  Identities=19%  Similarity=0.291  Sum_probs=41.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ....+++++|++|+|||||+++++...+...+.++.+..........++   .+.+||++|.
T Consensus        16 ~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~   74 (179)
T TIGR03598        16 DDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGY   74 (179)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCC
Confidence            5678999999999999999999998765444444444333222222333   5899999995

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.

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

Probab=99.34  E-value=6.7e-12  Score=70.00  Aligned_cols=55  Identities=22%  Similarity=0.251  Sum_probs=38.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCC-ccc-eeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDT-YIS-TIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~-~~~-t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      +++++|++|||||||++++..+.+... ++. |.....  ..  .+...+.+.+|||+|+.
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~--~~--~~~~~~~~~i~Dt~G~~   58 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFV--GH--FDYKYLRWQVIDTPGLL   58 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeE--EE--EccCceEEEEEECCCcC
Confidence            789999999999999999998876432 211 222111  11  22245789999999984

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.

>KOG0075|consensus

Probab=99.34  E-value=1.2e-13  Score=76.69  Aligned_cols=65  Identities=18%  Similarity=0.442  Sum_probs=56.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .++.+.++|..++|||||.+....+.+.+...||+|++.+.    +....+.+.+||.+||++|+++.+
T Consensus        19 ~emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnmrk----~tkgnvtiklwD~gGq~rfrsmWe   83 (186)
T KOG0075|consen   19 EEMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNMRK----VTKGNVTIKLWDLGGQPRFRSMWE   83 (186)
T ss_pred             heeeEEEEeeccCCcceEEEEEeeccchhhhcccccceeEE----eccCceEEEEEecCCCccHHHHHH
Confidence            46789999999999999999999999989999999977654    556678899999999999998753

>PRK15494 era GTPase Era; Provisional

Probab=99.33  E-value=2.8e-12  Score=79.35  Aligned_cols=59  Identities=22%  Similarity=0.386  Sum_probs=41.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCC---CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYD---TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      .+..+++++|++|||||||++++++..+..   ...+|.  +.....+..++  ..+.+|||+|+.
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr--~~~~~~~~~~~--~qi~~~DTpG~~  111 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTR--SIITGIITLKD--TQVILYDTPGIF  111 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCcc--CcEEEEEEeCC--eEEEEEECCCcC
Confidence            456799999999999999999999876632   222332  23333444444  357999999984

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.32  E-value=1.1e-11  Score=79.07  Aligned_cols=62  Identities=15%  Similarity=0.309  Sum_probs=46.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCC--CCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDET--YYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ..+|++++|++|||||||+++++...  +...++.| ..++....+.+++.  .+.+|||+|+.++.
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgt-Trd~~~~~i~~~g~--~v~l~DTaG~~~~~  265 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGT-TRDVVEGDFELNGI--LIKLLDTAGIREHA  265 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCc-EEEEEEEEEEECCE--EEEEeeCCCcccch
Confidence            45899999999999999999999764  33445444 35666667777765  45899999986544

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.

>cd01878 HflX HflX subfamily

Probab=99.31  E-value=1e-11  Score=71.60  Aligned_cols=60  Identities=13%  Similarity=0.262  Sum_probs=41.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCC--ccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDT--YISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~--~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      +..++|+++|++|||||||++++....+...  +.+|..  .....+..++. ..+.+|||+|..
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~--~~~~~~~~~~~-~~~~i~Dt~G~~  100 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLD--PTTRRLRLPDG-REVLLTDTVGFI  100 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceecc--ceeEEEEecCC-ceEEEeCCCccc
Confidence            4468999999999999999999998764322  233433  22333334332 368899999973

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.29  E-value=1.1e-11  Score=66.74  Aligned_cols=59  Identities=39%  Similarity=0.641  Sum_probs=47.8

Q ss_pred             EEcCCCCcHHHHHHHHHhCCC-CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927         12 VLGDSNVGKTCIVHRFCDETY-YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus        12 ~~G~~~~GKtsl~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ++|++|+|||||++++..... .....++. .+..............+.+||++|+..+..
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~   60 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRS   60 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHh
Confidence            589999999999999998776 45566666 677777776677788999999999886654

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.29  E-value=6.1e-12  Score=68.70  Aligned_cols=44  Identities=20%  Similarity=0.384  Sum_probs=34.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ||+++|+++||||||++++..+.+  .+.+|.+.++.       .     .+||++|+
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~--~~~~t~~~~~~-------~-----~~iDt~G~   45 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEI--LYKKTQAVEYN-------D-----GAIDTPGE   45 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCcc--ccccceeEEEc-------C-----eeecCchh
Confidence            899999999999999999997765  34556554432       1     58999998

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.

>KOG0074|consensus

Probab=99.28  E-value=1.8e-11  Score=67.77  Aligned_cols=65  Identities=23%  Similarity=0.381  Sum_probs=51.7

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ..+++|++++|..++|||+|++++.... +....||-|+  ..+.+..++ .+.|.+||.+||...|..
T Consensus        14 t~rEirilllGldnAGKTT~LKqL~sED-~~hltpT~GF--n~k~v~~~g-~f~LnvwDiGGqr~IRpy   78 (185)
T KOG0074|consen   14 TRREIRILLLGLDNAGKTTFLKQLKSED-PRHLTPTNGF--NTKKVEYDG-TFHLNVWDIGGQRGIRPY   78 (185)
T ss_pred             CcceEEEEEEecCCCcchhHHHHHccCC-hhhccccCCc--ceEEEeecC-cEEEEEEecCCccccchh
Confidence            4678999999999999999999988654 4566788884  455665554 589999999999876543

>cd01889 SelB_euk SelB subfamily

Probab=99.28  E-value=1.2e-11  Score=70.92  Aligned_cols=62  Identities=15%  Similarity=0.226  Sum_probs=41.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC----CCCCCc-----cceeeEEEEEEEEE----------eCCeEEEEEEEeCCCccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE----TYYDTY-----ISTIGIDFKQKIID----------LDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~----~~~~~~-----~~t~~~~~~~~~~~----------~~~~~~~l~i~D~~g~~~   68 (75)
                      ++++++|+.++|||||+++++..    .+...+     ..|+...+....+.          .++....+.+|||+|+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            58999999999999999999862    121111     24444444443332          123467899999999865


Q ss_pred             c
Q psy12927         69 Y   69 (75)
Q Consensus        69 ~   69 (75)
                      +
T Consensus        81 ~   81 (192)
T cd01889          81 L   81 (192)
T ss_pred             H
Confidence            4

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

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.27  E-value=3.7e-11  Score=65.92  Aligned_cols=61  Identities=16%  Similarity=0.269  Sum_probs=41.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCC-CccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYD-TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ++++++|++|+|||||++++....... ...+....++....+..+  ...+.+|||+|...+.
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~DtpG~~~~~   63 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIG--GIPVRLIDTAGIRETE   63 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeC--CEEEEEEECCCcCCCc
Confidence            589999999999999999999765321 112222233433344444  3567999999976553

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.25  E-value=3.1e-11  Score=79.19  Aligned_cols=67  Identities=9%  Similarity=0.115  Sum_probs=49.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +..+++++|..++|||||++++....+...+.+.+..+.....+..++.. .+.+|||+|+++|..+.
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~~-~i~~iDTPGhe~F~~~r  152 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDGK-MITFLDTPGHEAFTSMR  152 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCCc-EEEEEECCCCcchhhHH
Confidence            45789999999999999999999887766544444334433444443321 68999999999987654

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.

>KOG4423|consensus

Probab=99.25  E-value=4.6e-15  Score=84.91  Aligned_cols=70  Identities=30%  Similarity=0.641  Sum_probs=61.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC-CeEEEEEEEeCCCccccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD-DVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +..+|++++|+.++|||++++++....|...|..|+|.++..+.+.-+ ...+++++||.+||++|-.|++
T Consensus        23 ~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtr   93 (229)
T KOG4423|consen   23 EHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTR   93 (229)
T ss_pred             hhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEE
Confidence            446899999999999999999999999988899999999887776665 4568999999999999988765

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.23  E-value=3.6e-11  Score=66.38  Aligned_cols=55  Identities=22%  Similarity=0.344  Sum_probs=40.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      +++++|++|+|||||++.+.++.+.....++.+..........++   .+.+||++|.
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~   55 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGY   55 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCc
Confidence            478999999999999999997666555566655544443333333   7899999984

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.22  E-value=7.5e-11  Score=75.36  Aligned_cols=62  Identities=21%  Similarity=0.333  Sum_probs=45.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ..+|++++|.++||||||+++++..+.  ...+..+. .++....+.+++.  .+.+|||+|.+++.
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT-~d~~~~~i~~~g~--~i~l~DT~G~~~~~  277 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTT-RDVIEEHINLDGI--PLRLIDTAGIRETD  277 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcc-cccEEEEEEECCe--EEEEEeCCCCCCCc
Confidence            358999999999999999999997653  33333332 4555566666654  57899999987654

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=99.21  E-value=5.5e-11  Score=65.44  Aligned_cols=54  Identities=20%  Similarity=0.255  Sum_probs=39.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      +++++|.+|||||||++++....... .....+.+.....+.+++   .+.+|||+|-
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            89999999999999999999776542 222333344445555554   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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.21  E-value=6.3e-11  Score=76.00  Aligned_cols=60  Identities=17%  Similarity=0.283  Sum_probs=43.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ..+|++++|.++||||||+++++...+. ....+....+.....+..++..+  .+|||+|..
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~~--~l~DTaG~~  270 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKTW--RFVDTAGLR  270 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCEEE--EEEECCCcc
Confidence            4589999999999999999999977642 22233334455556666777654  699999963

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.19  E-value=8.6e-11  Score=74.44  Aligned_cols=58  Identities=12%  Similarity=0.139  Sum_probs=42.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      .+|+++|.+|||||||++++.....  .... +.+..+.....+..++  ..+.+|||+|++.
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~-~~~t~d~~~~~~~~~~--~~~~liDT~G~~~   61 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADT-PGVTRDRIYGEAEWLG--REFILIDTGGIEP   61 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCC-CCCcccceEEEEEECC--cEEEEEECCCCCC
Confidence            5899999999999999999997653  2232 2222344444555555  6789999999986

>cd01895 EngA2 EngA2 subfamily

Probab=99.18  E-value=1.5e-10  Score=64.23  Aligned_cols=61  Identities=20%  Similarity=0.239  Sum_probs=39.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCC-CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYD-TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      .++|+++|++|+|||||++++....+.. ...+....+.....+..++.  .+.+||++|..+.
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~iiDtpG~~~~   63 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDGK--KYTLIDTAGIRRK   63 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECCe--eEEEEECCCCccc
Confidence            4789999999999999999998765321 11222222233334444554  4679999997543

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.

>cd01898 Obg Obg subfamily

Probab=99.17  E-value=8.5e-11  Score=65.57  Aligned_cols=56  Identities=16%  Similarity=0.299  Sum_probs=35.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCC-Cc-cceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYD-TY-ISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~-~~-~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      .|+++|+++||||||++++.+..... .+ .+|..  .....+..++ ...+.+|||+|+.
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~--~~~~~~~~~~-~~~~~l~DtpG~~   59 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLV--PNLGVVRVDD-GRSFVVADIPGLI   59 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccC--CcceEEEcCC-CCeEEEEecCccc
Confidence            58999999999999999998654311 11 11211  1111122333 2478999999974

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.17  E-value=6e-11  Score=66.94  Aligned_cols=61  Identities=13%  Similarity=0.046  Sum_probs=40.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCcccee----------------eEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTI----------------GIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~----------------~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      +|+++|++|+|||||++.++.........++.                ..+.....  .+.....+.+||++|+.++..
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~liDtpG~~~~~~   77 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVAT--FEWPDRRVNFIDTPGHEDFSS   77 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEE--EeeCCEEEEEEeCCCcHHHHH
Confidence            48999999999999999999876654332211                11111122  222356789999999887654

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.

>cd01894 EngA1 EngA1 subfamily

Probab=99.16  E-value=1.2e-10  Score=64.00  Aligned_cols=58  Identities=12%  Similarity=0.119  Sum_probs=39.1

Q ss_pred             EEEcCCCCcHHHHHHHHHhCC--CCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927         11 LVLGDSNVGKTCIVHRFCDET--YYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus        11 ~~~G~~~~GKtsl~~~~~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      +++|++|||||||++++....  +.....++. .+........++  ..+.+|||+|.+.+..
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t-~~~~~~~~~~~~--~~~~i~DtpG~~~~~~   60 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVT-RDRIYGEAEWGG--REFILIDTGGIEPDDE   60 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCce-eCceeEEEEECC--eEEEEEECCCCCCchh
Confidence            479999999999999999764  223333332 233333444444  5789999999887543

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.16  E-value=2.1e-10  Score=73.60  Aligned_cols=59  Identities=15%  Similarity=0.148  Sum_probs=42.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ..+|+++|+++||||||+++++++... ....+.+..+.....+..++.  .+.+|||+|++
T Consensus        38 ~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~--~~~l~DT~G~~   97 (472)
T PRK03003         38 LPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGR--RFTVVDTGGWE   97 (472)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCc--EEEEEeCCCcC
Confidence            468999999999999999999976542 223333334444444455554  47899999986

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.16  E-value=1.3e-10  Score=76.44  Aligned_cols=64  Identities=14%  Similarity=0.268  Sum_probs=45.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC-------CCCCCccc------eeeEEEEEEEEEe-----CCeEEEEEEEeCCCcccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE-------TYYDTYIS------TIGIDFKQKIIDL-----DDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~-------~~~~~~~~------t~~~~~~~~~~~~-----~~~~~~l~i~D~~g~~~~   69 (75)
                      =+++++|..++|||||+.+++..       .+...+..      ..|..+....+.+     ++..+.+.+|||+|+++|
T Consensus         4 RNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF   83 (595)
T TIGR01393         4 RNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDF   83 (595)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHH
Confidence            37899999999999999999854       12222222      2244444443333     567799999999999988


Q ss_pred             cc
Q psy12927         70 LL   71 (75)
Q Consensus        70 ~~   71 (75)
                      ..
T Consensus        84 ~~   85 (595)
T TIGR01393        84 SY   85 (595)
T ss_pred             HH
Confidence            64

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.

>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=99.16  E-value=1.2e-10  Score=65.44  Aligned_cols=62  Identities=18%  Similarity=0.307  Sum_probs=39.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ++|+++|.++||||||++++.+.+.....-|....+...-.+..++  ..+++.|++|.-.+.+
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~--~~~~lvDlPG~ysl~~   62 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD--QQVELVDLPGIYSLSS   62 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT--EEEEEEE----SSSSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC--ceEEEEECCCcccCCC
Confidence            5899999999999999999997763322223333455555566666  4678999999755443

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 ....

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.15  E-value=1.1e-10  Score=67.45  Aligned_cols=62  Identities=16%  Similarity=0.273  Sum_probs=38.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeE-EEEEEEEEe-CCeEEEEEEEeCCCccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGI-DFKQKIIDL-DDVPTKLQIWTLNALLT   68 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~-~~~~~~l~i~D~~g~~~   68 (75)
                      .+||+++|++|||||||++.+.+..++....++.+. +.......+ ......+.+||++|...
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~~~   64 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGIGS   64 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCCCc
Confidence            379999999999999999999976554433333221 100000001 11123689999999753

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

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.15  E-value=1.4e-10  Score=72.28  Aligned_cols=58  Identities=17%  Similarity=0.314  Sum_probs=41.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCC-Cc-cceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYD-TY-ISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~-~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ..++++++|.++||||||++++.+..+.. +. .+|.  +.....+.+.+ ...+.+|||+|.
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~--d~~~~~i~~~~-~~~i~l~DT~G~  247 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATL--DPTTRRLDLPD-GGEVLLTDTVGF  247 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCcccc--CCEEEEEEeCC-CceEEEEecCcc
Confidence            34899999999999999999999775432 22 2343  34445555532 236889999998

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).

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.15  E-value=6.2e-10  Score=67.60  Aligned_cols=62  Identities=19%  Similarity=0.320  Sum_probs=42.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCc----------cceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTY----------ISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~----------~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ..++++|+|++|+|||||++.++........          .++..+......+..++..+.|.++||+|-.
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfG   74 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFG   74 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCcc
Confidence            4789999999999999999999876443321          1233344444455557889999999999943

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.

>cd04163 Era Era subfamily

Probab=99.14  E-value=2.5e-10  Score=62.81  Aligned_cols=60  Identities=12%  Similarity=0.086  Sum_probs=38.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCC--ccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDT--YISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~--~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ..+|+++|.+|+|||||++++...+....  ...+.. .. ... ........+.+||++|....
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~-~~-~~~-~~~~~~~~~~liDtpG~~~~   64 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTR-NR-IRG-IYTDDDAQIIFVDTPGIHKP   64 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCcee-ce-EEE-EEEcCCeEEEEEECCCCCcc
Confidence            57899999999999999999987654221  111211 11 111 12333567899999997643

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.14  E-value=4.7e-10  Score=70.90  Aligned_cols=63  Identities=19%  Similarity=0.178  Sum_probs=43.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ..+|++++|.+++|||||+++++....  ......+. .+.....+..++.  .+.+|||+|..++..
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt-~~~~~~~~~~~~~--~~~liDT~G~~~~~~  235 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTT-RDSIDIPFERNGK--KYLLIDTAGIRRKGK  235 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCce-ECcEeEEEEECCc--EEEEEECCCcccccc
Confidence            458999999999999999999997652  22333332 2333344445554  678999999866543

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.

>cd01859 MJ1464 MJ1464

Probab=99.13  E-value=3.9e-10  Score=62.75  Aligned_cols=57  Identities=18%  Similarity=0.287  Sum_probs=40.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNA   65 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g   65 (75)
                      ....+++++|.+++||||+++++.... ...+.++.+.......+..++   .+.+|||+|
T Consensus        99 ~~~~~~~~ig~~~~Gkssl~~~l~~~~-~~~~~~~~~~t~~~~~~~~~~---~~~~~DtpG  155 (156)
T cd01859          99 GKEGKVGVVGYPNVGKSSIINALKGRH-SASTSPSPGYTKGEQLVKITS---KIYLLDTPG  155 (156)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCC-ccccCCCCCeeeeeEEEEcCC---CEEEEECcC
Confidence            346789999999999999999998654 334455666544333333333   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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.11  E-value=4.2e-10  Score=75.80  Aligned_cols=63  Identities=14%  Similarity=0.220  Sum_probs=43.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      .++|+++|.+|||||||++++.+.+.....-|  |.....+.-.++.....+++||++|..++..
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~p--GvTve~k~g~~~~~~~~i~lvDtPG~ysl~~   65 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWA--GVTVERKEGQFSTTDHQVTLVDLPGTYSLTT   65 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCC--CceEeeEEEEEEcCceEEEEEECCCcccccc
Confidence            57899999999999999999986654221112  2223233333444556789999999987754

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.11  E-value=3.6e-10  Score=74.18  Aligned_cols=62  Identities=16%  Similarity=0.223  Sum_probs=46.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh---CCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD---ETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~---~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      +.|.++|..++|||||++++.+   +.+++++.+++..+.....+..++  ..+.+||++|+++|..
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~   65 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFIS   65 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHH
Confidence            3689999999999999999985   345445555555555544555555  7889999999998753

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.09  E-value=5.9e-10  Score=75.16  Aligned_cols=67  Identities=9%  Similarity=0.130  Sum_probs=47.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+...|+++|..++|||||+.++....+.....+.+..+.....+..++  ..+.+|||+|++.|..+.
T Consensus       288 ~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~  354 (787)
T PRK05306        288 PRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMR  354 (787)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHH
Confidence            3457899999999999999999987776544333332233333344444  568899999999987654

>cd04167 Snu114p Snu114p subfamily

Probab=99.09  E-value=3.4e-10  Score=65.94  Aligned_cols=63  Identities=21%  Similarity=0.281  Sum_probs=40.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCC-----------c------cceeeEEEEEEEEE--e---CCeEEEEEEEeCCCc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDT-----------Y------ISTIGIDFKQKIID--L---DDVPTKLQIWTLNAL   66 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~-----------~------~~t~~~~~~~~~~~--~---~~~~~~l~i~D~~g~   66 (75)
                      +++++|..++|||||+.+++.......           +      ....+..+....+.  .   ++..+.+.+|||+|+
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            589999999999999999986543221           0      01112222111111  1   356789999999999


Q ss_pred             ccccc
Q psy12927         67 LTYLL   71 (75)
Q Consensus        67 ~~~~~   71 (75)
                      ++|..
T Consensus        82 ~~f~~   86 (213)
T cd04167          82 VNFMD   86 (213)
T ss_pred             cchHH
Confidence            88753

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.

>TIGR00436 era GTP-binding protein Era

Probab=99.09  E-value=3.9e-10  Score=67.84  Aligned_cols=57  Identities=14%  Similarity=0.189  Sum_probs=37.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      +++++|.+|||||||++++++..+.  ...+.|....  ...+..++ ...+.+|||+|..+
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~--i~~i~~~~-~~qii~vDTPG~~~   60 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNR--ISGIHTTG-ASQIIFIDTPGFHE   60 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCc--EEEEEEcC-CcEEEEEECcCCCC
Confidence            6899999999999999999987643  2223333221  12222222 24689999999754

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

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.09  E-value=3.6e-10  Score=75.75  Aligned_cols=68  Identities=13%  Similarity=0.161  Sum_probs=48.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceee--EEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIG--IDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+|+++|..++|||||+.++....+.....+.+.  ...+...+..++....+.+|||+|++.|..+.
T Consensus       243 r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr  312 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMR  312 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHH
Confidence            456899999999999999999998776543332222  12233333334556889999999999987654

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.09  E-value=5.8e-10  Score=73.35  Aligned_cols=57  Identities=14%  Similarity=0.266  Sum_probs=43.2

Q ss_pred             cCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927         14 GDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus        14 G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      |++|||||||++++.+.++...+.|....+.....+..++.  .+++||++|++++.+.
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~~--~i~lvDtPG~~~~~~~   57 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQGE--DIEIVDLPGIYSLTTF   57 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECCe--EEEEEECCCccccCcc
Confidence            89999999999999987764444455556666666666654  4789999999987654

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.

>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=99.09  E-value=9e-10  Score=65.23  Aligned_cols=58  Identities=16%  Similarity=0.362  Sum_probs=38.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCC-CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETY-YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      +++++|++++|||||++++.+... ..+++.+. .+.....+.+++  ..+++||++|+.+.
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT-~~~~~g~~~~~~--~~i~l~DtpG~~~~   60 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTT-LTCVPGVLEYKG--AKIQLLDLPGIIEG   60 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCcc-ccceEEEEEECC--eEEEEEECCCcccc
Confidence            789999999999999999997642 22222221 122233333444  57899999998543

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.

>cd01856 YlqF YlqF

Probab=99.07  E-value=7.9e-10  Score=62.56  Aligned_cols=57  Identities=16%  Similarity=0.282  Sum_probs=39.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ..++++++|.++||||||++++....+.. ..+..+.......+.++   ..+.++||+|-
T Consensus       114 ~~~~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         114 RGIRAMVVGIPNVGKSTLINRLRGKKVAK-VGNKPGVTKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcee-ecCCCCEEeeeEEEEec---CCEEEEECCCC
Confidence            35799999999999999999999876532 22222333333334444   35789999984

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.

>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=99.07  E-value=7.4e-10  Score=58.90  Aligned_cols=56  Identities=11%  Similarity=0.190  Sum_probs=36.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      +|+++|.+|+|||||++.+++...  .....++.... ....+.+++..+  .++||+|-.
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~-~~~~~~~~~~~~--~~vDtpG~~   58 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDP-VYGQFEYNNKKF--ILVDTPGIN   58 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSE-EEEEEEETTEEE--EEEESSSCS
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeee-eeeeeeeceeeE--EEEeCCCCc
Confidence            689999999999999999997532  11222222111 223344566654  699999964

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 ....

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.06  E-value=5e-10  Score=69.03  Aligned_cols=57  Identities=16%  Similarity=0.212  Sum_probs=40.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCC------CCccceeeEEEEEEE---------------EEeCC-eEEEEEEEeCCCc
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDETYY------DTYISTIGIDFKQKI---------------IDLDD-VPTKLQIWTLNAL   66 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~~~------~~~~~t~~~~~~~~~---------------~~~~~-~~~~l~i~D~~g~   66 (75)
                      +.++|.++||||||+++++.....      ..+.|++|..+....               ...++ +.+.+++||++|.
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGl   79 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGL   79 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCC
Confidence            478999999999999999977632      344677765543211               11233 4478999999998

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.

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.06  E-value=9.7e-10  Score=65.79  Aligned_cols=62  Identities=26%  Similarity=0.322  Sum_probs=41.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCC--Cc-cceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYD--TY-ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~--~~-~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ....++|+++|.+|||||||++.+.+.....  .+ ..|.....  .....++  ..+.++||+|-...
T Consensus        28 ~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~--~~~~~~g--~~i~vIDTPGl~~~   92 (249)
T cd01853          28 LDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVRE--VSGTVDG--FKLNIIDTPGLLES   92 (249)
T ss_pred             ccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEE--EEEEECC--eEEEEEECCCcCcc
Confidence            3567999999999999999999999765322  12 22322222  1222334  56899999997644

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.03  E-value=9.7e-10  Score=69.49  Aligned_cols=56  Identities=14%  Similarity=0.205  Sum_probs=38.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      +|+++|.+|||||||++++.....  ...+ +.+..+.....+..++.  .+.+|||+|..
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~-~g~t~d~~~~~~~~~~~--~~~liDTpG~~   58 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDT-PGVTRDRKYGDAEWGGR--EFILIDTGGIE   58 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCC-CCcccCceEEEEEECCe--EEEEEECCCCC
Confidence            589999999999999999997653  2222 22222333344444544  58999999963

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.02  E-value=1.3e-09  Score=72.99  Aligned_cols=59  Identities=17%  Similarity=0.302  Sum_probs=43.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ...|++++|.++||||||+++++..+.  ..++.+|. .+.....+.+++..  +.+|||+|..
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT-~d~~~~~~~~~~~~--~~liDTaG~~  509 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTT-RDPVDEIVEIDGED--WLFIDTAGIK  509 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCC-cCcceeEEEECCCE--EEEEECCCcc
Confidence            358999999999999999999997763  34444443 34545555667665  4599999964

>PRK10218 GTP-binding protein; Provisional

Probab=99.02  E-value=2.1e-09  Score=70.98  Aligned_cols=65  Identities=15%  Similarity=0.142  Sum_probs=49.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh--CCCCCCc------------cceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD--ETYYDTY------------ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      .-+|+++|..++|||||+.+++.  +.+...+            ..+.+..+..+...++...+.+.+|||+|+..|..
T Consensus         5 iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~   83 (607)
T PRK10218          5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGG   83 (607)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHH
Confidence            45899999999999999999986  4443321            23455666666666666778999999999998864

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.02  E-value=5.6e-10  Score=62.42  Aligned_cols=53  Identities=19%  Similarity=0.431  Sum_probs=34.3

Q ss_pred             EEcCCCCcHHHHHHHHHhCCC-CCCcc-ceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927         12 VLGDSNVGKTCIVHRFCDETY-YDTYI-STIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus        12 ~~G~~~~GKtsl~~~~~~~~~-~~~~~-~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ++|++|||||||++++.+... ...+. +|....  ...+.+++ ...+.+||++|..
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~--~~~~~~~~-~~~~~i~DtpG~~   55 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPN--LGVVEVPD-GARIQVADIPGLI   55 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCc--ceEEEcCC-CCeEEEEeccccc
Confidence            589999999999999998764 22222 232222  22233331 3567999999973

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

>PRK11058 GTPase HflX; Provisional

Probab=99.01  E-value=9.5e-10  Score=70.02  Aligned_cols=60  Identities=18%  Similarity=0.271  Sum_probs=38.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      .+++++|.+|||||||++++.+.+......+....+.....+.+.+. ..+.+|||+|..+
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r  257 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIR  257 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccc
Confidence            58999999999999999999976543211111112333334444432 1467999999843

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.01  E-value=1.4e-09  Score=66.80  Aligned_cols=62  Identities=23%  Similarity=0.248  Sum_probs=40.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ...++|+++|.+||||||+++++++.+..  +...++ +..........+  ...+.++||+|....
T Consensus        36 ~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~-t~~~~~~~~~~~--G~~l~VIDTPGL~d~   99 (313)
T TIGR00991        36 VSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSE-GLRPMMVSRTRA--GFTLNIIDTPGLIEG   99 (313)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCc-ceeEEEEEEEEC--CeEEEEEECCCCCch
Confidence            46789999999999999999999966421  112111 111111112233  457899999997654

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.99  E-value=2.8e-09  Score=67.99  Aligned_cols=59  Identities=17%  Similarity=0.323  Sum_probs=45.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCC--CCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDET--YYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      -+|++++|.|+||||||++.+.+.+  ..++.+.|. .|.-...+.++|  +.+.+.||+|..+
T Consensus       217 G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTT-RDviee~i~i~G--~pv~l~DTAGiRe  277 (454)
T COG0486         217 GLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTT-RDVIEEDINLNG--IPVRLVDTAGIRE  277 (454)
T ss_pred             CceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCc-cceEEEEEEECC--EEEEEEecCCccc
Confidence            5899999999999999999999654  334455554 356566777776  5578999999864

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.97  E-value=2.2e-09  Score=71.85  Aligned_cols=60  Identities=15%  Similarity=0.134  Sum_probs=40.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCC-CccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYD-TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ..+|+++|.++||||||++++++..... ...|.+..+........++  ..+.+|||+|.+.
T Consensus       275 ~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~--~~~~liDT~G~~~  335 (712)
T PRK09518        275 VGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG--TDFKLVDTGGWEA  335 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC--EEEEEEeCCCcCC
Confidence            5689999999999999999999765311 1223333333333333344  4678999999763

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=98.96  E-value=1.1e-09  Score=64.93  Aligned_cols=59  Identities=22%  Similarity=0.235  Sum_probs=36.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCc---cceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTY---ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~---~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      |++++|+.++||||+.+.+..+-.+.+.   .+|...+..  .+. ....+.+++||.+||..+-
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~--~v~-~~~~~~l~iwD~pGq~~~~   62 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKS--HVR-FLSFLPLNIWDCPGQDDFM   62 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEE--EEE-CTTSCEEEEEEE-SSCSTT
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEE--EEe-cCCCcEEEEEEcCCccccc
Confidence            7999999999999999998866433322   355543322  221 2345689999999998653

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.

>PRK00089 era GTPase Era; Reviewed

Probab=98.95  E-value=3.6e-09  Score=64.12  Aligned_cols=60  Identities=12%  Similarity=0.128  Sum_probs=38.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCC--CccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYD--TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      +.-.|+++|++|||||||++++++.....  ..+.|.....  ..+... ....+.+|||+|...
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i--~~i~~~-~~~qi~~iDTPG~~~   65 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRI--RGIVTE-DDAQIIFVDTPGIHK   65 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccE--EEEEEc-CCceEEEEECCCCCC
Confidence            34568999999999999999999765422  1222221111  111112 236789999999754

>cd00880 Era_like Era (E

Probab=98.95  E-value=2.4e-09  Score=58.13  Aligned_cols=60  Identities=12%  Similarity=0.108  Sum_probs=36.9

Q ss_pred             EEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927         12 VLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus        12 ~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ++|..|+|||||++++...... ....+.............+ ....+.+||++|...+...
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Dt~g~~~~~~~   61 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELG-PLGPVVLIDTPGIDEAGGL   61 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEec-CCCcEEEEECCCCCccccc
Confidence            5899999999999999866443 1111111112222222222 1467899999998776543

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

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

Probab=98.94  E-value=1.8e-09  Score=71.12  Aligned_cols=65  Identities=15%  Similarity=0.058  Sum_probs=42.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCc----cceeeEEEEEEEEEe------------CCeEEEEEEEeCCCccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTY----ISTIGIDFKQKIIDL------------DDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~----~~t~~~~~~~~~~~~------------~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      -|+++|..++|||||++++....+....    .++++..+.......            +.....+.+|||+|++.|..+
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            5899999999999999999977664432    233443332211100            001123889999999998875


Q ss_pred             c
Q psy12927         73 D   73 (75)
Q Consensus        73 ~   73 (75)
                      .
T Consensus        86 ~   86 (590)
T TIGR00491        86 R   86 (590)
T ss_pred             H
Confidence            4

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.94  E-value=9.5e-09  Score=65.22  Aligned_cols=61  Identities=20%  Similarity=0.267  Sum_probs=40.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCC-CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETY-YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ..++++++|.+++|||||+++++.... .....+....+.....+..++.  .+.+|||+|..+
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~lvDT~G~~~  233 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDGQ--KYTLIDTAGIRR  233 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECCe--eEEEEECCCCCC
Confidence            469999999999999999999996542 2222222222333333444544  467899999654

>cd04169 RF3 RF3 subfamily

Probab=98.94  E-value=4.8e-09  Score=63.31  Aligned_cols=63  Identities=8%  Similarity=0.183  Sum_probs=40.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC-CCC----------------Cccc---eeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET-YYD----------------TYIS---TIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~-~~~----------------~~~~---t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      +|+++|..++|||||+.+++... ...                ++.+   ..+..+......++...+.+.+|||+|+++
T Consensus         4 ni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~d   83 (267)
T cd04169           4 TFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHED   83 (267)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCchH
Confidence            68999999999999999987421 000                0000   011222233334455668899999999987


Q ss_pred             ccc
Q psy12927         69 YLL   71 (75)
Q Consensus        69 ~~~   71 (75)
                      |..
T Consensus        84 f~~   86 (267)
T cd04169          84 FSE   86 (267)
T ss_pred             HHH
Confidence            753

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.

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

Probab=98.92  E-value=6.9e-09  Score=65.93  Aligned_cols=68  Identities=13%  Similarity=0.157  Sum_probs=46.0

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHh--CCCCC-----------------------------CccceeeEEEEEEEE
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCD--ETYYD-----------------------------TYISTIGIDFKQKII   49 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~--~~~~~-----------------------------~~~~t~~~~~~~~~~   49 (75)
                      |......++++++|..++|||||+.+++.  +....                             +....+..+.....+
T Consensus         1 ~~~~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~   80 (426)
T TIGR00483         1 MAKEKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKF   80 (426)
T ss_pred             CCCCCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEE
Confidence            56677889999999999999999999874  22210                             011122233333333


Q ss_pred             EeCCeEEEEEEEeCCCccccc
Q psy12927         50 DLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus        50 ~~~~~~~~l~i~D~~g~~~~~   70 (75)
                        ....+.+.+||++|+++|.
T Consensus        81 --~~~~~~i~iiDtpGh~~f~   99 (426)
T TIGR00483        81 --ETDKYEVTIVDCPGHRDFI   99 (426)
T ss_pred             --ccCCeEEEEEECCCHHHHH
Confidence              3345688999999998874

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.

>PTZ00099 rab6; Provisional

Probab=98.92  E-value=3.2e-09  Score=60.51  Aligned_cols=44  Identities=39%  Similarity=0.646  Sum_probs=39.6

Q ss_pred             CCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927         30 ETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus        30 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.|.+.+.||+|.++..+.+.+++..+.+.||||+|+++|+.+.
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~   46 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLI   46 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhcc
Confidence            56888899999999988888899999999999999999998764

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.92  E-value=2.7e-09  Score=61.46  Aligned_cols=58  Identities=10%  Similarity=0.202  Sum_probs=37.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCC-CCc---cceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYY-DTY---ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~---~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ++|+++|.+|+|||||++.+++.+.. ...   ..|.....  .....++  ..+.+.||+|-...
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~--~~~~~~~--~~i~viDTPG~~d~   62 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQK--ESAVWDG--RRVNVIDTPGLFDT   62 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccce--eeEEECC--eEEEEEECcCCCCc
Confidence            47999999999999999999976532 221   12222222  2222344  46899999997643

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).

>cd01858 NGP_1 NGP-1

Probab=98.90  E-value=1.2e-08  Score=56.99  Aligned_cols=56  Identities=16%  Similarity=0.208  Sum_probs=35.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNA   65 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g   65 (75)
                      ..++++++|.+|||||||++.+....... ..+..|.......+..+.   .+.+.||+|
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            35788999999999999999998654322 112222222222222222   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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=98.89  E-value=6e-09  Score=68.77  Aligned_cols=71  Identities=17%  Similarity=0.250  Sum_probs=45.7

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhC--CCC-----CCc------cceeeEEEEEEEEEe-----CCeEEEEEEEe
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDE--TYY-----DTY------ISTIGIDFKQKIIDL-----DDVPTKLQIWT   62 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~--~~~-----~~~------~~t~~~~~~~~~~~~-----~~~~~~l~i~D   62 (75)
                      |.+....-+++++|..++|||||+.+++..  ...     ..+      ..+.|..+....+.+     +++.+.+.+||
T Consensus         1 ~~~~~~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiD   80 (600)
T PRK05433          1 MMDMKNIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLID   80 (600)
T ss_pred             CCccccCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEE
Confidence            334445568999999999999999999852  111     111      112233333222222     56678999999


Q ss_pred             CCCcccccc
Q psy12927         63 LNALLTYLL   71 (75)
Q Consensus        63 ~~g~~~~~~   71 (75)
                      |+|++.|..
T Consensus        81 TPGh~dF~~   89 (600)
T PRK05433         81 TPGHVDFSY   89 (600)
T ss_pred             CCCcHHHHH
Confidence            999998853

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.89  E-value=1.1e-08  Score=61.89  Aligned_cols=57  Identities=21%  Similarity=0.395  Sum_probs=39.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ..++++++|.+|||||||++++........ .+..|.......+.++.   .+.++||+|.
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGKKVAKV-GNRPGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccc-CCCCCeecceEEEEeCC---CEEEEECCCc
Confidence            458999999999999999999986653221 22223333334444433   4689999998

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.89  E-value=1.6e-08  Score=61.48  Aligned_cols=58  Identities=21%  Similarity=0.389  Sum_probs=39.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ..++++++|.++||||||++.+...+... ..+..|.......+.++.   .+.++||+|--
T Consensus       120 ~~~~~~~~G~pnvGKSsliN~l~~~~~~~-~~~~~g~T~~~~~~~~~~---~~~l~DtPGi~  177 (287)
T PRK09563        120 RAIRAMIIGIPNVGKSTLINRLAGKKIAK-TGNRPGVTKAQQWIKLGK---GLELLDTPGIL  177 (287)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCccc-cCCCCCeEEEEEEEEeCC---cEEEEECCCcC
Confidence            45899999999999999999999765422 122223333333444443   37899999974

>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=98.88  E-value=3.1e-09  Score=62.07  Aligned_cols=55  Identities=16%  Similarity=0.235  Sum_probs=33.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCc----cceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTY----ISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ++|+++|.+|+||||+.+.+++.......    ..|......  ...+++.  .+.++||+|-
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~--~~~~~g~--~v~VIDTPGl   59 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKY--SGEVDGR--QVTVIDTPGL   59 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEE--EEEETTE--EEEEEE--SS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCccccccee--eeeecce--EEEEEeCCCC
Confidence            58999999999999999999966543322    123222222  2245664  4689999994

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 ....

>PRK04004 translation initiation factor IF-2; Validated

Probab=98.88  E-value=8.3e-09  Score=67.95  Aligned_cols=69  Identities=14%  Similarity=0.067  Sum_probs=43.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCc----cceeeEEEEEEEEEe--CCeEE----------EEEEEeCCCccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTY----ISTIGIDFKQKIIDL--DDVPT----------KLQIWTLNALLT   68 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~----~~t~~~~~~~~~~~~--~~~~~----------~l~i~D~~g~~~   68 (75)
                      .+...|+++|..++|||||++++.+.......    .+++|..+.......  .+..+          .+.+|||+|++.
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            34457999999999999999999855433222    234444333211100  01111          268999999999


Q ss_pred             ccccc
Q psy12927         69 YLLLD   73 (75)
Q Consensus        69 ~~~~~   73 (75)
                      |..+.
T Consensus        84 f~~~~   88 (586)
T PRK04004         84 FTNLR   88 (586)
T ss_pred             HHHHH
Confidence            87653

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.88  E-value=4.9e-09  Score=70.33  Aligned_cols=70  Identities=10%  Similarity=0.059  Sum_probs=48.1

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhC---------------CCCCC---ccceeeEEEEEEEEEeCCeEEEEEEEe
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDE---------------TYYDT---YISTIGIDFKQKIIDLDDVPTKLQIWT   62 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~---------------~~~~~---~~~t~~~~~~~~~~~~~~~~~~l~i~D   62 (75)
                      |.+....-+|+++|..++|||||+.+++..               .+...   ...|+...........+...+.+.+||
T Consensus        13 ~~~~~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liD   92 (720)
T TIGR00490        13 MWKPKFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLID   92 (720)
T ss_pred             hhCcccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEe
Confidence            344556779999999999999999998742               11111   223444333333334566788999999


Q ss_pred             CCCccccc
Q psy12927         63 LNALLTYL   70 (75)
Q Consensus        63 ~~g~~~~~   70 (75)
                      |+|+.+|.
T Consensus        93 TPG~~~f~  100 (720)
T TIGR00490        93 TPGHVDFG  100 (720)
T ss_pred             CCCccccH
Confidence            99998875

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.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=98.87  E-value=5.4e-09  Score=62.12  Aligned_cols=63  Identities=14%  Similarity=0.193  Sum_probs=39.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCC-C------------Ccc---ceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYY-D------------TYI---STIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~-~------------~~~---~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ++.++|..++|||||+.+++...-. .            ++.   ...+.........+.....++.+|||+|+.+|..
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~   79 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIA   79 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHH
Confidence            4789999999999999998753110 0            000   1112222222333344557899999999987753

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.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.84  E-value=1.8e-08  Score=57.44  Aligned_cols=55  Identities=20%  Similarity=0.303  Sum_probs=36.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNA   65 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g   65 (75)
                      .++++++|.++||||||++.+....... ..+..|.......+.++.   .+.++||+|
T Consensus       117 ~~~~~~vG~pnvGKSslin~l~~~~~~~-~~~~pg~T~~~~~~~~~~---~~~l~DtPG  171 (172)
T cd04178         117 SITVGVVGFPNVGKSSLINSLKRSRACN-VGATPGVTKSMQEVHLDK---KVKLLDSPG  171 (172)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCcccce-ecCCCCeEcceEEEEeCC---CEEEEECcC
Confidence            4799999999999999999999654321 122223333333333433   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

>PRK09602 translation-associated GTPase; Reviewed

Probab=98.84  E-value=1.3e-08  Score=64.45  Aligned_cols=59  Identities=17%  Similarity=0.231  Sum_probs=39.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCC-Cc-----cceeeEEEEEEEE---------------EeC-CeEEEEEEEeCCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYD-TY-----ISTIGIDFKQKII---------------DLD-DVPTKLQIWTLNA   65 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~-----~~t~~~~~~~~~~---------------~~~-~~~~~l~i~D~~g   65 (75)
                      +|+.++|.++||||||++++...++.. +|     .|+.|..+....+               ..+ ...+.+++||++|
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            689999999999999999999776542 33     3555543321100               012 2347899999999


Q ss_pred             c
Q psy12927         66 L   66 (75)
Q Consensus        66 ~   66 (75)
                      .
T Consensus        82 l   82 (396)
T PRK09602         82 L   82 (396)
T ss_pred             c
Confidence            4

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.83  E-value=1.9e-08  Score=62.29  Aligned_cols=53  Identities=17%  Similarity=0.359  Sum_probs=36.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCC-CC-----ccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYY-DT-----YISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~-~~-----~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ..|.++|.++||||||++++...+.. .+     ..|+++      .+.+++ ...+.+||++|..
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig------~v~~~~-~~~~~i~D~PGli  216 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLG------VVRVDD-GRSFVIADIPGLI  216 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEE------EEEeCC-ceEEEEEeCCCcc
Confidence            45789999999999999999966421 12     233333      222333 3567999999975

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.

>KOG2655|consensus

Probab=98.83  E-value=2.7e-08  Score=62.16  Aligned_cols=64  Identities=16%  Similarity=0.273  Sum_probs=48.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCC---------ccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDT---------YISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~---------~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ...+.++++|++|.|||||++.++...+..+         ...++.+......+.-++..+.|.+.||+|-..
T Consensus        19 G~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD   91 (366)
T KOG2655|consen   19 GFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGD   91 (366)
T ss_pred             CCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcc
Confidence            4579999999999999999999876544332         233555566555555578899999999998653

>cd01855 YqeH YqeH

Probab=98.82  E-value=1.6e-08  Score=57.94  Aligned_cols=56  Identities=18%  Similarity=0.270  Sum_probs=35.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCC-------CccceeeEEEEEEEEEeCCeEEEEEEEeCCC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYD-------TYISTIGIDFKQKIIDLDDVPTKLQIWTLNA   65 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~-------~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g   65 (75)
                      ..+++++|.+|||||||++.+.......       ...+..|.......+.++.   .+.++||+|
T Consensus       127 ~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~~~DtPG  189 (190)
T cd01855         127 GGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGN---GKKLYDTPG  189 (190)
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCC---CCEEEeCcC
Confidence            3579999999999999999998643211       1111112223333333433   468999998

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.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.80  E-value=4.5e-08  Score=61.11  Aligned_cols=65  Identities=18%  Similarity=0.360  Sum_probs=49.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCC----------ccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDT----------YISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~----------~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ...+.++++|+.|.|||||++.++..+...+          ..+++.+......+.-++..+.|.+.||+|-..+
T Consensus        21 Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~   95 (373)
T COG5019          21 GIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDF   95 (373)
T ss_pred             CCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCcccc
Confidence            5579999999999999999999987643322          2356666666666666788899999999996543

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.79  E-value=4.5e-09  Score=63.59  Aligned_cols=61  Identities=15%  Similarity=0.322  Sum_probs=39.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCc--cceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTY--ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~--~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ...++++++|.+||||||+++.+..+...+..  ..+.....+. ...+++  -.+.+||++|-+.
T Consensus        37 ~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~-~~~~~~--~~l~lwDtPG~gd   99 (296)
T COG3596          37 KEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRL-RLSYDG--ENLVLWDTPGLGD   99 (296)
T ss_pred             cCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhH-Hhhccc--cceEEecCCCccc
Confidence            45789999999999999999999865443311  1111111111 112344  4689999999765

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

Probab=98.79  E-value=1.4e-08  Score=61.02  Aligned_cols=21  Identities=29%  Similarity=0.445  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +|+++|.+|+|||||+++++.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~   21 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLY   21 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999874

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

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=98.78  E-value=1e-08  Score=57.47  Aligned_cols=45  Identities=20%  Similarity=0.257  Sum_probs=30.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      +|+++|.++||||||++++.+. +.. ..++.+..+       +..    .+||++|+
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~-~~~-~~~~~~v~~-------~~~----~~iDtpG~   47 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGN-YTL-ARKTQAVEF-------NDK----GDIDTPGE   47 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC-Ccc-CccceEEEE-------CCC----CcccCCcc
Confidence            7999999999999999997643 321 123332222       222    26999997

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.78  E-value=2.8e-09  Score=61.18  Aligned_cols=61  Identities=16%  Similarity=0.215  Sum_probs=36.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEe-CCeEEEEEEEeCCCcccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDL-DDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~~   71 (75)
                      .-.++++|+.|+|||+|+.++..+.....+.+. .... .  ..+ +...-.+.+.|++|+++.+.
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e~n~-~--~~~~~~~~~~~~lvD~PGH~rlr~   64 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-ENNI-A--YNVNNSKGKKLRLVDIPGHPRLRS   64 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B---S-SEEE-E--CCGSSTCGTCECEEEETT-HCCCH
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-cCCc-e--EEeecCCCCEEEEEECCCcHHHHH
Confidence            346899999999999999999999765544333 2111 1  112 22334678999999998764

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=98.78  E-value=2.9e-08  Score=63.12  Aligned_cols=25  Identities=24%  Similarity=0.440  Sum_probs=22.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ....++++++|..++|||||+.+++
T Consensus         3 ~k~~~~v~iiGh~d~GKSTL~~~Ll   27 (425)
T PRK12317          3 EKPHLNLAVIGHVDHGKSTLVGRLL   27 (425)
T ss_pred             CCCEEEEEEECCCCCChHHHHHHHH
Confidence            3567999999999999999999987

>COG2229 Predicted GTPase [General function prediction only]

Probab=98.78  E-value=9.4e-09  Score=58.85  Aligned_cols=67  Identities=22%  Similarity=0.291  Sum_probs=47.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCC--------Cc----cceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYD--------TY----ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~--------~~----~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      -...||+++|+.++|||+++.+++......        .+    ..|+..++....  ++ ....+.+++|+||+||+-+
T Consensus         8 ~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~--~~-~~~~v~LfgtPGq~RF~fm   84 (187)
T COG2229           8 MIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIE--LD-EDTGVHLFGTPGQERFKFM   84 (187)
T ss_pred             ccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceE--Ec-CcceEEEecCCCcHHHHHH
Confidence            457899999999999999999998765311        11    234555554322  22 2356899999999999877


Q ss_pred             cc
Q psy12927         73 DK   74 (75)
Q Consensus        73 ~~   74 (75)
                      .+
T Consensus        85 ~~   86 (187)
T COG2229          85 WE   86 (187)
T ss_pred             HH
Confidence            54

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.77  E-value=3.7e-08  Score=63.90  Aligned_cols=55  Identities=15%  Similarity=0.261  Sum_probs=36.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCC-CCcc-ceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYY-DTYI-STIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~-~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      .+|+++|.++||||||++++...+.. .+|+ .|+.  ...-.+..++  ..+.+||++|.
T Consensus       160 adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~--P~lGvv~~~~--~~f~laDtPGl  216 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLV--PNLGVVQAGD--TRFTVADVPGL  216 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHhcCCccccccCccccc--ceEEEEEECC--eEEEEEECCCC
Confidence            46889999999999999999865432 2332 2222  2222233333  57899999995

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.75  E-value=3.6e-08  Score=57.27  Aligned_cols=58  Identities=22%  Similarity=0.315  Sum_probs=38.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ...-|+++|.++||||||++.+++.+-.....-|.|.....-.+.++++   +.+.|.+|-
T Consensus        23 ~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGY   80 (200)
T COG0218          23 DLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGY   80 (200)
T ss_pred             CCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCc
Confidence            3567999999999999999999986532223333343333333345554   678899884

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=98.72  E-value=3.5e-08  Score=65.17  Aligned_cols=62  Identities=19%  Similarity=0.199  Sum_probs=43.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh--CCCCCCc------------cceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD--ETYYDTY------------ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      +|+++|..++|||||+.+++.  +.+....            ....|..+..+...++...+.+.+|||+|++.|.
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~   78 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFG   78 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHH
Confidence            689999999999999999985  3332211            1122334444444455556889999999998875

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.

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.71  E-value=6.3e-08  Score=59.91  Aligned_cols=57  Identities=21%  Similarity=0.311  Sum_probs=40.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ..+++.++|-++|||||+++++....-. ...+..|.....+.+.++..   +.++||+|-
T Consensus       131 ~~~~v~vvG~PNVGKSslIN~L~~k~~~-~~s~~PG~Tk~~q~i~~~~~---i~LlDtPGi  187 (322)
T COG1161         131 RKIRVGVVGYPNVGKSTLINRLLGKKVA-KTSNRPGTTKGIQWIKLDDG---IYLLDTPGI  187 (322)
T ss_pred             cceEEEEEcCCCCcHHHHHHHHhcccce-eeCCCCceecceEEEEcCCC---eEEecCCCc
Confidence            4578999999999999999999976542 22222254555555555554   789999995

>KOG3883|consensus

Probab=98.71  E-value=7.5e-08  Score=54.23  Aligned_cols=64  Identities=22%  Similarity=0.290  Sum_probs=48.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC-CC-CCccceeeEEEEEEEEEeC-CeEEEEEEEeCCCcccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET-YY-DTYISTIGIDFKQKIIDLD-DVPTKLQIWTLNALLTY   69 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~-~~-~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~   69 (75)
                      .+-.|++++|..+||||+++.++.-++ .+ .++.||++ +.+...++-+ +..-.+.++||+|-..+
T Consensus         7 Gk~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiE-DiY~~svet~rgarE~l~lyDTaGlq~~   73 (198)
T KOG3883|consen    7 GKVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIE-DIYVASVETDRGAREQLRLYDTAGLQGG   73 (198)
T ss_pred             CcceEEEEECCccccHHHHHHHHHhccCCCCCccccchh-hheeEeeecCCChhheEEEeecccccCc
Confidence            346899999999999999999987544 32 35778885 6666666543 55567999999997665

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=98.70  E-value=3.7e-08  Score=57.30  Aligned_cols=21  Identities=24%  Similarity=0.466  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++++|..++|||||+.+++.
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~   21 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLY   21 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHH
Confidence            589999999999999999874

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.69  E-value=9.3e-08  Score=59.45  Aligned_cols=56  Identities=16%  Similarity=0.287  Sum_probs=34.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCC-CCcc-ceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYY-DTYI-STIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~-~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      .|.++|.++||||||++++...+.. .+|+ .|.....  -.+.++ ....+.+||++|.-
T Consensus       160 dVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~--G~v~~~-~~~~~~i~D~PGli  217 (335)
T PRK12299        160 DVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNL--GVVRVD-DYKSFVIADIPGLI  217 (335)
T ss_pred             CEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceE--EEEEeC-CCcEEEEEeCCCcc
Confidence            4679999999999999999865321 1222 2222222  222232 22357899999974

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=98.68  E-value=2.2e-08  Score=53.14  Aligned_cols=61  Identities=28%  Similarity=0.388  Sum_probs=38.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCcc-ceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYI-STIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      +|++++|+.|||||+|+.++..+.|...+. +++++..+.... ...-...+.+||..-.+.+
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~s~~~~~~v~~~~~~~s~   62 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIGIDVYDPTS-YESFDVVLQCWRVDDRDSA   62 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhhhhhccccc-cCCCCEEEEEEEccCHHHH
Confidence            589999999999999999999888866555 565521111111 1222333445887555443

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.

>TIGR00503 prfC peptide chain release factor 3

Probab=98.68  E-value=9.2e-08  Score=62.48  Aligned_cols=67  Identities=10%  Similarity=0.143  Sum_probs=43.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh-CCCCCC-------------------ccceeeEEEEEEEEEeCCeEEEEEEEeCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD-ETYYDT-------------------YISTIGIDFKQKIIDLDDVPTKLQIWTLN   64 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~-~~~~~~-------------------~~~t~~~~~~~~~~~~~~~~~~l~i~D~~   64 (75)
                      ....+++++|..++|||||+.+++. ......                   .....+..+......++...+.+.+|||+
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTP   88 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTP   88 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECC
Confidence            4466899999999999999999752 111100                   01112333334444455567889999999


Q ss_pred             Ccccccc
Q psy12927         65 ALLTYLL   71 (75)
Q Consensus        65 g~~~~~~   71 (75)
                      |+..|..
T Consensus        89 G~~df~~   95 (527)
T TIGR00503        89 GHEDFSE   95 (527)
T ss_pred             ChhhHHH
Confidence            9987653

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.

>KOG1547|consensus

Probab=98.67  E-value=1.5e-07  Score=56.57  Aligned_cols=65  Identities=20%  Similarity=0.308  Sum_probs=47.1

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCC---------CccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYD---------TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~---------~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ..+.++|+++|.+|.|||||++.+...+...         .+..|+.....+..+..++...++.+.||+|-..
T Consensus        43 ~GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGD  116 (336)
T KOG1547|consen   43 TGFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGD  116 (336)
T ss_pred             ccCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCccc
Confidence            3678999999999999999999876443221         2334555555555555678889999999999643

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.67  E-value=1.3e-07  Score=60.45  Aligned_cols=56  Identities=18%  Similarity=0.339  Sum_probs=35.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCC-CCcc-ceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYY-DTYI-STIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~-~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      .|.++|.++||||||+++++..+.. .+|+ .|......  .+.++. ...+.+||++|..
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG--~v~~~~-~~~~~laD~PGli  217 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLG--VVETDD-GRSFVMADIPGLI  217 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEE--EEEEeC-CceEEEEECCCCc
Confidence            6789999999999999999965421 1222 22222222  122221 3468999999974

>KOG1707|consensus

Probab=98.64  E-value=4.8e-08  Score=63.92  Aligned_cols=61  Identities=18%  Similarity=0.256  Sum_probs=43.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ...++|+++|+.|||||||+..+..++|+++.++... .. ..-..+.-..+...|.|++..+
T Consensus         7 ~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~-~i-~IPadvtPe~vpt~ivD~ss~~   67 (625)
T KOG1707|consen    7 LKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLP-RI-LIPADVTPENVPTSIVDTSSDS   67 (625)
T ss_pred             ccceEEEEECCCCccHHHHHHHHHhhhccccccccCC-cc-ccCCccCcCcCceEEEeccccc
Confidence            5689999999999999999999999999887766543 11 1112223344557888886433

>TIGR00485 EF-Tu translation elongation factor TU

Probab=98.64  E-value=1.3e-07  Score=59.77  Aligned_cols=65  Identities=12%  Similarity=0.157  Sum_probs=41.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhC-------CC---------CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDE-------TY---------YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~-------~~---------~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ..+.+++.++|..++|||||+.++...       .+         ..+...  |.......+..+.....+.+|||+|++
T Consensus         9 ~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~r--G~Ti~~~~~~~~~~~~~~~liDtpGh~   86 (394)
T TIGR00485         9 TKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKAR--GITINTAHVEYETENRHYAHVDCPGHA   86 (394)
T ss_pred             CCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhc--CcceeeEEEEEcCCCEEEEEEECCchH
Confidence            466899999999999999999998632       00         001111  111112223344445678899999999


Q ss_pred             ccc
Q psy12927         68 TYL   70 (75)
Q Consensus        68 ~~~   70 (75)
                      +|.
T Consensus        87 ~f~   89 (394)
T TIGR00485        87 DYV   89 (394)
T ss_pred             HHH
Confidence            874

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.

>KOG0076|consensus

Probab=98.63  E-value=1.8e-08  Score=57.50  Aligned_cols=64  Identities=22%  Similarity=0.350  Sum_probs=47.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhC-------CCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDE-------TYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~-------~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+.++++|..++|||+|+......       -.+....||+|.+.....  ++  ...+.+||..||+..+++.
T Consensus        16 e~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~--v~--~~~l~fwdlgGQe~lrSlw   86 (197)
T KOG0076|consen   16 EDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIE--VC--NAPLSFWDLGGQESLRSLW   86 (197)
T ss_pred             hhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeeccee--ec--cceeEEEEcCChHHHHHHH
Confidence            3678999999999999999986532       112345688887766544  34  4578999999999888764

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

Probab=98.62  E-value=1.3e-07  Score=54.90  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++.++|..++|||||+..+..
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~   22 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSG   22 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4789999999999999999864

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

>KOG1191|consensus

Probab=98.62  E-value=6.9e-08  Score=62.25  Aligned_cols=60  Identities=15%  Similarity=0.256  Sum_probs=41.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ..++++++|.++||||||++.+...+-.  +..+.|. .|--...++++|  +.+.+.||+|-.+
T Consensus       267 ~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTT-RDaiea~v~~~G--~~v~L~DTAGiRe  328 (531)
T KOG1191|consen  267 SGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTT-RDAIEAQVTVNG--VPVRLSDTAGIRE  328 (531)
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcc-hhhheeEeecCC--eEEEEEecccccc
Confidence            4589999999999999999999976532  2222232 233344555555  5567899999765

>KOG0072|consensus

Probab=98.61  E-value=3.5e-09  Score=58.93  Aligned_cols=66  Identities=26%  Similarity=0.319  Sum_probs=51.1

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .++.+.+++++|..|+|||+++.++..++.. ...||++++..  +  +..+..++++||..||-..+.+.
T Consensus        14 g~e~e~rililgldGaGkttIlyrlqvgevv-ttkPtigfnve--~--v~yKNLk~~vwdLggqtSirPyW   79 (182)
T KOG0072|consen   14 GPEREMRILILGLDGAGKTTILYRLQVGEVV-TTKPTIGFNVE--T--VPYKNLKFQVWDLGGQTSIRPYW   79 (182)
T ss_pred             CCccceEEEEeeccCCCeeEEEEEcccCccc-ccCCCCCcCcc--c--cccccccceeeEccCcccccHHH
Confidence            3457899999999999999999999877654 35688875543  3  34477889999999997765543

>PLN03126 Elongation factor Tu; Provisional

Probab=98.61  E-value=2.2e-07  Score=60.18  Aligned_cols=67  Identities=12%  Similarity=0.122  Sum_probs=40.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhC------CCCCC--------ccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDE------TYYDT--------YISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~------~~~~~--------~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ....++++++|..++|||||+.+++..      .....        .....|................+.++|++|+++|
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            456899999999999999999999841      11110        0111122111112222223457789999999887


Q ss_pred             c
Q psy12927         70 L   70 (75)
Q Consensus        70 ~   70 (75)
                      -
T Consensus       158 ~  158 (478)
T PLN03126        158 V  158 (478)
T ss_pred             H
Confidence            3

>PRK12735 elongation factor Tu; Reviewed

Probab=98.61  E-value=2.2e-07  Score=58.76  Aligned_cols=67  Identities=12%  Similarity=0.155  Sum_probs=41.0

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhC-------CCC-----C--CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDE-------TYY-----D--TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~-------~~~-----~--~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ..+.+++.++|..++|||||+.+++..       ++.     .  ......|................+.++||+|+++|
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            456899999999999999999999851       110     0  00001122222222223333456789999999876


Q ss_pred             c
Q psy12927         70 L   70 (75)
Q Consensus        70 ~   70 (75)
                      .
T Consensus        89 ~   89 (396)
T PRK12735         89 V   89 (396)
T ss_pred             H
Confidence            3

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=98.61  E-value=3.7e-07  Score=60.63  Aligned_cols=62  Identities=15%  Similarity=0.295  Sum_probs=44.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ..++.++|++|||||||.+++++.... .++ |.+.+|...-.+...+..  +++.|.+|--....
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNw-pGvTVEkkeg~~~~~~~~--i~ivDLPG~YSL~~   65 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNW-PGVTVEKKEGKLKYKGHE--IEIVDLPGTYSLTA   65 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCC-CCeeEEEEEEEEEecCce--EEEEeCCCcCCCCC
Confidence            457999999999999999999966433 344 444456655555555544  78999999765443

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=98.60  E-value=8.8e-08  Score=62.56  Aligned_cols=67  Identities=7%  Similarity=0.179  Sum_probs=42.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh--CCCC---------------CCcc---ceeeEEEEEEEEEeCCeEEEEEEEeCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD--ETYY---------------DTYI---STIGIDFKQKIIDLDDVPTKLQIWTLN   64 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~--~~~~---------------~~~~---~t~~~~~~~~~~~~~~~~~~l~i~D~~   64 (75)
                      ...-+++++|..++|||||..+++.  +...               .++.   ...+..+......++...+.+.+|||+
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTP   87 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTP   87 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECC
Confidence            3456899999999999999999863  1100               0000   111222323333344456789999999


Q ss_pred             Ccccccc
Q psy12927         65 ALLTYLL   71 (75)
Q Consensus        65 g~~~~~~   71 (75)
                      |++.|..
T Consensus        88 G~~df~~   94 (526)
T PRK00741         88 GHEDFSE   94 (526)
T ss_pred             CchhhHH
Confidence            9987754

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.60  E-value=2.3e-07  Score=61.56  Aligned_cols=58  Identities=17%  Similarity=0.208  Sum_probs=39.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh---CCCCCCc--cceeeEEEEEEEEEe-CCeEEEEEEEeCCCccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD---ETYYDTY--ISTIGIDFKQKIIDL-DDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~---~~~~~~~--~~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~   70 (75)
                      -|.++|..++|||||++.+.+   +.++++.  ..|+...+.  .+.. ++.  .+.+||++|+++|.
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~--~~~~~~g~--~i~~IDtPGhe~fi   65 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYA--YWPQPDGR--VLGFIDVPGHEKFL   65 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeE--EEecCCCc--EEEEEECCCHHHHH
Confidence            478999999999999999984   3444433  445443332  2222 333  47899999999874

>PRK13351 elongation factor G; Reviewed

Probab=98.58  E-value=9.4e-08  Score=63.91  Aligned_cols=63  Identities=17%  Similarity=0.042  Sum_probs=41.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCC-------------CC-------CccceeeEEEEEEEEEeCCeEEEEEEEeCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETY-------------YD-------TYISTIGIDFKQKIIDLDDVPTKLQIWTLN   64 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~-------------~~-------~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~   64 (75)
                      ....+|+++|..++|||||+.+++...-             ..       .+..|+....  ..  +......+.+|||+
T Consensus         6 ~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~--~~--~~~~~~~i~liDtP   81 (687)
T PRK13351          6 MQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAA--TS--CDWDNHRINLIDTP   81 (687)
T ss_pred             ccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccce--EE--EEECCEEEEEEECC
Confidence            3467999999999999999999974210             00       1222332211  12  22345789999999


Q ss_pred             Ccccccc
Q psy12927         65 ALLTYLL   71 (75)
Q Consensus        65 g~~~~~~   71 (75)
                      |+.+|..
T Consensus        82 G~~df~~   88 (687)
T PRK13351         82 GHIDFTG   88 (687)
T ss_pred             CcHHHHH
Confidence            9987753

>PTZ00258 GTP-binding protein; Provisional

Probab=98.58  E-value=2.4e-07  Score=58.65  Aligned_cols=27  Identities=26%  Similarity=0.551  Sum_probs=23.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ...+++.++|.++||||||++.+....
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~   45 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQ   45 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCc
Confidence            456899999999999999999997553

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.55  E-value=2.5e-07  Score=59.16  Aligned_cols=60  Identities=18%  Similarity=0.232  Sum_probs=41.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ..+|++++|.++||||||++.++..+-.  ...+.|. .+.-...++.+++.  +.+.||+|-.+
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTT-RD~I~~~~e~~~~~--~~liDTAGiRr  238 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTT-RDSIDIEFERDGRK--YVLIDTAGIRR  238 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCcc-ccceeeeEEECCeE--EEEEECCCCCc
Confidence            3599999999999999999999966421  2222332 34444455566665  57889999764

>COG1159 Era GTPase [General function prediction only]

Probab=98.54  E-value=1.3e-07  Score=57.71  Aligned_cols=59  Identities=12%  Similarity=0.116  Sum_probs=37.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      .--++++|.++||||||++++++.+..  +.-+.|....  ..-+..+ ...++.+.||+|--+
T Consensus         6 sGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~--I~GI~t~-~~~QiIfvDTPGih~   66 (298)
T COG1159           6 SGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNR--IRGIVTT-DNAQIIFVDTPGIHK   66 (298)
T ss_pred             EEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhh--eeEEEEc-CCceEEEEeCCCCCC
Confidence            446789999999999999999977532  1222232211  1112122 256788999999653

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=98.54  E-value=7.6e-07  Score=59.69  Aligned_cols=61  Identities=21%  Similarity=0.330  Sum_probs=40.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC-CCCCc--cceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET-YYDTY--ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~-~~~~~--~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      .+.++|+++|.+||||||+++.+++.. +....  ..|...  .......++  ..+.++||+|-...
T Consensus       116 dfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~--~ei~~~idG--~~L~VIDTPGL~dt  179 (763)
T TIGR00993       116 DFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSV--QEIEGLVQG--VKIRVIDTPGLKSS  179 (763)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceEE--EEEEEEECC--ceEEEEECCCCCcc
Confidence            456899999999999999999999765 33221  223221  111222344  46899999997653

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.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=98.53  E-value=4.6e-07  Score=56.96  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      +++.++|.++||||||++.+...+
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~   26 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAG   26 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            689999999999999999999765

>COG1084 Predicted GTPase [General function prediction only]

Probab=98.52  E-value=2.5e-07  Score=57.26  Aligned_cols=55  Identities=25%  Similarity=0.294  Sum_probs=38.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEe---CCeEEEEEEEeCCCc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDL---DDVPTKLQIWTLNAL   66 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~---~~~~~~l~i~D~~g~   66 (75)
                      ....+++.|.++||||||++.+.+.+.. ..|+-|.      +.+.+   +....++|+.||+|-
T Consensus       167 ~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTT------K~i~vGhfe~~~~R~QvIDTPGl  225 (346)
T COG1084         167 DLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTT------KGIHVGHFERGYLRIQVIDTPGL  225 (346)
T ss_pred             CCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccc------cceeEeeeecCCceEEEecCCcc
Confidence            3568999999999999999999976532 2344332      23322   334457899999995

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.52  E-value=5e-07  Score=57.24  Aligned_cols=57  Identities=18%  Similarity=0.304  Sum_probs=35.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCC-CCccce-eeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYY-DTYIST-IGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t-~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      .|.++|.++||||||++.++..+.. ..++.| ......  .+..++ ...+.++|++|..+
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~G--iv~~~~-~~~i~~vDtPGi~~  219 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLG--VVRVDD-ERSFVVADIPGLIE  219 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEE--EEEeCC-CcEEEEEeCCCccc
Confidence            5789999999999999999865421 122222 211121  222221 23578999999753

>KOG3859|consensus

Probab=98.52  E-value=3.8e-07  Score=55.91  Aligned_cols=63  Identities=14%  Similarity=0.313  Sum_probs=48.5

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCC----ccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDT----YISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~----~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ..+.++|+++|+.|.|||||+..+.+-.|...    ..|++.....+..+...+..++|.|.||.|-
T Consensus        39 ~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGf  105 (406)
T KOG3859|consen   39 QGFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGF  105 (406)
T ss_pred             cCceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeeccc
Confidence            35689999999999999999999987766543    3456655555555555678899999999884

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.51  E-value=6.5e-07  Score=49.89  Aligned_cols=55  Identities=18%  Similarity=0.315  Sum_probs=34.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCC-CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETY-YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNA   65 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g   65 (75)
                      ...+++++|.+++|||||++.+..... .....+..  ......+..+   ..+.+.||+|
T Consensus        99 ~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~--t~~~~~~~~~---~~~~liDtPG  154 (155)
T cd01849          99 KSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGT--TTSQQEVKLD---NKIKLLDTPG  154 (155)
T ss_pred             cCcEEEEEccCCCCHHHHHHHHHccccccccCCCCc--ccceEEEEec---CCEEEEECCC
Confidence            457899999999999999999996542 11111111  1112222233   2478999998

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=98.51  E-value=3.3e-07  Score=54.16  Aligned_cols=63  Identities=10%  Similarity=0.075  Sum_probs=38.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCC--CCCc----------------cceeeEEEEEEEEE------eCCeEEEEEEEeCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETY--YDTY----------------ISTIGIDFKQKIID------LDDVPTKLQIWTLN   64 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~--~~~~----------------~~t~~~~~~~~~~~------~~~~~~~l~i~D~~   64 (75)
                      +++++|..++|||||+.+++...-  ....                .-|+..........      .+++.+.+.+|||+
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            589999999999999999874321  1000                00110000011111      12457899999999


Q ss_pred             Ccccccc
Q psy12927         65 ALLTYLL   71 (75)
Q Consensus        65 g~~~~~~   71 (75)
                      |++.|..
T Consensus        82 G~~~f~~   88 (222)
T cd01885          82 GHVDFSS   88 (222)
T ss_pred             CccccHH
Confidence            9998764

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

>KOG1423|consensus

Probab=98.51  E-value=5.6e-07  Score=55.61  Aligned_cols=60  Identities=17%  Similarity=0.283  Sum_probs=40.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCc--cceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTY--ISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~--~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      .+.+.++++|.++||||+|.+++.+.+.....  ..|..   ....-.+.....++.++||+|--
T Consensus        70 ~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr---~~ilgi~ts~eTQlvf~DTPGlv  131 (379)
T KOG1423|consen   70 QKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTR---HRILGIITSGETQLVFYDTPGLV  131 (379)
T ss_pred             ceEEEEEEEcCCCcchhhhhhHhhCCcccccccccccee---eeeeEEEecCceEEEEecCCccc
Confidence            56789999999999999999999977643211  11111   11111234456789999999953

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.50  E-value=2.7e-07  Score=59.01  Aligned_cols=58  Identities=14%  Similarity=0.095  Sum_probs=39.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ..|+++|.++||||||+++++..+..  ++++-+. .|.........+..  +.+.||+|-+.
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvT-RDr~y~~~~~~~~~--f~lIDTgGl~~   63 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVT-RDRIYGDAEWLGRE--FILIDTGGLDD   63 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCc-cCCccceeEEcCce--EEEEECCCCCc
Confidence            56999999999999999999976432  2332222 23333344444444  78999999774

>cd01900 YchF YchF subfamily

Probab=98.50  E-value=5.7e-07  Score=54.68  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      +.++|.++||||||++.+.....
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~   23 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGA   23 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCC
Confidence            46899999999999999997654

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.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=98.49  E-value=2.8e-07  Score=52.15  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.++++|++|||||||++.+...
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            35789999999999999999976

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.

>cd04165 GTPBP1_like GTPBP1-like

Probab=98.49  E-value=2.4e-07  Score=54.75  Aligned_cols=26  Identities=15%  Similarity=0.422  Sum_probs=23.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYD   34 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~   34 (75)
                      |++++|+.++|||||+.+|..+.|..
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~   26 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDN   26 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCC
Confidence            68999999999999999999876644

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

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=98.48  E-value=7.1e-08  Score=60.70  Aligned_cols=25  Identities=28%  Similarity=0.485  Sum_probs=21.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...++|.|+|++|+|||||++.+.+
T Consensus        33 ~~~l~IaV~G~sGsGKSSfINalrG   57 (376)
T PF05049_consen   33 NAPLNIAVTGESGSGKSSFINALRG   57 (376)
T ss_dssp             H--EEEEEEESTTSSHHHHHHHHTT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhC
Confidence            3578999999999999999999964

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.

>cd01884 EF_Tu EF-Tu subfamily

Probab=98.48  E-value=6e-07  Score=52.03  Aligned_cols=64  Identities=11%  Similarity=0.122  Sum_probs=38.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCC--------CCC---Cc---cceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDET--------YYD---TY---ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~--------~~~---~~---~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      .+++.++|..++|||||+.+++...        ...   +.   ....|................+.+.||+|...|.
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~   79 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYI   79 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHH
Confidence            5789999999999999999987430        000   00   0011222222222233344567899999987653

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.48  E-value=5.4e-07  Score=56.34  Aligned_cols=59  Identities=15%  Similarity=0.242  Sum_probs=34.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCCC-Cccce---eeE--EEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDETYYD-TYIST---IGI--DFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~~~~-~~~~t---~~~--~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ++++|.+|||||||++.+....-.. ...+.   .|.  ......+.+.+..   .+.||+|-.+|.-
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~~---~liDTPGir~~~l  272 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHGG---DLIDSPGVREFGL  272 (347)
T ss_pred             EEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCCC---EEEECCCCCcccC
Confidence            6899999999999999998653221 11110   010  1112222233222   4899999877653

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

Probab=98.47  E-value=3.9e-07  Score=55.18  Aligned_cols=21  Identities=24%  Similarity=0.330  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ++.++|..++|||||+.+++.
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~   21 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILY   21 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999863

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

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

Probab=98.46  E-value=3.4e-07  Score=58.26  Aligned_cols=27  Identities=22%  Similarity=0.372  Sum_probs=23.5

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .....++++++|..++|||||+..+..
T Consensus         5 ~~~~~~ni~v~Gh~d~GKSTL~~~L~~   31 (411)
T PRK04000          5 KVQPEVNIGMVGHVDHGKTTLVQALTG   31 (411)
T ss_pred             cCCCcEEEEEEccCCCCHHHHHHHhhC
Confidence            346689999999999999999998854

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=98.45  E-value=3.8e-07  Score=57.91  Aligned_cols=25  Identities=20%  Similarity=0.341  Sum_probs=22.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...++++++|..++|||||+..+..
T Consensus         2 ~~~~~i~iiG~~~~GKSTL~~~Lt~   26 (406)
T TIGR03680         2 QPEVNIGMVGHVDHGKTTLTKALTG   26 (406)
T ss_pred             CceEEEEEEccCCCCHHHHHHHHhC
Confidence            4578999999999999999999864

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

>PRK12736 elongation factor Tu; Reviewed

Probab=98.44  E-value=9.5e-07  Score=55.92  Aligned_cols=67  Identities=13%  Similarity=0.142  Sum_probs=40.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCC-------CC-----C--CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDET-------YY-----D--TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~-------~~-----~--~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ..+.++++++|..++|||||+.+++...       +.     .  ......|................+.++|++|+++|
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            3567899999999999999999987521       00     0  00001111122222223333456789999999876


Q ss_pred             c
Q psy12927         70 L   70 (75)
Q Consensus        70 ~   70 (75)
                      .
T Consensus        89 ~   89 (394)
T PRK12736         89 V   89 (394)
T ss_pred             H
Confidence            4

>CHL00071 tufA elongation factor Tu

Probab=98.42  E-value=1.8e-06  Score=54.88  Aligned_cols=28  Identities=18%  Similarity=0.194  Sum_probs=24.6

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +....++++++|..++|||||+.+++..
T Consensus         8 ~~~~~~~i~i~Gh~d~GKSTL~~~Ll~~   35 (409)
T CHL00071          8 RKKPHVNIGTIGHVDHGKTTLTAAITMT   35 (409)
T ss_pred             CCCCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            4566899999999999999999999853

>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=98.40  E-value=7.4e-08  Score=55.12  Aligned_cols=64  Identities=13%  Similarity=0.141  Sum_probs=40.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCC--------------------ccceeeEEEEEEEEEeCCeEEEEEEEeCCC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDT--------------------YISTIGIDFKQKIIDLDDVPTKLQIWTLNA   65 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~--------------------~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g   65 (75)
                      ...+|.++|..++|||||+..+....-...                    ..-|+...  ...+..+.....+.++|+||
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~--~~~~~~~~~~~~i~~iDtPG   79 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLS--FISFEKNENNRKITLIDTPG   79 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSE--EEEEEBTESSEEEEEEEESS
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccc--cccccccccccceeeccccc
Confidence            357899999999999999999884331100                    11112111  11221124557889999999


Q ss_pred             cccccc
Q psy12927         66 LLTYLL   71 (75)
Q Consensus        66 ~~~~~~   71 (75)
                      +..|..
T Consensus        80 ~~~f~~   85 (188)
T PF00009_consen   80 HEDFIK   85 (188)
T ss_dssp             SHHHHH
T ss_pred             ccceee
Confidence            987643

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 ....

>PRK12289 GTPase RsgA; Reviewed

Probab=98.40  E-value=9.5e-07  Score=55.36  Aligned_cols=59  Identities=15%  Similarity=0.169  Sum_probs=34.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCC--Cccce--ee--EEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYD--TYIST--IG--IDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~--~~~~t--~~--~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      .++++|.+|||||||++.+....-..  .....  .|  .......+.+.+..   .+.||||-..+.
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g~---~liDTPG~~~~~  238 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNGG---LLADTPGFNQPD  238 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCCc---EEEeCCCccccc
Confidence            37999999999999999998553221  11110  00  01112233343222   689999986654

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.38  E-value=1.9e-06  Score=54.07  Aligned_cols=59  Identities=22%  Similarity=0.343  Sum_probs=34.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCC----CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYD----TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~----~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      .++.++|.+|||||||++.+.......    ...+..+.......+.+++.   +.++||+|-..-
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~~---~~l~DtPG~~~~  217 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDDG---HSLYDTPGIINS  217 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCCC---CEEEECCCCCCh
Confidence            479999999999999999998643210    01111111111222333222   469999997543

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.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=98.37  E-value=2.5e-06  Score=54.91  Aligned_cols=29  Identities=17%  Similarity=0.328  Sum_probs=25.6

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      |......++++++|..++|||||+.+++.
T Consensus         1 ~~~~k~~~nv~i~Ghvd~GKSTL~~~Ll~   29 (446)
T PTZ00141          1 MGKEKTHINLVVIGHVDSGKSTTTGHLIY   29 (446)
T ss_pred             CCCCCceEEEEEEecCCCCHHHHHHHHHH
Confidence            55667789999999999999999999874

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.36  E-value=1.7e-06  Score=51.80  Aligned_cols=23  Identities=22%  Similarity=0.385  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .++++|.+|||||||++.+....
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~~  144 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPSV  144 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhh
Confidence            67899999999999999998653

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

>PRK13796 GTPase YqeH; Provisional

Probab=98.35  E-value=1.4e-06  Score=54.76  Aligned_cols=58  Identities=22%  Similarity=0.335  Sum_probs=34.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCC----ccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDT----YISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~----~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      -++.++|.+|||||||++++........    ..+..|.......+.+++.   ..++||+|-..
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi~~  222 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGIIH  222 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCccc
Confidence            4789999999999999999985421110    0011111122223333332   37999999743

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.34  E-value=2.1e-06  Score=52.41  Aligned_cols=60  Identities=17%  Similarity=0.207  Sum_probs=35.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCc-cc-e--ee--EEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTY-IS-T--IG--IDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~-~~-t--~~--~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      -.++++|.+|||||||++.+........- .+ +  .|  .......+...+.   ..++||+|..+|.
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~---~~liDtPG~~~~~  227 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG---GLLIDTPGFREFG  227 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC---CEEEECCCCCccC
Confidence            46899999999999999999865432211 11 0  01  0111222223322   2589999997764

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.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=98.34  E-value=1.8e-06  Score=49.06  Aligned_cols=55  Identities=20%  Similarity=0.305  Sum_probs=36.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeC-CCc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTL-NAL   66 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~-~g~   66 (75)
                      ++++.|++|+||||++++++..- .....+.-|  |++..+..++..+-+.+.|. .|.
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l-~~~~~~v~G--f~t~evr~~g~r~GF~iv~l~~g~   56 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEEL-KKKGLPVGG--FYTEEVRENGRRIGFDIVDLNSGE   56 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHH-HHTCGGEEE--EEEEEEETTSSEEEEEEEET-TS-
T ss_pred             CEEEECcCCCCHHHHHHHHHHHh-hccCCccce--EEeecccCCCceEEEEEEECcCCC
Confidence            68999999999999999987431 111123333  66666666777777888887 443

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.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=98.34  E-value=2.2e-06  Score=55.49  Aligned_cols=26  Identities=19%  Similarity=0.397  Sum_probs=23.2

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ....++++++|..++|||||+.+++.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~   49 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLH   49 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHH
Confidence            45679999999999999999999873

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.33  E-value=4.7e-06  Score=47.38  Aligned_cols=60  Identities=20%  Similarity=0.239  Sum_probs=44.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ..+|+.+.|.+||||||++.++...--  +..-+++ .+.+..+..+++.+-+.|.|.+..++
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~--~~g~kvg-Gf~t~EVR~gGkR~GF~Ivdl~tg~~   63 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLR--EKGYKVG-GFITPEVREGGKRIGFKIVDLATGEE   63 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHH--hcCceee-eEEeeeeecCCeEeeeEEEEccCCce
Confidence            468999999999999999999774321  1112343 57778888889999999999874443

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

Probab=98.32  E-value=2.1e-06  Score=50.38  Aligned_cols=20  Identities=20%  Similarity=0.498  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      +++++|..++|||||+.+++
T Consensus         1 nv~i~Gh~~~GKttL~~~ll   20 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLL   20 (219)
T ss_pred             CEEEecCCCCChHHHHHHHH
Confidence            47899999999999999986

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

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=98.32  E-value=1.6e-06  Score=48.22  Aligned_cols=24  Identities=29%  Similarity=0.556  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      |++++|+.|+|||||++.+.+.+.
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~   26 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI   26 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC
Confidence            799999999999999999997654

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

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.31  E-value=2e-06  Score=50.85  Aligned_cols=61  Identities=11%  Similarity=0.072  Sum_probs=40.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC--CCCCC---ccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE--TYYDT---YISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~--~~~~~---~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      -.-|.++|++++|||+|++++.+.  .|...   ...|.|+-.....+. .+....+.+.||.|...
T Consensus         7 v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~-~~~~~~v~~lDteG~~~   72 (224)
T cd01851           7 VAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFK-LGKEHAVLLLDTEGTDG   72 (224)
T ss_pred             EEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEecccc-CCCcceEEEEecCCcCc
Confidence            345679999999999999999977  55422   223444333322221 13456799999999754

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

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=98.28  E-value=3.5e-06  Score=52.37  Aligned_cols=57  Identities=14%  Similarity=0.299  Sum_probs=37.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCC-CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETY-YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ..+++++|.++||||||++.+.+-+. ..+|+.|. .+...-.+  ..+...+|+.|++|-
T Consensus        63 da~v~lVGfPsvGKStLL~~LTnt~seva~y~FTT-l~~VPG~l--~Y~ga~IQild~Pgi  120 (365)
T COG1163          63 DATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTT-LEPVPGML--EYKGAQIQLLDLPGI  120 (365)
T ss_pred             CeEEEEEcCCCccHHHHHHHHhCCCccccccCcee-cccccceE--eecCceEEEEcCccc
Confidence            56899999999999999999985532 22344332 11112222  335567899999864

>PRK00049 elongation factor Tu; Reviewed

Probab=98.27  E-value=4.8e-06  Score=52.84  Aligned_cols=65  Identities=11%  Similarity=0.147  Sum_probs=40.5

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCC----------------CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETY----------------YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~----------------~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ....++++++|..++|||||+.+++....                ..+...  |................+.+.||+|..
T Consensus         9 ~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~r--g~Ti~~~~~~~~~~~~~i~~iDtPG~~   86 (396)
T PRK00049          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKAR--GITINTAHVEYETEKRHYAHVDCPGHA   86 (396)
T ss_pred             CCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhc--CeEEeeeEEEEcCCCeEEEEEECCCHH
Confidence            45689999999999999999999885210                001111  222222222233334567899999987


Q ss_pred             ccc
Q psy12927         68 TYL   70 (75)
Q Consensus        68 ~~~   70 (75)
                      +|.
T Consensus        87 ~f~   89 (396)
T PRK00049         87 DYV   89 (396)
T ss_pred             HHH
Confidence            653

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=98.27  E-value=2e-06  Score=54.65  Aligned_cols=21  Identities=24%  Similarity=0.510  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ++++++|..++|||||+.+++
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll   21 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLL   21 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHH
Confidence            589999999999999999986

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).

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.26  E-value=2.8e-06  Score=57.07  Aligned_cols=62  Identities=15%  Similarity=0.038  Sum_probs=38.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCC----CCc--------------cceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYY----DTY--------------ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~----~~~--------------~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      .-+|.++|..++|||||+++++...-.    ...              ...+..+.....+..  ....+.+|||+|+.+
T Consensus        10 irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~--~~~~i~liDTPG~~~   87 (689)
T TIGR00484        10 FRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFW--KGHRINIIDTPGHVD   87 (689)
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEE--CCeEEEEEECCCCcc
Confidence            458999999999999999999732100    000              011111122222222  346789999999987


Q ss_pred             cc
Q psy12927         69 YL   70 (75)
Q Consensus        69 ~~   70 (75)
                      |.
T Consensus        88 ~~   89 (689)
T TIGR00484        88 FT   89 (689)
T ss_pred             hh
Confidence            64

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.24  E-value=5.1e-06  Score=50.94  Aligned_cols=24  Identities=21%  Similarity=0.428  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ..++++|.+|||||||++.+....
T Consensus       165 k~~~~~G~sgvGKStlin~l~~~~  188 (298)
T PRK00098        165 KVTVLAGQSGVGKSTLLNALAPDL  188 (298)
T ss_pred             ceEEEECCCCCCHHHHHHHHhCCc
Confidence            357899999999999999998653

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=98.21  E-value=4.6e-06  Score=54.08  Aligned_cols=66  Identities=23%  Similarity=0.334  Sum_probs=47.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC--CeEEEEEEEeCCCccccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD--DVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ..-.|+|+|+.++|||||+.+|...+   .+.++.+.+|....+.-+  ....++.+|...|...+..|-+
T Consensus        24 ~~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk   91 (472)
T PF05783_consen   24 SEKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLK   91 (472)
T ss_pred             CCceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhc
Confidence            34689999999999999999987543   345677777765554332  2345789999988766665543

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 [].

>PLN03127 Elongation factor Tu; Provisional

Probab=98.19  E-value=1.3e-05  Score=51.75  Aligned_cols=65  Identities=11%  Similarity=0.121  Sum_probs=40.0

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhC------CC----------CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDE------TY----------YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~------~~----------~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ....++++++|..++|||||+.++...      ..          +++..+.+..+..  .........++.+.||+|.+
T Consensus        58 ~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~--~~~~~~~~~~i~~iDtPGh~  135 (447)
T PLN03127         58 TKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATA--HVEYETAKRHYAHVDCPGHA  135 (447)
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeee--EEEEcCCCeEEEEEECCCcc
Confidence            356789999999999999999998621      10          0111111112222  22233334567899999998


Q ss_pred             ccc
Q psy12927         68 TYL   70 (75)
Q Consensus        68 ~~~   70 (75)
                      +|-
T Consensus       136 ~f~  138 (447)
T PLN03127        136 DYV  138 (447)
T ss_pred             chH
Confidence            763

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

Probab=98.17  E-value=6.3e-06  Score=54.96  Aligned_cols=25  Identities=16%  Similarity=0.372  Sum_probs=22.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...++++++|..++|||||+.+++.
T Consensus        22 ~~~~~i~iiGh~~~GKSTL~~~Ll~   46 (632)
T PRK05506         22 KSLLRFITCGSVDDGKSTLIGRLLY   46 (632)
T ss_pred             CCeeEEEEECCCCCChHHHHHHHHH
Confidence            4578999999999999999999884

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.15  E-value=6.3e-06  Score=50.69  Aligned_cols=22  Identities=32%  Similarity=0.593  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++|.+|||||||++++..+
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~  187 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPE  187 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCch
Confidence            4689999999999999999853

>KOG0077|consensus

Probab=98.12  E-value=2.4e-06  Score=48.72  Aligned_cols=58  Identities=22%  Similarity=0.333  Sum_probs=37.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      .+.-|++++|..++|||||++.+.+++.. .+.||.-..  +..+.+.  .++++.+|..|..
T Consensus        18 kK~gKllFlGLDNAGKTTLLHMLKdDrl~-qhvPTlHPT--SE~l~Ig--~m~ftt~DLGGH~   75 (193)
T KOG0077|consen   18 KKFGKLLFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELSIG--GMTFTTFDLGGHL   75 (193)
T ss_pred             ccCceEEEEeecCCchhhHHHHHcccccc-ccCCCcCCC--hHHheec--CceEEEEccccHH
Confidence            34569999999999999999999977653 333443211  1222333  3456677776654

>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=98.09  E-value=4.4e-06  Score=44.42  Aligned_cols=22  Identities=18%  Similarity=0.487  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .|++.|.+||||||+++.+...
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            4789999999999999999864

...

>PRK08118 topology modulation protein; Reviewed

Probab=98.09  E-value=4.4e-06  Score=47.35  Aligned_cols=23  Identities=22%  Similarity=0.567  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .||+++|++|+|||||.+.+...
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            38999999999999999998854

>PLN00043 elongation factor 1-alpha; Provisional

Probab=98.08  E-value=2.2e-05  Score=50.68  Aligned_cols=28  Identities=21%  Similarity=0.369  Sum_probs=24.1

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      |......++++++|..++|||||+-+++
T Consensus         1 ~~~~k~~~ni~i~Ghvd~GKSTL~g~Ll   28 (447)
T PLN00043          1 MGKEKVHINIVVIGHVDSGKSTTTGHLI   28 (447)
T ss_pred             CCCCCceEEEEEEecCCCCHHHHHHHHH
Confidence            4455678999999999999999999876

>KOG3886|consensus

Probab=98.07  E-value=9.5e-07  Score=52.84  Aligned_cols=60  Identities=17%  Similarity=0.257  Sum_probs=37.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCC--CC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDET--YY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~--~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      .-|++++|.+|+|||++-.-+..+.  +. ....+|+.++..  .+..- ....|.+||.+||+.|
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHs--h~Rfl-Gnl~LnlwDcGgqe~f   66 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHS--HVRFL-GNLVLNLWDCGGQEEF   66 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeeh--hhhhh-hhheeehhccCCcHHH
Confidence            4589999999999999877655332  11 112334433322  22222 2467899999999854

>KOG0090|consensus

Probab=98.06  E-value=2.6e-06  Score=50.21  Aligned_cols=59  Identities=17%  Similarity=0.176  Sum_probs=40.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      .-.++++|+.++|||+|+.++..+.+...+.+.. .+  .-...+.+.  .+++.|.+|++|.+
T Consensus        38 ~~~Vll~Gl~dSGKT~LF~qL~~gs~~~TvtSie-pn--~a~~r~gs~--~~~LVD~PGH~rlR   96 (238)
T KOG0090|consen   38 QNAVLLVGLSDSGKTSLFTQLITGSHRGTVTSIE-PN--EATYRLGSE--NVTLVDLPGHSRLR   96 (238)
T ss_pred             CCcEEEEecCCCCceeeeeehhcCCccCeeeeec-cc--eeeEeecCc--ceEEEeCCCcHHHH
Confidence            3578999999999999999999986655432221 11  112222222  27899999998754

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=98.03  E-value=6e-06  Score=47.40  Aligned_cols=23  Identities=26%  Similarity=0.661  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .|++++|++|+||||+...+...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999866

>PRK07261 topology modulation protein; Provisional

Probab=98.02  E-value=7.2e-06  Score=46.60  Aligned_cols=23  Identities=26%  Similarity=0.544  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .||+++|.+|+|||||+..+...
T Consensus         1 ~ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          1 MKIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            37999999999999999998743

>KOG1491|consensus

Probab=97.99  E-value=3.6e-05  Score=48.28  Aligned_cols=62  Identities=21%  Similarity=0.360  Sum_probs=40.6

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCC-Cccc-eeeEEEEEEEEEe---------------CCeEEEEEEEeCCCc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYD-TYIS-TIGIDFKQKIIDL---------------DDVPTKLQIWTLNAL   66 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~~~-t~~~~~~~~~~~~---------------~~~~~~l~i~D~~g~   66 (75)
                      ....+|+-+||.++|||||+++.+....... +++- |+..+  ...+.+               ...+..|+++|++|-
T Consensus        17 ~~~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn--~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGL   94 (391)
T KOG1491|consen   17 DGNNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPN--EARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGL   94 (391)
T ss_pred             CCCcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccc--cceeecCchHHHHHHHhcCCcceeeeeEEEEeeccc
Confidence            3457899999999999999999998665432 3322 22211  112221               124678999999885


Q ss_pred             c
Q psy12927         67 L   67 (75)
Q Consensus        67 ~   67 (75)
                      -
T Consensus        95 v   95 (391)
T KOG1491|consen   95 V   95 (391)
T ss_pred             c
Confidence            3

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=97.98  E-value=1.6e-05  Score=44.40  Aligned_cols=22  Identities=18%  Similarity=0.457  Sum_probs=20.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      |+++|..++|||||++.+++.+
T Consensus         1 V~v~G~~ssGKSTliNaLlG~~   22 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLGRP   22 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHTSS
T ss_pred             CEEEcCCCCCHHHHHHHHHhcc
Confidence            6899999999999999999876

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 ....

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.96  E-value=8.7e-06  Score=44.33  Aligned_cols=19  Identities=26%  Similarity=0.602  Sum_probs=17.9

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~   28 (75)
                      ++++|++|+||||+++.+.
T Consensus         2 ii~~G~pgsGKSt~a~~l~   20 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLA   20 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6899999999999999987

...

>PRK12739 elongation factor G; Reviewed

Probab=97.96  E-value=2e-05  Score=53.14  Aligned_cols=25  Identities=24%  Similarity=0.319  Sum_probs=21.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ....+|.++|..++|||||+.+++.
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~   30 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILY   30 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHH
Confidence            3456899999999999999999873

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=97.91  E-value=2.6e-05  Score=53.68  Aligned_cols=29  Identities=10%  Similarity=0.231  Sum_probs=24.4

Q ss_pred             CCCCeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          2 ADCNQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         2 ~~~~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+....-+|.++|..++|||||+.+++..
T Consensus        14 ~~~~~Irni~iiGhvd~GKTTL~~~Ll~~   42 (843)
T PLN00116         14 DKKHNIRNMSVIAHVDHGKSTLTDSLVAA   42 (843)
T ss_pred             hCccCccEEEEEcCCCCCHHHHHHHHHHh
Confidence            34566779999999999999999998743

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.90  E-value=1.2e-05  Score=45.05  Aligned_cols=22  Identities=23%  Similarity=0.582  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ||++.|.+++|||||++.+...
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            7999999999999999998854

>PTZ00416 elongation factor 2; Provisional

Probab=97.88  E-value=4.4e-05  Score=52.52  Aligned_cols=27  Identities=15%  Similarity=0.269  Sum_probs=23.1

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +.+..-+|.++|..++|||||+.+++.
T Consensus        15 ~~~~irni~iiGh~d~GKTTL~~~Ll~   41 (836)
T PTZ00416         15 NPDQIRNMSVIAHVDHGKSTLTDSLVC   41 (836)
T ss_pred             CccCcCEEEEECCCCCCHHHHHHHHHH
Confidence            345556999999999999999999875

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.87  E-value=2e-05  Score=42.10  Aligned_cols=21  Identities=29%  Similarity=0.477  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.|++|+|||++++.+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            689999999999999998854

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PRK00007 elongation factor G; Reviewed

Probab=97.83  E-value=4.5e-05  Score=51.53  Aligned_cols=24  Identities=21%  Similarity=0.310  Sum_probs=21.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      +...+|.++|..++|||||+++++
T Consensus         8 ~~Irni~iiG~~~~GKsTL~~~ll   31 (693)
T PRK00007          8 ERYRNIGIMAHIDAGKTTTTERIL   31 (693)
T ss_pred             cceeEEEEECCCCCCHHHHHHHHH
Confidence            345699999999999999999997

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.83  E-value=2.1e-05  Score=42.90  Aligned_cols=22  Identities=23%  Similarity=0.484  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|++|+|||++++.+...
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            3789999999999999988743

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.

>TIGR00092 GTP-binding protein YchF

Probab=97.83  E-value=6.5e-05  Score=47.52  Aligned_cols=25  Identities=20%  Similarity=0.135  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      +|+-++|.+++|||||++.+....-
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~   27 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLG   27 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCc
Confidence            7899999999999999999986654

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.82  E-value=2.8e-05  Score=41.17  Aligned_cols=25  Identities=28%  Similarity=0.393  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      -.++++|++|+|||+++..+...-.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~   27 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG   27 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC
Confidence            3689999999999999999986544

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.

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.82  E-value=4e-05  Score=44.72  Aligned_cols=27  Identities=22%  Similarity=0.439  Sum_probs=22.5

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +....-++++|++|||||||++.+...
T Consensus        10 ~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         10 PAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            445667889999999999999998743

>PRK06217 hypothetical protein; Validated

Probab=97.80  E-value=3.1e-05  Score=44.25  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+|+++|.+|+||||+...+...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999854

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.80  E-value=2.2e-05  Score=47.13  Aligned_cols=22  Identities=23%  Similarity=0.456  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      +.++|++|||||||++-+.+=.
T Consensus        32 vsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          32 VAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5799999999999999987543

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.78  E-value=3e-05  Score=43.96  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|++|+||||+++.+...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998754

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.78  E-value=2.6e-05  Score=42.23  Aligned_cols=22  Identities=14%  Similarity=0.397  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|+.|+|||||++.+.+.
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            5789999999999999988754

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 ....

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.76  E-value=3e-05  Score=44.40  Aligned_cols=22  Identities=23%  Similarity=0.418  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|++|+|||||++.+...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5889999999999999999654

>PRK07560 elongation factor EF-2; Reviewed

Probab=97.76  E-value=0.0001  Score=50.13  Aligned_cols=69  Identities=10%  Similarity=0.087  Sum_probs=41.2

Q ss_pred             CCCCeeeEEEEEcCCCCcHHHHHHHHHhCCCC-C----------Ccc-------ceeeEEEEEEEEEeCCeEEEEEEEeC
Q psy12927          2 ADCNQTYKILVLGDSNVGKTCIVHRFCDETYY-D----------TYI-------STIGIDFKQKIIDLDDVPTKLQIWTL   63 (75)
Q Consensus         2 ~~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~-~----------~~~-------~t~~~~~~~~~~~~~~~~~~l~i~D~   63 (75)
                      .+....-+|.++|..++|||||+.+++...-. .          ++.       -|+...........++....+.+.||
T Consensus        15 ~~~~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDt   94 (731)
T PRK07560         15 KNPEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDT   94 (731)
T ss_pred             hchhcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcC
Confidence            34455567999999999999999998742110 0          000       01110000111123445778999999


Q ss_pred             CCccccc
Q psy12927         64 NALLTYL   70 (75)
Q Consensus        64 ~g~~~~~   70 (75)
                      +|...|.
T Consensus        95 PG~~df~  101 (731)
T PRK07560         95 PGHVDFG  101 (731)
T ss_pred             CCccChH
Confidence            9998764

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=97.74  E-value=2.9e-05  Score=48.57  Aligned_cols=22  Identities=23%  Similarity=0.489  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ++++|++||||||+++.+.+=+
T Consensus        32 ~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6899999999999999988644

>PF05729 NACHT: NACHT domain

Probab=97.74  E-value=3.6e-05  Score=42.50  Aligned_cols=21  Identities=14%  Similarity=0.572  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.|++|+|||+++.+++..
T Consensus         3 l~I~G~~G~GKStll~~~~~~   23 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQ   23 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            689999999999999998744

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.74  E-value=3.2e-05  Score=43.56  Aligned_cols=23  Identities=30%  Similarity=0.573  Sum_probs=16.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .--+++.|++|+|||+|++++..
T Consensus        24 ~~~~ll~G~~G~GKT~ll~~~~~   46 (185)
T PF13191_consen   24 PRNLLLTGESGSGKTSLLRALLD   46 (185)
T ss_dssp             ---EEE-B-TTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999998764

>KOG1707|consensus

Probab=97.73  E-value=0.00023  Score=47.32  Aligned_cols=61  Identities=15%  Similarity=0.321  Sum_probs=42.6

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCC
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLN   64 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~   64 (75)
                      ...-++|+++|+.++|||.++..|.++.+..++..+....+....+...++.-.+.+.|..
T Consensus       422 ~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~  482 (625)
T KOG1707|consen  422 DRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIG  482 (625)
T ss_pred             cceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecC
Confidence            4557899999999999999999999987766555554444444444444555455555554

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.73  E-value=5.2e-05  Score=36.60  Aligned_cols=20  Identities=20%  Similarity=0.421  Sum_probs=17.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      .++.|+.|+||||++..+..
T Consensus        26 tli~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   26 TLITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999987653

>PRK03839 putative kinase; Provisional

Probab=97.72  E-value=4.3e-05  Score=43.43  Aligned_cols=22  Identities=27%  Similarity=0.486  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +|+++|.+|+||||+...+...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998754

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.72  E-value=4.2e-05  Score=42.03  Aligned_cols=21  Identities=38%  Similarity=0.713  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++++|++|+|||||++.+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            579999999999999999854

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.

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.72  E-value=5.3e-05  Score=36.99  Aligned_cols=21  Identities=24%  Similarity=0.590  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.+.|.+|+|||++.+.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999998854

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.

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.72  E-value=3.8e-05  Score=43.49  Aligned_cols=22  Identities=36%  Similarity=0.613  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|++|+|||||++.+...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4789999999999999999864

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.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=97.72  E-value=3.5e-05  Score=46.63  Aligned_cols=21  Identities=19%  Similarity=0.349  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|+.|||||||++.+.+-
T Consensus        31 ~~iiGpNG~GKSTLLk~l~g~   51 (258)
T COG1120          31 TGILGPNGSGKSTLLKCLAGL   51 (258)
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            479999999999999998853

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.72  E-value=3.6e-05  Score=45.72  Aligned_cols=23  Identities=17%  Similarity=0.404  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .++++|++|+|||||++.+-.=+
T Consensus        30 vv~iiGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCc
Confidence            47899999999999999987543

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.71  E-value=4.3e-05  Score=40.64  Aligned_cols=21  Identities=29%  Similarity=0.409  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |++.|.+|+||||+++.+...
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            689999999999999987744

...

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.70  E-value=4.3e-05  Score=40.96  Aligned_cols=22  Identities=23%  Similarity=0.548  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+++.|++|+|||++++++...
T Consensus         6 ~~~i~G~~G~GKT~~~~~~~~~   27 (131)
T PF13401_consen    6 ILVISGPPGSGKTTLIKRLARQ   27 (131)
T ss_dssp             -EEEEE-TTSSHHHHHHHHHHH
T ss_pred             ccEEEcCCCCCHHHHHHHHHHH
Confidence            3689999999999999999865

>PRK14530 adenylate kinase; Provisional

Probab=97.70  E-value=4.9e-05  Score=44.44  Aligned_cols=21  Identities=29%  Similarity=0.545  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +|+++|.+|+||||+.+.+..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999874

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.70  E-value=6.7e-05  Score=42.48  Aligned_cols=29  Identities=28%  Similarity=0.362  Sum_probs=23.8

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      |.......-+++.|.+|+||||+++.+..
T Consensus         1 ~~~~~~~~~I~i~G~~GsGKst~a~~l~~   29 (176)
T PRK05541          1 MQMKPNGYVIWITGLAGSGKTTIAKALYE   29 (176)
T ss_pred             CCCCCCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            45555667899999999999999998763

>KOG1424|consensus

Probab=97.70  E-value=6.8e-05  Score=49.11  Aligned_cols=56  Identities=20%  Similarity=0.195  Sum_probs=42.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      .+.|-+||=++|||||.|+.+.+.+-. ....|.|-.-+.+++.++.   .+-+.|++|-
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkV-sVS~TPGkTKHFQTi~ls~---~v~LCDCPGL  369 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKV-SVSSTPGKTKHFQTIFLSP---SVCLCDCPGL  369 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCcee-eeecCCCCcceeEEEEcCC---CceecCCCCc
Confidence            588899999999999999999987653 3456666555555665554   3568899884

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.70  E-value=3.9e-05  Score=45.61  Aligned_cols=21  Identities=19%  Similarity=0.414  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|++|+|||||++-+..-
T Consensus        34 vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          34 VAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            679999999999999998744

>PRK14532 adenylate kinase; Provisional

Probab=97.70  E-value=4.9e-05  Score=43.43  Aligned_cols=23  Identities=22%  Similarity=0.524  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++++++|.+|+||||+..++...
T Consensus         1 ~~i~~~G~pGsGKsT~a~~la~~   23 (188)
T PRK14532          1 MNLILFGPPAAGKGTQAKRLVEE   23 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999998743

>TIGR00101 ureG urease accessory protein UreG

Probab=97.69  E-value=6.1e-05  Score=43.86  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.++|+.|+|||||++++...
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~   24 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRA   24 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            68999999999999999998854

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.

>cd01882 BMS1 Bms1

Probab=97.68  E-value=0.00018  Score=42.51  Aligned_cols=57  Identities=14%  Similarity=0.194  Sum_probs=34.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      .....++++|.+|+|||+|++.+....-........|. +   .+ ......++.+.|++|.
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~-i---~i-~~~~~~~i~~vDtPg~   93 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP-I---TV-VTGKKRRLTFIECPND   93 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc-E---EE-EecCCceEEEEeCCch
Confidence            34567899999999999999988754211111111111 1   11 1123456788899875

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.

>KOG0705|consensus

Probab=97.68  E-value=1.9e-05  Score=52.28  Aligned_cols=60  Identities=27%  Similarity=0.287  Sum_probs=49.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      -.++|+-++|+.++|||+|+++|+.+.|.....|.-+  .+.+.+.++++...+.+.|.+|.
T Consensus        28 ipelk~givg~~~sgktalvhr~ltgty~~~e~~e~~--~~kkE~vv~gqs~lLlirdeg~~   87 (749)
T KOG0705|consen   28 IPELKLGIVGTSQSGKTALVHRYLTGTYTQDESPEGG--RFKKEVVVDGQSHLLLIRDEGGH   87 (749)
T ss_pred             cchhheeeeecccCCceeeeeeeccceeccccCCcCc--cceeeEEeeccceEeeeecccCC
Confidence            4589999999999999999999999998776555433  44566678899999999998773

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.68  E-value=5.6e-05  Score=40.40  Aligned_cols=23  Identities=26%  Similarity=0.523  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      --+++.|++|+|||++++.+...
T Consensus        20 ~~v~i~G~~G~GKT~l~~~i~~~   42 (151)
T cd00009          20 KNLLLYGPPGTGKTTLARAIANE   42 (151)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            45889999999999999998864

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.

>PRK13949 shikimate kinase; Provisional

Probab=97.68  E-value=6e-05  Score=42.80  Aligned_cols=21  Identities=24%  Similarity=0.457  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +|+++|.+|+||||+.+.+..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998774

>PF13173 AAA_14: AAA domain

Probab=97.67  E-value=5.2e-05  Score=41.00  Aligned_cols=24  Identities=25%  Similarity=0.523  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      -+++.|+.+||||++++++.....
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~   27 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLL   27 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Confidence            368999999999999999886533

>PRK13695 putative NTPase; Provisional

Probab=97.66  E-value=6.2e-05  Score=42.62  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +|++++|++|+|||||+..+..
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998653

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.66  E-value=5.8e-05  Score=45.31  Aligned_cols=24  Identities=21%  Similarity=0.605  Sum_probs=21.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..++++++|.+|+|||+|+..++.
T Consensus        12 ~~fr~viIG~sGSGKT~li~~lL~   35 (241)
T PF04665_consen   12 DPFRMVIIGKSGSGKTTLIKSLLY   35 (241)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999998774

This is thought to be an ATPase involved in viral DNA packaging [].

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.64  E-value=6.3e-05  Score=43.11  Aligned_cols=21  Identities=29%  Similarity=0.335  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      -.+.++|++|+|||||++.+.
T Consensus        22 ~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          22 VLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            367899999999999999875

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.64  E-value=6.2e-05  Score=43.41  Aligned_cols=22  Identities=18%  Similarity=0.360  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      =++++|++|+|||||+++++..
T Consensus         6 ~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          6 LFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            3789999999999999999864

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.64  E-value=5.8e-05  Score=42.81  Aligned_cols=20  Identities=20%  Similarity=0.429  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      .++++|.+|+||||+++.+.
T Consensus         5 ii~i~G~~GsGKsTl~~~l~   24 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIV   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            57899999999999999887

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.

>PRK12740 elongation factor G; Reviewed

Probab=97.64  E-value=0.0001  Score=49.48  Aligned_cols=56  Identities=16%  Similarity=0.127  Sum_probs=32.6

Q ss_pred             EcCCCCcHHHHHHHHHhCCCC----CCc--------------cceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927         13 LGDSNVGKTCIVHRFCDETYY----DTY--------------ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus        13 ~G~~~~GKtsl~~~~~~~~~~----~~~--------------~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      +|..++|||||+.++....-.    .+.              ...+........+..  ..+.+.+|||+|+.+|.
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~--~~~~i~liDtPG~~~~~   74 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEW--KGHKINLIDTPGHVDFT   74 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEE--CCEEEEEEECCCcHHHH
Confidence            588999999999998532110    000              011111222223323  34788999999997653

>KOG1486|consensus

Probab=97.63  E-value=0.00032  Score=42.88  Aligned_cols=57  Identities=16%  Similarity=0.334  Sum_probs=35.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      .-+++++|-++||||||+..+..-+-. ..|..|. ...-.-.+.+++  -.+++.|.+|.
T Consensus        62 daRValIGfPSVGKStlLs~iT~T~SeaA~yeFTT-LtcIpGvi~y~g--a~IQllDLPGI  119 (364)
T KOG1486|consen   62 DARVALIGFPSVGKSTLLSKITSTHSEAASYEFTT-LTCIPGVIHYNG--ANIQLLDLPGI  119 (364)
T ss_pred             CeEEEEecCCCccHHHHHHHhhcchhhhhceeeeE-EEeecceEEecC--ceEEEecCccc
Confidence            568999999999999999998754321 1232222 111122233344  45788898774

>PRK02496 adk adenylate kinase; Provisional

Probab=97.63  E-value=8.3e-05  Score=42.39  Aligned_cols=22  Identities=18%  Similarity=0.379  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+++++|++|+||||++..+..
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998864

>PRK00300 gmk guanylate kinase; Provisional

Probab=97.63  E-value=6.5e-05  Score=43.38  Aligned_cols=23  Identities=26%  Similarity=0.473  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      --++++|++|+|||||+..+...
T Consensus         6 ~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          6 LLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            35899999999999999998854

>KOG3905|consensus

Probab=97.63  E-value=8.1e-05  Score=46.85  Aligned_cols=59  Identities=25%  Similarity=0.451  Sum_probs=41.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCC--eEEEEEEEeCCCcc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDD--VPTKLQIWTLNALL   67 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~~l~i~D~~g~~   67 (75)
                      ..-+++++|+.++|||||+.++.+.+   .+.+..+.+|....+..+.  ...++.+|-..|..
T Consensus        51 sgk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~  111 (473)
T KOG3905|consen   51 SGKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDL  111 (473)
T ss_pred             CCCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCch
Confidence            34579999999999999999998765   3445556666655554332  23567788776654

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.63  E-value=4.9e-05  Score=45.22  Aligned_cols=18  Identities=22%  Similarity=0.481  Sum_probs=16.7

Q ss_pred             EEEcCCCCcHHHHHHHHH
Q psy12927         11 LVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        11 ~~~G~~~~GKtsl~~~~~   28 (75)
                      .++|++|||||||++.+-
T Consensus        37 AlIGPSGcGKST~LR~lN   54 (253)
T COG1117          37 ALIGPSGCGKSTLLRCLN   54 (253)
T ss_pred             EEECCCCcCHHHHHHHHH
Confidence            689999999999999876

>TIGR00235 udk uridine kinase

Probab=97.62  E-value=0.00011  Score=42.72  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=21.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ....-+.++|++|+|||||++.+..
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHH
Confidence            3445688999999999999999874

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>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=97.62  E-value=7e-05  Score=43.67  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            4689999999999999999864

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.

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

Probab=97.62  E-value=0.00035  Score=44.83  Aligned_cols=28  Identities=25%  Similarity=0.500  Sum_probs=24.8

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      |......++++++|...+|||||+-+++
T Consensus         1 ~~~~Kph~nl~~iGHVD~GKSTl~GrLl   28 (428)
T COG5256           1 MASEKPHLNLVFIGHVDAGKSTLVGRLL   28 (428)
T ss_pred             CCCCCCceEEEEEcCCCCCchhhhhhhH
Confidence            4556778999999999999999999976

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.61  E-value=7.4e-05  Score=43.05  Aligned_cols=21  Identities=29%  Similarity=0.476  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.+.|++|+|||||++.+..-
T Consensus         2 igi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999998753

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.

>PRK14531 adenylate kinase; Provisional

Probab=97.61  E-value=8.5e-05  Score=42.49  Aligned_cols=23  Identities=30%  Similarity=0.612  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+|+++|++|+||||+...+...
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~   25 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAA   25 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999988643

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=97.60  E-value=8.7e-05  Score=46.71  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      +.++|++||||||+++.+.+=+.
T Consensus        34 ~~lLGPSGcGKTTlLR~IAGfe~   56 (352)
T COG3842          34 VTLLGPSGCGKTTLLRMIAGFEQ   56 (352)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            56999999999999999886544

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=97.59  E-value=7.6e-05  Score=39.70  Aligned_cols=21  Identities=33%  Similarity=0.561  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      -.++++|++|+|||||+..+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            357899999999999999976

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

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=97.59  E-value=7e-05  Score=42.73  Aligned_cols=22  Identities=32%  Similarity=0.575  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +|+++|.+|+|||++...+...
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.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=97.59  E-value=0.0003  Score=45.61  Aligned_cols=25  Identities=24%  Similarity=0.406  Sum_probs=22.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+-+.++|+.++|||||+++|.+.
T Consensus        16 G~IyIGvvGpvrtGKSTfIn~fm~q   40 (492)
T TIGR02836        16 GDIYIGVVGPVRTGKSTFIKKFMEL   40 (492)
T ss_pred             CcEEEEEEcCCCCChHHHHHHHHhh
Confidence            3678899999999999999999976

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.58  E-value=0.00011  Score=42.64  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=22.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .....|.+.|++|+|||||++.+...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            35678999999999999999988753

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.58  E-value=9.3e-05  Score=44.06  Aligned_cols=24  Identities=25%  Similarity=0.480  Sum_probs=21.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++|+++|++|+||||+...+...
T Consensus         6 ~mrIvl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          6 PLKIVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999998754

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=97.58  E-value=8.5e-05  Score=43.28  Aligned_cols=22  Identities=18%  Similarity=0.394  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl   52 (216)
T TIGR00960        31 MVFLVGHSGAGKSTFLKLILGI   52 (216)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5689999999999999999864

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.57  E-value=0.00013  Score=41.80  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            57899999999999999988643

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.

>PRK08233 hypothetical protein; Provisional

Probab=97.57  E-value=9.3e-05  Score=41.76  Aligned_cols=23  Identities=26%  Similarity=0.293  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +-|.+.|.+|+|||||+..+...
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            45778899999999999998853

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=97.57  E-value=0.0001  Score=42.25  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.++++|++|+||||+++.++.-
T Consensus        26 ~~i~I~G~tGSGKTTll~aL~~~   48 (186)
T cd01130          26 KNILISGGTGSGKTTLLNALLAF   48 (186)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            46899999999999999998754

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.56  E-value=7.3e-05  Score=41.76  Aligned_cols=21  Identities=19%  Similarity=0.461  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++++|++|+||||+.+.+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            478999999999999998754

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.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.56  E-value=0.00013  Score=42.19  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998864

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.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=97.56  E-value=0.00014  Score=41.99  Aligned_cols=23  Identities=17%  Similarity=0.289  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998653

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.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=97.55  E-value=9.5e-05  Score=43.75  Aligned_cols=22  Identities=18%  Similarity=0.350  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        30 FVAIIGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998754

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.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.55  E-value=0.0001  Score=42.74  Aligned_cols=23  Identities=30%  Similarity=0.554  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      =+++.|++||||||+++.+....
T Consensus         6 l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           6 LIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            46899999999999999998664

>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=97.55  E-value=9.1e-05  Score=42.86  Aligned_cols=24  Identities=33%  Similarity=0.587  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      --+++.|+.|+|||+|++.+....
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            457888999999999999988654

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.54  E-value=8.6e-05  Score=44.61  Aligned_cols=20  Identities=20%  Similarity=0.542  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      ++++|++|+|||||++.+..
T Consensus        33 VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          33 VAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEECCCCCcHHHHHHHHhc
Confidence            68999999999999999875

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.54  E-value=0.00015  Score=42.05  Aligned_cols=22  Identities=18%  Similarity=0.398  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~   50 (211)
T cd03225          29 FVLIVGPNGSGKSTLLRLLNGL   50 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4689999999999999998864

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.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.54  E-value=0.00016  Score=41.64  Aligned_cols=23  Identities=13%  Similarity=0.278  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         28 ITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998654

>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=97.53  E-value=0.00011  Score=42.70  Aligned_cols=22  Identities=23%  Similarity=0.492  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          29 FVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4689999999999999999864

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=97.53  E-value=0.00015  Score=42.48  Aligned_cols=23  Identities=26%  Similarity=0.452  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        15 ~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177         15 HIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            57899999999999999988653

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=97.53  E-value=9.6e-05  Score=42.92  Aligned_cols=22  Identities=23%  Similarity=0.315  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCC
Confidence            6789999999999999999854

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.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=97.53  E-value=0.00011  Score=42.73  Aligned_cols=22  Identities=23%  Similarity=0.410  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        30 ~~~l~G~nGsGKSTLl~~i~Gl   51 (214)
T TIGR02673        30 FLFLTGPSGAGKTTLLKLLYGA   51 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999988754

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.

>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=97.53  E-value=0.00015  Score=42.78  Aligned_cols=22  Identities=18%  Similarity=0.380  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~   49 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGL   49 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999999864

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.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=97.53  E-value=0.00013  Score=41.53  Aligned_cols=23  Identities=22%  Similarity=0.469  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+|+++|.+|+||||+...+...
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~   27 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHH
Confidence            36999999999999999998753

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=97.53  E-value=0.00015  Score=42.42  Aligned_cols=23  Identities=17%  Similarity=0.323  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          33 TLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998653

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.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.53  E-value=0.00011  Score=40.63  Aligned_cols=22  Identities=32%  Similarity=0.629  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|..++|||||+..++..
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            4789999999999999988643

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=97.52  E-value=0.00016  Score=41.93  Aligned_cols=22  Identities=23%  Similarity=0.270  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          28 IFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999999865

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.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=97.52  E-value=0.00011  Score=42.60  Aligned_cols=22  Identities=18%  Similarity=0.347  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03262          28 VVVIIGPSGSGKSTLLRCINLL   49 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999864

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

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=97.52  E-value=0.00011  Score=42.68  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~   49 (213)
T cd03259          28 FLALLGPSGCGKTTLLRLIAGL   49 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998854

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.

>TIGR01351 adk adenylate kinases

Probab=97.52  E-value=9.7e-05  Score=43.06  Aligned_cols=21  Identities=24%  Similarity=0.552  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ||+++|++|+||||+...+..
T Consensus         1 rI~i~G~pGsGKsT~a~~La~   21 (210)
T TIGR01351         1 RLVLLGPPGSGKGTQAKRIAE   21 (210)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999874

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.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=97.52  E-value=0.00015  Score=41.58  Aligned_cols=22  Identities=18%  Similarity=0.380  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~   41 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGL   41 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999988754

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.

>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=97.52  E-value=0.00013  Score=42.87  Aligned_cols=23  Identities=17%  Similarity=0.300  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          28 ITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            46899999999999999988653

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).

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=97.52  E-value=0.00017  Score=42.11  Aligned_cols=23  Identities=22%  Similarity=0.434  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        33 ~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        33 IVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999998653

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.

>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=97.51  E-value=0.00016  Score=42.24  Aligned_cols=22  Identities=23%  Similarity=0.418  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          28 IVALLGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999988754

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.

>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=97.51  E-value=0.00012  Score=42.81  Aligned_cols=22  Identities=23%  Similarity=0.297  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          28 IFGLLGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999998864

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.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=97.51  E-value=0.00011  Score=43.85  Aligned_cols=22  Identities=27%  Similarity=0.536  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++.|++|+|||++++.+...
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~   66 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKR   66 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHh
Confidence            4789999999999999998854

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.51  E-value=0.00012  Score=41.49  Aligned_cols=21  Identities=24%  Similarity=0.506  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |+++|.+|+||||+...+...
T Consensus         2 i~i~G~pGsGKst~a~~la~~   22 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVEN   22 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999988753

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>PHA00729 NTP-binding motif containing protein

Probab=97.51  E-value=0.00015  Score=43.14  Aligned_cols=23  Identities=17%  Similarity=0.390  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++.|.+|+|||+|+..+...
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999997753

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.51  E-value=0.00018  Score=41.55  Aligned_cols=23  Identities=17%  Similarity=0.281  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        29 ~~~l~G~nGsGKSTLl~~i~G~~   51 (200)
T PRK13540         29 LLHLKGSNGAGKTTLLKLIAGLL   51 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999987653

>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=97.50  E-value=0.00018  Score=42.34  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          28 IVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998643

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.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.50  E-value=0.00013  Score=42.36  Aligned_cols=21  Identities=29%  Similarity=0.463  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++++|++|+||||+++.+...
T Consensus         4 ilI~GptGSGKTTll~~ll~~   24 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDY   24 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999987644

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=97.50  E-value=0.00013  Score=43.07  Aligned_cols=22  Identities=23%  Similarity=0.456  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        37 ~~~l~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         37 MMAIVGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4689999999999999999864

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=97.50  E-value=0.00019  Score=41.36  Aligned_cols=23  Identities=22%  Similarity=0.382  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|+.|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        28 ALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988653

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.49  E-value=0.00011  Score=43.42  Aligned_cols=21  Identities=33%  Similarity=0.567  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -++++|++|||||||++-..+
T Consensus        33 ~vv~lGpSGcGKTTLLnl~AG   53 (259)
T COG4525          33 LVVVLGPSGCGKTTLLNLIAG   53 (259)
T ss_pred             EEEEEcCCCccHHHHHHHHhc
Confidence            368999999999999998774

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=97.49  E-value=0.00019  Score=41.68  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          28 FVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999988653

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.

>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=97.49  E-value=0.00019  Score=41.88  Aligned_cols=23  Identities=22%  Similarity=0.245  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          33 VTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            46899999999999999988643

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.

>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=97.49  E-value=0.00019  Score=41.95  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~Gl   53 (220)
T cd03293          32 FVALVGPSGCGKSTLLRIIAGL   53 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999998854

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.

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.49  E-value=0.00014  Score=42.51  Aligned_cols=23  Identities=17%  Similarity=0.434  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++|+++|.+|+||||+...+...
T Consensus         1 ~~I~v~G~pGsGKsT~a~~la~~   23 (215)
T PRK00279          1 MRLILLGPPGAGKGTQAKFIAEK   23 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999988743

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=97.49  E-value=0.00014  Score=46.00  Aligned_cols=24  Identities=33%  Similarity=0.612  Sum_probs=21.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ...+|++++|.+++||||+++++.
T Consensus        56 ~~~~kiLLLG~geSGKSTi~KQ~r   79 (389)
T PF00503_consen   56 KREIKILLLGSGESGKSTILKQMR   79 (389)
T ss_dssp             HEEEEEEEEESTTSSHHHHHHHHH
T ss_pred             hccceEEEECCCCcchhhHHHHHH
Confidence            357899999999999999999763

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 ....

>PRK00625 shikimate kinase; Provisional

Probab=97.48  E-value=0.00015  Score=41.42  Aligned_cols=22  Identities=27%  Similarity=0.363  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +|+++|.+|+||||+.+.+...
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~   23 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKF   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999988643

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.48  E-value=0.00022  Score=40.13  Aligned_cols=23  Identities=17%  Similarity=0.325  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            56799999999999999988653

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=97.48  E-value=0.00018  Score=42.02  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          30 IFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998653

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.

>KOG2485|consensus

Probab=97.48  E-value=0.00028  Score=43.89  Aligned_cols=61  Identities=18%  Similarity=0.350  Sum_probs=35.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCC----ccceeeEEEEEEE-EEeCCeEEEEEEEeCCCc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDT----YISTIGIDFKQKI-IDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~----~~~t~~~~~~~~~-~~~~~~~~~l~i~D~~g~   66 (75)
                      ...+.+.++|-++||||||++..........    ..+..|+...... +.+...+ .+++.||+|-
T Consensus       141 ~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp-~vy~iDTPGi  206 (335)
T KOG2485|consen  141 NSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRP-PVYLIDTPGI  206 (335)
T ss_pred             CCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCC-ceEEecCCCc
Confidence            3578999999999999999997653322111    1111122222222 2333333 3789999985

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=97.48  E-value=0.0002  Score=42.98  Aligned_cols=23  Identities=30%  Similarity=0.458  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         29 LLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998653

>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=97.48  E-value=0.00015  Score=41.23  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|+.|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~   49 (178)
T cd03229          28 IVALLGPSGSGKSTLLRCIAGL   49 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999998854

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.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=97.47  E-value=0.00014  Score=42.81  Aligned_cols=23  Identities=17%  Similarity=0.304  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          33 IFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            56899999999999999988543

Other members of this system include the MetP permease and the MetQ substrate binding protein. 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.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=97.47  E-value=0.00017  Score=42.54  Aligned_cols=23  Identities=17%  Similarity=0.336  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          29 FVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            46899999999999999998643

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.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=97.47  E-value=0.00015  Score=39.93  Aligned_cols=21  Identities=29%  Similarity=0.533  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.|.+|+||||+.+.+...
T Consensus         2 i~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhh
Confidence            578999999999999998754

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=97.47  E-value=0.00019  Score=41.76  Aligned_cols=22  Identities=14%  Similarity=0.345  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          27 FLAIVGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4789999999999999998764

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=97.46  E-value=0.00014  Score=42.99  Aligned_cols=22  Identities=14%  Similarity=0.329  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        28 IHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998865

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.46  E-value=0.00013  Score=44.10  Aligned_cols=20  Identities=15%  Similarity=0.419  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      +.++|+.|+|||||++.+++
T Consensus        33 ~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          33 TALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            57999999999999999986

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=97.46  E-value=0.00019  Score=42.30  Aligned_cols=22  Identities=18%  Similarity=0.217  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl   49 (236)
T cd03219          28 IHGLIGPNGAGKTTLFNLISGF   49 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4789999999999999998854

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (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).

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.46  E-value=0.00022  Score=41.42  Aligned_cols=23  Identities=17%  Similarity=0.338  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         30 ALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999988653

>smart00053 DYNc Dynamin, GTPase

Probab=97.46  E-value=0.00018  Score=43.19  Aligned_cols=25  Identities=24%  Similarity=0.501  Sum_probs=22.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ...++++|+.|+||||+++.+.+..
T Consensus        26 ~p~i~vvG~~~~GKSt~l~~i~g~~   50 (240)
T smart00053       26 LPQIAVVGGQSAGKSSVLENFVGRD   50 (240)
T ss_pred             CCeEEEEcCCCccHHHHHHHHhCCC
Confidence            4479999999999999999999765

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=97.46  E-value=0.00019  Score=41.57  Aligned_cols=22  Identities=23%  Similarity=0.184  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (208)
T cd03268          28 IYGFLGPNGAGKTTTMKIILGL   49 (208)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999998864

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.46  E-value=0.00023  Score=41.29  Aligned_cols=23  Identities=17%  Similarity=0.329  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         29 LVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            56899999999999999988653

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.45  E-value=0.0002  Score=42.29  Aligned_cols=26  Identities=12%  Similarity=0.158  Sum_probs=21.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...+-+.+.|++|+|||||++.+...
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~   56 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEAL   56 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45677899999999999999987743

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=97.45  E-value=0.00017  Score=43.02  Aligned_cols=22  Identities=18%  Similarity=0.297  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        34 ~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         34 VTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999999854

>PRK10908 cell division protein FtsE; Provisional

Probab=97.45  E-value=0.00023  Score=41.68  Aligned_cols=22  Identities=23%  Similarity=0.511  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~   51 (222)
T PRK10908         30 MAFLTGHSGAGKSTLLKLICGI   51 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999999854

>PRK14527 adenylate kinase; Provisional

Probab=97.45  E-value=0.00023  Score=40.88  Aligned_cols=23  Identities=22%  Similarity=0.413  Sum_probs=19.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..-++++|++|+||||+...+..
T Consensus         6 ~~~i~i~G~pGsGKsT~a~~La~   28 (191)
T PRK14527          6 NKVVIFLGPPGAGKGTQAERLAQ   28 (191)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            34589999999999999998863

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=97.45  E-value=0.00022  Score=42.93  Aligned_cols=22  Identities=23%  Similarity=0.400  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        40 ~~~I~G~NGsGKSTLlk~l~Gl   61 (257)
T PRK11247         40 FVAVVGRSGCGKSTLLRLLAGL   61 (257)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998864

>KOG3347|consensus

Probab=97.45  E-value=0.00012  Score=41.33  Aligned_cols=26  Identities=27%  Similarity=0.488  Sum_probs=22.5

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .....+|++.|-+|+||||+..++..
T Consensus         4 ~r~~PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    4 ERERPNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             hhcCCCEEEeCCCCCCchhHHHHHHH
Confidence            35567999999999999999999873

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=97.45  E-value=0.00022  Score=42.21  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl   51 (239)
T cd03296          30 LVALLGPSGSGKTTLLRLIAGL   51 (239)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999999864

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). 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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.45  E-value=0.00023  Score=42.84  Aligned_cols=25  Identities=20%  Similarity=0.411  Sum_probs=21.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .....+++.|++|+|||++++.+..
T Consensus        40 ~~~~~vll~GppGtGKTtlA~~ia~   64 (261)
T TIGR02881        40 KQVLHMIFKGNPGTGKTTVARILGK   64 (261)
T ss_pred             CCcceEEEEcCCCCCHHHHHHHHHH
Confidence            3457899999999999999988753

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=97.44  E-value=0.00023  Score=42.06  Aligned_cols=23  Identities=17%  Similarity=0.284  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        29 FVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            46799999999999999998643

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=97.44  E-value=0.00023  Score=42.44  Aligned_cols=23  Identities=17%  Similarity=0.378  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .++++|++|+|||||++.+.+-.
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~   53 (253)
T TIGR02323        31 VLGIVGESGSGKSTLLGCLAGRL   53 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988653

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=97.44  E-value=0.00024  Score=42.83  Aligned_cols=26  Identities=19%  Similarity=0.296  Sum_probs=23.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYD   34 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~   34 (75)
                      +-+++|+.|+|||||++-+...+++.
T Consensus        59 ~W~I~G~NGsGKTTLL~ll~~~~~ps   84 (257)
T COG1119          59 HWAIVGPNGAGKTTLLSLLTGEHPPS   84 (257)
T ss_pred             cEEEECCCCCCHHHHHHHHhcccCCC
Confidence            56899999999999999999887765

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.44  E-value=0.00025  Score=40.49  Aligned_cols=23  Identities=13%  Similarity=0.102  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (182)
T cd03215          28 IVGIAGLVGNGQTELAEALFGLR   50 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999988653

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. In members of 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.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=97.43  E-value=0.00024  Score=42.55  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        27 ~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          27 VIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999988653

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. 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 of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=97.43  E-value=0.00016  Score=42.67  Aligned_cols=20  Identities=25%  Similarity=0.317  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      +.+.|++|+|||||++.+..
T Consensus         2 igI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHH
Confidence            56899999999999998774

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK14526 adenylate kinase; Provisional

Probab=97.43  E-value=0.00019  Score=42.23  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ++++++|++|+||||++..+..
T Consensus         1 m~i~l~G~pGsGKsT~a~~La~   22 (211)
T PRK14526          1 MKLVFLGPPGSGKGTIAKILSN   22 (211)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998874

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=97.43  E-value=0.00023  Score=41.81  Aligned_cols=23  Identities=22%  Similarity=0.442  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|+.|+|||||++.+.+-.
T Consensus        38 ~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         38 TIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            56899999999999999998653

>PRK14528 adenylate kinase; Provisional

Probab=97.43  E-value=0.00021  Score=41.10  Aligned_cols=22  Identities=23%  Similarity=0.546  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+++++|++|+||||+.+.+..
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~   23 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCE   23 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998863

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=97.43  E-value=0.00024  Score=41.75  Aligned_cols=23  Identities=30%  Similarity=0.414  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (230)
T TIGR03410        28 VTCVLGRNGVGKTTLLKTLMGLL   50 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999888543

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=97.43  E-value=0.00025  Score=42.00  Aligned_cols=23  Identities=22%  Similarity=0.393  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~   52 (242)
T PRK11124         30 TLVLLGPSGAGKSSLLRVLNLLE   52 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998653

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=97.42  E-value=0.00026  Score=44.46  Aligned_cols=25  Identities=20%  Similarity=0.375  Sum_probs=21.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ..++++.|+.|+||||+++.++..-
T Consensus       162 ~~nilI~G~tGSGKTTll~aLl~~i  186 (344)
T PRK13851        162 RLTMLLCGPTGSGKTTMSKTLISAI  186 (344)
T ss_pred             CCeEEEECCCCccHHHHHHHHHccc
Confidence            4679999999999999999998543

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=97.42  E-value=0.00018  Score=41.77  Aligned_cols=22  Identities=18%  Similarity=0.314  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|+.|+|||||++.+.+-
T Consensus        26 ~~~l~G~nGsGKSTLl~~l~gl   47 (211)
T cd03298          26 ITAIVGPSGSGKSTLLNLIAGF   47 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998854

Probably responsible for the translocation of thiamine across the membrane. 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.

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=97.42  E-value=0.0002  Score=43.13  Aligned_cols=25  Identities=16%  Similarity=0.347  Sum_probs=21.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      -=+++++|++|+|||+|++.+.+..
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l   40 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAI   40 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc
Confidence            3478999999999999999988654

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.42  E-value=0.00029  Score=40.05  Aligned_cols=23  Identities=30%  Similarity=0.538  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          30 KIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            46899999999999999988653

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=97.42  E-value=0.00018  Score=42.58  Aligned_cols=22  Identities=23%  Similarity=0.223  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        31 ~~~l~G~nGsGKSTLl~~l~G~   52 (241)
T PRK10895         31 IVGLLGPNGAGKTTTFYMVVGI   52 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5689999999999999999865

>smart00072 GuKc Guanylate kinase homologues

Probab=97.42  E-value=0.00019  Score=41.04  Aligned_cols=21  Identities=33%  Similarity=0.559  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++++|++||||+|++..++..
T Consensus         5 ivl~Gpsg~GK~tl~~~L~~~   25 (184)
T smart00072        5 IVLSGPSGVGKGTLLAELIQE   25 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            789999999999999999866

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.42  E-value=0.00019  Score=40.68  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+++.|.+|+||||+.+.+...
T Consensus         4 ~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           4 IIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            3789999999999999998854

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=97.41  E-value=0.00027  Score=41.55  Aligned_cols=22  Identities=23%  Similarity=0.317  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~G~   56 (225)
T PRK10247         35 FKLITGPSGCGKSTLLKIVASL   56 (225)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4689999999999999998864

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.41  E-value=0.0002  Score=41.52  Aligned_cols=22  Identities=23%  Similarity=0.330  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++.|++|||||+|++.++.=
T Consensus        31 ~iaitGPSG~GKStllk~va~L   52 (223)
T COG4619          31 FIAITGPSGCGKSTLLKIVASL   52 (223)
T ss_pred             eEEEeCCCCccHHHHHHHHHhc
Confidence            4689999999999999998853

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=97.41  E-value=0.00021  Score=40.83  Aligned_cols=21  Identities=33%  Similarity=0.656  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++++|++|+||++|.++++..
T Consensus         5 ivl~Gpsg~GK~~l~~~L~~~   25 (183)
T PF00625_consen    5 IVLVGPSGSGKSTLAKRLIQE   25 (183)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            689999999999999999863

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>KOG2484|consensus

Probab=97.41  E-value=0.0002  Score=45.78  Aligned_cols=58  Identities=16%  Similarity=0.323  Sum_probs=40.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ...+++-++|-++|||||+++.+...+-. ...++.|+....+.+..|.   .+.+.|.+|.
T Consensus       250 k~sIrvGViG~PNVGKSSvINsL~~~k~C-~vg~~pGvT~smqeV~Ldk---~i~llDsPgi  307 (435)
T KOG2484|consen  250 KTSIRVGIIGYPNVGKSSVINSLKRRKAC-NVGNVPGVTRSMQEVKLDK---KIRLLDSPGI  307 (435)
T ss_pred             CcceEeeeecCCCCChhHHHHHHHHhccc-cCCCCccchhhhhheeccC---CceeccCCce
Confidence            34688999999999999999999976642 2334445555555555555   3577787764

>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=97.41  E-value=0.00024  Score=39.25  Aligned_cols=23  Identities=22%  Similarity=0.455  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            46799999999999999988653

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.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=97.41  E-value=0.00028  Score=41.13  Aligned_cols=23  Identities=17%  Similarity=0.252  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+.++|++|+|||||++.+.+-
T Consensus        24 e~~~i~G~nGsGKSTLl~~l~G~   46 (214)
T cd03297          24 EVTGIFGASGAGKSTLLRCIAGL   46 (214)
T ss_pred             eeEEEECCCCCCHHHHHHHHhCC
Confidence            35789999999999999998854

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.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=97.41  E-value=0.00019  Score=42.64  Aligned_cols=22  Identities=23%  Similarity=0.317  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~   52 (250)
T PRK11264         31 VVAIIGPSGSGKTTLLRCINLL   52 (250)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998854

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=97.41  E-value=0.00027  Score=43.01  Aligned_cols=25  Identities=28%  Similarity=0.539  Sum_probs=21.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ...++++|++|+|||++++.+....
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l   57 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSL   57 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCS
T ss_pred             CCcEEEECCCCCchhHHHHhhhccC
Confidence            4578999999999999999988653

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=97.41  E-value=0.0003  Score=39.69  Aligned_cols=22  Identities=23%  Similarity=0.514  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|+.|+|||||++.+.+-
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          29 RLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998864

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.41  E-value=0.00027  Score=41.27  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        39 ~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         39 ALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            4789999999999999999864

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.40  E-value=0.0002  Score=42.66  Aligned_cols=22  Identities=23%  Similarity=0.370  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        31 ~~~i~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14247         31 ITALMGPSGSGKSTLLRVFNRL   52 (250)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4689999999999999998864

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.40  E-value=0.00031  Score=40.03  Aligned_cols=22  Identities=18%  Similarity=0.404  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        27 ~~~l~G~nGsGKStLl~~i~G~   48 (180)
T cd03214          27 IVGILGPNGAGKSTLLKTLAGL   48 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998864

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.40  E-value=0.00065  Score=37.43  Aligned_cols=22  Identities=32%  Similarity=0.510  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+++.|+.|+|||||++.+...
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            5789999999999999998865

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.

>PRK06762 hypothetical protein; Provisional

Probab=97.40  E-value=0.00021  Score=40.00  Aligned_cols=22  Identities=32%  Similarity=0.557  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+++.|.+|+||||+.+.+...
T Consensus         4 li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4788999999999999988744

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.40  E-value=0.0002  Score=39.23  Aligned_cols=21  Identities=33%  Similarity=0.539  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.|++|+|||+++..++..
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~   22 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALN   22 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHH
Confidence            689999999999999998744

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=97.40  E-value=0.00017  Score=39.65  Aligned_cols=21  Identities=24%  Similarity=0.428  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .|+++|.+|+|||++.+.+..
T Consensus         1 ~i~l~G~~GsGKstla~~la~   21 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAK   21 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999874

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=97.40  E-value=0.00029  Score=41.38  Aligned_cols=23  Identities=17%  Similarity=0.385  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          31 TVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCc
Confidence            37899999999999999998653

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). 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.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.40  E-value=0.00043  Score=45.73  Aligned_cols=24  Identities=21%  Similarity=0.470  Sum_probs=20.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .=||.++|+.|+|||||++.+.+.
T Consensus       348 g~riaiiG~NG~GKSTLlk~l~g~  371 (530)
T COG0488         348 GDRIAIVGPNGAGKSTLLKLLAGE  371 (530)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhh
Confidence            348899999999999999999654

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=97.40  E-value=0.00031  Score=39.77  Aligned_cols=22  Identities=23%  Similarity=0.283  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~   49 (173)
T cd03230          28 IYGLLGPNGAGKTTLIKIILGL   49 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998764

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter 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.

>PRK14529 adenylate kinase; Provisional

Probab=97.40  E-value=0.00021  Score=42.45  Aligned_cols=23  Identities=22%  Similarity=0.276  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++|+++|++|+||||+...+...
T Consensus         1 m~I~l~G~PGsGK~T~a~~La~~   23 (223)
T PRK14529          1 MNILIFGPNGSGKGTQGALVKKK   23 (223)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999987743

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=97.40  E-value=0.00025  Score=46.33  Aligned_cols=23  Identities=22%  Similarity=0.395  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      =+++++|++|+|||||++-+.+-
T Consensus       362 ~~vaIvG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       362 ERVAILGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            36799999999999999998843

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.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.40  E-value=0.00021  Score=41.16  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+.
T Consensus        35 ~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          35 LTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999998864

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including 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.

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=97.39  E-value=0.00031  Score=40.69  Aligned_cols=23  Identities=22%  Similarity=0.364  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (201)
T cd03231          28 ALQVTGPNGSGKTTLLRILAGLS   50 (201)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988643

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=97.39  E-value=0.0002  Score=43.33  Aligned_cols=22  Identities=14%  Similarity=0.221  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        35 ~~~l~G~nGsGKSTLl~~l~Gl   56 (272)
T PRK15056         35 IAALVGVNGSGKSTLFKALMGF   56 (272)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5689999999999999998865

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.39  E-value=0.00021  Score=42.47  Aligned_cols=22  Identities=18%  Similarity=0.314  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl   52 (241)
T PRK14250         31 IYTIVGPSGAGKSTLIKLINRL   52 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998864

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=97.39  E-value=0.00021  Score=43.08  Aligned_cols=23  Identities=13%  Similarity=0.336  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        28 ~~~IvG~nGsGKSTLlk~l~Gl~   50 (255)
T cd03236          28 VLGLVGPNGIGKSTALKILAGKL   50 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            68899999999999999988553

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. 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, RLIs 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.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.39  E-value=0.00023  Score=42.67  Aligned_cols=23  Identities=17%  Similarity=0.289  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        40 ~~~l~G~nGsGKSTLl~~l~G~~   62 (259)
T PRK14274         40 VTAIIGPSGCGKSTFIKTLNLMI   62 (259)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            46899999999999999988643

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.39  E-value=0.00018  Score=41.72  Aligned_cols=23  Identities=26%  Similarity=0.525  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          35 MVLVLGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             EEEEECCCCCCHHHHHHHhcccC
Confidence            56899999999999999988653

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including 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.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=97.39  E-value=0.0002  Score=42.21  Aligned_cols=23  Identities=17%  Similarity=0.242  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        14 ~~~i~G~nGsGKSTLl~~l~Gl~   36 (230)
T TIGR02770        14 VLALVGESGSGKSLTCLAILGLL   36 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999999654

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=97.39  E-value=0.0002  Score=41.04  Aligned_cols=22  Identities=18%  Similarity=0.246  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .-+.++|.+|+|||||+.++..
T Consensus         7 ~ii~ivG~sgsGKTTLi~~li~   28 (173)
T PRK10751          7 PLLAIAAWSGTGKTTLLKKLIP   28 (173)
T ss_pred             eEEEEECCCCChHHHHHHHHHH
Confidence            3578999999999999999873

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=97.39  E-value=0.0002  Score=42.59  Aligned_cols=22  Identities=18%  Similarity=0.318  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14239         33 ITALIGPSGSGKSTLLRSINRM   54 (252)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999999853

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.39  E-value=0.00027  Score=42.82  Aligned_cols=23  Identities=17%  Similarity=0.284  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        35 ~~~l~G~nGsGKSTLl~~i~Gl~   57 (280)
T PRK13649         35 YTAFIGHTGSGKSTIMQLLNGLH   57 (280)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999998643

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.38  E-value=0.0002  Score=43.60  Aligned_cols=23  Identities=17%  Similarity=0.263  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        39 ~~~l~G~nGsGKSTLl~~l~Gl~   61 (289)
T PRK13645         39 VTCVIGTTGSGKSTMIQLTNGLI   61 (289)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46899999999999999998653

>PRK13947 shikimate kinase; Provisional

Probab=97.38  E-value=0.00024  Score=39.85  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +|+++|.+|+|||++...+...
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~   24 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATT   24 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Confidence            6999999999999999998743

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=97.38  E-value=0.00021  Score=42.82  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        32 ~~~I~G~NGsGKSTLl~~i~Gl   53 (251)
T PRK09544         32 ILTLLGPNGAGKSTLVRVVLGL   53 (251)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998854

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=97.38  E-value=0.00031  Score=42.10  Aligned_cols=23  Identities=22%  Similarity=0.442  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        34 ~~~i~G~nGsGKSTLl~~l~Gl~   56 (258)
T PRK11701         34 VLGIVGESGSGKTTLLNALSARL   56 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988653

>PRK06547 hypothetical protein; Provisional

Probab=97.38  E-value=0.00032  Score=40.04  Aligned_cols=26  Identities=23%  Similarity=0.355  Sum_probs=21.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .....|++.|.+|+||||+...+...
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            44667888899999999999998753

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=97.38  E-value=0.00036  Score=39.48  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|+.|+|||||++.+.+-.
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          30 SLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcc
Confidence            46899999999999999988653

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.38  E-value=0.00028  Score=42.62  Aligned_cols=22  Identities=14%  Similarity=0.253  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl   50 (271)
T PRK13638         29 VTGLVGANGCGKSTLFMNLSGL   50 (271)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4789999999999999998754

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.38  E-value=0.00022  Score=42.55  Aligned_cols=23  Identities=17%  Similarity=0.315  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~Gl~   57 (254)
T PRK14273         35 ITALIGPSGCGKSTFLRTLNRMN   57 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            46799999999999999988543

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=97.38  E-value=0.00022  Score=42.02  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        29 ~~~l~G~nGsGKSTLl~~i~Gl~   51 (236)
T cd03253          29 KVAIVGPSGSGKSTILRLLFRFY   51 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            46899999999999999998653

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. 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.

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.38  E-value=0.00019  Score=42.76  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        32 ~~~l~G~nGsGKSTLl~~l~G~   53 (253)
T PRK14267         32 VFALMGPSGCGKSTLLRTFNRL   53 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4679999999999999998865

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=97.37  E-value=0.00032  Score=41.59  Aligned_cols=22  Identities=23%  Similarity=0.323  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~   50 (242)
T cd03295          29 FLVLIGPSGSGKTTTMKMINRL   50 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4679999999999999998864

ABC (ATP-binding cassette) transporter nucleotide-binding domain; 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.

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=97.37  E-value=0.00023  Score=42.63  Aligned_cols=23  Identities=17%  Similarity=0.315  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        32 ~~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         32 VTAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            46899999999999999988653

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.37  E-value=0.00019  Score=42.79  Aligned_cols=22  Identities=23%  Similarity=0.545  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ..++|+.|+|||||++.+++.-
T Consensus        30 ~ailGPNGAGKSTlLk~LsGel   51 (259)
T COG4559          30 LAILGPNGAGKSTLLKALSGEL   51 (259)
T ss_pred             EEEECCCCccHHHHHHHhhCcc
Confidence            4699999999999999998653

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=97.37  E-value=0.00033  Score=41.36  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        13 ~~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184        13 FISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988653

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=97.37  E-value=0.0002  Score=41.11  Aligned_cols=21  Identities=29%  Similarity=0.417  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ++|++.|-||+||||+++++.
T Consensus         1 m~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           1 MLIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             CeEEEeCCCCCchHHHHHHHH
Confidence            478999999999999999987

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=97.37  E-value=0.00032  Score=41.57  Aligned_cols=23  Identities=17%  Similarity=0.235  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|+.|+|||||++.+.+-.
T Consensus        49 ~~~i~G~NGsGKSTLl~~i~Gl~   71 (236)
T cd03267          49 IVGFIGPNGAGKTTTLKILSGLL   71 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            56899999999999999998653

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, 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 the single ATP-binding protein and the single intergral membrane protein.

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=97.37  E-value=0.00032  Score=42.31  Aligned_cols=23  Identities=13%  Similarity=0.433  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        41 ~~~i~G~NGsGKSTLl~~l~Gl~   63 (267)
T PRK15112         41 TLAIIGENGSGKSTLAKMLAGMI   63 (267)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCC
Confidence            46799999999999999998653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	75
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		2e-14
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		2e-14
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		4e-14
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		5e-14
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		5e-14
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		6e-14
4fmc_B	171	Espg-Rab1 Complex Length = 171		6e-14
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		6e-14
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		7e-14
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		8e-14
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		1e-13
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		2e-13
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		3e-13
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		3e-13
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		4e-13
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		4e-13
4fmc_F	117	Espg-Rab1 Complex Length = 117		7e-13
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		2e-12
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		3e-12
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		3e-12
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		2e-11
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		3e-11
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		4e-11
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		4e-11
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		5e-11
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		6e-11
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		2e-10
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		3e-10
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		4e-10
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		7e-10
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		1e-09
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		3e-09
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		4e-09
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		9e-09
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		1e-08
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		1e-08
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		1e-08
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		1e-08
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		1e-08
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		1e-08
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		1e-08
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		1e-08
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		1e-08
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		2e-08
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		2e-08
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		9e-08
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		1e-07
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		1e-07
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		1e-07
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		2e-07
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		2e-07
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		2e-07
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		2e-07
1vg1_A	185	Gdp-bound Rab7 Length = 185		2e-07
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		3e-07
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		3e-07
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		3e-07
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		7e-07
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		8e-07
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		8e-07
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		9e-07
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		9e-07
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		9e-07
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		9e-07
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		9e-07
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		1e-06
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		1e-06
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		1e-06
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		1e-06
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		1e-06
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		1e-06
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		1e-06
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		1e-06
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		1e-06
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		2e-06
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		2e-06
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		2e-06
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		2e-06
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		2e-06
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		3e-06
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		4e-06
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		4e-06
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		4e-06
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		4e-06
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		4e-06
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		4e-06
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		4e-06
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		1e-05
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		1e-05
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		1e-05
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		2e-05
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		2e-05
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		2e-05
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		3e-05
2efc_B	181	Ara7-GdpATVPS9A Length = 181		3e-05
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		6e-05
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		8e-05
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		3e-04
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		4e-04
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		4e-04
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		4e-04
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		4e-04
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		4e-04
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		4e-04
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		4e-04
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		4e-04
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		5e-04
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		5e-04
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		5e-04
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		6e-04
1byu_A	216	Canine Gdp-Ran Length = 216		6e-04
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		7e-04
2bku_A	177	Kap95p:rangtp Complex Length = 177		7e-04

>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 = 73.9 bits (180), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 32/61 (52%), Positives = 47/61 (77%)
Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          M + +  +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQI
Sbjct: 3  MPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 62
Query: 61 W 61
          W
Sbjct: 63 W 63

>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 = 73.9 bits (180), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 32/61 (52%), Positives = 47/61 (77%)
Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          M + +  +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQI
Sbjct: 3  MPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 62
Query: 61 W 61
          W
Sbjct: 63 W 63

>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 = 73.2 bits (178), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 17 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 70

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 72.8 bits (177), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 7  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 60

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 72.8 bits (177), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY D+YISTIG+DFK + I L++   KLQIW
Sbjct: 10 FKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIW 63

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 72.4 bits (176), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 26 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 79

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 72.4 bits (176), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 7  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 60

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 72.4 bits (176), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 9  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 62

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 72.4 bits (176), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 44/54 (81%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 34 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 87

>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 = 72.0 bits (175), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 43/54 (79%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGK C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 17 FKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 70

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 71.6 bits (174), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 31/53 (58%), Positives = 43/53 (81%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 1  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 53

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 70.5 bits (171), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 30/54 (55%), Positives = 42/54 (77%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGKTC++ RF ++ +  T+ISTIGIDFK + I+LD    KLQIW
Sbjct: 9  FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIW 62

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 70.5 bits (171), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 30/54 (55%), Positives = 42/54 (77%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGKTC++ RF ++ +  T+ISTIGIDFK + I+LD    KLQIW
Sbjct: 7  FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIW 60

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 70.1 bits (170), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 30/54 (55%), Positives = 43/54 (79%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++G+S VGK+C++ RF D+TY + YISTIG+DFK K ++LD    KLQIW
Sbjct: 9  FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIW 62

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 30/54 (55%), Positives = 43/54 (79%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++G+S VGK+C++ RF D+TY + YISTIG+DFK K ++LD    KLQIW
Sbjct: 9  FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIW 62

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 30/54 (55%), Positives = 43/54 (79%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++G+S VGK+C++ RF D+TY + YISTIG+DFK K ++LD    KLQIW
Sbjct: 22 FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIW 75

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 68.9 bits (167), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 30/52 (57%), Positives = 42/52 (80%)
Query: 10 ILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    KLQIW
Sbjct: 1  LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW 52

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 67.0 bits (162), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 28/56 (50%), Positives = 43/56 (76%), Gaps = 1/56 (1%)
Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           +K++++GDS VGKTC++ RF D  +   T+IST+GIDF+ K++D+D V  KLQ+W
Sbjct: 10 AFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMW 65

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 67.0 bits (162), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 26/57 (45%), Positives = 43/57 (75%)
Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          ++ +KI+V+GDSNVGKTC+ +RFC   + D   +TIG+DF+++ +D+D    K+Q+W
Sbjct: 18 SRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLW 74

>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 = 67.0 bits (162), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 26/57 (45%), Positives = 43/57 (75%)
Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          ++ +KI+V+GDSNVGKTC+ +RFC   + D   +TIG+DF+++ +D+D    K+Q+W
Sbjct: 27 SRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLW 83

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 64.3 bits (155), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 43/59 (72%)
Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D +  +K+L++GDS VGK+ ++ RF D T+  +YI+TIG+DFK + ++++    KLQIW
Sbjct: 5  DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIW 63

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 27/53 (50%), Positives = 41/53 (77%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          KIL++GDS VGK+C++ RF ++ +  ++I+TIGIDFK K +D++    KLQIW
Sbjct: 5  KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIW 57

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 63.2 bits (152), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 27/53 (50%), Positives = 41/53 (77%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          KIL++GDS VGK+C++ RF ++ +  ++I+TIGIDFK K +D++    KLQIW
Sbjct: 5  KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIW 57

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 63.2 bits (152), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 26/53 (49%), Positives = 41/53 (77%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          KIL++GDS VGK+C++ RF ++ +  ++I+TIGIDFK K +D++    KLQ+W
Sbjct: 22 KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLW 74

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 26/53 (49%), Positives = 41/53 (77%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          KIL++GDS VGK+C++ RF ++ +  ++I+TIGIDFK K +D++    KLQ+W
Sbjct: 9  KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLW 61

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 62.4 bits (150), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 26/53 (49%), Positives = 41/53 (77%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          KIL++GDS VGK+C++ RF ++ +  ++I+TIGIDFK K +D++    KLQ+W
Sbjct: 5  KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLW 57

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/54 (48%), Positives = 40/54 (74%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +KIL++G+S+VGKT  + R+ D+++   ++ST+GIDFK K I  +D   KLQIW
Sbjct: 6  FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIW 59

>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 = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 26/54 (48%), Positives = 40/54 (74%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +KIL++G+S+VGKT  + R+ D+++   ++ST+GIDFK K I  +D   KLQIW
Sbjct: 9  FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIW 62

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 27/54 (50%), Positives = 38/54 (70%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          YK++ LG+  VGKT I+ RF  +T+ + Y STIGIDF  K + LD+ P +LQ+W
Sbjct: 2  YKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLW 55

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 39/54 (72%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++G+S+VGKT  + R+ D+T+   ++ST+GIDFK K +   +   KLQIW
Sbjct: 24 FKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIW 77

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 39/54 (72%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++G+S+VGKT  + R+ D+++   ++ST+GIDFK K +   D   KLQIW
Sbjct: 23 FKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIW 76

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 23/54 (42%), Positives = 37/54 (68%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD++VGKTC+V RF    + +   STIG+DF  K +++     KLQIW
Sbjct: 30 FKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIW 83

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 56.2 bits (134), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 26/55 (47%), Positives = 37/55 (67%)
Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          T KIL++G+S VGK+ ++ RF D+T+     +TIG+DFK K I +D    KL IW
Sbjct: 15 TLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIW 69

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 55.1 bits (131), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 40/56 (71%)
Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + +K++ LG+ +VGKT ++ RF  +++ +TY +TIGIDF  K + L+D   +LQ+W
Sbjct: 5  RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLW 60

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/54 (42%), Positives = 39/54 (72%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++ LG+ +VGKT ++ RF  +++ +TY +TIGIDF  K + L+D   +LQ+W
Sbjct: 3  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLW 56

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 40/56 (71%)
Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + +K++ LG+ +VGKT ++ RF  +++ +TY +TIGIDF  K + L+D   +LQ+W
Sbjct: 13 RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLW 68

>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 = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/54 (42%), Positives = 39/54 (72%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++ LG+ +VGKT ++ RF  +++ +TY +TIGIDF  K + L+D   +LQ+W
Sbjct: 2  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLW 55

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 37/54 (68%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K LV+G++  GK+C++H+F ++ + D    TIG++F  KII++     KLQIW
Sbjct: 11 FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW 64

>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 = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 37/54 (68%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K LV+G++  GK+C++H+F ++ + D    TIG++F  KII++     KLQIW
Sbjct: 9  FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW 62

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 37/54 (68%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K LV+G++  GK+C++H+F ++ + D    TIG++F  KII++     KLQIW
Sbjct: 12 FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW 65

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 40/56 (71%)
Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + +K++ LG+ +VGKT ++ RF  +++ +TY +TIGIDF  K + L+D   +LQ+W
Sbjct: 5  RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLW 60

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 40/56 (71%)
Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + +K++ LG+ +VGKT ++ RF  +++ +TY +TIGIDF  K + L+D   +LQ+W
Sbjct: 15 RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLW 70

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 40/56 (71%)
Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + +K++ LG+ +VGKT ++ RF  +++ +TY +TIGIDF  K + L+D   +LQ+W
Sbjct: 12 RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLW 67

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 24/61 (39%), Positives = 39/61 (63%)
Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          M D +  +KI+++G++ VGKTC+V RF    +     +TIG+DF  K ++++    KLQI
Sbjct: 20 MEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQI 79
Query: 61 W 61
          W
Sbjct: 80 W 80

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 38/55 (69%), Gaps = 3/55 (5%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDF--KQKIIDLDDVPTKLQIW 61
          K+++LGDS VGKT ++HR+ ++ Y   Y +TIG DF  K+  +D D V T +Q+W
Sbjct: 10 KVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVAT-MQVW 63

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 52.0 bits (123), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 36/53 (67%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +++++G   VGKT ++ RF D+T+ +   ST+G+DFK K ++L     +LQIW
Sbjct: 28 QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIW 80

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 38/54 (70%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K +++GD+ VGK+C++ +F D+ +   +  TIG++F  +++++D    KLQIW
Sbjct: 22 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIW 75

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 36/54 (66%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K +++GD  VGK+C++H+F ++ +      TIG++F  +II++     KLQIW
Sbjct: 31 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIW 84

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 36/54 (66%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K +++GD  VGK+C++H+F ++ +      TIG++F  +II++     KLQIW
Sbjct: 16 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIW 69

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K LV+G +  GK+C++H+F +  +      TIG++F  +++++     KLQIW
Sbjct: 26 FKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIW 79

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 20/57 (35%), Positives = 35/57 (61%)
Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           + YKI++ GD+ VGK+  + R C   + +   +T+G+DF+ K + +D   T LQ+W
Sbjct: 26 QKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLW 82

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 37/54 (68%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K +++GD+ VGK+C++ +F D+ +   +  TIG++F  ++I +D    KLQIW
Sbjct: 11 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIW 64

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 35/61 (57%)
Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          M D N  +K++++G+S VGKT ++ RF    +     +TIG++F  + + L     K QI
Sbjct: 4  MEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQI 63
Query: 61 W 61
          W
Sbjct: 64 W 64

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 37/53 (69%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K+++LGDS VGKT +++++ ++ + + Y +TIG DF  K + +DD    +QIW
Sbjct: 10 KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIW 62

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 37/53 (69%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K+++LGDS VGKT +++++ ++ + + Y +TIG DF  K + +DD    +QIW
Sbjct: 10 KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIW 62

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 37/53 (69%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K+++LGDS VGKT +++++ ++ + + Y +TIG DF  K + +DD    +QIW
Sbjct: 10 KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIW 62

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 37/53 (69%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K+++LGDS VGKT +++++ ++ + + Y +TIG DF  K + +DD    +QIW
Sbjct: 10 KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIW 62

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 30/41 (73%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKII 49
          K+L LGDS VGKT  ++R+ D  +   +I+T+GIDF++K +
Sbjct: 27 KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRV 67

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 48.9 bits (115), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 34/59 (57%)
Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D N  +K++++G+S VGKT ++ RF    +     +TIG++F  + + L     K QIW
Sbjct: 21 DYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIW 79

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 48.9 bits (115), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 30/41 (73%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKII 49
          K+L LGDS VGKT  ++R+ D  +   +I+T+GIDF++K +
Sbjct: 13 KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRV 53

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 30/41 (73%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKII 49
          K+L LGDS VGKT  ++R+ D  +   +I+T+GIDF++K +
Sbjct: 13 KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRV 53

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 7  FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

>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 = 48.5 bits (114), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 30/41 (73%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKII 49
          K+L LGDS VGKT  ++R+ D  +   +I+T+GIDF++K +
Sbjct: 13 KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRV 53

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 30/41 (73%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKII 49
          K+L LGDS VGKT  ++R+ D  +   +I+T+GIDF++K +
Sbjct: 13 KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRV 53

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 7  FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 7  FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 36/54 (66%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +KI+++GDS VGK+ ++ RF  + +     STIG++F  + I++++   K QIW
Sbjct: 11 FKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIW 64

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 4  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIW 57

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 8  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 61

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 6  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIW 59

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 7  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 6  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 59

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 8  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 61

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 7  FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 9  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIW 62

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 35/55 (63%)
Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          ++K+++LG+  VGKT +V R+C+  + D +I+T+G  F  K +++      L IW
Sbjct: 6  SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIW 60

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/51 (41%), Positives = 35/51 (68%), Gaps = 2/51 (3%)
Query: 1  MADCNQTY--KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKII 49
          M+D +  Y  K L LGDS VGKT +++++ D  +   +I+T+GIDF++K +
Sbjct: 3  MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRV 53

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 34/53 (64%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K++V+G+  VGK+ ++ R+C   +   Y  TIG+DF ++ I ++D   +L +W
Sbjct: 7  KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLW 59

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 7  FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 33/54 (61%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GDS VGK+ ++ RF    +     STIG++F  + I +D    K QIW
Sbjct: 21 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW 74

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 33/54 (61%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GDS VGK+ ++ RF    +     STIG++F  + I +D    K QIW
Sbjct: 30 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW 83

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 33/54 (61%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GDS VGK+ ++ RF    +     STIG++F  + I +D    K QIW
Sbjct: 30 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW 83

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 33/54 (61%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GDS VGK+ ++ RF    +     STIG++F  + I +D    K QIW
Sbjct: 9  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW 62

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 34/54 (62%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +KI+++GDS VGK+ ++ RF    +     STIG++F  + ++++    K QIW
Sbjct: 14 FKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIW 67

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 33/54 (61%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GDS VGK+ ++ RF    +     STIG++F  + I +D    K QIW
Sbjct: 6  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW 59

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 33/54 (61%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GDS VGK+ ++ RF    +     STIG++F  + I +D    K QIW
Sbjct: 6  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW 59

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 33/54 (61%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GDS VGK+ ++ RF    +     STIG++F  + I +D    K QIW
Sbjct: 12 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW 65

>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 = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 36/61 (59%)
Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          MA  +  +K+++LGD  VGK+ +++R+    +      TIG++F  K +++D     +QI
Sbjct: 3  MAGKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQI 62
Query: 61 W 61
          W
Sbjct: 63 W 63

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 33/54 (61%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STI   F  + + LDD   K +IW
Sbjct: 6  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIW 59

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 36/61 (59%)
Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          MA  +  +K+++LGD  VGK+ +++R+    +      TIG++F  K +++D     +QI
Sbjct: 1  MAGKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQI 60
Query: 61 W 61
          W
Sbjct: 61 W 61

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 34/55 (61%)
Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          ++K+++LG+  VGKT +V R+C+  + D +I+T+   F  K +++      L IW
Sbjct: 20 SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIW 74

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 34/55 (61%)
Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          ++K+++LG+  VGKT +V R+C+  + D +I+T+   F  K +++      L IW
Sbjct: 6  SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIW 60

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 35/60 (58%)
Query: 2  ADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          A  +  +KI++LGD  VGK+ +++R+    +      TIG++F  K +++D     +QIW
Sbjct: 6  AGKSSLFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIW 65

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 35/55 (63%), Gaps = 1/55 (1%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDL-DDVPTKLQIW 61
          +KI+++GDS VGK+ ++ RF  + +     STIG++F  K I L ++   K QIW
Sbjct: 8  FKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIW 62

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 31/53 (58%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K+++LGD   GK+ +V RF  + + +   STIG  F  + + ++D   K +IW
Sbjct: 14 KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIW 66

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDL-DDVPTKLQIW 61
          KI+VLGD   GKT +   F  ET+   Y  TIG+DF  + I L  ++   LQIW
Sbjct: 8  KIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIW 61

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 17/53 (32%), Positives = 32/53 (60%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K+++LGD  VGK+ +++R+    +      TIG++F  + +++D     LQIW
Sbjct: 9  KVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIW 61

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 32/55 (58%)
Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + K+++LG++ VGK+ IV RF    + +    TIG  F  + + +++   K +IW
Sbjct: 3  SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIW 57

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 13 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 66

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 16 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 69

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 11 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 64

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 4  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 57

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 11 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 64

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 11 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 64

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 11 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 64

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 7  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 60

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 11 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 64

>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 = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 11 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 64

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 11 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 64

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 19/53 (35%), Positives = 29/53 (54%)
Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K+ +LGD+ VGK+ IV RF ++++      TIG  F  K +   +   K  IW
Sbjct: 7  KVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIW 59

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 27/54 (50%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y+ T+G++    +   +  P K  +W
Sbjct: 11 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVW 64

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 17/46 (36%), Positives = 31/46 (67%)
Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDL 51
           +YK ++LG+S+VGK+ IV R   +T+++   +TIG  F   +++L
Sbjct: 6  SSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNL 51

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 27/54 (50%)
Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y+ T+G++    +   +  P K  +W
Sbjct: 11 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVW 64

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	75
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	2e-26
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	2e-26
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	2e-26
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	3e-26
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	3e-26
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	4e-26
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	5e-26
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	5e-26
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	7e-26
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	9e-26
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	1e-25
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	1e-25
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-25
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	2e-25
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	2e-25
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	2e-25
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	2e-25
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	2e-25
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	2e-25
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	3e-25
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	3e-25
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	3e-25
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	4e-25
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	4e-25
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	4e-25
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	6e-25
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	6e-25
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	6e-25
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	7e-25
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	7e-25
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	8e-25
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-24
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	1e-24
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-24
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	1e-24
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	2e-24
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	3e-24
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	6e-24
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-23
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	3e-23
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	3e-23
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	4e-23
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	6e-23
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	1e-22
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	2e-22
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	6e-21
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	9e-21
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	3e-20
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	4e-20
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	5e-20
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	6e-20
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	1e-19
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	1e-19
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	1e-19
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	1e-19
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	2e-19
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	2e-19
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	2e-19
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	4e-19
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	4e-19
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	4e-19
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	5e-19
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	3e-18
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	1e-17
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	2e-17
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	2e-17
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	4e-17
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	3e-15
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	5e-15
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	2e-13
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-12
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	3e-11
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	1e-10
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	3e-10
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	3e-10
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	5e-10
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	7e-10
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	3e-09
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	3e-09
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	8e-09
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	1e-08
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	2e-08
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	2e-08
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	2e-07
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	9e-05
2ged_A	193	SR-beta, signal recognition particle receptor beta	2e-04
1nrj_B	218	SR-beta, signal recognition particle receptor beta	4e-04
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	7e-04
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	8e-04
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	8e-04

>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 = 94.7 bits (236), Expect = 2e-26
 Identities = 20/54 (37%), Positives = 34/54 (62%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          YKI++ GD+ VGK+  + R C   + +   +T+G+DF+ K + +D   T LQ+W
Sbjct: 29 YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLW 82

>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 = 93.7 bits (234), Expect = 2e-26
 Identities = 19/61 (31%), Positives = 36/61 (59%)

Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          MA  +  +K+++LGD  VGK+ +++R+    +      TIG++F  K +++D     +QI
Sbjct: 1  MAGKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQI 60

Query: 61 W 61
          W
Sbjct: 61 W 61

>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 = 94.2 bits (235), Expect = 2e-26
 Identities = 25/65 (38%), Positives = 40/65 (61%), Gaps = 4/65 (6%)

Query: 1  MADCNQTY----KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPT 56
            D ++ Y    K++++GD++VGKTC+V RF    + +   STIG+DF  K +++     
Sbjct: 19 SGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRV 78

Query: 57 KLQIW 61
          KLQIW
Sbjct: 79 KLQIW 83

>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 = 93.9 bits (234), Expect = 3e-26
 Identities = 34/65 (52%), Positives = 47/65 (72%), Gaps = 4/65 (6%)

Query: 1  MADCNQTY----KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPT 56
          M+  N  Y    K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    
Sbjct: 23 MSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTI 82

Query: 57 KLQIW 61
          KLQIW
Sbjct: 83 KLQIW 87

>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 = 93.8 bits (234), Expect = 3e-26
 Identities = 26/59 (44%), Positives = 43/59 (72%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
            ++ +KI+V+GDSNVGKTC+ +RFC   + D   +TIG+DF+++ +D+D    K+Q+W
Sbjct: 16 SRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLW 74

>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 = 93.5 bits (233), Expect = 4e-26
 Identities = 24/61 (39%), Positives = 39/61 (63%)

Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          M D +  +KI+++G++ VGKTC+V RF    +     +TIG+DF  K ++++    KLQI
Sbjct: 20 MEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQI 79

Query: 61 W 61
          W
Sbjct: 80 W 80

>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 = 92.6 bits (230), Expect = 5e-26
 Identities = 17/55 (30%), Positives = 32/55 (58%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + K+++LG++ VGK+ IV RF    + +    TIG  F  + + +++   K +IW
Sbjct: 3  SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIW 57

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 93.5 bits (233), Expect = 5e-26
 Identities = 34/65 (52%), Positives = 47/65 (72%), Gaps = 4/65 (6%)

Query: 1  MADCNQTY----KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPT 56
          M+  N  Y    K+L++GDS VGK+C++ RF D+TY ++YISTIG+DFK + I+LD    
Sbjct: 6  MSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTI 65

Query: 57 KLQIW 61
          KLQIW
Sbjct: 66 KLQIW 70

>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 = 92.2 bits (230), Expect = 7e-26
 Identities = 18/54 (33%), Positives = 34/54 (62%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           K++V+G+  VGK+ ++ R+C   +   Y  TIG+DF ++ I ++D   +L +W
Sbjct: 6  IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLW 59

>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 = 93.2 bits (232), Expect = 9e-26
 Identities = 26/54 (48%), Positives = 41/54 (75%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           KIL++GDS VGK+C++ RF ++ +  ++I+TIGIDFK K +D++    KLQ+W
Sbjct: 21 MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLW 74

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 92.2 bits (230), Expect = 1e-25
 Identities = 26/59 (44%), Positives = 43/59 (72%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D +  +K+L++GDS VGK+ ++ RF D T+  +YI+TIG+DFK + ++++    KLQIW
Sbjct: 5  DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIW 63

>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 = 91.4 bits (228), Expect = 1e-25
 Identities = 18/55 (32%), Positives = 29/55 (52%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
            K+ +LGD+ VGK+ I+ RF ++++      TIG  F  K +   +   K  IW
Sbjct: 6  ELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIW 60

>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 = 91.9 bits (229), Expect = 1e-25
 Identities = 24/59 (40%), Positives = 41/59 (69%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + +  +K+L++G+S+VGKT  + R+ D+T+   ++ST+GIDFK K +   +   KLQIW
Sbjct: 19 NFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIW 77

>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 = 91.5 bits (228), Expect = 2e-25
 Identities = 30/54 (55%), Positives = 42/54 (77%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGKTC++ RF ++ +  T+ISTIGIDFK + I+LD    KLQIW
Sbjct: 9  FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIW 62

>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 = 91.9 bits (229), Expect = 2e-25
 Identities = 19/54 (35%), Positives = 27/54 (50%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           K+ +LGD+ VGK+ IV RF  + +      TIG  F  K +   +   K  IW
Sbjct: 24 LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIW 77

>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 = 91.5 bits (228), Expect = 2e-25
 Identities = 24/54 (44%), Positives = 39/54 (72%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++G+S+VGKT  + R+ D+++   ++ST+GIDFK K +   D   KLQIW
Sbjct: 23 FKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIW 76

>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 = 91.5 bits (228), Expect = 2e-25
 Identities = 21/54 (38%), Positives = 36/54 (66%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           +++++G   VGKT ++ RF D+T+ +   ST+G+DFK K ++L     +LQIW
Sbjct: 27 LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIW 80

>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 = 91.0 bits (227), Expect = 2e-25
 Identities = 21/55 (38%), Positives = 34/55 (61%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 6  QFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

>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 = 91.5 bits (228), Expect = 2e-25
 Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 4/65 (6%)

Query: 1  MADCNQTY----KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPT 56
          M   +  Y    K++++GDS VGK+ ++ RF    +     STIG++F  + I +D    
Sbjct: 19 MGTRDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTI 78

Query: 57 KLQIW 61
          K QIW
Sbjct: 79 KAQIW 83

>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 = 90.6 bits (226), Expect = 3e-25
 Identities = 19/54 (35%), Positives = 34/54 (62%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+  VGKT +V R+C+  + D +I+T+G  F  K +++      L IW
Sbjct: 7  FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIW 60

>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 = 91.1 bits (227), Expect = 3e-25
 Identities = 18/54 (33%), Positives = 31/54 (57%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           K+++LGD   GK+ +V RF  + + +   STIG  F  + + ++D   K +IW
Sbjct: 13 AKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIW 66

>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 = 91.2 bits (227), Expect = 3e-25
 Identities = 26/54 (48%), Positives = 40/54 (74%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +KIL++G+S+VGKT  + R+ D+++   ++ST+GIDFK K I  +D   KLQIW
Sbjct: 9  FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIW 62

>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 = 91.2 bits (227), Expect = 4e-25
 Identities = 30/59 (50%), Positives = 45/59 (76%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + +  +K+L++G+S VGK+C++ RF D+TY + YISTIG+DFK K ++LD    KLQIW
Sbjct: 4  EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIW 62

>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 = 91.2 bits (227), Expect = 4e-25
 Identities = 27/59 (45%), Positives = 38/59 (64%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D   T KIL++G+S VGK+ ++ RF D+T+     +TIG+DFK K I +D    KL IW
Sbjct: 11 DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIW 69

>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 = 90.3 bits (225), Expect = 4e-25
 Identities = 27/54 (50%), Positives = 41/54 (75%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           KIL++GDS VGK+C++ RF ++ +  ++I+TIGIDFK K +D++    KLQIW
Sbjct: 4  MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIW 57

>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 = 89.9 bits (224), Expect = 6e-25
 Identities = 23/61 (37%), Positives = 41/61 (67%)

Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
            +  + +K++ LG+ +VGKT ++ RF  +++ +TY +TIGIDF  K + L+D   +LQ+
Sbjct: 8  FGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQL 67

Query: 61 W 61
          W
Sbjct: 68 W 68

>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 = 90.4 bits (225), Expect = 6e-25
 Identities = 18/54 (33%), Positives = 34/54 (62%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K LV+G +  GK+C++H+F +  +      TIG++F  +++++     KLQIW
Sbjct: 26 FKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIW 79

>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 = 90.3 bits (225), Expect = 6e-25
 Identities = 19/54 (35%), Positives = 38/54 (70%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K +++GD+ VGK+C++ +F D+ +   +  TIG++F  +++++D    KLQIW
Sbjct: 22 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIW 75

>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 = 90.8 bits (226), Expect = 7e-25
 Identities = 22/62 (35%), Positives = 39/62 (62%), Gaps = 1/62 (1%)

Query: 1  MADCNQT-YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQ 59
          M    +   K+++LGDS VGKT +++++ ++ + + Y +TIG DF  K + +DD    +Q
Sbjct: 1  MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQ 60

Query: 60 IW 61
          IW
Sbjct: 61 IW 62

>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 = 89.9 bits (224), Expect = 7e-25
 Identities = 22/59 (37%), Positives = 38/59 (64%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
            +  +K LV+G++  GK+C++H+F ++ + D    TIG++F  KII++     KLQIW
Sbjct: 6  TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW 64

>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 = 90.5 bits (225), Expect = 8e-25
 Identities = 23/54 (42%), Positives = 39/54 (72%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++ LG+ +VGKT ++ RF  +++ +TY +TIGIDF  K + L+D   +LQ+W
Sbjct: 17 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLW 70

>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 = 89.6 bits (223), Expect = 1e-24
 Identities = 20/54 (37%), Positives = 36/54 (66%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K +++GD  VGK+C++H+F ++ +      TIG++F  +II++     KLQIW
Sbjct: 16 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIW 69

>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 = 90.0 bits (224), Expect = 1e-24
 Identities = 18/54 (33%), Positives = 32/54 (59%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++G+S VGKT ++ RF    +     +TIG++F  + + L     K QIW
Sbjct: 26 FKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIW 79

>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 = 90.5 bits (225), Expect = 1e-24
 Identities = 20/59 (33%), Positives = 36/59 (61%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D +  +KI+++GDS VGK+ ++ RF    +     STIG++F  + ++++    K QIW
Sbjct: 9  DYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIW 67

>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 = 89.1 bits (222), Expect = 1e-24
 Identities = 24/61 (39%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 2  ADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPT-KLQI 60
              +  KI+VLGD   GKT +   F  ET+   Y  TIG+DF  + I L       LQI
Sbjct: 1  GSHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQI 60

Query: 61 W 61
          W
Sbjct: 61 W 61

>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 = 88.8 bits (221), Expect = 2e-24
 Identities = 28/62 (45%), Positives = 45/62 (72%), Gaps = 1/62 (1%)

Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQ 59
          +   +  +K++++GDS VGKTC++ RF D  +   T+IST+GIDF+ K++D+D V  KLQ
Sbjct: 4  VDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQ 63

Query: 60 IW 61
          +W
Sbjct: 64 MW 65

>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 = 88.9 bits (221), Expect = 3e-24
 Identities = 20/54 (37%), Positives = 33/54 (61%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GDS VGK+ ++ RF    +     STIG++F  + I +D    K QIW
Sbjct: 6  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW 59

>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 = 87.6 bits (218), Expect = 6e-24
 Identities = 23/63 (36%), Positives = 38/63 (60%), Gaps = 2/63 (3%)

Query: 1  MADCNQT-YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPT-KL 58
          M+   +   K+++LGDS VGKT ++HR+ ++ Y   Y +TIG DF  K + +D      +
Sbjct: 1  MSSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATM 60

Query: 59 QIW 61
          Q+W
Sbjct: 61 QVW 63

>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 = 87.8 bits (218), Expect = 1e-23
 Identities = 14/55 (25%), Positives = 28/55 (50%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 15 QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 69

>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 = 86.1 bits (214), Expect = 3e-23
 Identities = 11/60 (18%), Positives = 26/60 (43%)

Query: 2  ADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             +  +K++++G+S VGK+ +   F        +      D  ++ I +D     L ++
Sbjct: 18 GQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVY 77

>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 = 86.6 bits (215), Expect = 3e-23
 Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 10/69 (14%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPT------ 56
          D +   K+L LGDS VGKT  ++R+ D  +   +I+T+GIDF++K +  +          
Sbjct: 21 DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGK 80

Query: 57 ----KLQIW 61
               LQ+W
Sbjct: 81 AFKVHLQLW 89

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 86.2 bits (214), Expect = 4e-23
 Identities = 11/57 (19%), Positives = 28/57 (49%), Gaps = 2/57 (3%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDE--TYYDTYISTIGIDFKQKIIDLDDVPTKLQIWT 62
           K+ V+G++ VGK+ ++  F  +   +   Y  T G++     + + D    ++++ 
Sbjct: 21 CKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFL 77

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 84.9 bits (211), Expect = 6e-23
 Identities = 11/54 (20%), Positives = 25/54 (46%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++G+S VGK+ +   F        +      D  ++ I +D     L ++
Sbjct: 3  FKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVY 56

>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 = 84.6 bits (210), Expect = 1e-22
 Identities = 24/73 (32%), Positives = 39/73 (53%), Gaps = 12/73 (16%)

Query: 1  MADCNQTY--KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPT-- 56
          M+D +  Y  K L LGDS VGKT +++++ D  +   +I+T+GIDF++K +         
Sbjct: 3  MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDG 62

Query: 57 --------KLQIW 61
                   LQ+W
Sbjct: 63 AVGRGQRIHLQLW 75

>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 = 84.7 bits (210), Expect = 2e-22
 Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIG-IDFKQKIIDLDDVPTKLQ 59
          M     TYKI ++GD  VGKT  ++R  D  +   Y +T+G ++     +D      K  
Sbjct: 5  MERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFN 64

Query: 60 IW 61
          +W
Sbjct: 65 VW 66

>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 = 80.4 bits (199), Expect = 6e-21
 Identities = 22/61 (36%), Positives = 34/61 (55%), Gaps = 1/61 (1%)

Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          M + +  Y+++V G   VGK+ +V RF   T+ DTYI TI   ++ ++I  D     LQI
Sbjct: 2  MPEQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQI 60

Query: 61 W 61
           
Sbjct: 61 T 61

>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 = 79.5 bits (197), Expect = 9e-21
 Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          ++T+K++V+G   VGK+ +  +F    +   Y  TI  D   KI  +D +P +L I 
Sbjct: 7  SETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDIL 62

>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 = 78.0 bits (193), Expect = 3e-20
 Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           TYK++V+GD  VGK+ +  +F  + + D Y  TI  D   K  ++D+    L + 
Sbjct: 17 PTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTEIDNQWAILDVL 71

>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 = 77.6 bits (192), Expect = 4e-20
 Identities = 17/57 (29%), Positives = 32/57 (56%), Gaps = 1/57 (1%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +++ KI +LG  +VGK+ +  +F +  + D+Y  TI   F  K+I ++     LQ+ 
Sbjct: 4  SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLV 59

>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 = 77.1 bits (191), Expect = 5e-20
 Identities = 21/54 (38%), Positives = 33/54 (61%), Gaps = 1/54 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          YK++VLG   VGK+ +  +F   T+ + Y  TI  DF +K I++D  P+ L+I 
Sbjct: 4  YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEIL 56

>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 = 77.3 bits (191), Expect = 6e-20
 Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 1/55 (1%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           YK++V+G   VGK+ +  +     + D Y  TI   ++ K + +D     L I 
Sbjct: 21 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDIL 74

>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 = 76.4 bits (189), Expect = 1e-19
 Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +  Y++ V G   VGK+ +V RF   T+ ++YI T+   ++ ++I  D     LQI 
Sbjct: 1  SNDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQIT 56

>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 = 76.4 bits (189), Expect = 1e-19
 Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 1/55 (1%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           YK++V+G   VGK+ +  +     + D    TI   ++ K + +D     L I 
Sbjct: 3  EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYR-KQVVIDGETCLLDIL 56

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 76.9 bits (190), Expect = 1e-19
 Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           K+++LG   VGKT + H+F +  + + Y  T+   +  KI+ L      L + 
Sbjct: 25 RKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYS-KIVTLGKDEFHLHLV 77

>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 = 76.6 bits (189), Expect = 1e-19
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 5/59 (8%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDT--YISTIGIDFKQKIIDLDDVPT---KLQIW 61
           K++++G++  GKT ++ +       D     +T+GID K   I + D       L +W
Sbjct: 3  MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVW 61

>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 = 76.5 bits (189), Expect = 2e-19
 Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +  YK++V+G   VGK+ +  +     + D Y  TI   ++ K + +D     L I 
Sbjct: 2  STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDIL 57

>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 = 76.1 bits (188), Expect = 2e-19
 Identities = 12/54 (22%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++G   VGK+ +  +F  + + + Y  T    ++ K + LD    ++ I 
Sbjct: 19 HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDIL 71

>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 = 75.6 bits (187), Expect = 2e-19
 Identities = 12/54 (22%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++G   VGK+ +  +F  + + + Y  T    ++ K + LD    ++ I 
Sbjct: 5  HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDIL 57

>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 = 75.7 bits (187), Expect = 4e-19
 Identities = 13/54 (24%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           K+ + G + VGK+ +V RF  + +   Y  T+   ++     +DD    ++I 
Sbjct: 29 VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEIL 81

>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 = 75.0 bits (185), Expect = 4e-19
 Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           ++ VLGD+  GK+ ++HRF   + Y     T    +K K + +D     + I 
Sbjct: 8  LRLGVLGDARSGKSSLIHRFLTGS-YQVLEKTESEQYK-KEMLVDGQTHLVLIR 59

>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 = 75.7 bits (187), Expect = 4e-19
 Identities = 12/56 (21%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
            +K++++G   VGK+ +  +F  + + + Y  T    ++ K + LD    ++ I 
Sbjct: 13 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDIL 67

>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 = 74.5 bits (184), Expect = 5e-19
 Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          YK++VLG   VGK+ +  +F    + + Y  TI   ++ K +++D     L+I 
Sbjct: 4  YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEIL 56

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 73.7 bits (181), Expect = 3e-18
 Identities = 19/60 (31%), Positives = 36/60 (60%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWT 62
          +   +YK ++LG+S+VGK+ IV R   +T+++   +TIG  F   +++L+D+  K     
Sbjct: 3  EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNN 62

>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 = 71.0 bits (175), Expect = 1e-17
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 2/54 (3%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          YK+L+LG   VGK+ +   F             G  +  + I +D     L ++
Sbjct: 3  YKVLLLGAPGVGKSALARIFGG-VEDGPEAEAAGHTYD-RSIVVDGEEASLMVY 54

>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 = 71.1 bits (175), Expect = 2e-17
 Identities = 9/54 (16%), Positives = 21/54 (38%), Gaps = 1/54 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
            + +LG    GK+ +  +F  + +   Y   +   +      +D  P  L++ 
Sbjct: 22 VNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYS-SEETVDHQPVHLRVM 74

>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 = 70.7 bits (174), Expect = 2e-17
 Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          Y++++LGD  VGKT +   F  +   D +   +G D  ++ + +D   T L + 
Sbjct: 5  YRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVV 57

>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 = 69.9 bits (172), Expect = 4e-17
 Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 2/56 (3%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             K+ ++G+ + GK+ +VHR+   TY     S  G  FK K I +D     L I 
Sbjct: 19 PELKVGIVGNLSSGKSALVHRYLTGTYVQEE-SPEGGRFK-KEIVVDGQSYLLLIR 72

>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 = 65.4 bits (160), Expect = 3e-15
 Identities = 12/58 (20%), Positives = 28/58 (48%), Gaps = 4/58 (6%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETY-YDTYISTIGIDFKQKIIDLDDVPT---KLQIW 61
          Y+++++G+  VGK+ + + F       D+    +G D  ++ + +D        L +W
Sbjct: 7  YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMW 64

>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 = 65.0 bits (159), Expect = 5e-15
 Identities = 12/58 (20%), Positives = 28/58 (48%), Gaps = 4/58 (6%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETY-YDTYISTIGIDFKQKIIDLDDVPT---KLQIW 61
          Y+++++G+  VGK+ + + F       D+    +G D  ++ + +D        L +W
Sbjct: 38 YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMW 95

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 62.3 bits (151), Expect = 2e-13
 Identities = 13/68 (19%), Positives = 22/68 (32%), Gaps = 8/68 (11%)

Query: 2   ADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPT----- 56
               Q  K+ ++GD   GKT ++ +   ET+      T G++   K              
Sbjct: 36  LVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDEL 95

Query: 57  ---KLQIW 61
                  W
Sbjct: 96  KECLFHFW 103

>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 = 58.1 bits (141), Expect = 2e-12
 Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 1  MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
          + +  +  KI+V+GD  VGKTC++  F        Y+ T+  +F   ++   +    L +
Sbjct: 17 IENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHL 75

Query: 61 W 61
          W
Sbjct: 76 W 76

>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 = 55.2 bits (133), Expect = 3e-11
 Identities = 14/56 (25%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          ++ K++++GD   GKT ++  F D  + ++Y  T+   +    + +   P  L IW
Sbjct: 33 RSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYM-VNLQVKGKPVHLHIW 87

>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 = 53.6 bits (129), Expect = 1e-10
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          Q  K +V+GD  VGKTC++  +    +   YI T+  D     + +D  P  L +W
Sbjct: 29 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLW 83

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 52.4 bits (126), Expect = 3e-10
 Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +  K +++GD  VGKT +V  +    Y   YI T   D    ++ +D  P +LQ+ 
Sbjct: 19 RGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAVVSVDGRPVRLQLC 73

>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 = 52.0 bits (125), Expect = 3e-10
 Identities = 14/57 (24%), Positives = 29/57 (50%), Gaps = 1/57 (1%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          ++  K + +GD  VGKTC++  +   T+   Y+ T+  +F    + ++     L +W
Sbjct: 6  SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLW 61

>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 = 51.7 bits (124), Expect = 5e-10
 Identities = 14/53 (26%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K++++GD   GKTC++  F  + + + Y+ T+  +     I++D    +L +W
Sbjct: 27 KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVDGKQVELALW 78

>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 = 51.3 bits (123), Expect = 7e-10
 Identities = 15/56 (26%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             K++V+GD   GKTC++  F  + + + Y+ T+  ++   I  +D    +L +W
Sbjct: 24 IRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVADIE-VDGKQVELALW 78

>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 = 49.7 bits (119), Expect = 3e-09
 Identities = 16/53 (30%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          KI+V+GDS  GKT ++H F  + + + Y+ T+  ++      +D    +L +W
Sbjct: 30 KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFE-IDTQRIELSLW 81

>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 = 49.3 bits (118), Expect = 3e-09
 Identities = 16/53 (30%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          KI+V+GDS  GKT ++H F  + + + Y+ T+  ++     ++D    +L +W
Sbjct: 9  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLW 60

>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 = 48.2 bits (115), Expect = 8e-09
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          Q  K +V+GD  VGKTC++  +    +   YI T+  D     + +D  P  L +W
Sbjct: 4  QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLW 58

>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 = 47.9 bits (114), Expect = 1e-08
 Identities = 12/56 (21%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             K++++GD   GKT ++     + Y +TY+ T+  ++    ++ ++   +L +W
Sbjct: 26 ARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLW 80

>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 = 47.7 bits (114), Expect = 2e-08
 Identities = 15/56 (26%), Positives = 26/56 (46%), Gaps = 1/56 (1%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +  K + +GD  VGKTC++  +    +   YI T+  D     + +D     L +W
Sbjct: 8  KFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVAVDGQIVNLGLW 62

>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 = 47.5 bits (113), Expect = 2e-08
 Identities = 13/57 (22%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
              K +V+GD  VGKTC++  + ++ + + Y+ T+  D     + +      L ++
Sbjct: 16 ALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLY 71

>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 = 45.4 bits (107), Expect = 2e-07
 Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 13/59 (22%)

Query: 7  TYKILVLGDS---------NVGKTCIVHRFC---DETYYDTYISTIG-IDFKQKIIDLD 52
          TY I V+G S          +GK+C+ +RF     + ++  + S +   DF  ++++ D
Sbjct: 19 TYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNND 77

>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 = 37.4 bits (87), Expect = 9e-05
 Identities = 12/68 (17%), Positives = 23/68 (33%), Gaps = 11/68 (16%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDT----------YISTIGIDFKQ-KIIDLDDVP 55
           +KI+  G    GKT  +     +                  T+  DF    I ++    
Sbjct: 14 NFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFK 73

Query: 56 TKLQIWTL 63
          T+  ++T+
Sbjct: 74 TRFHLYTV 81

>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 = 36.6 bits (85), Expect = 2e-04
 Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 5/51 (9%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIG----IDFKQKIIDLDDVP 55
           I++ G  N GKT ++     ++   T + +       D+    + L D P
Sbjct: 50 SIIIAGPQNSGKTSLLTLLTTDSVRPT-VVSQEPLSAADYDGSGVTLVDFP 99

>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 = 35.5 bits (82), Expect = 4e-04
 Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 5/50 (10%)

Query: 10 ILVLGDSNVGKTCIVHRFCDETYYDTYISTIG----IDFKQKIIDLDDVP 55
          I++ G  N GKT ++     ++   T + +       D+    + L D P
Sbjct: 15 IIIAGPQNSGKTSLLTLLTTDSVRPT-VVSQEPLSAADYDGSGVTLVDFP 63

>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 = 34.9 bits (81), Expect = 7e-04
 Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 5/57 (8%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +Q +K++++G  N GKT I+++F       T   TIG     + I +++   +  +W
Sbjct: 19 SQEHKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIG--SNVEEIVINNT--RFLMW 70

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 35.0 bits (80), Expect = 8e-04
 Identities = 12/55 (21%), Positives = 21/55 (38%), Gaps = 4/55 (7%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIG--IDFKQKIIDLDDVPTKLQIW 61
          K+L++G S  GK+ +        Y       +G  ID +   +        L +W
Sbjct: 5  KLLLMGRSGSGKSSMR-SIIFSNYSAFDTRRLGATIDVEHSHLRFLGN-MTLNLW 57

>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 = 34.5 bits (80), Expect = 8e-04
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 5/57 (8%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           +  +IL+LG    GKT I++R        T I TIG  F  + +   ++  K Q+W
Sbjct: 5  TREMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTYKNL--KFQVW 56

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	75
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.92
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.83
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.83
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.82
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.81
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.81
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.81
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.81
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.8
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.8
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.8
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.8
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.8
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.8
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.8
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.8
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.8
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.8
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.8
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.8
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.79
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.79
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.79
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.79
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.79
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.79
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.79
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.79
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.79
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.79
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.79
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.79
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.79
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.79
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.79
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.78
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.78
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.78
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.78
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.78
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.78
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.78
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.78
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.78
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.78
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.77
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.77
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.77
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.77
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.77
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.77
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.77
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.76
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.76
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.76
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.76
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.76
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.76
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.76
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.75
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.75
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.75
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.75
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.75
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.75
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.74
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.74
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.74
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.74
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.73
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.73
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.72
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.72
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.72
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.72
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.72
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.72
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.71
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.71
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.71
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.71
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.7
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.7
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.68
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.67
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.67
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.66
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.66
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.66
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.66
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.65
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.65
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.47
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.65
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.65
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.65
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.64
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.64
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.64
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.63
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.63
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.63
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.61
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.59
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.59
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.56
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.55
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.55
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.54
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.54
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.54
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.53
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.51
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.51
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.5
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.49
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.49
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.47
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.47
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.46
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.45
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.45
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.45
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.43
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.43
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.42
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.41
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.4
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.38
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.37
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.37
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.34
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.32
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.31
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.31
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.29
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.24
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.22
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.22
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.22
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.2
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.2
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.2
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.17
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.16
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.16
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.14
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.14
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.14
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.12
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.11
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.1
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.07
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.07
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.05
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.04
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.03
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.03
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.03
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.03
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.02
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.01
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.01
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	98.99
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	98.99
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	98.99
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	98.98
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.97
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.95
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.94
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	98.94
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.93
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	98.93
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	98.92
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	98.91
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.91
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	98.89
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.88
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.88
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.87
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	98.87
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	98.87
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	98.85
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.84
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	98.83
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	98.83
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	98.83
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	98.81
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	98.79
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.76
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.73
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	98.67
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	98.62
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	98.62
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.61
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.47
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.4
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.39
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.37
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	98.36
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.21
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.2
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.09
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	98.02
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.98
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.97
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.92
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.92
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.91
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.89
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.88
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.88
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.85
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.85
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.84
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.83
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	97.81
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.8
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.79
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.77
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.77
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.76
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.76
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.75
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.75
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.74
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.74
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.73
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.73
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.73
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.73
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.72
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.72
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.71
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.7
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	97.69
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.69
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.69
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.68
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.68
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.67
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.67
1b0u_A	262	Histidine permease; ABC transporter, transport pro	97.67
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.66
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.66
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	97.65
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.65
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	97.65
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.65
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.64
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.64
1g6h_A	257	High-affinity branched-chain amino acid transport	97.64
1sgw_A	214	Putative ABC transporter; structural genomics, P p	97.63
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.63
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.63
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	97.63
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.63
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.63
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	97.62
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	97.62
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.62
1ji0_A	240	ABC transporter; ATP binding protein, structural g	97.62
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.62
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	97.61
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.6
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.6
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	97.6
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.6
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	97.6
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	97.59
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	97.59
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	97.59
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.59
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	97.59
2ghi_A	260	Transport protein; multidrug resistance protein, M	97.58
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.58
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.58
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	97.57
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.57
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.57
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.57
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.56
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.55
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.55
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	97.55
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	97.55
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.55
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	97.55
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.53
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.53
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.52
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.52
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	97.52
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.52
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	97.51
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.5
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	97.5
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.5
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.5
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	97.5
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	97.49
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	97.49
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.49
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.48
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.48
1via_A	175	Shikimate kinase; structural genomics, transferase	97.48
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	97.48
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	97.47
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.47
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	97.46
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	97.46
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	97.46
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	97.46
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.46
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	97.46
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.45
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.45
3bos_A	242	Putative DNA replication factor; P-loop containing	97.45
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.45
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	97.45
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.45
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	97.45
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.44
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.44
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.44
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	97.44
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	97.44
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	97.44
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.44
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	97.43
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	97.43
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	97.43
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.43
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	97.42
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.42
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.42
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.42
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	97.41
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.41
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	97.41
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.4
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.4
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.4
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	97.39
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.39
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.39
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.39
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.38
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.38
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.38
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.38
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.37
3kta_A	182	Chromosome segregation protein SMC; structural mai	97.37
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.37
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	97.36
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.36
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.36
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.36
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.36
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.35
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	97.35
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.35
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	97.35
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.34
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.34
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.34
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.34
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.33
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	97.33
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.33
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.32
2og2_A	359	Putative signal recognition particle receptor; nuc	97.32
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	97.32
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	97.32
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	97.32
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.31
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	97.31
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	97.3
1p9r_A	418	General secretion pathway protein E; bacterial typ	97.3
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.3
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	97.29
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.29
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	97.28
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.27
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	97.27
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.26
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.26
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	97.26
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.26
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.25
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	97.24
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.24
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.24
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	97.23
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.22
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.22
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	97.21
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	97.2
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	97.2
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.2
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	97.2
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	97.2
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.2
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	97.2
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.2
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	97.18
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	97.18
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.18
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	97.18
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.18
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	97.17
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	97.16
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	97.16
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.16
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.16
2fna_A	357	Conserved hypothetical protein; structural genomic	97.16
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	97.16
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.15
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.13
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	97.13
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	97.12
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	97.12
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	97.12
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.12
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	97.11
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.11
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.09
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.09
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	97.08
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.08
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	97.08
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.07
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	97.05
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.05
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	97.04
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.04
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	97.04
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.04
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	97.04
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	97.02
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.02
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.01
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.01
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.0
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.0
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	97.0
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.99
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.99
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	96.99
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.99
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.98
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	96.98
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.98
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.97
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.96
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	96.96
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.96
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.95
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.94
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	96.94
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.93
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	96.89
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	96.89
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.89
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.89
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.88
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.88
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.88
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.87
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.87
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.87
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.87
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	96.85
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.84
2qgz_A	308	Helicase loader, putative primosome component; str	96.84
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	96.84
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	96.84
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.84
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	96.83
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	96.83
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.82
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	96.82
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.82
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.8
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.8
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	96.8
3pvs_A	447	Replication-associated recombination protein A; ma	96.79
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.79
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.79
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.79
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	96.78
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.78
3co5_A	143	Putative two-component system transcriptional RES	96.77
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.75
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.74
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.74
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	96.73
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.73
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	96.73
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.72

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=99.92  E-value=6.4e-25  Score=127.27  Aligned_cols=71  Identities=35%  Similarity=0.636  Sum_probs=55.1

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +.+++||+++|++|||||||+++|+.+.|...+.||++.++..+.+.+++..+.++||||+||++|+++.+
T Consensus        10 P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~   80 (216)
T 4dkx_A           10 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIP   80 (216)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHH
T ss_pred             CCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHH
Confidence            45679999999999999999999999999999999999999999999999999999999999999998753

>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=99.83  E-value=4.2e-20  Score=102.42  Aligned_cols=73  Identities=27%  Similarity=0.562  Sum_probs=62.0

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      |+.....+||+++|++|||||||++++..+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         1 m~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   73 (177)
T 1wms_A            1 MAGKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLR   73 (177)
T ss_dssp             -CCCEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHH
T ss_pred             CCCccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhH
Confidence            6677889999999999999999999999999888888999988888888889999999999999999887653

>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=99.83  E-value=3.8e-20  Score=105.71  Aligned_cols=73  Identities=33%  Similarity=0.624  Sum_probs=64.7

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      |.+.++.+||+++|++|||||||+++++.+.+...+.+|++.++..+.+.+++..+.+++||++|+++|+.+.
T Consensus        20 ~~~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~   92 (201)
T 2ew1_A           20 MEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSIT   92 (201)
T ss_dssp             --CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHH
T ss_pred             ccccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHH
Confidence            3456778999999999999999999999999988889999999988888899999999999999999987643

>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=99.82  E-value=9.9e-20  Score=103.46  Aligned_cols=73  Identities=42%  Similarity=0.825  Sum_probs=64.7

Q ss_pred             CC-CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          1 MA-DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         1 m~-~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      |+ +.++.+||+++|+++||||||++++..+.+...+.++++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         1 M~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   74 (206)
T 2bcg_Y            1 MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTIT   74 (206)
T ss_dssp             --CCCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCC
T ss_pred             CCcccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHH
Confidence            55 56778999999999999999999999999988888999888888888889999999999999999988754

>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=99.81  E-value=2e-19  Score=99.03  Aligned_cols=70  Identities=29%  Similarity=0.607  Sum_probs=57.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+.+||+++|++|||||||++++..+.+...+.++++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   72 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALG   72 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhH
Confidence            4678999999999999999999999999888888999988888888889999999999999999887664

>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=99.81  E-value=4.3e-20  Score=103.05  Aligned_cols=73  Identities=44%  Similarity=0.813  Sum_probs=41.2

Q ss_pred             CC-CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          1 MA-DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         1 m~-~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      |+ +.++.+||+++|+++||||||++++..+.+...+.|+++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         1 M~~~~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   74 (183)
T 2fu5_C            1 MAKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTIT   74 (183)
T ss_dssp             --CCCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------C
T ss_pred             CCcccCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhH
Confidence            53 45778999999999999999999999998888888999988888888889999999999999999987754

>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=99.81  E-value=2.8e-19  Score=99.01  Aligned_cols=71  Identities=34%  Similarity=0.625  Sum_probs=63.0

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ++...+||+++|++|||||||+++++.+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        10 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~   80 (179)
T 2y8e_A           10 NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI   80 (179)
T ss_dssp             --CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGS
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHH
Confidence            34567999999999999999999999999988888999988888888889999999999999999887654

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.81  E-value=2.1e-19  Score=98.70  Aligned_cols=70  Identities=26%  Similarity=0.627  Sum_probs=62.0

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+..+||+++|++|||||||++++..+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         2 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   71 (168)
T 1z2a_A            2 SEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAIT   71 (168)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCC
T ss_pred             CceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHH
Confidence            3568999999999999999999999999988888998888888888889999999999999999987654

>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=99.80  E-value=6.2e-19  Score=99.40  Aligned_cols=71  Identities=25%  Similarity=0.488  Sum_probs=61.2

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .....+||+++|++|||||||+++++.+.+...+.+|++..+. ..+.+++..+.+.+||++|+++|+.+..
T Consensus        19 ~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   89 (194)
T 3reg_A           19 NGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQEEYDRLRP   89 (194)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEEECCSGGGTTTGG
T ss_pred             ccceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEECCCcHHHHHHhH
Confidence            4567899999999999999999999999998889999987664 4677899999999999999999887653

>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=99.80  E-value=5.5e-19  Score=99.49  Aligned_cols=68  Identities=16%  Similarity=0.257  Sum_probs=56.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ....+||+++|++|||||||+++++.+.+...+.+|++..+ ...+.+++..+.+++||++|+++|+.+
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~   85 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC   85 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH
Confidence            45689999999999999999999999999888999998666 456678899999999999999998764

>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=99.80  E-value=2.1e-19  Score=102.25  Aligned_cols=70  Identities=33%  Similarity=0.648  Sum_probs=54.2

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+.+||+++|+++||||||++++..+.+...+.+|++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        26 ~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   95 (201)
T 2hup_A           26 YDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTIT   95 (201)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHH
T ss_pred             cccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHH
Confidence            4668999999999999999999999999988888999888888888889999999999999999987653

>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=99.80  E-value=3.9e-19  Score=100.12  Aligned_cols=71  Identities=27%  Similarity=0.612  Sum_probs=59.2

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +..+.+||+++|+++||||||+++++.+.+...+.++++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        17 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   87 (191)
T 2a5j_A           17 RGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSIT   87 (191)
T ss_dssp             TTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCC
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhH
Confidence            34678999999999999999999999999888888888888888888889999999999999999988754

>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=99.80  E-value=5.6e-19  Score=96.99  Aligned_cols=70  Identities=33%  Similarity=0.533  Sum_probs=63.0

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ....+||+++|+++||||||+++++.+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~   72 (170)
T 1r2q_A            3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLA   72 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGH
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhh
Confidence            3568999999999999999999999999988888999888888888889999999999999999987653

>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=99.80  E-value=6.9e-19  Score=99.04  Aligned_cols=70  Identities=30%  Similarity=0.591  Sum_probs=63.2

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+.+||+++|++|||||||+++++.+.+...+.++++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   91 (193)
T 2oil_A           22 YNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAIT   91 (193)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTH
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhh
Confidence            4668999999999999999999999999988888999888888888889999999999999999887653

>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=99.80  E-value=8.4e-19  Score=97.90  Aligned_cols=70  Identities=31%  Similarity=0.647  Sum_probs=63.2

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +.++.+||+++|+++||||||+++++.+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+
T Consensus         6 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   75 (186)
T 2bme_A            6 TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSV   75 (186)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHH
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHH
Confidence            3467899999999999999999999999998888899988888888888999999999999999988764

>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=99.80  E-value=5.5e-19  Score=99.01  Aligned_cols=70  Identities=26%  Similarity=0.514  Sum_probs=59.7

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .....+||+++|+++||||||++++..+.+...+.||.+..+ ...+.+++..+.+.+||++|+++|+.+.
T Consensus         3 ~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   72 (184)
T 1m7b_A            3 NQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVR   72 (184)
T ss_dssp             ---CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTG
T ss_pred             CCceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCChhhhhhH
Confidence            356789999999999999999999999999888889987665 4566778889999999999999988765

>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=99.80  E-value=7.4e-19  Score=96.51  Aligned_cols=68  Identities=26%  Similarity=0.537  Sum_probs=61.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.+||+++|++|||||||++++..+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~   69 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLA   69 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhh
Confidence            46899999999999999999999999888888999988888888889999999999999999887653

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.80  E-value=6.2e-19  Score=97.75  Aligned_cols=71  Identities=37%  Similarity=0.768  Sum_probs=61.4

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.+..+||+++|+++||||||++++..+.+...+.++.+.++....+..++..+.+.+||++|+++++.+.
T Consensus         5 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   75 (181)
T 3tw8_B            5 DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTIT   75 (181)
T ss_dssp             -CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCC
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhH
Confidence            45778999999999999999999999998888888999988888888889999999999999999887654

>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=99.80  E-value=7.5e-19  Score=99.58  Aligned_cols=71  Identities=31%  Similarity=0.572  Sum_probs=62.7

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .....+||+++|++|||||||++++..+.+...+.++++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   74 (207)
T 1vg8_A            4 RKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLG   74 (207)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSC
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhH
Confidence            35678999999999999999999999999888889999989888888888889999999999999987764

>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=99.80  E-value=1.1e-18  Score=95.99  Aligned_cols=70  Identities=29%  Similarity=0.527  Sum_probs=63.3

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+.+||+++|++|||||||++++..+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~   72 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALA   72 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGT
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhccc
Confidence            4568999999999999999999999999888889999988888888889999999999999999887654

>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=99.79  E-value=6.8e-19  Score=100.68  Aligned_cols=69  Identities=26%  Similarity=0.510  Sum_probs=59.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ....+||+++|+++||||||++++..+.+...+.+|++.++ ...+.+++..+.+.+||++|+++|+.+.
T Consensus        25 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   93 (205)
T 1gwn_A           25 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVR   93 (205)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTG
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHH
Confidence            45689999999999999999999999999888889988666 5567778889999999999999988765

>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=99.79  E-value=7.1e-19  Score=97.37  Aligned_cols=69  Identities=29%  Similarity=0.670  Sum_probs=62.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      .++.+||+++|+++||||||++++..+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+
T Consensus        12 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   80 (179)
T 1z0f_A           12 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAV   80 (179)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHH
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhh
Confidence            466899999999999999999999999998888899888888888888999999999999999988764

>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=99.79  E-value=1.8e-18  Score=97.19  Aligned_cols=70  Identities=36%  Similarity=0.688  Sum_probs=62.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .++.+||+++|+++||||||+++++.+.+...+.++.+.++....+..++..+.+.+||++|+++|+.+.
T Consensus        19 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   88 (189)
T 2gf9_A           19 SDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTIT   88 (189)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSG
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhH
Confidence            3568999999999999999999999999988888999888888888888999999999999999887654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.79  E-value=1.3e-18  Score=97.76  Aligned_cols=70  Identities=44%  Similarity=0.851  Sum_probs=63.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ....+||+++|+++||||||+++++.+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        13 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   82 (196)
T 3tkl_A           13 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTIT   82 (196)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTH
T ss_pred             cccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhH
Confidence            4567999999999999999999999999988888999989988888899999999999999999987653

>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=99.79  E-value=7.9e-19  Score=100.81  Aligned_cols=69  Identities=19%  Similarity=0.439  Sum_probs=58.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ...+||+++|+++||||||+++|+.+.+...+.+|++.++ ...+.+++..+.+.+||++|+++|+.+.+
T Consensus        25 ~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~   93 (214)
T 3q3j_B           25 VARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRP   93 (214)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGG
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHH
Confidence            4579999999999999999999999999999999998766 56677888899999999999999987653

>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=99.79  E-value=1.3e-18  Score=96.85  Aligned_cols=68  Identities=26%  Similarity=0.446  Sum_probs=61.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||+++++.+.+...+.++.+..+ ...+.+++..+.+.+||++|+++|+.+.
T Consensus         4 ~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   71 (181)
T 3t5g_A            4 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFP   71 (181)
T ss_dssp             EEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCC
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHH
Confidence            5689999999999999999999999999889999998776 6777889999999999999999987654

>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=99.79  E-value=1.2e-18  Score=97.84  Aligned_cols=69  Identities=39%  Similarity=0.653  Sum_probs=62.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|+++||||||+++++.+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        13 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   81 (195)
T 1x3s_A           13 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLT   81 (195)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhh
Confidence            457999999999999999999999999988889999988888888889999999999999999987653

>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=99.79  E-value=9.5e-19  Score=98.68  Aligned_cols=70  Identities=29%  Similarity=0.479  Sum_probs=62.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+.+||+++|+++||||||+++++.+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        20 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   89 (192)
T 2fg5_A           20 AIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLA   89 (192)
T ss_dssp             -CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGT
T ss_pred             cCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhh
Confidence            4678999999999999999999999999888888999988888888888889999999999999988754

>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=99.79  E-value=1.5e-18  Score=96.18  Aligned_cols=70  Identities=24%  Similarity=0.431  Sum_probs=61.3

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .....+||+++|++|||||||++++..+.+...+.+|.+..+. ..+.+++..+.+.+||++|+++|+.+.
T Consensus         5 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~   74 (181)
T 2fn4_A            5 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMR   74 (181)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHH
Confidence            3456899999999999999999999999998889999887665 667788989999999999999987653

>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=99.79  E-value=1.1e-18  Score=98.82  Aligned_cols=69  Identities=41%  Similarity=0.746  Sum_probs=62.7

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      .++.+||+++|+++||||||+++++.+.+...+.++++.++....+..++..+.+.+||++|+++|+.+
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   73 (203)
T 1zbd_A            5 FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTI   73 (203)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHH
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcch
Confidence            467899999999999999999999999988888899998888888888999999999999999988764

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.79  E-value=8.6e-19  Score=100.93  Aligned_cols=70  Identities=29%  Similarity=0.572  Sum_probs=57.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+..+||+++|+++||||||++++..+.+...+.++++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        10 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   79 (223)
T 3cpj_B           10 YDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAIT   79 (223)
T ss_dssp             CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCC
T ss_pred             CCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhH
Confidence            3567999999999999999999999999988888999888888888889999999999999999988764

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.79  E-value=1.7e-19  Score=100.03  Aligned_cols=70  Identities=34%  Similarity=0.498  Sum_probs=61.3

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCC-eEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDD-VPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+.+||+++|+++||||||++++..+.+...+.||++.++....+.+++ ..+.+++||++|+++|+.+.
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~   73 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKML   73 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTH
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchh
Confidence            45689999999999999999999999988877888988778788888876 78999999999999987653

>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=99.79  E-value=1.2e-18  Score=96.78  Aligned_cols=70  Identities=29%  Similarity=0.510  Sum_probs=62.3

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ....+||+++|+++||||||+++++.+.+...+.++++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         9 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   78 (181)
T 2efe_B            9 KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLA   78 (181)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGT
T ss_pred             CccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhh
Confidence            4568999999999999999999999999988888888888888888889999999999999999987654

>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=99.79  E-value=2e-18  Score=95.82  Aligned_cols=71  Identities=39%  Similarity=0.789  Sum_probs=57.1

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+..+||+++|+++||||||++++..+.+. ..+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         6 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~   77 (180)
T 2g6b_A            6 FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVT   77 (180)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC-------
T ss_pred             cCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHH
Confidence            3567899999999999999999999998885 4677888888888777889999999999999999987654

>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=99.79  E-value=6.1e-19  Score=96.96  Aligned_cols=68  Identities=40%  Similarity=0.786  Sum_probs=55.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.+||+++|++|||||||++++..+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~   69 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTIT   69 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCC
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhH
Confidence            56899999999999999999999999888888998888877888888889999999999999987653

>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=99.78  E-value=2.3e-18  Score=95.98  Aligned_cols=69  Identities=25%  Similarity=0.413  Sum_probs=61.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+.+||+++|++|||||||++++..+.+...+.++.+..+ ...+.+++..+.+++||++|+++|+.+.
T Consensus        15 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   83 (183)
T 3kkq_A           15 NLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMR   83 (183)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHH
Confidence            45689999999999999999999999999888999988766 6777789999999999999999988654

>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=99.78  E-value=2.3e-18  Score=97.61  Aligned_cols=69  Identities=30%  Similarity=0.565  Sum_probs=59.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ++.+|++++|++|||||||++++++..+...+.|+++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~   71 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRIT   71 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCC
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhh
Confidence            567999999999999999999999999888888998888888888899999999999999999887653

>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=99.78  E-value=3.2e-18  Score=96.79  Aligned_cols=69  Identities=32%  Similarity=0.594  Sum_probs=62.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      .++.+|++++|++|||||||++++.+..++..+.||++.++....+.+++..+.+++||++|+++|+.+
T Consensus        26 ~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~   94 (191)
T 1oix_A           26 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAI   94 (191)
T ss_dssp             CSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCC
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhh
Confidence            356799999999999999999999999998889999999988888889999999999999999988765

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.78  E-value=1.5e-18  Score=97.46  Aligned_cols=72  Identities=32%  Similarity=0.594  Sum_probs=61.5

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeE-------------------------
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVP-------------------------   55 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~-------------------------   55 (75)
                      |+ ..+.+||+++|+++||||||+++++.+.+...+.++++.++....+.+++..                         
T Consensus         2 m~-~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (208)
T 3clv_A            2 ME-KKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIIT   80 (208)
T ss_dssp             CC-CCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC---------------------------
T ss_pred             CC-CCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCccccccccccccccccccccccccccc
Confidence            44 3568999999999999999999999999988899999988888887777655                         


Q ss_pred             ------------EEEEEEeCCCcccccccc
Q psy12927         56 ------------TKLQIWTLNALLTYLLLD   73 (75)
Q Consensus        56 ------------~~l~i~D~~g~~~~~~~~   73 (75)
                                  +.+.+||++|+++|..+.
T Consensus        81 ~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~  110 (208)
T 3clv_A           81 NQHNNYNENLCNIKFDIWDTAGQERYASIV  110 (208)
T ss_dssp             ----CCCTTTCEEEEEEEECTTGGGCTTTH
T ss_pred             cccccccCccceeEEEEEECCCcHHHHHHH
Confidence                        899999999999987653

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.78  E-value=1.2e-18  Score=99.36  Aligned_cols=69  Identities=25%  Similarity=0.455  Sum_probs=59.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ...+||+++|+++||||||++++..+.+...+.||++..+ ...+.+++..+.+++||++|+++|+.+.+
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   75 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRP   75 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--C
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHH
Confidence            5689999999999999999999999999888889987554 55667788899999999999999987653

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.78  E-value=1.1e-18  Score=98.05  Aligned_cols=66  Identities=39%  Similarity=0.819  Sum_probs=60.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ...+||+++|+++||||||+++++.+.+...+.++++.++....+.+++..+.+.+||++|+++|+
T Consensus        18 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   83 (189)
T 1z06_A           18 SRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFR   83 (189)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHH
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhh
Confidence            457999999999999999999999999988888999888888888889999999999999999886

>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=99.78  E-value=6.1e-19  Score=100.18  Aligned_cols=71  Identities=25%  Similarity=0.594  Sum_probs=52.4

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.++.+||+++|+++||||||+++++.+.+...+.++++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        21 ~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~   91 (200)
T 2o52_A           21 WSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVT   91 (200)
T ss_dssp             -CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCC
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHH
Confidence            34678999999999999999999999998888888998888888888889999999999999999887653

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.78  E-value=7.3e-19  Score=99.24  Aligned_cols=69  Identities=30%  Similarity=0.639  Sum_probs=55.7

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ....+||+++|+++||||||+++++.+.+...+.++++.++....+.+++..+.+.+||++|+++|+.+
T Consensus        23 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~   91 (192)
T 2il1_A           23 ADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSI   91 (192)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHH
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHH
Confidence            466899999999999999999999999888888899988888888888999999999999999988764

>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=99.78  E-value=4.5e-19  Score=98.39  Aligned_cols=73  Identities=34%  Similarity=0.660  Sum_probs=50.6

Q ss_pred             CC-CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC-CeEEEEEEEeCCCcccccccc
Q psy12927          1 MA-DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD-DVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         1 m~-~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      |+ .....+||+++|++|||||||+++++.+.+...+.++.+.++....+.++ +..+.+.+||++|+++|+.+.
T Consensus         1 Ms~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   75 (182)
T 1ky3_A            1 MSSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLG   75 (182)
T ss_dssp             ------CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC---------
T ss_pred             CCcccCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhh
Confidence            53 45678999999999999999999999999888888998888877777776 667899999999999887654

>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=99.78  E-value=9.3e-19  Score=99.17  Aligned_cols=69  Identities=29%  Similarity=0.620  Sum_probs=51.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ....+||+++|+++||||||+++++.+.+...+.++.+.++....+.+++..+.+++||++|+++|+.+
T Consensus        25 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   93 (199)
T 2p5s_A           25 SQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSI   93 (199)
T ss_dssp             ---CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHH
T ss_pred             cCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhh
Confidence            355799999999999999999999999988888899988888888888999999999999999988764

>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=99.77  E-value=3.2e-18  Score=95.67  Aligned_cols=70  Identities=33%  Similarity=0.641  Sum_probs=60.7

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEE-EEEEEeCCe---------EEEEEEEeCCCccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFK-QKIIDLDDV---------PTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~---------~~~l~i~D~~g~~~~~~~   72 (75)
                      +.++.+||+++|++|||||||++++..+.+...+.+|++.++. .+.+..++.         .+.+.+||++|+++|+.+
T Consensus         7 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   86 (195)
T 3bc1_A            7 DYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSL   86 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHH
T ss_pred             ccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHH
Confidence            3567899999999999999999999999998888899998887 666666665         789999999999988654

>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=99.77  E-value=4.1e-18  Score=95.86  Aligned_cols=65  Identities=25%  Similarity=0.301  Sum_probs=57.0

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ....+||+++|++|||||||+++++.+.|...+.+|.+ .+ .+.+.+++..+.+++||++|+++|+
T Consensus        17 ~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~~-~~-~~~~~~~~~~~~l~i~Dt~G~~~~~   81 (184)
T 3ihw_A           17 QGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEGG-RF-KKEIVVDGQSYLLLIRDEGGPPELQ   81 (184)
T ss_dssp             CCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTCE-EE-EEEEEETTEEEEEEEEECSSSCCHH
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCcc-eE-EEEEEECCEEEEEEEEECCCChhhh
Confidence            45689999999999999999999999999888888843 34 5778889999999999999999875

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.77  E-value=2.7e-18  Score=97.11  Aligned_cols=70  Identities=26%  Similarity=0.400  Sum_probs=52.1

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ....+||+++|++|||||||+++++.+.+...+.+|.+..+ ...+.+++..+.+++||++|+++|+.+.+
T Consensus        17 ~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   86 (201)
T 2q3h_A           17 EGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRP   86 (201)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGG
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhH
Confidence            45689999999999999999999999888888889987555 56677889999999999999999887653

>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=99.77  E-value=3.2e-18  Score=97.34  Aligned_cols=69  Identities=38%  Similarity=0.779  Sum_probs=61.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|+++||||||+++++.+.+...+.++++.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        18 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   86 (213)
T 3cph_A           18 DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTIT   86 (213)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHH
Confidence            457999999999999999999999999888888998888888888889999999999999999987653

>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=99.77  E-value=7.5e-18  Score=93.80  Aligned_cols=68  Identities=28%  Similarity=0.520  Sum_probs=59.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||+++++.+.+...+.++.+..+ ...+.+++..+.+++||++|+++|+.+.
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   70 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLR   70 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTG
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHH
Confidence            4579999999999999999999999999888888887554 5566788999999999999999988764

>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=99.77  E-value=1.3e-18  Score=99.55  Aligned_cols=69  Identities=33%  Similarity=0.614  Sum_probs=60.6

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCe----------EEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDV----------PTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~----------~~~l~i~D~~g~~~~~~~   72 (75)
                      .++.+||+++|+++||||||+++++.+.+...+.+|++.++..+.+.+++.          .+.+.+||++|+++|+.+
T Consensus        22 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~  100 (217)
T 2f7s_A           22 YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSL  100 (217)
T ss_dssp             CSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHH
T ss_pred             cceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhH
Confidence            467899999999999999999999999998888899998888777777766          789999999999988754

>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=99.77  E-value=3.6e-18  Score=93.64  Aligned_cols=67  Identities=24%  Similarity=0.460  Sum_probs=58.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+||+++|++|||||||++++..+.+...+.+|.+..+ ...+.+++..+.+.+||++|+++|+.+.
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~   68 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMR   68 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceE-EEEEEECCEEEEEEEEECCChHHHHHHH
Confidence            368999999999999999999999999888889987655 4566778889999999999999887653

>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=99.76  E-value=4e-18  Score=95.95  Aligned_cols=72  Identities=31%  Similarity=0.540  Sum_probs=59.5

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      |+.....+||+++|+++||||||++++..+.+...+.++++..+ ...+..++..+.+.+||++|+++|+.+.
T Consensus         2 m~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   73 (199)
T 2gf0_A            2 MPEQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITDTTGSHQFPAMQ   73 (199)
T ss_dssp             ---CCCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEE-EEEEEETTEEEEEEEEECCGGGSCHHHH
T ss_pred             CccCCCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccce-eEEEEECCEEEEEEEEeCCChHHhHHHH
Confidence            55667789999999999999999999999998888888887555 4556678889999999999999887543

>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=99.76  E-value=4.3e-18  Score=95.82  Aligned_cols=68  Identities=21%  Similarity=0.406  Sum_probs=59.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|+++||||||++++..+.+...+.+|.+..+ ...+.+++..+.+.+||++|+++|+.+.
T Consensus        16 ~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~   83 (194)
T 2atx_A           16 ALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLR   83 (194)
T ss_dssp             EEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTG
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHH
Confidence            4679999999999999999999999999888889987554 5567778889999999999999988764

>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=99.76  E-value=4.7e-19  Score=99.40  Aligned_cols=70  Identities=19%  Similarity=0.247  Sum_probs=56.4

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCC-----------ccceeeEEEEEEEE-EeCCeEEEEEEEeCCCccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDT-----------YISTIGIDFKQKII-DLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~-----------~~~t~~~~~~~~~~-~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      .....+||+++|+++||||||+ +++.+.+...           +.||++.++....+ .+++..+.+++||++|+++|+
T Consensus        10 ~~~~~~ki~vvG~~~~GKssL~-~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~   88 (198)
T 3t1o_A           10 NREINFKIVYYGPGLSGKTTNL-KWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYN   88 (198)
T ss_dssp             TTEEEEEEEEECSTTSSHHHHH-HHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCS
T ss_pred             ccccccEEEEECCCCCCHHHHH-HHHHhhccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHH
Confidence            4567899999999999999999 5555666655           35688888776665 567889999999999999987


Q ss_pred             ccc
Q psy12927         71 LLD   73 (75)
Q Consensus        71 ~~~   73 (75)
                      .+.
T Consensus        89 ~~~   91 (198)
T 3t1o_A           89 ASR   91 (198)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=99.76  E-value=8.5e-18  Score=93.78  Aligned_cols=68  Identities=25%  Similarity=0.407  Sum_probs=56.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||++++..+.+...+.++.+ +.....+.+++..+.+.+||++|+++|+.+.
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   69 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEEYSAMR   69 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCC-EEEEEEEEETTEEEEEEEEECCCC---CTTH
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCch-heEEEEEEECCcEEEEEEEECCCcHHHHHHH
Confidence            4679999999999999999999999998888888875 4445677789999999999999999987764

>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=99.76  E-value=6.4e-18  Score=92.41  Aligned_cols=67  Identities=28%  Similarity=0.478  Sum_probs=57.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+||+++|++|||||||++++..+.+...+.++.+.. ....+.+++..+.+.+||++|+++|..+.
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~D~~G~~~~~~~~   68 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDF-YRKEIEVDSSPSVLEILDTAGTEQFASMR   68 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCTTCCHHHH
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCccee-EEEEEEECCEEEEEEEEECCCchhhHHHH
Confidence            36899999999999999999999999888888888744 46677789999999999999999887653

>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=99.76  E-value=6.6e-18  Score=96.22  Aligned_cols=69  Identities=30%  Similarity=0.515  Sum_probs=56.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ....+||+++|++|||||||+++++.+.+...+.++.+ +.....+.+++..+.+.+||++|+++|+.+.
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   95 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGLEDYDRLR   95 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSE-EEEEEEEECC-CEEEEEEEEECCSGGGTTTG
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeec-ceeEEEEEECCEEEEEEEEECCCchhhHHHH
Confidence            35679999999999999999999999999888888886 4456677788999999999999999988765

>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=99.76  E-value=6.7e-18  Score=93.78  Aligned_cols=64  Identities=22%  Similarity=0.266  Sum_probs=55.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ...+||+++|+++||||||+++++.+.+.. +.||++..+ .+.+.+++..+.+++||++|++++.
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~   68 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIREEAGAPDAK   68 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEETTEEEEEEEEECSSSCCHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEECCEEEEEEEEECCCCchhH
Confidence            568999999999999999999999999876 778887444 6777789999999999999998743

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.75  E-value=5.9e-18  Score=95.97  Aligned_cols=68  Identities=25%  Similarity=0.415  Sum_probs=56.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||++++..+.+...+.++.+..+ ...+.+++..+.+.+||++|+++|+.+.
T Consensus        22 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   89 (201)
T 3oes_A           22 VRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILP   89 (201)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCC
T ss_pred             CCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHH
Confidence            4589999999999999999999999999888889988666 6666677888999999999999987664

>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=99.75  E-value=9.5e-18  Score=95.21  Aligned_cols=69  Identities=23%  Similarity=0.491  Sum_probs=59.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ...+||+++|+++||||||++++..+.+...+.|+.+.++. ..+.+++..+.+.+||++|+++|+.+.+
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~   91 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRP   91 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGG
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHH
Confidence            56799999999999999999999999998888888876654 4567788999999999999999887653

>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=99.75  E-value=1e-18  Score=98.13  Aligned_cols=67  Identities=19%  Similarity=0.408  Sum_probs=45.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC--CCCCCccceeeEEEEEEEEEe---CCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE--TYYDTYISTIGIDFKQKIIDL---DDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~--~~~~~~~~t~~~~~~~~~~~~---~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+|++++|++|||||||++++++.  .+...+.+|++.++..+.+.+   ++..+.+++||++|+++|+.+.
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   73 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTH   73 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhh
Confidence            579999999999999999999974  566677899998887766544   3467899999999999988764

>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=99.75  E-value=8.1e-18  Score=96.43  Aligned_cols=68  Identities=24%  Similarity=0.465  Sum_probs=44.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||+++++.+.+...+.+|.+..+ ...+.+++..+.+.+||++|+++|+.+.
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~   99 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLR   99 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC----------
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHH
Confidence            3579999999999999999999999888888888886544 5667789999999999999999987764

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.75  E-value=1.5e-17  Score=94.73  Aligned_cols=68  Identities=25%  Similarity=0.495  Sum_probs=53.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|+++||||||+++++.+.+...+.|+.+..+. ..+.+++..+.+.+||++|+++|+.+.
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~   90 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLR   90 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEETTEEEEEEEEECTTCTTCTTTG
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEECCEEEEEEEEECCCcHHHHHHH
Confidence            45789999999999999999999999998888888876664 346778899999999999999987664

>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=99.75  E-value=1.3e-17  Score=92.77  Aligned_cols=68  Identities=19%  Similarity=0.357  Sum_probs=57.7

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ....+||+++|+++||||||+++++.+.+...+.++.+..+ ...+.+++..+.+.+||++|+++|+.+
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~   82 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAI   82 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHH
Confidence            34579999999999999999999999999888888887555 456677888999999999999988754

>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=99.74  E-value=1.8e-18  Score=99.30  Aligned_cols=70  Identities=21%  Similarity=0.484  Sum_probs=63.0

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ....+||+++|++|||||||+++|+.+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        12 ~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   81 (221)
T 3gj0_A           12 PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLR   81 (221)
T ss_dssp             CCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHH
Confidence            4568999999999999999999988888888888999888888888889999999999999999988754

>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=99.74  E-value=2.8e-19  Score=100.72  Aligned_cols=70  Identities=36%  Similarity=0.699  Sum_probs=62.5

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +.++.+||+++|+++||||||++++..+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+
T Consensus        19 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   88 (191)
T 3dz8_A           19 NFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTI   88 (191)
T ss_dssp             EEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHH
T ss_pred             ccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHH
Confidence            3467899999999999999999999999988888899888888888888888899999999999988754

>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=99.74  E-value=2.1e-17  Score=93.43  Aligned_cols=68  Identities=19%  Similarity=0.357  Sum_probs=58.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ....+||+++|++|||||||++++..+.+...+.++.+..+ ...+.+++..+.+.+||++|+++|+.+
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~   78 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAI   78 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHH
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHH
Confidence            34579999999999999999999999998888888887555 456678899999999999999988764

>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=99.74  E-value=2e-17  Score=90.49  Aligned_cols=66  Identities=20%  Similarity=0.383  Sum_probs=54.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ..+||+++|++|||||||++++..+.+...+.++.+..+ ...+.+++..+.+.+||++|+++|+.+
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~   68 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAI   68 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHHH
Confidence            468999999999999999999999998888888887555 456678899999999999999988654

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.73  E-value=2.5e-17  Score=90.47  Aligned_cols=66  Identities=27%  Similarity=0.516  Sum_probs=56.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ..+||+++|++|||||||++++..+.+...+.++.+..+ ...+..++..+.+.+||++|+++|+.+
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~~Dt~G~~~~~~~   67 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAM   67 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEECCCchhhHHH
Confidence            468999999999999999999999988878888887555 345567888899999999999988754

>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=99.73  E-value=1.8e-18  Score=96.12  Aligned_cols=68  Identities=24%  Similarity=0.475  Sum_probs=42.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+.+||+++|+++||||||++++..+.+...+.||++..+ ...+.+++..+.+++||++|+++|+.+.
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   73 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLGLWDTAGQEDYNRLR   73 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------C-BCCCC-------CEEECCCC-CTTTTTG
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeE-EEEEEECCEEEEEEEEECCCChhhhhhH
Confidence            5679999999999999999999999999888888887554 3344567788899999999999988764

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.72  E-value=2e-18  Score=97.70  Aligned_cols=69  Identities=19%  Similarity=0.335  Sum_probs=31.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC--CCCCCccceeeEEEEEEEEEeCCe--EEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE--TYYDTYISTIGIDFKQKIIDLDDV--PTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~--~~~~~~~~t~~~~~~~~~~~~~~~--~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||+++++.+  .+...+.+|++.++....+.+++.  .+.+.+||++|+++|+.+.
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   90 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQI   90 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHH
Confidence            45789999999999999999999988  888888899988888888888887  8999999999999886653

>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=99.72  E-value=4.8e-17  Score=88.70  Aligned_cols=65  Identities=23%  Similarity=0.390  Sum_probs=56.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      .+||+++|++|||||||++++..+.+...+.++.+..+ ...+..++..+.+.+||++|+++|+.+
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~D~~G~~~~~~~   67 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAM   67 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCSSCCHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEECCEEEEEEEEECCCchhhhHH
Confidence            58999999999999999999999988888888876544 566678888999999999999987754

>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=99.72  E-value=7.3e-18  Score=95.62  Aligned_cols=68  Identities=16%  Similarity=0.139  Sum_probs=53.5

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ....+||+++|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+||++|+++++.
T Consensus        20 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~   87 (195)
T 3cbq_A           20 KDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGG   87 (195)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGH
T ss_pred             CCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchh
Confidence            35679999999999999999999975544333445555566677778899999999999999988754

>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=99.72  E-value=3e-17  Score=90.28  Aligned_cols=65  Identities=17%  Similarity=0.155  Sum_probs=44.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      .+||+++|++|||||||++++....+...+.++.+.+.....+.+++..+.+.+||++|+++++.
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~   66 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGG   66 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC-----
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccch
Confidence            58999999999999999999997776655556556677778888899999999999999998865

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.72  E-value=1.3e-18  Score=98.58  Aligned_cols=70  Identities=44%  Similarity=0.851  Sum_probs=62.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .++.+||+++|+++||||||+++++.+.+...+.++.+.++....+.+++..+.+.+||++|+++|+.+.
T Consensus        30 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   99 (199)
T 3l0i_B           30 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTIT   99 (199)
T ss_dssp             CSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCS
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHH
Confidence            3568999999999999999999999998888888888888888888889999999999999999988764

>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=99.72  E-value=8.5e-17  Score=90.16  Aligned_cols=68  Identities=24%  Similarity=0.401  Sum_probs=52.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||++++..+.+...+.++.+..+ ...+.+++..+.+.+||++|+++|..+.
T Consensus        19 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   86 (190)
T 3con_A           19 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMR   86 (190)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC--------
T ss_pred             cceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEEECCChHHHHHHH
Confidence            4579999999999999999999999988888888876544 4567788889999999999999887654

>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=99.71  E-value=8.1e-18  Score=96.21  Aligned_cols=73  Identities=27%  Similarity=0.397  Sum_probs=57.8

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC-CeEEEEEEEeCCCcccccccc
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD-DVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      |......+||+++|++|||||||+++++.+.+...+.++.+.......+..+ +..+.+.+||++|+++++.+.
T Consensus         5 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   78 (218)
T 4djt_A            5 MERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLK   78 (218)
T ss_dssp             -----CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCC
T ss_pred             cccccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHH
Confidence            4455678999999999999999999999988888888888877766665554 455899999999999987654

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.71  E-value=1.5e-17  Score=93.65  Aligned_cols=66  Identities=14%  Similarity=0.246  Sum_probs=51.6

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCC-CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYD-TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .....||+++|+++||||||+++++.+.+.. .+.+|++....  .+  +...+.+.+||++|+++|+.+.
T Consensus        14 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~--~~--~~~~~~~~i~Dt~G~~~~~~~~   80 (199)
T 4bas_A           14 SKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNVE--TF--EKGRVAFTVFDMGGAKKFRGLW   80 (199)
T ss_dssp             --CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEEE--EE--EETTEEEEEEEECCSGGGGGGG
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeEE--EE--EeCCEEEEEEECCCCHhHHHHH
Confidence            4568999999999999999999999999888 78899985443  33  3456789999999999988765

>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=99.71  E-value=1.4e-17  Score=95.02  Aligned_cols=68  Identities=21%  Similarity=0.213  Sum_probs=50.5

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCe-EEEEEEEeCCCcccccc
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDV-PTKLQIWTLNALLTYLL   71 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~-~~~l~i~D~~g~~~~~~   71 (75)
                      |......+||+++|++|||||||+++++.+.+...+.++. .++..  +.+++. .+.+++|||+|+++|+.
T Consensus         1 m~~~~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~i~Dt~G~~~~~~   69 (214)
T 2fh5_B            1 MARKSSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSIT-DSSAI--YKVNNNRGNSLTLIDLPGHESLRF   69 (214)
T ss_dssp             -------CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCCS-CEEEE--EECSSTTCCEEEEEECCCCHHHHH
T ss_pred             CCCCCCCCEEEEECCCCCCHHHHHHHHhCCCcccccCCcc-eeeEE--EEecCCCccEEEEEECCCChhHHH
Confidence            5566778999999999999999999999999888776554 45443  455544 68899999999998875

>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=99.71  E-value=1.5e-16  Score=89.84  Aligned_cols=63  Identities=21%  Similarity=0.369  Sum_probs=55.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ...+||+++|+++||||||+++++.+.+...+.++.+..+ ...+.+++..+.+.+||++|+++
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~   88 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED   88 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc
Confidence            4579999999999999999999999999888889887655 55667889999999999999886

>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=99.70  E-value=2.7e-17  Score=92.44  Aligned_cols=65  Identities=15%  Similarity=0.396  Sum_probs=54.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|+++||||||+++++.+.+...+.+|++.++..  +.  ...+.+.+||++|+++|+.+.
T Consensus        20 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~--~~~~~~~l~Dt~G~~~~~~~~   84 (188)
T 1zd9_A           20 KEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--IT--KGNVTIKLWDIGGQPRFRSMW   84 (188)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EE--ETTEEEEEEEECCSHHHHTTH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE--EE--eCCEEEEEEECCCCHhHHHHH
Confidence            457999999999999999999999999988888999877643  32  345789999999999887653

>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=99.70  E-value=4.9e-17  Score=89.73  Aligned_cols=63  Identities=24%  Similarity=0.363  Sum_probs=46.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      .+.+||+++|++|||||||++++..+.+...+ ++.+.++....+.+++..+.+.+||++|+++
T Consensus         2 ~~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~   64 (175)
T 2nzj_A            2 MALYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEAEK   64 (175)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCC-----C-CCSSSSEEEEEEEETTEEEEEEEECCC----
T ss_pred             ceEEEEEEECCCCccHHHHHHHHhcCCCcccc-CccccceeEEEEEECCEEEEEEEEecCCCCc
Confidence            45799999999999999999999988775543 4556667777788899999999999999987

>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=99.68  E-value=1.4e-16  Score=87.41  Aligned_cols=65  Identities=22%  Similarity=0.292  Sum_probs=40.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+||+++|++|||||||++++.+..+. ...++.+..+ ...+.+++..+.+.+||++|+++|+.+.
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~   66 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLP   66 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC---------
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccce-EEEEEECCEEEEEEEEECCCCccchhhh
Confidence            589999999999999999999866553 3445555444 4566789999999999999999987664

>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=99.67  E-value=6e-16  Score=92.80  Aligned_cols=68  Identities=28%  Similarity=0.542  Sum_probs=59.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+|++++|+++||||||+++++.+.+...+.+|++..+ ...+.+++..+.+++||++|+++|..+.
T Consensus       153 ~~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~  220 (332)
T 2wkq_A          153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLR  220 (332)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTG
T ss_pred             cceeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHH
Confidence            3468999999999999999999999999888889887554 5667789999999999999999987664

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.67  E-value=8.2e-17  Score=89.15  Aligned_cols=69  Identities=10%  Similarity=0.159  Sum_probs=54.8

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      -....+||+++|++|||||||+++++.+.+...+.++...++....+.+++.  .+.+|||+|+++|+.+.
T Consensus         4 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~   72 (178)
T 2lkc_A            4 MVERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDK--KITFLDTPGHEAFTTMR   72 (178)
T ss_dssp             TCCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTE--EEEESCCCSSSSSSCSC
T ss_pred             cCCCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCc--eEEEEECCCCHHHHHHH
Confidence            3466889999999999999999999998887766666555555555666665  46799999999988764

>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=99.66  E-value=1.9e-16  Score=91.34  Aligned_cols=63  Identities=16%  Similarity=0.334  Sum_probs=50.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC--CCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET--YYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ...+||+++|++|||||||+++|+...  +...+ ++++.+++.+.+.+++..+.+.+|||+|++.
T Consensus        35 ~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~   99 (211)
T 2g3y_A           35 NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMVDGESATIILLDMWENKG   99 (211)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEEEECCeeeEEEEeecCCCcc
Confidence            557999999999999999999999543  44444 4466677778888899999999999999886

>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=99.66  E-value=4.1e-16  Score=88.20  Aligned_cols=63  Identities=14%  Similarity=0.299  Sum_probs=48.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC--CCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE--TYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ...+||+++|++|||||||+++|++.  .+...+. +++.+++.+.+.+++..+.+.+||++|++.
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~   68 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXE-VLGEDTYERTLMVDGESATIILLDMWENKG   68 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC----G-GGCTTEEEEEEEETTEEEEEEEECCCCC--
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCcccc-ccceeEEEEEEEECCeEEEEEEEEeccCcc
Confidence            45799999999999999999999953  3444443 456677777888899999999999999876

>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=99.66  E-value=1.9e-16  Score=88.89  Aligned_cols=65  Identities=20%  Similarity=0.308  Sum_probs=52.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC-CCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET-YYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||+++++.+. +...+.+|++.  ....+.+++  +.+.+||++|+++|+.+.
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~~--~~~~~~~~~--~~~~l~Dt~G~~~~~~~~   84 (190)
T 2h57_A           19 SKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIGF--SIEKFKSSS--LSFTVFDMSGQGRYRNLW   84 (190)
T ss_dssp             --CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSSE--EEEEEECSS--CEEEEEEECCSTTTGGGG
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccce--eEEEEEECC--EEEEEEECCCCHHHHHHH
Confidence            457999999999999999999999887 66778888874  344555554  689999999999987764

>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=99.66  E-value=5.4e-16  Score=85.27  Aligned_cols=64  Identities=30%  Similarity=0.439  Sum_probs=51.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|+++||||||++++..+.+. .+.||++...  ..+.++  .+.+.+||++|+++|+.+.
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~--~~~~~~--~~~~~~~Dt~G~~~~~~~~   68 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIGFNV--ETVTYK--NLKFQVWDLGGLTSIRPYW   68 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSSEEE--EEEEET--TEEEEEEEECCCGGGGGGG
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCccce--EEEEEC--CEEEEEEECCCChhhhHHH
Confidence            45789999999999999999999998875 4677877543  344455  4689999999999987754

>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=99.65  E-value=1.8e-16  Score=88.86  Aligned_cols=64  Identities=23%  Similarity=0.360  Sum_probs=48.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|+++||||||+++++.+.+. .+.||++..  ...+.+++  +.+++||++|+++|+.+.
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~   77 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN--VEEIVINN--TRFLMWDIGGQESLRSSW   77 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS--CEEEEETT--EEEEEEECCC----CGGG
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc--eEEEEECC--EEEEEEECCCCHhHHHHH
Confidence            45799999999999999999999988876 677887743  34444554  789999999999987764

>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=99.65  E-value=8.2e-16  Score=86.71  Aligned_cols=64  Identities=23%  Similarity=0.283  Sum_probs=51.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||++++..+.+. .+.||++..  ...+.+++  +.+.+||++|+++|+.+.
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~   84 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPT--SEELAIGN--IKFTTFDLGGHIQARRLW   84 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSCE--EEEEEETT--EEEEEEECCCSGGGTTSG
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCCC--eEEEEECC--EEEEEEECCCCHHHHHHH
Confidence            45679999999999999999999998874 567887754  34555666  789999999999988754

>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=99.47  E-value=8.4e-18  Score=95.44  Aligned_cols=68  Identities=28%  Similarity=0.527  Sum_probs=58.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||+++++.+.+...+.++.+..+ ...+.+++..+.+++||++|+++|+.+.
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   95 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLR   95 (204)
Confidence            4679999999999999999999999888888888886444 5566678888999999999999987654

>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=99.65  E-value=2.8e-16  Score=87.79  Aligned_cols=64  Identities=30%  Similarity=0.488  Sum_probs=51.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|+++||||||++++..+. ...+.||++...  ..+.++  .+.+++||++|+++|+.+.
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~~--~~~~~~--~~~~~~~Dt~G~~~~~~~~   79 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFNI--KTLEHR--GFKLNIWDVGGQKSLRSYW   79 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEEE--EEEEET--TEEEEEEEECCSHHHHTTG
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccce--EEEEEC--CEEEEEEECCCCHhHHHHH
Confidence            467999999999999999999999887 677888888543  344454  4688999999999887654

>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=99.65  E-value=5.7e-16  Score=85.55  Aligned_cols=62  Identities=21%  Similarity=0.419  Sum_probs=45.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      .+|++++|++|||||||++++.+..+.....|+...+.....+.+++  ..+++|||+|+++|+
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~   64 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLT   64 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCC
Confidence            58999999999999999999998776554445544455555555555  578999999999875

>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=99.65  E-value=8.1e-17  Score=88.18  Aligned_cols=60  Identities=22%  Similarity=0.353  Sum_probs=48.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +||+++|++|||||||+++++.+.+.. +.||++..  ...+..  ..+.+++||++|+++|+.+
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~~~--~~~~~~--~~~~~~i~Dt~G~~~~~~~   60 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFN--VETVEY--KNISFTVWDVGGQDKIRPL   60 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSSCC--EEEEEC--SSCEEEEEECCCCGGGHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCcee--EEEEEE--CCEEEEEEEcCCChhhHHH
Confidence            589999999999999999999888764 57787733  333333  4478999999999988764

>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=99.64  E-value=1.9e-16  Score=89.91  Aligned_cols=64  Identities=19%  Similarity=0.261  Sum_probs=44.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||++++..+++. .+.||++..  ...+.+++  +.+++|||+|+++|+.+.
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~l~i~Dt~G~~~~~~~~   86 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELTIAG--MTFTTFDLGGHIQARRVW   86 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS--CEEEEETT--EEEEEEEECC----CCGG
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCce--eEEEEECC--EEEEEEECCCcHhhHHHH
Confidence            45689999999999999999999988764 567777654  34555666  789999999999988764

>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=99.64  E-value=2.8e-16  Score=87.73  Aligned_cols=65  Identities=23%  Similarity=0.342  Sum_probs=51.0

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ....+||+++|+++||||||+++++.+.+ ..+.+|.+...  ..+.+++  +.+.+||++|+++|+.+.
T Consensus        18 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~   82 (181)
T 2h17_A           18 GSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINN--TRFLMWDIGGQESLRSSW   82 (181)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETT--EEEEEEEESSSGGGTCGG
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECC--EEEEEEECCCCHhHHHHH
Confidence            34689999999999999999999998887 56677777443  3444554  789999999999987654

>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=99.64  E-value=2.6e-16  Score=88.13  Aligned_cols=64  Identities=25%  Similarity=0.401  Sum_probs=51.2

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +...+|++++|++|||||||++++..+.+ ..+.||.+..  ...+.++  .+.+++||++|+++|+.+
T Consensus        13 ~~~~~ki~ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g~~--~~~~~~~--~~~l~i~Dt~G~~~~~~~   76 (181)
T 1fzq_A           13 PDQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGFN--IKSVQSQ--GFKLNVWDIGGQRKIRPY   76 (181)
T ss_dssp             CSSCEEEEEEESTTSSHHHHHHHHCCSCC-EEEEEETTEE--EEEEEET--TEEEEEEECSSCGGGHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhcCCC-CcccCcCCeE--EEEEEEC--CEEEEEEECCCCHHHHHH
Confidence            35689999999999999999999997755 4567888744  3445555  478999999999988764

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.63  E-value=6.4e-17  Score=98.67  Aligned_cols=58  Identities=19%  Similarity=0.230  Sum_probs=46.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCC---CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYD---TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      |++++|+.|||||||++++..+.++.   .+.||++.++..    ++ ..+.++||||+||++|+.
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v~-~~v~LqIWDTAGQErf~~   61 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----FS-TLIDLAVMELPGQLNYFE   61 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----EC-SSSCEEEEECCSCSSSCC
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----Ec-cEEEEEEEECCCchhccc
Confidence            68999999999999999887654433   367899877753    33 348999999999999963

>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=99.63  E-value=5.4e-16  Score=87.58  Aligned_cols=64  Identities=22%  Similarity=0.325  Sum_probs=46.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|+++||||||+++++.+.+. .+.||++..  ...+..+  .+.+.+||++|+++|+.+.
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~--~~~~~i~Dt~G~~~~~~~~   90 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFN--VETVEYK--NICFTVWDVGGQDKIRPLW   90 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSSCCE-EEEEETTEE--EEEEEET--TEEEEEEECC-----CTTH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhCCcc-ccCCcCcee--EEEEEEC--CEEEEEEECCCCHhHHHHH
Confidence            45799999999999999999999988875 456787743  3344443  4789999999999987653

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.63  E-value=1.5e-15  Score=84.87  Aligned_cols=64  Identities=20%  Similarity=0.402  Sum_probs=49.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ...+|++++|++|||||||++++++..+.....|+...+.....+..++  +.+.+|||+|+++|+
T Consensus         5 ~~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~   68 (188)
T 2wjg_A            5 MKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLT   68 (188)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccc
Confidence            3578999999999999999999998765444445555555555666655  678999999999885

>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=99.61  E-value=4.5e-16  Score=86.58  Aligned_cols=64  Identities=28%  Similarity=0.391  Sum_probs=47.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|++|||||||++++..+.+ ..+.||++..  ...+.+++  +.+.+||++|+++|+.+.
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~   79 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFN--VETLSYKN--LKLNVWDLGGQTSIRPYW   79 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCC--EEEEEETT--EEEEEEEEC----CCTTG
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccc--eEEEEECC--EEEEEEECCCCHhHHHHH
Confidence            5689999999999999999999998877 5667787743  34444554  789999999999887654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.59  E-value=6.3e-16  Score=86.63  Aligned_cols=64  Identities=22%  Similarity=0.389  Sum_probs=50.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ...+||+++|+++||||||+++++.+.+. .+.||++..  ...+..+  .+.+.+||++|+++|+.+.
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~-~~~~t~~~~--~~~~~~~--~~~~~~~Dt~G~~~~~~~~   83 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVV-TTVPTVGVN--LETLQYK--NISFEVWDLGGQTGVRPYW   83 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCE-EECSSTTCC--EEEEEET--TEEEEEEEECCSSSSCCCC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCC-CcCCCCceE--EEEEEEC--CEEEEEEECCCCHhHHHHH
Confidence            46899999999999999999999988775 356777633  3344454  4689999999999988764

>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=99.59  E-value=7.3e-16  Score=87.11  Aligned_cols=67  Identities=19%  Similarity=0.326  Sum_probs=46.2

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEE--Ee-CCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKII--DL-DDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~--~~-~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+.+||+++|+++||||||++++.+ .+...  ++.+.++....+  .+ ++..+.+++||++|+++|..+.
T Consensus        17 ~~~~~ki~~vG~~~vGKTsLi~~l~~-~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   86 (196)
T 3llu_A           17 QGSKPRILLMGLRRSGKSSIQKVVFH-KMSPN--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPT   86 (196)
T ss_dssp             ---CCEEEEEESTTSSHHHHHHHHHS-CCCGG--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTT
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHHh-cCCCc--ceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhh
Confidence            45689999999999999999997665 44333  344333332222  23 3677899999999999987653

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.56  E-value=6.2e-15  Score=88.84  Aligned_cols=61  Identities=16%  Similarity=0.336  Sum_probs=48.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhC--CCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDE--TYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~--~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ..+||+++|++|||||||++++.++  .+. ..+.+|++.++..  +.+++ .+.+++||++|+++|
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~--~~~~~-~~~l~i~Dt~G~~~~   65 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSH--LRFLG-NMTLNLWDCGGQDVF   65 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEE--EEETT-TEEEEEEEECCSHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEE--EEeCC-ceEEEEEECCCcHHH
Confidence            4689999999999999999999877  332 2466888876654  33444 688999999999988

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.55  E-value=6e-16  Score=98.75  Aligned_cols=70  Identities=19%  Similarity=0.283  Sum_probs=48.0

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEE------EEe--CCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKI------IDL--DDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~------~~~--~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ....+||+++|++|||||||++++..+.+...+.+|++.++..+.      +.+  ++..+.+.+||++|+++|+.+.
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~  115 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASH  115 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHH
Confidence            356799999999999999999999999988888999988776542      222  3446889999999999988764

>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=99.55  E-value=2.1e-14  Score=84.85  Aligned_cols=66  Identities=15%  Similarity=0.217  Sum_probs=48.3

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      +...+||+++|++|||||||++++++..+.....|.+..+.....+..++  ..+.+||++|++.+++
T Consensus         2 ~~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~--~~~~l~DtpG~~~~~~   67 (258)
T 3a1s_A            2 PLHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG--YTINLIDLPGTYSLGY   67 (258)
T ss_dssp             -CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSSCCS
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC--eEEEEEECCCcCccCC
Confidence            35679999999999999999999998765433334333444444444433  6889999999998765

>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=99.54  E-value=3.1e-16  Score=92.31  Aligned_cols=59  Identities=31%  Similarity=0.536  Sum_probs=40.9

Q ss_pred             CCeeeEEEEEcCC---------CCcHHHHHHHHHh---CCCCCCcccee-eEEEEEEEEE--------------eCCeEE
Q psy12927          4 CNQTYKILVLGDS---------NVGKTCIVHRFCD---ETYYDTYISTI-GIDFKQKIID--------------LDDVPT   56 (75)
Q Consensus         4 ~~~~~ki~~~G~~---------~~GKtsl~~~~~~---~~~~~~~~~t~-~~~~~~~~~~--------------~~~~~~   56 (75)
                      ..+.+||+++|++         |||||||+++|+.   +.+...+.++. +.++..+.+.              +++..+
T Consensus        16 ~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~   95 (255)
T 3c5h_A           16 FQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVEC   95 (255)
T ss_dssp             CCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC---------
T ss_pred             CCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCcEE
Confidence            4567999999999         9999999999998   66766777775 4444322222              467889


Q ss_pred             EEEEEe
Q psy12927         57 KLQIWT   62 (75)
Q Consensus        57 ~l~i~D   62 (75)
                      .++|||
T Consensus        96 ~l~i~D  101 (255)
T 3c5h_A           96 KMHIVE  101 (255)
T ss_dssp             CEEEEE
T ss_pred             EEEEEE
Confidence            999999

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.54  E-value=2e-15  Score=91.78  Aligned_cols=63  Identities=22%  Similarity=0.351  Sum_probs=45.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+||+++|+++||||||++++..+.+... .||++..+..  +..  ..+.+++|||+|+++|+.+.
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~~~--~~~--~~~~l~i~Dt~G~~~~~~~~  226 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNVET--VEY--KNISFTVWDVGGQDKIRPLW  226 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEEEE--EEE--TTEEEEEEECC-----CCSH
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEEEE--Eec--CcEEEEEEECCCCHhHHHHH
Confidence            467999999999999999999998887544 4777765543  223  44789999999999988764

>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=99.53  E-value=6e-15  Score=82.77  Aligned_cols=58  Identities=19%  Similarity=0.249  Sum_probs=36.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNA   65 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g   65 (75)
                      ...+||+++|++|||||||+++++.+.+...+.++.+..........++   .+.+|||+|
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G   78 (195)
T 1svi_A           21 GGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPG   78 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCC
Confidence            4579999999999999999999998876666666665444444444444   589999999

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.51  E-value=2.7e-14  Score=84.68  Aligned_cols=64  Identities=19%  Similarity=0.342  Sum_probs=43.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhC-CCCCCc-------cceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDE-TYYDTY-------ISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~-~~~~~~-------~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ....++|+++|.+|+|||||+++++.. .+...+       .+|++.+.....+..++..+.+.+|||+|..
T Consensus         5 ~g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~   76 (274)
T 3t5d_A            5 SGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFG   76 (274)
T ss_dssp             --CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCS
T ss_pred             CccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCcc
Confidence            356899999999999999999997644 444444       6777777776666667777899999999984

>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=99.51  E-value=7.8e-14  Score=77.58  Aligned_cols=61  Identities=21%  Similarity=0.349  Sum_probs=44.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ..+|++++|++|||||||++++....+.  ..+.++ ..++....+.+++..  +.+|||+|++++
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~-t~~~~~~~~~~~~~~--~~l~Dt~G~~~~   65 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGT-TRDVLREHIHIDGMP--LHIIDTAGLREA   65 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTC-CCSCEEEEEEETTEE--EEEEECCCCSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCc-eeceeeEEEEECCeE--EEEEECCCcccc
Confidence            4579999999999999999999977542  233332 344556666777754  789999999764

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.50  E-value=8.6e-14  Score=75.75  Aligned_cols=60  Identities=18%  Similarity=0.349  Sum_probs=41.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      .|++++|++|||||||++++..+.+. ....++...+.....+..++.  .+.+||++|++++
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~   62 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSG   62 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCc
Confidence            58999999999999999999988643 122233333445555556664  6789999999874

>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=99.49  E-value=6.5e-14  Score=82.91  Aligned_cols=63  Identities=16%  Similarity=0.254  Sum_probs=50.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      .+|++++|++|||||||++++.+..+.....|++..+.....+..++.  .+.+||++|+..+..
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~DtpG~~~~~~   65 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREK--EFLVVDLPGIYSLTA   65 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTE--EEEEEECCCCSCCCS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCc--eEEEEeCCCcccccc
Confidence            579999999999999999999987764445565666666666666664  489999999998765

>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=99.49  E-value=8.9e-15  Score=83.54  Aligned_cols=60  Identities=12%  Similarity=0.150  Sum_probs=46.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCC---CccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYD---TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ....++++++|++|||||||++++..+.+..   .+.++++.++         ..+.+.+||++|+++|+.+
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~   71 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYK   71 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEEEECCCCGGGTHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEEEECCCcHHHHHH
Confidence            3567899999999999999999999888754   3445544222         4567899999999988654

>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=99.47  E-value=1.5e-14  Score=80.70  Aligned_cols=52  Identities=19%  Similarity=0.238  Sum_probs=40.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNA   65 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g   65 (75)
                      +||+++|++|||||||+++++.+.+...+.|+....  ...+..+    .+.+||++|
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~--~~~~~~~----~~~l~Dt~G   53 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRK--IIEIEWK----NHKIIDMPG   53 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTS--CEEEEET----TEEEEECCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCccce--eEEEecC----CEEEEECCC
Confidence            689999999999999999999988877666655322  2223333    689999999

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.47  E-value=2.7e-13  Score=79.94  Aligned_cols=65  Identities=17%  Similarity=0.204  Sum_probs=46.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ...++|+++|+.|+|||||+++++...+  ...+.++. .......+..++  ..+.+|||+|+++|..+
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t-~~~~~~~~~~~~--~~l~liDTpG~~~~~~~  100 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEG-LRPVMVSRTMGG--FTINIIDTPGLVEAGYV  100 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-C-CCCEEEEEEETT--EEEEEEECCCSEETTEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcc-eeeEEEEEEECC--eeEEEEECCCCCCcccc
Confidence            3579999999999999999999998764  23333322 223333444455  47899999999887654

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.46  E-value=1.3e-14  Score=81.38  Aligned_cols=59  Identities=12%  Similarity=0.122  Sum_probs=41.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCC---CccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYD---TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ...++|+++|++|||||||++++....+..   .+.++.+         .+...+.+.+||++|+++|+..
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~---------~~~~~~~~~l~Dt~G~~~~~~~  107 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSA---------ADYDGSGVTLVDFPGHVKLRYK  107 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC---------------------CCCCTTCSEEEETTCCBSSCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCcee---------eeecCCeEEEEECCCCchHHHH
Confidence            457899999999999999999999887644   2223322         1224567899999999988653

>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=99.45  E-value=1.4e-13  Score=81.23  Aligned_cols=62  Identities=16%  Similarity=0.237  Sum_probs=48.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      .+|+++|++|||||||++++.+..+.....|++..+.....+..++.  .+.+|||+|+..+.+
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~   63 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH--LIEITDLPGVYSLVA   63 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE--EEEEEECCCCSSCC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe--EEEEEeCCCcccccc
Confidence            38999999999999999999987654444455555666666666665  789999999988764

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.45  E-value=6.5e-14  Score=83.43  Aligned_cols=63  Identities=16%  Similarity=0.201  Sum_probs=44.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ..+||+++|++|||||||++++++........|.+..+  .+...++. .+.+.+||++|+++|..
T Consensus         2 ~~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~--~~~~~~~~-~~~l~l~DtpG~~~~~~   64 (272)
T 3b1v_A            2 SMTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVE--RKSGLVKK-NKDLEIQDLPGIYSMSP   64 (272)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCS--CEEEECTT-CTTEEEEECCCCSCSSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEE--EEEEEEec-CCeEEEEECCCcCccCC
Confidence            35899999999999999999999765332222322222  23333454 66799999999998863

>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=99.45  E-value=1.5e-13  Score=79.30  Aligned_cols=60  Identities=20%  Similarity=0.154  Sum_probs=40.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ...+||+++|++|||||||+++++.+.+.....+....+.....+..++  +.+.+|||+|+
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~   86 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL--NKYQIIDTPGL   86 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT--EEEEEEECTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC--CeEEEEECCCC
Confidence            4579999999999999999999998876422212111122222222333  67899999999

>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=99.43  E-value=2.3e-13  Score=80.88  Aligned_cols=64  Identities=14%  Similarity=0.212  Sum_probs=48.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ..++|+++|++|||||||++++.+..+.....|++..+.....+..++.  .+.+|||+|++.+..
T Consensus         2 ~~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~~--~~~liDtpG~~~~~~   65 (274)
T 3i8s_A            2 KKLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDH--QVTLVDLPGTYSLTT   65 (274)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSSC--EEEEEECCCCSCSCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCCC--ceEEEECcCCCcccc
Confidence            3689999999999999999999987654444444445565666655554  567899999998774

>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=99.43  E-value=3e-13  Score=83.15  Aligned_cols=69  Identities=16%  Similarity=0.284  Sum_probs=40.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh-CCCCCCc--------cceeeEEEEEEEEEeCCeEEEEEEEeCCCc-------cc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD-ETYYDTY--------ISTIGIDFKQKIIDLDDVPTKLQIWTLNAL-------LT   68 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~-~~~~~~~--------~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~-------~~   68 (75)
                      ...++|+++|++|+|||||++++.. +.+...+        .+|++.+.....+..++..+.+.+|||+|+       ++
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            4578999999999999999999764 3443333        256666655555555677889999999999       66


Q ss_pred             ccccc
Q psy12927         69 YLLLD   73 (75)
Q Consensus        69 ~~~~~   73 (75)
                      |+.+.
T Consensus       115 ~~~i~  119 (361)
T 2qag_A          115 FKTII  119 (361)
T ss_dssp             -CCTH
T ss_pred             HHHHH
Confidence            76653

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.42  E-value=1.4e-13  Score=81.47  Aligned_cols=65  Identities=20%  Similarity=0.244  Sum_probs=44.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ...++|+++|++|+|||||+++++...+.  ..+.++.   .......++.....+.+|||+|++++..+
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t---~~~~~~~~~~~~~~l~iiDTpG~~~~~~~  103 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEG---PRPVMVSRSRAGFTLNIIDTPGLIEGGYI  103 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCC---SSCEEEEEEETTEEEEEEECCCSEETTEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcc---eeeEEEEEeeCCeEEEEEECCCCCCCccc
Confidence            35799999999999999999999987652  2222221   11122222233467999999999877543

>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=99.41  E-value=2.6e-13  Score=78.83  Aligned_cols=60  Identities=12%  Similarity=0.272  Sum_probs=41.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccc--eeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYIS--TIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~--t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ...+||+++|++|||||||++++++..+.....+  ++..+.....+..++.  .+.+|||+|.
T Consensus        27 ~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~i~liDTpG~   88 (239)
T 3lxx_A           27 NSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKET--ELVVVDTPGI   88 (239)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETTE--EEEEEECCSC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCCc--eEEEEECCCc
Confidence            4579999999999999999999998877554444  2333333444445554  6789999994

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.40  E-value=2.3e-13  Score=76.00  Aligned_cols=57  Identities=18%  Similarity=0.197  Sum_probs=40.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNA   65 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g   65 (75)
                      ...+||+++|++|||||||+++++.+.+ ..+.++.+..........+.   .+.+||++|
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G   77 (195)
T 3pqc_A           21 PLKGEVAFVGRSNVGKSSLLNALFNRKI-AFVSKTPGKTRSINFYLVNS---KYYFVDLPG   77 (195)
T ss_dssp             CTTCEEEEEEBTTSSHHHHHHHHHTSCC-SCCCSSCCCCCCEEEEEETT---TEEEEECCC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHcCcc-ccccCCCCCccCeEEEEECC---cEEEEECCC
Confidence            4568999999999999999999998873 33444444333322222333   467999999

>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=99.38  E-value=2.1e-12  Score=75.75  Aligned_cols=64  Identities=9%  Similarity=0.204  Sum_probs=45.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC-CCCCccce-eeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET-YYDTYIST-IGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~-~~~~~~~t-~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ...++|+++|.+|||||||+++++... +...+.++ +..+.....+..++  ..+.+|||+|+..+.
T Consensus        20 ~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~   85 (260)
T 2xtp_A           20 RSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWK   85 (260)
T ss_dssp             -CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCC
Confidence            357899999999999999999999776 55444443 22233333444454  468999999987653

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.37  E-value=1.3e-13  Score=78.87  Aligned_cols=62  Identities=16%  Similarity=0.206  Sum_probs=40.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeC-CeEEEEEEEeCCCc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLD-DVPTKLQIWTLNAL   66 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~   66 (75)
                      ...+||+++|++|||||||+++++++.+.....++.+.........+. .....+.+|||+|.
T Consensus        27 ~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~   89 (223)
T 4dhe_A           27 TVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGY   89 (223)
T ss_dssp             CCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCC
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCC
Confidence            457899999999999999999999876322222222211112222233 33467899999994

>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=99.34  E-value=1.5e-12  Score=78.46  Aligned_cols=66  Identities=15%  Similarity=0.148  Sum_probs=43.9

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCC--CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDETYYD--TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      |+...+..+++++|.+|||||||++++++..+..  ..+.|.. +.....+.  .....+.+|||+|+.+.
T Consensus         1 m~~~~~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr-~~i~~i~~--~~~~~l~l~DTpG~~~~   68 (301)
T 1wf3_A            1 MAEKTYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTR-KRLRGILT--EGRRQIVFVDTPGLHKP   68 (301)
T ss_dssp             --CCCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCC-SCEEEEEE--ETTEEEEEEECCCCCCC
T ss_pred             CCCCccCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCcee-EEEEEEEE--eCCcEEEEecCccccch
Confidence            6666777899999999999999999999887642  2222222 11111122  23467899999998763

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.32  E-value=4.8e-13  Score=83.76  Aligned_cols=58  Identities=16%  Similarity=0.237  Sum_probs=40.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ..+|++++|++|||||||++++++..+.  ..+ +....+.....+..++..  +.+|||+|+
T Consensus       174 ~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~-~gtT~d~~~~~~~~~~~~--~~l~DT~G~  233 (436)
T 2hjg_A          174 EVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNV-AGTTRDAVDTSFTYNQQE--FVIVDTAGM  233 (436)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTTEEEC----------CCEEEEETTEE--EEETTHHHH
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCCCceeecCC-CCceeeeeEEEEEECCeE--EEEEECCCc
Confidence            4689999999999999999999987653  233 333345555566667654  789999998

>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=99.31  E-value=1.4e-12  Score=78.61  Aligned_cols=62  Identities=18%  Similarity=0.321  Sum_probs=32.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC-CCCCCc--------cceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE-TYYDTY--------ISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~-~~~~~~--------~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ...++++++|++|||||||++++... .++...        .++.+.......+..++....+.+||++|+
T Consensus        16 ~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~   86 (301)
T 2qnr_A           16 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGY   86 (301)
T ss_dssp             --CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC--
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhh
Confidence            45789999999999999999997754 454432        223332222222333455678999999998

>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=99.31  E-value=4e-12  Score=79.64  Aligned_cols=59  Identities=14%  Similarity=0.220  Sum_probs=38.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      .+|+++|.++||||||++++++++.. ....|.+..+.....+..++..  +.+|||+|++.
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~~--~~l~DT~G~~~   61 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKT--FKLVDTCGVFD   61 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTEE--EEEEECTTTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCeE--EEEEECCCccc
Confidence            37999999999999999999977642 1223333345555666667754  68999999875

>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=99.29  E-value=3.1e-12  Score=81.19  Aligned_cols=62  Identities=13%  Similarity=0.155  Sum_probs=32.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      .+||+++|.+|||||||++++...+.  ...+ +....+.....+.+++  +.+.+|||+|++++..
T Consensus       233 ~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~-~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~  296 (476)
T 3gee_A          233 GVSTVIAGKPNAGKSTLLNTLLGQERAIVSHM-PGTTRDYIEECFIHDK--TMFRLTDTAGLREAGE  296 (476)
T ss_dssp             CEEEEEECCTTSSHHHHHHHCC-------------------CEEEEETT--EEEEEEC---------
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCCC-CCceEEEEEEEEEECC--eEEEEEECCCCCcchh
Confidence            58999999999999999999997642  2333 3333455555666666  4689999999987653

>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=99.24  E-value=2.3e-12  Score=81.05  Aligned_cols=66  Identities=17%  Similarity=0.253  Sum_probs=44.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC-CCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCC----------ccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET-YYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNA----------LLTYLLL   72 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g----------~~~~~~~   72 (75)
                      ...+|++++|+++||||||+++++... ......++...+.....+..++.  .+.+|||+|          +++|..+
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~  269 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVL  269 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHH
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHH
Confidence            457899999999999999999999654 22222233334444455556665  688999999          6776544

>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=99.22  E-value=5.2e-12  Score=71.57  Aligned_cols=60  Identities=15%  Similarity=0.204  Sum_probs=36.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ....+++++|++|||||||++++++..+...+.|+.|.......+.+++   .+.+||++|..
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~   83 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYG   83 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCc
Confidence            3467999999999999999999997765444556665444333333333   46899999974

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.22  E-value=1.8e-11  Score=76.74  Aligned_cols=62  Identities=18%  Similarity=0.185  Sum_probs=40.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ..+|++++|++|||||||++++++...  ...++.+ ..+.....+.+++.  .+.+|||+|++++.
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gt-T~d~~~~~i~~~g~--~~~l~Dt~G~~~~~  242 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGT-TRDPVDDEVFIDGR--KYVFVDTAGLRRKS  242 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC-------CCEEEEETTE--EEEESSCSCC----
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCC-cCCceEEEEEECCE--EEEEEECCCCcccc
Confidence            458999999999999999999997754  2223222 23444455667776  46899999986544

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.22  E-value=5.4e-11  Score=74.73  Aligned_cols=65  Identities=9%  Similarity=0.169  Sum_probs=43.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC-------------------------------CCCCccceeeEEEEEEEEEeCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET-------------------------------YYDTYISTIGIDFKQKIIDLDD   53 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~-------------------------------~~~~~~~t~~~~~~~~~~~~~~   53 (75)
                      ...++++++|..++|||||+++++...                               +..+..+.+..+.....+..+ 
T Consensus        15 k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~-   93 (439)
T 3j2k_7           15 KEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETE-   93 (439)
T ss_pred             CceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecC-
Confidence            457899999999999999999995321                               111112233334444444333 


Q ss_pred             eEEEEEEEeCCCcccccc
Q psy12927         54 VPTKLQIWTLNALLTYLL   71 (75)
Q Consensus        54 ~~~~l~i~D~~g~~~~~~   71 (75)
                       ...+.+|||+|+++|..
T Consensus        94 -~~~~~iiDTPGh~~f~~  110 (439)
T 3j2k_7           94 -KKHFTILDAPGHKSFVP  110 (439)
T ss_pred             -CeEEEEEECCChHHHHH
Confidence             35789999999998854

>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=99.20  E-value=3.8e-11  Score=72.39  Aligned_cols=65  Identities=9%  Similarity=0.073  Sum_probs=43.5

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCC--CccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYD--TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      +...-.|+++|.+|||||||++++++..+..  ....+.. +........+ ....+.+|||+|+.++.
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~-~~~~~~~~~~-~~~~i~lvDTPG~~~~~   73 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTR-MRVLGVKNIP-NEAQIIFLDTPGIYEPK   73 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCC-SCEEEEEEET-TTEEEEEEECCCCCCCC
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCcee-eEEEEEEecC-CCCeEEEEECcCCCccc
Confidence            4667889999999999999999999887642  2222221 1111222222 14678999999997654

>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=99.20  E-value=1.9e-12  Score=81.47  Aligned_cols=58  Identities=17%  Similarity=0.224  Sum_probs=37.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNA   65 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g   65 (75)
                      ..+|+++|.+|||||||++++++..+. ...++.|.........++.....+.+|||+|
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l~~~~~~-~v~~~~g~t~~~~~~~~~~~~~~~~liDT~G   80 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGG   80 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCc-ccCCCCCcceeEEEEEEEECCceEEEEECCC
Confidence            568999999999999999999987653 2233444444333444444456789999999

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.20  E-value=4.1e-12  Score=79.70  Aligned_cols=67  Identities=18%  Similarity=0.143  Sum_probs=43.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ...++|+++|..++|||||++++....+. ....+....+.....+...+.. .+.+|||+|++.|..+
T Consensus        32 ~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~-~l~liDTpG~~d~~~l   99 (423)
T 3qq5_A           32 GFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIG-PVTLVDTPGLDDVGEL   99 (423)
T ss_dssp             CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTTE-EEEEEECSSTTCCCTT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCC-eEEEEECcCCCcccch
Confidence            45789999999999999999999877652 1222222234445555555432 7899999999988765

>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=99.17  E-value=6.6e-11  Score=74.17  Aligned_cols=65  Identities=18%  Similarity=0.349  Sum_probs=37.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCC-c-------cceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDT-Y-------ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~-~-------~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ...++|+++|++|||||||++.+++..++.. +       .++.+.......+..++....+.+||++|...+
T Consensus        29 ~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~  101 (418)
T 2qag_C           29 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDA  101 (418)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhh
Confidence            4468899999999999999999998766321 1       233333322222222344568999999998764

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.16  E-value=7.6e-12  Score=78.35  Aligned_cols=59  Identities=17%  Similarity=0.213  Sum_probs=32.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      .+|+++|.+|||||||++++++..+. ...++.|...........-....+.+|||+|++
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~-~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~   62 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGID   62 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC------------CEEEECTTCSSCCEEEC-----
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCCccceEEEEEEECCceEEEEECCCCC
Confidence            68999999999999999999977653 223333433222222233233568999999986

>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=99.16  E-value=1.4e-11  Score=78.27  Aligned_cols=61  Identities=18%  Similarity=0.282  Sum_probs=45.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc-ccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL-TYL   70 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~-~~~   70 (75)
                      .++|+++|.+|||||||++++...++  ..+++.|. .+.....+.+++.  .+.+|||+|++ ++.
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT-~d~~~~~i~~~g~--~~~l~DTaG~~~~~~  306 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTT-RDVISEEIVIRGI--LFRIVDTAGVRSETN  306 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCS-SCSCCEEEEETTE--EEEEEESSCCCSSCC
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCee-eeeEEEEEecCCe--EEEEEECCCccccch
Confidence            38999999999999999999997753  34444333 3455556667664  57999999998 654

>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=99.14  E-value=8.1e-12  Score=79.03  Aligned_cols=62  Identities=13%  Similarity=0.250  Sum_probs=37.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ..+|++++|++|||||||++++....+  .... ++...++....+.+++.  .+.+|||+|..++.
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~-~gtT~d~~~~~i~~~g~--~v~liDT~G~~~~~  286 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDL-PGTTRDVVESQLVVGGI--PVQVLDTAGIRETS  286 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCC-TTCCHHHHHHEEEETTE--EEEECC--------
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCC-CCeeEEEEEEEEEECCE--EEEEEECCccccch
Confidence            357999999999999999999997643  2333 33233444445556664  56899999986654

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.14  E-value=7.3e-13  Score=85.06  Aligned_cols=68  Identities=10%  Similarity=0.177  Sum_probs=48.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ...+|+++|..++|||||++++....+.....+++..++....+..++ ...+.+|||+|+++|..+..
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~-g~~i~~iDTPGhe~f~~~~~   70 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPS-GEKITFLDTPGHAAFSAMRA   70 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSC-SSCCBCEECSSSCCTTTSBB
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCC-CCEEEEEECCChHHHHHHHH
Confidence            457899999999999999999997766554555554444333333321 23688999999999987653

>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=99.14  E-value=2.2e-11  Score=75.24  Aligned_cols=61  Identities=21%  Similarity=0.357  Sum_probs=39.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCC-Ccc-ceeeEEEEEEEEEeCCe---------------EEEEEEEeCCCccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYD-TYI-STIGIDFKQKIIDLDDV---------------PTKLQIWTLNALLTYL   70 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~~-~t~~~~~~~~~~~~~~~---------------~~~l~i~D~~g~~~~~   70 (75)
                      +++.++|.+|||||||++++....+.. +++ .|+.....  .+.+++.               +..+++||++|+.++.
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 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTG--VVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSS--EEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEE--EEecCCcccceeeeeecccceeeeEEEEEECCCCcccc
Confidence            689999999999999999999866422 221 13222221  1223332               2579999999998763

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.12  E-value=6.2e-11  Score=73.91  Aligned_cols=67  Identities=19%  Similarity=0.246  Sum_probs=35.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCe---------------EEEEEEEeCCCcccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDV---------------PTKLQIWTLNALLTY   69 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~l~i~D~~g~~~~   69 (75)
                      ...+++.++|.+|||||||++.+....+.....|....+.....+.+.+.               +..+++||++|..++
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            34678999999999999999999976543222222112222233334332               235999999999876


Q ss_pred             cc
Q psy12927         70 LL   71 (75)
Q Consensus        70 ~~   71 (75)
                      .+
T Consensus       100 as  101 (396)
T 2ohf_A          100 AH  101 (396)
T ss_dssp             --
T ss_pred             cc
Confidence            54

>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=99.11  E-value=4.3e-10  Score=69.93  Aligned_cols=67  Identities=12%  Similarity=0.111  Sum_probs=43.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC---CCCCCccc--eeeEEEEEEEEEe-------------C--C----eEEEEEE
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE---TYYDTYIS--TIGIDFKQKIIDL-------------D--D----VPTKLQI   60 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~---~~~~~~~~--t~~~~~~~~~~~~-------------~--~----~~~~l~i   60 (75)
                      ...++++++|..++|||||++++.+.   .+..+..+  |+...+....+..             +  +    ....+.+
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~i   85 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSF   85 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEE
Confidence            45799999999999999999999833   33334334  5554444333321             1  1    1378999


Q ss_pred             EeCCCcccccc
Q psy12927         61 WTLNALLTYLL   71 (75)
Q Consensus        61 ~D~~g~~~~~~   71 (75)
                      ||++|+++|..
T Consensus        86 iDtPGh~~f~~   96 (408)
T 1s0u_A           86 VDSPGHETLMA   96 (408)
T ss_dssp             EECSSHHHHHH
T ss_pred             EECCCHHHHHH
Confidence            99999998753

>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=99.10  E-value=2.9e-11  Score=76.59  Aligned_cols=26  Identities=23%  Similarity=0.437  Sum_probs=23.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...+|++++|..++|||||+++++..
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~   56 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYD   56 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHh
Confidence            45799999999999999999999754

>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=99.07  E-value=8.1e-10  Score=68.70  Aligned_cols=68  Identities=16%  Similarity=0.161  Sum_probs=45.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhC---CCCCCccc--eeeEEEEEEEEEe-------------C--C----eEEEEE
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDE---TYYDTYIS--TIGIDFKQKIIDL-------------D--D----VPTKLQ   59 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~---~~~~~~~~--t~~~~~~~~~~~~-------------~--~----~~~~l~   59 (75)
                      ....++++++|..++|||||++++.+.   .+..+..+  |+...+....+..             +  +    ....+.
T Consensus         7 ~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   86 (410)
T 1kk1_A            7 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVS   86 (410)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEE
Confidence            456799999999999999999999833   33333334  5544444333321             1  1    137899


Q ss_pred             EEeCCCcccccc
Q psy12927         60 IWTLNALLTYLL   71 (75)
Q Consensus        60 i~D~~g~~~~~~   71 (75)
                      +||++|+++|..
T Consensus        87 iiDtPGh~~f~~   98 (410)
T 1kk1_A           87 FIDAPGHEALMT   98 (410)
T ss_dssp             EEECSSHHHHHH
T ss_pred             EEECCChHHHHH
Confidence            999999998753

>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=99.07  E-value=2.3e-10  Score=72.62  Aligned_cols=65  Identities=12%  Similarity=0.189  Sum_probs=40.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC-------CCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET-------YYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~-------~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ...++++++|..++|||||++++....       +..+..+.+..+.....+..++  ..+.+||++|+++|..
T Consensus        17 m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~~~~   88 (482)
T 1wb1_A           17 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIR   88 (482)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHH
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHHHHH
Confidence            457999999999999999999998765       2222222222222222333444  5789999999988743

>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=99.05  E-value=1.5e-10  Score=73.09  Aligned_cols=30  Identities=17%  Similarity=0.336  Sum_probs=25.7

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |......++++++|..++|||||+++++..
T Consensus         1 M~~~~~~~~i~iiG~~~~GKSTLi~~Ll~~   30 (458)
T 1f60_A            1 MGKEKSHINVVVIGHVDSGKSTTTGHLIYK   30 (458)
T ss_dssp             -CCCCEEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCCCceeEEEEEcCCCCCHHHHHHHHHHH
Confidence            665667899999999999999999999853

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.04  E-value=1.4e-10  Score=68.81  Aligned_cols=29  Identities=21%  Similarity=0.466  Sum_probs=25.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYY   33 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~   33 (75)
                      ....+|+++|+++||||||++++++..+.
T Consensus        24 ~~~~~i~vvG~~~~GKSSLln~l~g~~~~   52 (299)
T 2aka_B           24 LDLPQIAVVGGQSAGKSSVLENFVGRDFL   52 (299)
T ss_dssp             CCCCEEEEEEBTTSCHHHHHHHHHTSCCS
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHHCCCcC
Confidence            34679999999999999999999988763

>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=99.03  E-value=2.6e-10  Score=76.31  Aligned_cols=70  Identities=10%  Similarity=0.092  Sum_probs=44.9

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhC------------CCCC------CccceeeEEEEEEEEE------------eC
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDE------------TYYD------TYISTIGIDFKQKIID------------LD   52 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~------------~~~~------~~~~t~~~~~~~~~~~------------~~   52 (75)
                      ......||+++|..++|||||+++++..            .+..      ....|+..........            .+
T Consensus        15 ~~~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~   94 (842)
T 1n0u_A           15 KVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTD   94 (842)
T ss_dssp             CGGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCC
T ss_pred             CcccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEeccccccccccccccc
Confidence            4456789999999999999999999853            1110      0111322222122222            24


Q ss_pred             CeEEEEEEEeCCCccccccc
Q psy12927         53 DVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus        53 ~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +..+.+++|||+|+.+|...
T Consensus        95 ~~~~~i~liDTPG~~df~~~  114 (842)
T 1n0u_A           95 GNSFLINLIDSPGHVDFSSE  114 (842)
T ss_dssp             SSEEEEEEECCCCCCSSCHH
T ss_pred             CCCceEEEEECcCchhhHHH
Confidence            55889999999999988653

>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=99.03  E-value=1.4e-10  Score=72.07  Aligned_cols=68  Identities=12%  Similarity=0.132  Sum_probs=42.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhC--------CCCCC-------ccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDE--------TYYDT-------YISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~--------~~~~~-------~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ....++++++|..++|||||++++...        .+...       ...+.|..+......++.....+.+|||+|+++
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            345799999999999999999999863        22110       001112212222223333446789999999998


Q ss_pred             ccc
Q psy12927         69 YLL   71 (75)
Q Consensus        69 ~~~   71 (75)
                      |..
T Consensus        88 f~~   90 (405)
T 2c78_A           88 YIK   90 (405)
T ss_dssp             GHH
T ss_pred             HHH
Confidence            854

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.03  E-value=1.4e-11  Score=70.67  Aligned_cols=40  Identities=20%  Similarity=0.212  Sum_probs=33.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEE
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFK   45 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~   45 (75)
                      ...+++++|++|||||||+++++...+...+.++++.++.
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            4689999999999999999999987766656677776654

>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=99.03  E-value=5e-10  Score=69.07  Aligned_cols=57  Identities=18%  Similarity=0.153  Sum_probs=36.8

Q ss_pred             eE-EEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          8 YK-ILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         8 ~k-i~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      ++ ++++|.+|||||||++.+.+..+.....+....+.....+.+++.  .+.+|||+|.
T Consensus       179 ~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g~--~v~l~DT~G~  236 (364)
T 2qtf_A          179 IPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINNR--KIMLVDTVGF  236 (364)
T ss_dssp             CCEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETTE--EEEEEECCCB
T ss_pred             CcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECCE--EEEEEeCCCc
Confidence            45 899999999999999999977653221111112344556667774  5689999997

>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=99.02  E-value=5e-10  Score=69.76  Aligned_cols=61  Identities=16%  Similarity=0.221  Sum_probs=34.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCC-CCc-----cceeeEEEEEEE---------------EEeCC-eEEEEEEEeCCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYY-DTY-----ISTIGIDFKQKI---------------IDLDD-VPTKLQIWTLNA   65 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~-----~~t~~~~~~~~~---------------~~~~~-~~~~l~i~D~~g   65 (75)
                      +||+++|.++||||||+++++..... .++     .++.+..+....               ..+++ ..+.+++|||+|
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            58999999999999999999976532 122     233443221110               01233 357899999999


Q ss_pred             ccc
Q psy12927         66 LLT   68 (75)
Q Consensus        66 ~~~   68 (75)
                      +.+
T Consensus        81 ~~~   83 (397)
T 1wxq_A           81 LVP   83 (397)
T ss_dssp             ---
T ss_pred             ccc
Confidence            864

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.01  E-value=4e-10  Score=69.03  Aligned_cols=61  Identities=21%  Similarity=0.274  Sum_probs=40.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCC-c-cceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDT-Y-ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~-~-~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ...++++++|.+|||||||++++....+... + ..|....  ...+..+  ...+.+|||+|...+
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~--~~~~~~~--~~~~~l~Dt~G~~~~  227 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGIN--VGQFEDG--YFRYQIIDTPGLLDR  227 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEE--EEEEEET--TEEEEEEECTTTSSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeecee--EEEEEec--CceEEEEeCCCcccc
Confidence            3568999999999999999999997654211 1 1222221  2222223  357899999998653

>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=99.01  E-value=2.4e-09  Score=66.49  Aligned_cols=28  Identities=25%  Similarity=0.289  Sum_probs=24.7

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ....++|+++|..++|||||+++++...
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~~~~   32 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAITGIW   32 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHSCC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCcc
Confidence            4567999999999999999999998654

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=98.99  E-value=3.6e-10  Score=70.12  Aligned_cols=66  Identities=11%  Similarity=0.133  Sum_probs=41.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhC-------CCCCC-------ccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDE-------TYYDT-------YISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~-------~~~~~-------~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ..+|++++|..++|||||++++...       .+...       .....+.........++.....+.+|||+|+++|..
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            4689999999999999999999863       12110       000111111112222333446789999999998753

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=98.99  E-value=9.3e-11  Score=76.27  Aligned_cols=26  Identities=23%  Similarity=0.437  Sum_probs=23.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...+||+++|.+++|||||+++++..
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~  190 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYD  190 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSC
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHh
Confidence            45789999999999999999999854

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=98.99  E-value=2.4e-11  Score=77.57  Aligned_cols=66  Identities=8%  Similarity=0.127  Sum_probs=44.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +..+++++|..++|||||+.++....+.....+.+..+.....+..++  ..+.+|||+|++.|..+.
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~--~~i~~iDTPGhe~f~~~~   68 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN--GMITFLDTPGHAAFTSMR   68 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS--SCCCEECCCTTTCCTTSB
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC--EEEEEEECCCcHHHHHHH
Confidence            457899999999999999999987655433322222222122222333  367899999999998764

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=98.98  E-value=7.6e-10  Score=69.33  Aligned_cols=27  Identities=19%  Similarity=0.498  Sum_probs=23.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ...+|++++|..++|||||+++++.+.
T Consensus        22 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~   48 (434)
T 1zun_B           22 KEMLRFLTCGNVDDGKSTLIGRLLHDS   48 (434)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHhhc
Confidence            456899999999999999999998553

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.97  E-value=2.4e-10  Score=74.09  Aligned_cols=25  Identities=20%  Similarity=0.375  Sum_probs=22.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...++|+++|..++|||||+++++.
T Consensus       175 k~~~~I~iiG~~d~GKSTLi~~Ll~  199 (592)
T 3mca_A          175 KPVVHLVVTGHVDSGKSTMLGRIMF  199 (592)
T ss_dssp             CCEEEEEEECCSSSTHHHHHHHHHH
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHHH
Confidence            4578999999999999999999963

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.95  E-value=3.3e-10  Score=67.18  Aligned_cols=58  Identities=19%  Similarity=0.305  Sum_probs=35.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ++++++|.+|||||||++++....... ..++.|.......+.++.   .+.+|||+|....
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~-~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~~~  157 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASS-VGAQPGITKGIQWFSLEN---GVKILDTPGILYK  157 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECTT---SCEEESSCEECCC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccc-cCCCCCCccceEEEEeCC---CEEEEECCCcccC
Confidence            589999999999999999999765422 233333333222222332   5789999997643

>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=98.94  E-value=4.5e-10  Score=67.57  Aligned_cols=60  Identities=15%  Similarity=0.092  Sum_probs=38.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      .+..+++++|.+|||||||++++++..+.  ...+.+.. +.....+..+  ...+.+|||+|..
T Consensus         6 ~r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr-~~~~gi~~~~--~~~i~~iDTpG~~   67 (301)
T 1ega_A            6 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTR-HRIVGIHTEG--AYQAIYVDTPGLH   67 (301)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCS-SCEEEEEEET--TEEEEEESSSSCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcce-eeEEEEEEEC--CeeEEEEECcCCC
Confidence            34568999999999999999999977642  11111211 1111112222  3578899999987

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=98.94  E-value=2.3e-10  Score=74.27  Aligned_cols=69  Identities=16%  Similarity=0.162  Sum_probs=44.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCC----ccceeeEEEEEEEE------------EeCCeEEEEEEEeCCCcccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDT----YISTIGIDFKQKII------------DLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~----~~~t~~~~~~~~~~------------~~~~~~~~l~i~D~~g~~~~   69 (75)
                      +..+|+++|..++|||||++++....+...    ..++++..+.....            .++.....+.+|||+|++.|
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F   83 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAF   83 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCC
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHH
Confidence            457999999999999999999986654321    22344433322110            00011225899999999999


Q ss_pred             ccccc
Q psy12927         70 LLLDK   74 (75)
Q Consensus        70 ~~~~~   74 (75)
                      ..+..
T Consensus        84 ~~~~~   88 (594)
T 1g7s_A           84 TTLRK   88 (594)
T ss_dssp             TTSBC
T ss_pred             HHHHH
Confidence            87653

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=98.93  E-value=5e-10  Score=71.87  Aligned_cols=67  Identities=9%  Similarity=0.109  Sum_probs=39.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC--CCCC---------------C---ccceeeEEEEEEEEEeCCeEEEEEEEeCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE--TYYD---------------T---YISTIGIDFKQKIIDLDDVPTKLQIWTLN   64 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~--~~~~---------------~---~~~t~~~~~~~~~~~~~~~~~~l~i~D~~   64 (75)
                      ....+++++|..++|||||+++++..  .+..               +   ..++.|.........++...+.+.+|||+
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            34789999999999999999999853  1100               0   00111211111112222234678999999


Q ss_pred             Ccccccc
Q psy12927         65 ALLTYLL   71 (75)
Q Consensus        65 g~~~~~~   71 (75)
                      |++.|..
T Consensus        91 G~~df~~   97 (529)
T 2h5e_A           91 GHEDFSE   97 (529)
T ss_dssp             CSTTCCH
T ss_pred             CChhHHH
Confidence            9988764

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=98.93  E-value=2.5e-10  Score=71.57  Aligned_cols=26  Identities=23%  Similarity=0.508  Sum_probs=23.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...+|++++|..++|||||+++++..
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~   29 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMD   29 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHH
Confidence            45799999999999999999999854

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=98.92  E-value=1.4e-09  Score=70.80  Aligned_cols=66  Identities=14%  Similarity=0.195  Sum_probs=36.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhC--CCC-----CCc------cceeeEEEEEEEEEe-----CCeEEEEEEEeCCCcc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDE--TYY-----DTY------ISTIGIDFKQKIIDL-----DDVPTKLQIWTLNALL   67 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~--~~~-----~~~------~~t~~~~~~~~~~~~-----~~~~~~l~i~D~~g~~   67 (75)
                      ...+++++|..++|||||+.+++..  ...     ..+      ..+.|..+....+.+     ++..+.+++|||+|++
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            4578999999999999999999852  111     011      112222332222222     5667999999999999


Q ss_pred             cccc
Q psy12927         68 TYLL   71 (75)
Q Consensus        68 ~~~~   71 (75)
                      .|..
T Consensus        83 dF~~   86 (599)
T 3cb4_D           83 DFSY   86 (599)
T ss_dssp             GGHH
T ss_pred             HHHH
Confidence            8854

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=98.91  E-value=5.3e-10  Score=69.04  Aligned_cols=52  Identities=12%  Similarity=0.162  Sum_probs=38.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      +++++|..++|||||+++++      ....|+...+.  .  .+.....+.+|||+|+++|.
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~------~~giTi~~~~~--~--~~~~~~~i~iiDtPGh~~f~   74 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG------KKGTSSDITMY--N--NDKEGRNMVFVDAHSYPKTL   74 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS------EEEEESSSEEE--E--ECSSSSEEEEEECTTTTTCH
T ss_pred             EEEEECCCCCCHHHHHHHHH------hCCEEEEeeEE--E--EecCCeEEEEEECCChHHHH
Confidence            89999999999999999988      23344433332  2  23233468999999999884

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=98.91  E-value=8.1e-10  Score=72.42  Aligned_cols=67  Identities=10%  Similarity=0.089  Sum_probs=42.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCC-------------Cccc---eeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYD-------------TYIS---TIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~-------------~~~~---t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ....+++++|..|+|||||+++++......             ++.+   ..+..+......+....+.+++|||+|+++
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~~   86 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGD   86 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGG
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCccc
Confidence            456789999999999999999998433211             1100   011122222223333457899999999998


Q ss_pred             ccc
Q psy12927         69 YLL   71 (75)
Q Consensus        69 ~~~   71 (75)
                      |..
T Consensus        87 f~~   89 (665)
T 2dy1_A           87 FVG   89 (665)
T ss_dssp             GHH
T ss_pred             hHH
Confidence            764

>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=98.89  E-value=1.9e-09  Score=66.15  Aligned_cols=23  Identities=22%  Similarity=0.563  Sum_probs=20.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~   27 (75)
                      ...+|++++|.+++||||+++++
T Consensus         3 ~~~~klLLLG~geSGKSTi~KQm   25 (340)
T 4fid_A            3 AKPITVMLLGSGESGKSTIAKQL   25 (340)
T ss_dssp             -CCEEEEEEECTTSSHHHHHHHH
T ss_pred             CCcceEEEECCCCCcHHHHHHHH
Confidence            56899999999999999999864

>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=98.88  E-value=3.2e-09  Score=64.96  Aligned_cols=27  Identities=19%  Similarity=0.420  Sum_probs=24.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYY   33 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~   33 (75)
                      ..+|+++|++|||||||++.+.+..+.
T Consensus        34 lp~I~vvG~~~sGKSSLln~l~g~~~l   60 (360)
T 3t34_A           34 LPAIAVVGGQSSGKSSVLESIVGKDFL   60 (360)
T ss_dssp             CCEEEEECBTTSSHHHHHHHHHTSCCS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCcC
Confidence            348999999999999999999987763

>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=98.88  E-value=2.6e-09  Score=63.88  Aligned_cols=27  Identities=19%  Similarity=0.492  Sum_probs=24.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      ...+|+++|+++||||||++++++..+
T Consensus        23 ~~~~I~vvG~~~~GKSTlln~l~g~~~   49 (315)
T 1jwy_B           23 DLPQIVVVGSQSSGKSSVLENIVGRDF   49 (315)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHTSCC
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHCCCc
Confidence            457899999999999999999998876

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=98.87  E-value=6e-10  Score=68.14  Aligned_cols=28  Identities=21%  Similarity=0.519  Sum_probs=24.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYY   33 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~   33 (75)
                      ...+|+++|+++||||||++++++..+.
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~~~   57 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRDFL   57 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSCCS
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCcC
Confidence            3579999999999999999999988763

>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=98.87  E-value=1.2e-09  Score=67.55  Aligned_cols=57  Identities=23%  Similarity=0.373  Sum_probs=39.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCC-CC-----CccceeeEEEEEEEEEeCC-------------------eEEEEEEEe
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETY-YD-----TYISTIGIDFKQKIIDLDD-------------------VPTKLQIWT   62 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~-~~-----~~~~t~~~~~~~~~~~~~~-------------------~~~~l~i~D   62 (75)
                      +++.++|.+|||||||++.+..... ..     ...|+++..      .+..                   .+..+++||
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~------~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvD   75 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVV------PLEDERLYALQRTFAKGERVPPVVPTHVEFVD   75 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEE------ECCCHHHHHHHHHHCBTTBCCCEECCEEEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceeeE------ecChHHHHHHHHHhcccccccccCCceEEEEE
Confidence            5799999999999999999986542 11     234555432      1221                   346799999


Q ss_pred             CCCccccc
Q psy12927         63 LNALLTYL   70 (75)
Q Consensus        63 ~~g~~~~~   70 (75)
                      ++|+.++.
T Consensus        76 tpGl~~~a   83 (368)
T 2dby_A           76 IAGLVKGA   83 (368)
T ss_dssp             CCSCCCCC
T ss_pred             CCCccccc
Confidence            99998753

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=98.87  E-value=2.4e-09  Score=67.75  Aligned_cols=25  Identities=16%  Similarity=0.309  Sum_probs=22.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...++|+++|..++|||||+.+++.
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~   65 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILF   65 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHH
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHH
Confidence            4578999999999999999999874

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=98.85  E-value=5.6e-09  Score=63.77  Aligned_cols=24  Identities=25%  Similarity=0.605  Sum_probs=20.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHH
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~   27 (75)
                      ....+|++++|.+.+||||+++++
T Consensus         4 ~~~~~klLlLG~geSGKSTi~KQm   27 (327)
T 3ohm_A            4 ARRELKLLLLGTGESGKSTFIKQM   27 (327)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHH
T ss_pred             hcccceEEEEcCCCccHHHHHHHH
Confidence            456899999999999999999864

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.84  E-value=4.8e-09  Score=62.74  Aligned_cols=59  Identities=20%  Similarity=0.396  Sum_probs=35.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ...++++++|.+|||||||++.+.+..... ..+..+.......+.++.   .+.++||+|-.
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            346899999999999999999999765321 112222221122222332   47899999974

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=98.83  E-value=2.6e-10  Score=73.21  Aligned_cols=23  Identities=13%  Similarity=0.356  Sum_probs=21.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ...+|+++|.+++|||||+++++
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll   34 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLL   34 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHH
T ss_pred             cCCEEEEECCCCCcHHHHHHHHH
Confidence            46799999999999999999996

>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=98.83  E-value=1.3e-08  Score=67.14  Aligned_cols=66  Identities=14%  Similarity=0.041  Sum_probs=42.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhC--CCCC------------------CccceeeEEEEEEEEEe-----CCeEEEE
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDE--TYYD------------------TYISTIGIDFKQKIIDL-----DDVPTKL   58 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~--~~~~------------------~~~~t~~~~~~~~~~~~-----~~~~~~l   58 (75)
                      .....+++++|..++|||||+.+++..  .+..                  ....|+....  ..+..     ++..+.+
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            356789999999999999999999742  1111                  0112322211  12222     2345899


Q ss_pred             EEEeCCCcccccc
Q psy12927         59 QIWTLNALLTYLL   71 (75)
Q Consensus        59 ~i~D~~g~~~~~~   71 (75)
                      .+|||+|+.+|..
T Consensus        85 ~liDTPG~~df~~   97 (704)
T 2rdo_7           85 NIIDTPGHVDFTI   97 (704)
T ss_pred             EEEeCCCccchHH
Confidence            9999999998754

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=98.83  E-value=1.5e-09  Score=74.91  Aligned_cols=67  Identities=12%  Similarity=0.130  Sum_probs=40.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC-------CCCC-------CccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE-------TYYD-------TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~-------~~~~-------~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ...++|+++|..++|||||+.++...       .+..       ....+.|..+....+.++.....+.+|||+|+++|.
T Consensus       294 k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF~  373 (1289)
T 3avx_A          294 KPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYV  373 (1289)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHHH
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHHH
Confidence            45799999999999999999999863       1100       011223333222222334445678999999999885


Q ss_pred             c
Q psy12927         71 L   71 (75)
Q Consensus        71 ~   71 (75)
                      .
T Consensus       374 ~  374 (1289)
T 3avx_A          374 K  374 (1289)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.81  E-value=1e-08  Score=66.82  Aligned_cols=67  Identities=13%  Similarity=0.259  Sum_probs=39.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC--CCCC-----Cccc------eeeEEEE----EEEEEe-CCeEEEEEEEeCCCc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE--TYYD-----TYIS------TIGIDFK----QKIIDL-DDVPTKLQIWTLNAL   66 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~--~~~~-----~~~~------t~~~~~~----~~~~~~-~~~~~~l~i~D~~g~   66 (75)
                      ....+++++|..++|||||+.+++..  .+..     .+..      ..|..+.    ...... ++..+.+.+|||+|+
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            45679999999999999999999752  1111     0000      1111111    111111 566789999999999


Q ss_pred             ccccc
Q psy12927         67 LTYLL   71 (75)
Q Consensus        67 ~~~~~   71 (75)
                      +.|..
T Consensus        84 ~dF~~   88 (600)
T 2ywe_A           84 VDFSY   88 (600)
T ss_dssp             GGGHH
T ss_pred             HhHHH
Confidence            98854

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=98.79  E-value=3.6e-09  Score=69.65  Aligned_cols=63  Identities=13%  Similarity=0.061  Sum_probs=39.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC--CCCC------------------CccceeeEEEEEEEEEeCCeEEEEEEEeCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE--TYYD------------------TYISTIGIDFKQKIIDLDDVPTKLQIWTLN   64 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~--~~~~------------------~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~   64 (75)
                      ....+|+++|..++|||||+++++..  .+..                  ....|+...  ...+..+  .+.+.+|||+
T Consensus        10 ~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~--~~~~~~~--~~~i~liDTP   85 (691)
T 1dar_A           10 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAA--VTTCFWK--DHRINIIDTP   85 (691)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CC--EEEEEET--TEEEEEECCC
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccc--eEEEEEC--CeEEEEEECc
Confidence            56789999999999999999999832  1110                  112222211  1122222  4679999999


Q ss_pred             Ccccccc
Q psy12927         65 ALLTYLL   71 (75)
Q Consensus        65 g~~~~~~   71 (75)
                      |+..|..
T Consensus        86 G~~df~~   92 (691)
T 1dar_A           86 GHVDFTI   92 (691)
T ss_dssp             SSTTCHH
T ss_pred             CccchHH
Confidence            9988754

>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=98.76  E-value=1.7e-08  Score=62.97  Aligned_cols=28  Identities=21%  Similarity=0.347  Sum_probs=24.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      ....++.++|++|||||||++.+.+...
T Consensus        18 ~~g~~vgiVG~pnaGKSTL~n~Ltg~~~   45 (392)
T 1ni3_A           18 GNNLKTGIVGMPNVGKSTFFRAITKSVL   45 (392)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHSTT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCc
Confidence            3457899999999999999999998654

>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=98.73  E-value=1.4e-09  Score=66.62  Aligned_cols=56  Identities=18%  Similarity=0.312  Sum_probs=35.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCC-CCcc-ceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYY-DTYI-STIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~-~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      +|+++|.++||||||+++++...+. .+++ .|.....  ..+.+++ ...+.+||++|+.
T Consensus       160 ~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~--g~v~~~~-~~~~~l~DtPG~i  217 (342)
T 1lnz_A          160 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNL--GMVETDD-GRSFVMADLPGLI  217 (342)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCE--EEEECSS-SCEEEEEEHHHHH
T ss_pred             eeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceE--EEEEeCC-CceEEEecCCCCc
Confidence            5789999999999999999866432 1222 2222121  1233443 1368999999964

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=98.67  E-value=6e-08  Score=63.96  Aligned_cols=63  Identities=14%  Similarity=0.160  Sum_probs=39.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh--CCCCC-----------Cc-------cceeeEEEEEEEEEeCCeEEEEEEEeCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD--ETYYD-----------TY-------ISTIGIDFKQKIIDLDDVPTKLQIWTLN   64 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~--~~~~~-----------~~-------~~t~~~~~~~~~~~~~~~~~~l~i~D~~   64 (75)
                      ....+++++|..++|||||+++++.  +.+..           ++       ..|+.  .....+..+  .+.+.+|||+
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~--~~~~~~~~~--~~~i~liDTP   83 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITIT--SAATTAAWE--GHRVNIIDTP   83 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------C--CSEEEEEET--TEEEEEECCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEe--eeeEEEEEC--CeeEEEEECc
Confidence            5578999999999999999999984  33211           00       11111  111122223  3678999999


Q ss_pred             Ccccccc
Q psy12927         65 ALLTYLL   71 (75)
Q Consensus        65 g~~~~~~   71 (75)
                      |+.+|..
T Consensus        84 G~~df~~   90 (693)
T 2xex_A           84 GHVDFTV   90 (693)
T ss_dssp             CCSSCCH
T ss_pred             CCcchHH
Confidence            9988754

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=98.62  E-value=2.7e-08  Score=65.59  Aligned_cols=27  Identities=30%  Similarity=0.605  Sum_probs=24.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      ..++|+++|++++|||||++.+++...
T Consensus        68 ~~~~V~VvG~~naGKSSLlNaLlg~~~   94 (695)
T 2j69_A           68 GVFRLLVLGDMKRGKSTFLNALIGENL   94 (695)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            468999999999999999999997764

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=98.62  E-value=8.4e-08  Score=59.56  Aligned_cols=58  Identities=17%  Similarity=0.264  Sum_probs=38.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ..+|.++|.++||||||++.+.+.... .+++.|. .+...-.+.+++.  ++++.|++|--
T Consensus        72 ~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT-~~~~~g~~~~~~~--~i~l~D~pGl~  130 (376)
T 4a9a_A           72 VASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTT-LVTVPGVIRYKGA--KIQMLDLPGII  130 (376)
T ss_dssp             SEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSC-CCEEEEEEEETTE--EEEEEECGGGC
T ss_pred             CCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCce-eeeeeEEEEeCCc--EEEEEeCCCcc
Confidence            468999999999999999999865422 2333222 1222334445554  57899999964

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.61  E-value=4e-08  Score=63.38  Aligned_cols=28  Identities=21%  Similarity=0.384  Sum_probs=25.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      ....+|+++|..|+|||||++++++..+
T Consensus        63 ~~~~~V~vvG~~n~GKSTLIN~Llg~~~   90 (550)
T 2qpt_A           63 DGKPMVLVAGQYSTGKTSFIQYLLEQEV   90 (550)
T ss_dssp             SSCCEEEEEEBTTSCHHHHHHHHHTSCC
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCcc
Confidence            3568999999999999999999998876

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.47  E-value=9.5e-08  Score=56.82  Aligned_cols=26  Identities=27%  Similarity=0.604  Sum_probs=22.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      +.+++.++|++|+|||||++.+++-.
T Consensus         1 f~f~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            1 FDFNIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             CEEEEEEEESSSSSHHHHHHHHHHHH
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCC
Confidence            36899999999999999999988543

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.40  E-value=8.3e-08  Score=54.62  Aligned_cols=25  Identities=24%  Similarity=0.421  Sum_probs=22.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...+++++|.+|||||||++++...
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHH
Confidence            3568999999999999999999865

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.39  E-value=4.1e-07  Score=59.31  Aligned_cols=63  Identities=13%  Similarity=0.059  Sum_probs=39.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCc-----cceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTY-----ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~-----~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      .....|+++|.++||||||++++.+....-..     ..|.+...+...+. ......+.++||+|-..
T Consensus        36 ~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~-~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           36 QPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHP-KKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECS-SSTTCEEEEEEECCBCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccc-cCCCceEEEecCCCcCc
Confidence            44678999999999999999999876521111     22333222111110 12234678999999764

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.37  E-value=5.2e-07  Score=55.71  Aligned_cols=60  Identities=22%  Similarity=0.259  Sum_probs=35.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCC-----CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYY-----DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~-----~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      .+++++|.+|+|||||++.+......     ....+..+.......+.++..   +.++||+|-....
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~  225 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEE---SSLYDTPGIINHH  225 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSS---CEEEECCCBCCTT
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCC---eEEEeCCCcCcHH
Confidence            57999999999999999999865211     101111121222223333332   7899999975433

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=98.36  E-value=2.3e-07  Score=58.20  Aligned_cols=52  Identities=12%  Similarity=0.365  Sum_probs=34.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCC-C-----CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYY-D-----TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~-~-----~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      .+.++|++|||||||++.+...... .     ...|+++      .+..++ ...+.+||++|..
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G------~V~~~~-~~~~~l~DtpGli  216 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLG------VVEVSE-EERFTLADIPGII  216 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEE------EEECSS-SCEEEEEECCCCC
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcccceecceee------EEEecC-cceEEEEeccccc
Confidence            3689999999999999999865321 1     1223332      222333 2467899999974

>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=98.21  E-value=6.2e-06  Score=52.04  Aligned_cols=26  Identities=19%  Similarity=0.668  Sum_probs=22.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      .++++++|++|+|||||++.+.+-.+
T Consensus        42 i~~vaLvG~nGaGKSTLln~L~G~~l   67 (427)
T 2qag_B           42 CFNILCVGETGLGKSTLMDTLFNTKF   67 (427)
T ss_dssp             EEEEEEECSTTSSSHHHHHHHHTSCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCccc
Confidence            46799999999999999999986543

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.20  E-value=1.3e-06  Score=53.94  Aligned_cols=57  Identities=19%  Similarity=0.364  Sum_probs=34.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC------CCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE------TYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~------~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      .+++++|.+|+|||||++.+...      .......|..  ......+.++..   +.+.||+|-...
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gt--T~~~~~~~~~~~---~~liDtPG~~~~  225 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGT--TLDMIEIPLESG---ATLYDTPGIINH  225 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTS--SCEEEEEECSTT---CEEEECCSCCCC
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCe--EEeeEEEEeCCC---eEEEeCCCcCcH
Confidence            47999999999999999999865      1111111111  111222333332   689999997543

>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=98.09  E-value=2.8e-06  Score=47.67  Aligned_cols=23  Identities=35%  Similarity=0.732  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++++|++|+|||||++.+.+-
T Consensus         1 ~~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999988743

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=98.02  E-value=4.5e-06  Score=46.53  Aligned_cols=22  Identities=23%  Similarity=0.510  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|++|||||||++.+...
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            5789999999999999998853

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.98  E-value=5.9e-06  Score=45.97  Aligned_cols=26  Identities=19%  Similarity=0.275  Sum_probs=21.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...-.++++|++|+||||+++.+...
T Consensus         7 ~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            7 LGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             CTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            33456899999999999999999864

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.97  E-value=5.8e-06  Score=46.81  Aligned_cols=21  Identities=19%  Similarity=0.531  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .++++|++|+|||||++.+..
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

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.92  E-value=8.3e-06  Score=45.77  Aligned_cols=22  Identities=23%  Similarity=0.400  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|+|||||++.+..-
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            4789999999999999998854

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=97.92  E-value=1.9e-05  Score=50.04  Aligned_cols=61  Identities=15%  Similarity=0.157  Sum_probs=38.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC------------------CCCC---CccceeeEEEEEEEE--E-eCCeEEEEEEEe
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE------------------TYYD---TYISTIGIDFKQKII--D-LDDVPTKLQIWT   62 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~------------------~~~~---~~~~t~~~~~~~~~~--~-~~~~~~~l~i~D   62 (75)
                      -.-|.|+|..++|||+|++++.+.                  .|..   ....|.|+-.....+  . .++....+.+.|
T Consensus        67 v~vVsV~G~~~~GKStLLN~llg~~~~~~~~~wl~~~~~~~~~f~~~~t~~~~T~GIw~~~~p~~~~~~~~~~~~vvllD  146 (447)
T 3q5d_A           67 VVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMD  146 (447)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHHCCSTTTSSCCTTSBCCSSCSCCSSCCCCCEEEEESSCEEEECSSSCEEEEEEEE
T ss_pred             eEEEEEECCCCCcHHHHHHHHhhhcccccccccccccccccceecCCCCCCCceeEEEEecCccccccCCCCcceEEEEc
Confidence            445679999999999999999852                  2321   122344432221111  1 145678899999


Q ss_pred             CCCcc
Q psy12927         63 LNALL   67 (75)
Q Consensus        63 ~~g~~   67 (75)
                      |.|..
T Consensus       147 TeG~~  151 (447)
T 3q5d_A          147 TQGTF  151 (447)
T ss_dssp             EECCC
T ss_pred             CCccc
Confidence            99864

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.89  E-value=9.8e-06  Score=46.83  Aligned_cols=22  Identities=18%  Similarity=0.344  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|++|+|||||++.+...
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            5789999999999999998864

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.88  E-value=1e-05  Score=45.94  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|+|||||++.+.+-
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4689999999999999998753

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.88  E-value=1.1e-05  Score=45.73  Aligned_cols=21  Identities=29%  Similarity=0.612  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |+++|++||||+||+++++..
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            789999999999999998854

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.85  E-value=1.2e-05  Score=46.17  Aligned_cols=22  Identities=27%  Similarity=0.625  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|++|+|||||++.+..-
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999998863

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.85  E-value=1.3e-05  Score=45.82  Aligned_cols=23  Identities=22%  Similarity=0.502  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      --++++|++|||||||++.+...
T Consensus        20 ~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           20 KTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECcCCCCHHHHHHHHHhh
Confidence            35789999999999999998853

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.84  E-value=1.4e-05  Score=45.52  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|++|+||||+++.+...
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            4789999999999999999865

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.83  E-value=1.6e-05  Score=48.67  Aligned_cols=23  Identities=17%  Similarity=0.473  Sum_probs=21.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...+.++|.+|||||||++.+..
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHH
Confidence            57899999999999999999985

>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=97.81  E-value=9e-05  Score=49.79  Aligned_cols=27  Identities=22%  Similarity=0.538  Sum_probs=24.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      ...+|+++|+.++|||||++.+++..+
T Consensus        50 ~lp~I~vvG~~saGKSSllnaL~g~~~   76 (772)
T 3zvr_A           50 DLPQIAVVGGQSAGKSSVLENFVGRDF   76 (772)
T ss_dssp             CCSEEEEEECTTTCHHHHHHHHHSSCC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCc
Confidence            356999999999999999999998776

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.80  E-value=1.3e-05  Score=44.34  Aligned_cols=18  Identities=22%  Similarity=0.580  Sum_probs=16.2

Q ss_pred             EEEEEcCCCCcHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHR   26 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~   26 (75)
                      -++++|++|+|||||++.
T Consensus        11 i~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEEECCTTSCHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            368999999999999994

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.79  E-value=1.9e-05  Score=43.54  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      -+.++|+.|+|||||++.+....
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            57899999999999999988654

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.77  E-value=1.9e-05  Score=45.25  Aligned_cols=29  Identities=17%  Similarity=0.409  Sum_probs=20.7

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      |..-.....|+++|.+|+||||+++.+..
T Consensus         1 m~~~~~~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            1 MGASARLLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             ------CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCccccCcEEEEECCCCCCHHHHHHHHHH
Confidence            44334457899999999999999998874

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.77  E-value=2e-05  Score=44.70  Aligned_cols=24  Identities=13%  Similarity=0.249  Sum_probs=20.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ....+.++|++|+|||||++.+..
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            456789999999999999998763

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.76  E-value=2.5e-05  Score=44.16  Aligned_cols=25  Identities=20%  Similarity=0.401  Sum_probs=20.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .....+.++|++|+|||||++.+..
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3445789999999999999998775

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.76  E-value=2.2e-05  Score=44.36  Aligned_cols=23  Identities=30%  Similarity=0.505  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-++++|++|+||||+++.+...
T Consensus        13 ~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           13 PPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            35789999999999999998753

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.75  E-value=2.6e-05  Score=43.94  Aligned_cols=22  Identities=41%  Similarity=0.628  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -.++++|++|+||||+++.+..
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            4688999999999999998864

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.74  E-value=2.4e-05  Score=43.54  Aligned_cols=21  Identities=24%  Similarity=0.482  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -++++|++|+||||+++.+..
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            468999999999999999874

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.74  E-value=2.6e-05  Score=42.70  Aligned_cols=21  Identities=24%  Similarity=0.515  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .++++|.+|+||||+++.+..
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999875

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.73  E-value=2.5e-05  Score=43.79  Aligned_cols=24  Identities=29%  Similarity=0.495  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ..++++|++|+||||+++.+....
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            468999999999999999988643

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.73  E-value=2.5e-05  Score=42.52  Aligned_cols=22  Identities=18%  Similarity=0.283  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .|++.|.+|+||||+++.+...
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            5899999999999999998743

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.73  E-value=1.9e-05  Score=45.97  Aligned_cols=22  Identities=18%  Similarity=0.274  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            3679999999999999998754

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.73  E-value=3.9e-05  Score=42.16  Aligned_cols=23  Identities=17%  Similarity=0.329  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...++++|.+|+||||+++.+..
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            35688999999999999998764

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=97.72  E-value=2.8e-05  Score=45.11  Aligned_cols=21  Identities=24%  Similarity=0.559  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ..++++|++|+||||+++.+.
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            468999999999999999987

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.72  E-value=2.9e-05  Score=44.00  Aligned_cols=22  Identities=18%  Similarity=0.386  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ++|++.|.+|+||||+++.+..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999864

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.71  E-value=3.1e-05  Score=43.94  Aligned_cols=22  Identities=18%  Similarity=0.382  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ++|+++|.+|+||||+++.+..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999864

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.70  E-value=3.1e-05  Score=42.42  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .-|++.|.+|+||||+.+.+..
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            3588999999999999999886

>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=97.69  E-value=5e-05  Score=46.82  Aligned_cols=27  Identities=30%  Similarity=0.491  Sum_probs=23.5

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHH
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~   27 (75)
                      |-.....+|++++|.+++||||+++++
T Consensus         3 ~~~~~~~~k~lllG~~~sGKsT~~kq~   29 (354)
T 2xtz_A            3 MGSGIHIRKLLLLGAGESGKSTIFKQI   29 (354)
T ss_dssp             CCCCCEEEEEEEECSTTSSHHHHHHHH
T ss_pred             ccCCCCceeEEEECCCCCcHHHHHHHH
Confidence            445677899999999999999999975

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.69  E-value=2.8e-05  Score=44.17  Aligned_cols=22  Identities=27%  Similarity=0.335  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|+|||||++.+...
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            4689999999999999999863

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.69  E-value=3e-05  Score=45.37  Aligned_cols=22  Identities=18%  Similarity=0.357  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999998864

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.68  E-value=3.4e-05  Score=41.83  Aligned_cols=20  Identities=25%  Similarity=0.321  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~   27 (75)
                      .-|+++|.+|+||||+.+.+
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            35889999999999999998

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.68  E-value=2.4e-05  Score=45.27  Aligned_cols=22  Identities=18%  Similarity=0.237  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3679999999999999998754

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.67  E-value=3e-05  Score=43.87  Aligned_cols=21  Identities=29%  Similarity=0.686  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ++.++|++|+|||||++.+..
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            478999999999999998774

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.67  E-value=4.2e-05  Score=43.08  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -.|+++|.+|+||||+.+.+..
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            3689999999999999998874

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=97.67  E-value=2.8e-05  Score=46.00  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|+|||||++.+.+-
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3579999999999999998854

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.66  E-value=2.7e-05  Score=43.09  Aligned_cols=22  Identities=23%  Similarity=0.298  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -.++++|++|+|||+|++.+..
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~   60 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLK   60 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999998764

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.66  E-value=3.8e-05  Score=43.19  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..|+++|.+|+||||+++.+..
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            3689999999999999998864

>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=97.65  E-value=3.8e-05  Score=47.10  Aligned_cols=24  Identities=21%  Similarity=0.502  Sum_probs=21.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-++.++|++|+|||||++.+.+-
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            458899999999999999998754

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.65  E-value=4.5e-05  Score=42.57  Aligned_cols=21  Identities=29%  Similarity=0.512  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .|++.|.+|+||||+++.+..
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            589999999999999998875

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=97.65  E-value=2.6e-05  Score=50.47  Aligned_cols=22  Identities=14%  Similarity=0.388  Sum_probs=19.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      .=++.++|-.++|||||..+++
T Consensus        31 ~RNiaIiaHvdaGKTTLtE~lL   52 (548)
T 3vqt_A           31 RRTFAIISHPDAGKTTLTEKLL   52 (548)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHH
T ss_pred             cceEEEEeCCCCCHHHHHHHHH
Confidence            4578999999999999999985

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=97.65  E-value=3.1e-05  Score=46.23  Aligned_cols=22  Identities=27%  Similarity=0.498  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3679999999999999998854

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.64  E-value=4.4e-05  Score=41.96  Aligned_cols=21  Identities=33%  Similarity=0.466  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -|+++|.+|+||||+.+.+..
T Consensus         5 ~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999875

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=97.64  E-value=4.6e-05  Score=43.68  Aligned_cols=23  Identities=26%  Similarity=0.458  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.|+++|++|+||+|.+.++...
T Consensus         1 M~Iil~GpPGsGKgTqa~~La~~   23 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRLAKE   23 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998743

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=97.64  E-value=3.2e-05  Score=45.55  Aligned_cols=22  Identities=18%  Similarity=0.401  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            4679999999999999998854

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=97.63  E-value=3.4e-05  Score=44.47  Aligned_cols=21  Identities=19%  Similarity=0.379  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|++|+|||||++.+.+-
T Consensus        38 ~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           38 VNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            579999999999999998854

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=97.63  E-value=3.8e-05  Score=44.77  Aligned_cols=22  Identities=23%  Similarity=0.469  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            4689999999999999998754

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=97.63  E-value=3.8e-05  Score=45.06  Aligned_cols=22  Identities=23%  Similarity=0.261  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            4689999999999999998754

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=97.63  E-value=4e-05  Score=45.41  Aligned_cols=22  Identities=14%  Similarity=0.329  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            4679999999999999998864

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.63  E-value=4.2e-05  Score=45.24  Aligned_cols=21  Identities=33%  Similarity=0.514  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .++++|++|+||||+++.+..
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            588999999999999998775

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.63  E-value=5.4e-05  Score=41.84  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .|++.|.+|+||||+++.+..
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            589999999999999998764

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=97.62  E-value=4e-05  Score=44.75  Aligned_cols=22  Identities=27%  Similarity=0.185  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            5689999999999999998854

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=97.62  E-value=4.1e-05  Score=44.93  Aligned_cols=22  Identities=14%  Similarity=0.314  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999998864

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.62  E-value=5e-05  Score=41.50  Aligned_cols=23  Identities=30%  Similarity=0.582  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||++++.+...
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            45899999999999999987643

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.62  E-value=3.6e-05  Score=44.91  Aligned_cols=22  Identities=18%  Similarity=0.350  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            3679999999999999998854

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=97.62  E-value=4.7e-05  Score=42.76  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+|.++|.+|+||||+++.+..
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            3789999999999999999875

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=97.61  E-value=3.7e-05  Score=45.59  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Confidence            4679999999999999998854

>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=97.60  E-value=5.1e-05  Score=42.77  Aligned_cols=23  Identities=26%  Similarity=0.280  Sum_probs=19.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..-++++|++|+||||+++.+..
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999998764

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=97.60  E-value=3.7e-05  Score=45.62  Aligned_cols=22  Identities=14%  Similarity=0.401  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            3579999999999999998854

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=97.60  E-value=4.6e-05  Score=44.19  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|+.|+|||||++.+.+-
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            4679999999999999998854

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.60  E-value=4.7e-05  Score=47.09  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .++++|++|||||||++.+....
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            57899999999999999998654

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=97.60  E-value=4.1e-05  Score=45.04  Aligned_cols=22  Identities=18%  Similarity=0.444  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            4689999999999999998754

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.59  E-value=4.2e-05  Score=45.18  Aligned_cols=22  Identities=18%  Similarity=0.243  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            4679999999999999998854

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=97.59  E-value=3.5e-05  Score=44.23  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            4789999999999999998754

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=97.59  E-value=2.6e-05  Score=44.83  Aligned_cols=20  Identities=20%  Similarity=0.399  Sum_probs=14.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      -+.++|++|+||||+++.+.
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             EEEEECSCC----CHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47899999999999999998

>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=97.59  E-value=6.4e-05  Score=41.52  Aligned_cols=22  Identities=27%  Similarity=0.267  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..|++.|.+|+||||+++.+..
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            4689999999999999998764

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=97.59  E-value=4.8e-05  Score=45.42  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            4689999999999999998854

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=97.58  E-value=4.9e-05  Score=44.90  Aligned_cols=22  Identities=18%  Similarity=0.303  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            4689999999999999998853

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.58  E-value=6.9e-05  Score=41.45  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..|+++|.+|+||||+.+.+..
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            4689999999999999999864

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=97.58  E-value=6.5e-05  Score=42.75  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..+.++|++|+||||+++.+..
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            5799999999999999998764

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=97.57  E-value=5e-05  Score=45.13  Aligned_cols=22  Identities=14%  Similarity=0.249  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            4689999999999999998864

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=97.57  E-value=6e-05  Score=45.67  Aligned_cols=21  Identities=19%  Similarity=0.434  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .++++|++|+|||||++.+.+
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhh
Confidence            688999999999999998763

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=97.57  E-value=5.7e-05  Score=42.91  Aligned_cols=22  Identities=23%  Similarity=0.409  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ++|++.|.+|+||||+++.+..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            1 MRIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3789999999999999998864

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.57  E-value=8.2e-05  Score=41.11  Aligned_cols=23  Identities=22%  Similarity=0.406  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...|+++|.+|+||||+.+.+..
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            35799999999999999998863

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=97.56  E-value=9e-05  Score=43.13  Aligned_cols=24  Identities=17%  Similarity=0.199  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..++|++.|.+|+||||+++.+..
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            467899999999999999999874

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.55  E-value=8.9e-05  Score=41.64  Aligned_cols=25  Identities=20%  Similarity=0.465  Sum_probs=21.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...+.|+++|.+|+||||+.+.+..
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4457899999999999999998864

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.55  E-value=8.5e-05  Score=41.17  Aligned_cols=23  Identities=26%  Similarity=0.414  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...|+++|.+|+||||+.+.+..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999998864

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=97.55  E-value=5e-05  Score=44.71  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            3679999999999999998864

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=97.55  E-value=5e-05  Score=44.96  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
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            4679999999999999998754

>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=97.55  E-value=5.9e-05  Score=45.37  Aligned_cols=22  Identities=32%  Similarity=0.522  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|||||||++.+. ..
T Consensus       167 i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH-SC
T ss_pred             EEEEECCCCCCHHHHHHHHH-Hh
Confidence            57899999999999999998 54

>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=97.55  E-value=7.2e-05  Score=46.20  Aligned_cols=23  Identities=30%  Similarity=0.576  Sum_probs=20.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~   27 (75)
                      ....|++++|.+++||||+++++
T Consensus        31 ~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHH
Confidence            45789999999999999999875

>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=97.53  E-value=7.1e-05  Score=43.45  Aligned_cols=21  Identities=33%  Similarity=0.620  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++++|++|+|||+|++.+...
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            899999999999999998753

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.53  E-value=6.8e-05  Score=42.47  Aligned_cols=21  Identities=29%  Similarity=0.408  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -++++|++|+|||+|+..+..
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            367899999999999999873

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.52  E-value=8e-05  Score=45.47  Aligned_cols=22  Identities=18%  Similarity=0.366  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ...+.++|++|+|||||++.+.
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            4578999999999999999987

>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=97.52  E-value=7.3e-05  Score=44.88  Aligned_cols=23  Identities=22%  Similarity=0.245  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|||||||++.+....
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            46899999999999999998654

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=97.52  E-value=7.3e-05  Score=45.29  Aligned_cols=25  Identities=24%  Similarity=0.267  Sum_probs=21.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ....-+.++|++|+|||||++.+..
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHh
Confidence            3456788999999999999998774

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.52  E-value=9.4e-05  Score=40.24  Aligned_cols=21  Identities=19%  Similarity=0.306  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +|++.|.+|+||||+.+.+..
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            689999999999999998875

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=97.51  E-value=9.9e-05  Score=43.76  Aligned_cols=23  Identities=26%  Similarity=0.521  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988643

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.50  E-value=0.00011  Score=41.18  Aligned_cols=22  Identities=23%  Similarity=0.163  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..|++.|.+|+||||+++.+..
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            5789999999999999999874

>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=97.50  E-value=0.0001  Score=46.35  Aligned_cols=24  Identities=17%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...+.++|++|+|||||++.+.+-
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCC
Confidence            347899999999999999999864

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=97.50  E-value=0.0001  Score=41.48  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +.+.++|.+|+||||+.+.+..
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            4689999999999999999975

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.50  E-value=8.1e-05  Score=44.17  Aligned_cols=21  Identities=29%  Similarity=0.548  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++++|++|+|||+|++.+...
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            899999999999999998753

>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=97.50  E-value=6.5e-05  Score=46.47  Aligned_cols=22  Identities=23%  Similarity=0.501  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      +.++|++|||||||++.+.+-.
T Consensus        33 ~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           33 LFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCchHHHHHHHHhcCC
Confidence            5799999999999999988643

>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=97.49  E-value=0.0001  Score=45.12  Aligned_cols=25  Identities=16%  Similarity=0.275  Sum_probs=21.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ....+++++|.+|||||||+.++..
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999999999863

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=97.49  E-value=9.3e-05  Score=41.42  Aligned_cols=22  Identities=18%  Similarity=0.247  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|.+|+|||||++.+...
T Consensus         8 ~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            8 LLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHh
Confidence            4789999999999999998743

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.49  E-value=0.00012  Score=40.44  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..|++.|.+|+||||+.+.+..
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999998763

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=97.48  E-value=0.0001  Score=41.93  Aligned_cols=23  Identities=13%  Similarity=0.394  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...|+++|.+|+||||+.+.+..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999998864

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=97.48  E-value=0.00015  Score=40.92  Aligned_cols=25  Identities=28%  Similarity=0.424  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ....+.++|.+|+||||+++.+...
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3567899999999999999998753

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.48  E-value=8.4e-05  Score=40.90  Aligned_cols=21  Identities=19%  Similarity=0.419  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++++|.+|+||||+.+.+..
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            589999999999999998864

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=97.48  E-value=8.1e-05  Score=45.96  Aligned_cols=21  Identities=33%  Similarity=0.427  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|++|||||||++.+.+-
T Consensus        44 ~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           44 VGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            579999999999999998864

>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=97.47  E-value=9.1e-05  Score=44.74  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      -.++++|++||||||++..+.
T Consensus       103 ~vi~lvG~nGsGKTTll~~La  123 (304)
T 1rj9_A          103 RVVLVVGVNGVGKTTTIAKLG  123 (304)
T ss_dssp             SEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHH
Confidence            468899999999999999876

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=97.47  E-value=0.00016  Score=39.93  Aligned_cols=28  Identities=21%  Similarity=0.345  Sum_probs=21.9

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      |+.. ....|++.|.+|+||||+.+.+..
T Consensus         1 m~~~-~~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            1 MEKS-KPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCC-CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCC-cCcEEEEECCCCCCHHHHHHHHHH
Confidence            4443 235689999999999999998864

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=97.46  E-value=8.8e-05  Score=45.88  Aligned_cols=21  Identities=24%  Similarity=0.422  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|++|||||||++.+.+-
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           32 MALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCchHHHHHHHHhcC
Confidence            579999999999999998864

>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=97.46  E-value=8.6e-05  Score=45.88  Aligned_cols=21  Identities=29%  Similarity=0.406  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|++|||||||++.+.+-
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           32 VALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEcCCCchHHHHHHHHHCC
Confidence            579999999999999998864

>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=97.46  E-value=8.8e-05  Score=46.22  Aligned_cols=22  Identities=18%  Similarity=0.430  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      +.++|++|||||||++.+.+-.
T Consensus        32 ~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           32 VVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHHcCC
Confidence            5799999999999999988643

>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=97.46  E-value=0.00016  Score=44.57  Aligned_cols=21  Identities=0%  Similarity=-0.212  Sum_probs=16.4

Q ss_pred             eEEEEEEEeCCCccccccccc
Q psy12927         54 VPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus        54 ~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +.+.+++||++||++|+++..
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~  201 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWI  201 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTG
T ss_pred             cceeeEEEECCCchhhhHHHH
Confidence            679999999999999998764

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.46  E-value=8e-05  Score=40.66  Aligned_cols=23  Identities=39%  Similarity=0.586  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||+++..+...
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            45799999999999999987643

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=97.46  E-value=0.00012  Score=42.06  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .|++.|.+|+||||+++.+..
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            689999999999999998864

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.45  E-value=0.0001  Score=44.47  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      --++++|++|+||||++..+..
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            3578999999999999998763

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.45  E-value=0.00014  Score=43.41  Aligned_cols=23  Identities=22%  Similarity=0.332  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..-++++|++|+||||+.+.+..
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999999874

>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=97.45  E-value=0.00011  Score=41.78  Aligned_cols=23  Identities=26%  Similarity=0.557  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .-.+++.|++|+|||+++..+..
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999998764

>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=97.45  E-value=9.9e-05  Score=44.74  Aligned_cols=22  Identities=32%  Similarity=0.617  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++.|++|+|||||++.+...
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            4789999999999999998753

>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=97.45  E-value=9.2e-05  Score=45.92  Aligned_cols=21  Identities=29%  Similarity=0.482  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|++|+|||||++.+.+-
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           32 MILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCcHHHHHHHHHHcC
Confidence            579999999999999998864

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.45  E-value=0.00011  Score=43.11  Aligned_cols=21  Identities=24%  Similarity=0.332  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -++++|++|+|||||...+..
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

>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=97.45  E-value=8.2e-05  Score=44.70  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|+.|+|||||++.+.+-
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            4689999999999999998754

>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=97.44  E-value=0.00015  Score=40.54  Aligned_cols=24  Identities=21%  Similarity=0.176  Sum_probs=21.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...|++.|.+|+||||+++.+...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            357999999999999999998864

>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=97.44  E-value=0.0001  Score=45.47  Aligned_cols=21  Identities=29%  Similarity=0.466  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .++++|++|+||||+++.+.+
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            689999999999999998764

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.44  E-value=0.00013  Score=40.58  Aligned_cols=24  Identities=29%  Similarity=0.483  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...|+++|.+|+||||+.+.+...
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            457999999999999999998754

>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=97.44  E-value=6.4e-05  Score=45.54  Aligned_cols=21  Identities=24%  Similarity=0.474  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+.++|++|+|||||++.+..
T Consensus        82 ~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTT
T ss_pred             EEEEECCCCchHHHHHHHHHc
Confidence            578999999999999998875

>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=97.44  E-value=0.00018  Score=44.32  Aligned_cols=34  Identities=9%  Similarity=0.027  Sum_probs=24.5

Q ss_pred             cceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927         37 ISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus        37 ~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+|+|+..  ..+.++  .+.+++||++||++|+.+..
T Consensus       178 ~~T~Gi~~--~~~~~~--~~~l~iwDt~GQe~~r~~w~  211 (353)
T 1cip_A          178 VKTTGIVE--THFTFK--DLHFKMFDVGGQRSERKKWI  211 (353)
T ss_dssp             CCCCSEEE--EEEEET--TEEEEEEEECCSGGGGGGGG
T ss_pred             CceeceEE--EEEeeC--CeeEEEEeCCCchhhhHHHH
Confidence            45677554  334444  57899999999999998753

>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=97.44  E-value=9.9e-05  Score=45.81  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|||||||++.+.+-
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            3579999999999999998854

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.44  E-value=0.00011  Score=43.28  Aligned_cols=21  Identities=33%  Similarity=0.620  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++++|++|+|||+|++.+...
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            899999999999999998753

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=97.43  E-value=5.4e-05  Score=42.26  Aligned_cols=21  Identities=29%  Similarity=0.566  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+.++|++|+|||||++.+..
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~   24 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMP   24 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999998764

>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=97.43  E-value=0.00019  Score=45.00  Aligned_cols=23  Identities=35%  Similarity=0.641  Sum_probs=20.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~   27 (75)
                      ...+|++++|.+.+||||+++++
T Consensus        38 ~~~~klLLLG~geSGKSTi~KQm   60 (402)
T 1azs_C           38 RATHRLLLLGAGESGKSTIVKQM   60 (402)
T ss_dssp             TTEEEEEEEESTTSSHHHHHHHH
T ss_pred             hccceEEEecCCCCchhhHHHHH
Confidence            55899999999999999999874

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=97.43  E-value=0.00015  Score=42.03  Aligned_cols=23  Identities=22%  Similarity=0.446  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...+.++|+.|+||||+++.+..
T Consensus        25 g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           25 PFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999998875

>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=97.43  E-value=0.00012  Score=40.34  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..|+++|.+|+||||+++.+..
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            4589999999999999999874

>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=97.42  E-value=0.0001  Score=43.77  Aligned_cols=22  Identities=27%  Similarity=0.377  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|++|+|||||+..+...
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            3689999999999999998754

>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=97.42  E-value=0.00011  Score=41.35  Aligned_cols=21  Identities=24%  Similarity=0.128  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -++++|++|+|||+|+..+..
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            478999999999999999986

>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=97.42  E-value=0.00012  Score=41.80  Aligned_cols=22  Identities=27%  Similarity=0.366  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|++|+|||+|+..+...
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            4689999999999999999863

>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=97.42  E-value=0.00012  Score=44.72  Aligned_cols=23  Identities=26%  Similarity=0.554  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .--++++|++|+||||++..+..
T Consensus       129 g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          129 PYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999998764

>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=97.41  E-value=0.00011  Score=45.58  Aligned_cols=21  Identities=24%  Similarity=0.267  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|++|+|||||++.+.+-
T Consensus        57 ~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           57 YGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEcCCCchHHHHHHHHhcC
Confidence            579999999999999998854

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.41  E-value=0.00018  Score=40.48  Aligned_cols=23  Identities=17%  Similarity=0.147  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...|++.|.+|+||||+++.+..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46799999999999999998874

>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=97.41  E-value=7.8e-05  Score=45.89  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|+|||||++.+.+-
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCccHHHHHHHHHcC
Confidence            3679999999999999998864

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.40  E-value=2.6e-05  Score=47.30  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.++++|++|||||||++.+...
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            36799999999999999998754

>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=97.40  E-value=0.00013  Score=41.01  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -+++.|++|+|||++++.+..
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            578999999999999998764

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=97.40  E-value=0.00021  Score=42.85  Aligned_cols=24  Identities=17%  Similarity=0.188  Sum_probs=20.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      .....|.++|++|+|||||++.+.
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            446788999999999999998765

>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=97.39  E-value=0.00015  Score=44.65  Aligned_cols=24  Identities=33%  Similarity=0.577  Sum_probs=21.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ...+|++++|.+.+||||+++++.
T Consensus        30 ~~~~klLlLG~geSGKST~~KQmk   53 (353)
T 1cip_A           30 AREVKLLLLGAGESGKSTIVKQMK   53 (353)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHH
T ss_pred             cccceEEEEcCCCCCchhHHHHHH
Confidence            458999999999999999999864

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.39  E-value=0.00021  Score=40.07  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...|++.|.+|+||||+.+.+..
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999998864

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=97.39  E-value=0.00018  Score=40.09  Aligned_cols=26  Identities=15%  Similarity=0.183  Sum_probs=22.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .....|.++|.+|+||||+.+.+...
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            34567999999999999999998754

>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=97.39  E-value=0.00014  Score=40.49  Aligned_cols=20  Identities=25%  Similarity=0.388  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++.|++|+|||+++..+..
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~   60 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALAR   60 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998774

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.38  E-value=0.00027  Score=39.21  Aligned_cols=24  Identities=29%  Similarity=0.429  Sum_probs=20.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ....++++|.+|+||||+++.+..
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            346789999999999999998763

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.38  E-value=8.2e-05  Score=40.50  Aligned_cols=22  Identities=23%  Similarity=0.510  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|++|+|||+|++.+...
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            4789999999999999988753

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.38  E-value=0.00017  Score=39.93  Aligned_cols=21  Identities=24%  Similarity=0.291  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .|++.|.+|+||||+.+.+..
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            588999999999999999875

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=97.38  E-value=0.00016  Score=40.70  Aligned_cols=23  Identities=17%  Similarity=0.290  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...|++.|.+|+||||+++.+..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998874

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.37  E-value=0.00015  Score=42.08  Aligned_cols=23  Identities=26%  Similarity=0.478  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||++++.+...
T Consensus        46 ~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            35899999999999999988743

>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=97.37  E-value=0.00014  Score=40.16  Aligned_cols=20  Identities=20%  Similarity=0.267  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      -.+++|+.|+|||||+..+.
T Consensus        28 ~~~i~G~NGsGKStll~ai~   47 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAIL   47 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            35799999999999999865

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.37  E-value=0.00015  Score=40.30  Aligned_cols=23  Identities=26%  Similarity=0.407  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...|+++|.+|+||||+.+.+..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999998864

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=97.36  E-value=0.00022  Score=43.84  Aligned_cols=22  Identities=32%  Similarity=0.581  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|++|+|||||++.+..-
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            6889999999999999998854

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.36  E-value=0.00018  Score=45.52  Aligned_cols=61  Identities=15%  Similarity=0.070  Sum_probs=35.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ...+|+++|.+|+||||+.+++..... ....++..++.........+......+||..|++
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~-~~~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~   98 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLN-FIGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEE   98 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHh-ccCCCceEEecchhhhhhccCCCcccccCCCCHH
Confidence            457899999999999999999875422 1122333322110000011222345678888874

>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=97.36  E-value=0.00016  Score=44.74  Aligned_cols=21  Identities=33%  Similarity=0.514  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .++++|++|+||||+++.+..
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

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.36  E-value=0.00016  Score=41.21  Aligned_cols=23  Identities=13%  Similarity=0.251  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+.|+++|.+|+||||+.+.+..
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            46899999999999999998864

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.35  E-value=0.00014  Score=41.41  Aligned_cols=22  Identities=18%  Similarity=0.277  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..|+++|.+|+||||+.+.+..
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            5789999999999999998864

>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=97.35  E-value=5.3e-05  Score=42.70  Aligned_cols=21  Identities=24%  Similarity=0.419  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -|++.|.+|+||||+++.+..
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            478999999999999998864

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.35  E-value=0.00015  Score=42.38  Aligned_cols=24  Identities=38%  Similarity=0.336  Sum_probs=20.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ....++++|.+|+||||+.+.+..
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            356799999999999999999874

>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=97.35  E-value=0.00013  Score=45.58  Aligned_cols=21  Identities=24%  Similarity=0.543  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+.++|++|||||||++.+.+
T Consensus        49 ~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHhC
Confidence            468999999999999998875

>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=97.34  E-value=0.00019  Score=39.17  Aligned_cols=21  Identities=19%  Similarity=0.406  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .|++.|.+|+||||+.+.+..
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            589999999999999998864

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.34  E-value=0.00018  Score=39.98  Aligned_cols=22  Identities=18%  Similarity=0.430  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..|++.|.+|+||||+.+.+..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.34  E-value=0.00018  Score=40.34  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||+|+..+...
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            57899999999999999987743

>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=97.34  E-value=0.00017  Score=42.26  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..|+++|.+|+||||+.+.+..
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            4689999999999999998874

>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=97.33  E-value=0.00022  Score=41.08  Aligned_cols=24  Identities=17%  Similarity=0.371  Sum_probs=20.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ....|+++|.+|+||||+.+.+..
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            346899999999999999998864

>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=97.33  E-value=0.00026  Score=43.21  Aligned_cols=24  Identities=21%  Similarity=0.360  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ..-++++|++|+|||+|...+...
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCccCHHHHHHHHHHh
Confidence            345788999999999999998753

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.33  E-value=0.0002  Score=41.90  Aligned_cols=21  Identities=29%  Similarity=0.309  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ..+.++|++|+||||+++.+.
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            478999999999999999887

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.32  E-value=0.00026  Score=39.92  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=20.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...-+.++|.+|+||||+++.+..
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            346789999999999999998764

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=97.32  E-value=0.00018  Score=44.52  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      --++++|++|+||||++..+..
T Consensus       158 ~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          158 AVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHh
Confidence            4578999999999999998764

>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=97.32  E-value=0.00027  Score=40.08  Aligned_cols=23  Identities=26%  Similarity=0.566  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+.|++.|.+|+||||+++.+..
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            46799999999999999999875

>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=97.32  E-value=7.7e-05  Score=45.95  Aligned_cols=22  Identities=27%  Similarity=0.401  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|+|||||++.+.+-
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3679999999999999998864

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=97.32  E-value=0.00028  Score=43.01  Aligned_cols=23  Identities=26%  Similarity=0.320  Sum_probs=20.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ..+-+.++|++||||||+++.+.
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~  113 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLK  113 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            45668999999999999999875

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.31  E-value=0.0002  Score=41.47  Aligned_cols=24  Identities=29%  Similarity=0.480  Sum_probs=19.0

Q ss_pred             eeE-EEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYK-ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~k-i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ..| |+++|++|+||+|.+..+...
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~   52 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQK   52 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            344 467899999999999988743

>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=97.31  E-value=0.00026  Score=42.58  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=20.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ....+.++|++|+|||||++.+..
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            345789999999999999998875

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=97.30  E-value=0.00019  Score=44.09  Aligned_cols=23  Identities=26%  Similarity=0.592  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ++.++|++|+|||||++.+.+..
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            68899999999999999988653

>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=97.30  E-value=0.00018  Score=45.25  Aligned_cols=22  Identities=32%  Similarity=0.332  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|++|+||||+++.++.-
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            4789999999999999998753

>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=97.30  E-value=0.00022  Score=39.42  Aligned_cols=21  Identities=29%  Similarity=0.477  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .|+++|.+|+||||+.+.+..
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            489999999999999998864

>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=97.29  E-value=0.00023  Score=44.67  Aligned_cols=33  Identities=12%  Similarity=0.005  Sum_probs=24.4

Q ss_pred             ceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927         38 STIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus        38 ~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +|+|++.  ..+.+++  +.++|||++||++|+++..
T Consensus       203 ~TiGi~~--~~~~~~~--v~l~iwDtaGQe~~r~~w~  235 (402)
T 1azs_C          203 LTSGIFE--TKFQVDK--VNFHMFDVGGQRDERRKWI  235 (402)
T ss_dssp             CCCSEEE--EEEEETT--EEEEEEEECCSGGGGGGGG
T ss_pred             ceeeeEE--EEeecCC--ccceecccchhhhhhhhhH
Confidence            4666654  3444554  8899999999999998753

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.29  E-value=0.00029  Score=41.72  Aligned_cols=23  Identities=22%  Similarity=0.430  Sum_probs=19.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ....+++.|++|+|||++++.+.
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la   88 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMA   88 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHH
Confidence            34579999999999999998554

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=97.28  E-value=0.00018  Score=45.77  Aligned_cols=22  Identities=27%  Similarity=0.727  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|+.|+|||||++.+++-
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            5789999999999999998753

>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=97.27  E-value=0.00025  Score=39.12  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...++++|.+|+||||+++.+..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999998875

>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=97.27  E-value=0.00012  Score=42.12  Aligned_cols=24  Identities=25%  Similarity=0.495  Sum_probs=20.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ..-+.+.|..|+||||+++.+..-
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            456899999999999999998753

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.26  E-value=0.00022  Score=41.83  Aligned_cols=24  Identities=29%  Similarity=0.436  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-.+++.|++|+|||++++.+...
T Consensus        51 ~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           51 PKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             CSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            346899999999999999998754

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.26  E-value=0.0002  Score=40.92  Aligned_cols=21  Identities=29%  Similarity=0.427  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -++++|++|+|||+|+.+++.
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            368999999999999888763

>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=97.26  E-value=0.00022  Score=45.95  Aligned_cols=22  Identities=32%  Similarity=0.622  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      --++++|.+|+||||++..+..
T Consensus       294 eVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          294 FVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCcccHHHHHHHHHH
Confidence            3578999999999999998763

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.26  E-value=0.00023  Score=42.09  Aligned_cols=24  Identities=25%  Similarity=0.423  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-.+++.|++|+|||++++.+...
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            357899999999999999998753

>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=97.25  E-value=0.00025  Score=41.00  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -.+++.|++|+|||++++.+..
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            4589999999999999998874

>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=97.24  E-value=0.0002  Score=42.21  Aligned_cols=21  Identities=10%  Similarity=0.191  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -++++|++|+|||||+..+..
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            368999999999999999874

>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=97.24  E-value=0.00022  Score=43.06  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      --+++.|++|+|||+|++.+..
T Consensus        46 ~~vli~G~~G~GKTtl~~~l~~   67 (386)
T 2qby_A           46 NNIFIYGLTGTGKTAVVKFVLS   67 (386)
T ss_dssp             CCEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999998875

>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=97.24  E-value=0.00029  Score=42.94  Aligned_cols=22  Identities=23%  Similarity=0.451  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|++|+|||||++.+..-
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            5789999999999999998854

>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=97.23  E-value=0.00065  Score=41.96  Aligned_cols=34  Identities=9%  Similarity=-0.069  Sum_probs=18.4

Q ss_pred             ccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927         36 YISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus        36 ~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ..+|+|+..  ..+.++  .+.+++||++||++|+.+.
T Consensus       185 r~~T~Gi~~--~~~~~~--~~~l~i~Dt~Gq~~~r~~w  218 (362)
T 1zcb_A          185 RRPTKGIHE--YDFEIK--NVPFKMVDVGGQRSERKRW  218 (362)
T ss_dssp             CCCCSSEEE--EEEEET--TEEEEEEEECC-------C
T ss_pred             cCCccceEE--EEeeeC--CeEEEEEeccchhhhhhhH
Confidence            346677654  344454  4789999999999998765

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.22  E-value=0.00027  Score=42.17  Aligned_cols=22  Identities=36%  Similarity=0.617  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+++.|++|+|||+|+..+...
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            4789999999999999998754

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.22  E-value=0.00016  Score=39.81  Aligned_cols=23  Identities=30%  Similarity=0.382  Sum_probs=16.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...|++.|.+|+||||+.+.+..
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999999864

>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=97.21  E-value=0.00029  Score=39.91  Aligned_cols=23  Identities=22%  Similarity=0.260  Sum_probs=19.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..-++++|.+|+||||+++.+..
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34688999999999999998753

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=97.20  E-value=0.00034  Score=42.62  Aligned_cols=23  Identities=26%  Similarity=0.469  Sum_probs=20.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ....+.++|.+|+||||+++.+.
T Consensus        55 ~~~~i~i~G~~g~GKSTl~~~l~   77 (341)
T 2p67_A           55 NTLRLGVTGTPGAGKSTFLEAFG   77 (341)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Confidence            35678999999999999999986

>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=97.20  E-value=0.00033  Score=39.15  Aligned_cols=21  Identities=24%  Similarity=0.427  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -+.++|.+|+|||||+.++..
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999998774

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.20  E-value=0.00015  Score=47.41  Aligned_cols=25  Identities=24%  Similarity=0.453  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYY   33 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~   33 (75)
                      .++++|++|+|||||++.+.+-..+
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~~P   71 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVALP   71 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC--
T ss_pred             eEEEECCCCChHHHHHHHHhCCCCC
Confidence            4899999999999999999875433

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=97.20  E-value=0.00037  Score=44.81  Aligned_cols=22  Identities=23%  Similarity=0.359  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|++|+||||+++.++.-
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            4899999999999999998754

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=97.20  E-value=0.00028  Score=44.59  Aligned_cols=23  Identities=22%  Similarity=0.372  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ++.++|++|+|||||++.+.+..
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            67899999999999999988653

>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=97.20  E-value=0.00028  Score=42.32  Aligned_cols=21  Identities=24%  Similarity=0.463  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+++.|++|+|||+|++.+..
T Consensus        39 ~lll~G~~GtGKT~la~~i~~   59 (324)
T 1l8q_A           39 PIFIYGSVGTGKTHLLQAAGN   59 (324)
T ss_dssp             SEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            588999999999999998774

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=97.20  E-value=0.00043  Score=44.70  Aligned_cols=23  Identities=17%  Similarity=0.345  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988643

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.20  E-value=0.00034  Score=37.57  Aligned_cols=25  Identities=8%  Similarity=0.127  Sum_probs=21.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ...+++.|++|+|||++++.+....
T Consensus        24 ~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           24 DIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             CSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHhC
Confidence            3468999999999999999987653

>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=97.18  E-value=0.00031  Score=41.60  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .-|+++|.+|+||||+.+.+..
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            3589999999999999999886

>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=97.18  E-value=0.00033  Score=40.54  Aligned_cols=23  Identities=22%  Similarity=0.307  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..-|++.|.+|+||||+++.+..
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~   48 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYH   48 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            45689999999999999998874

>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=97.18  E-value=0.00031  Score=42.59  Aligned_cols=22  Identities=23%  Similarity=0.474  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++.|++|+|||++++.+...
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            6899999999999999998754

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=97.18  E-value=0.00097  Score=42.53  Aligned_cols=61  Identities=15%  Similarity=0.137  Sum_probs=38.4

Q ss_pred             eeEE-EEEcCCCCcHHHHHHHHHh------------------CCCCC---CccceeeEEEEEEEEEe---CCeEEEEEEE
Q psy12927          7 TYKI-LVLGDSNVGKTCIVHRFCD------------------ETYYD---TYISTIGIDFKQKIIDL---DDVPTKLQIW   61 (75)
Q Consensus         7 ~~ki-~~~G~~~~GKtsl~~~~~~------------------~~~~~---~~~~t~~~~~~~~~~~~---~~~~~~l~i~   61 (75)
                      .+.+ .++|+.++|||+|++.++.                  .-|..   ...-|.|+-.....+.+   ++..+.+.+.
T Consensus        66 ~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vlll  145 (457)
T 4ido_A           66 EVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLM  145 (457)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEEE
T ss_pred             ceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEEEE
Confidence            3444 5999999999999996541                  12221   12345565443222222   6778899999


Q ss_pred             eCCCcc
Q psy12927         62 TLNALL   67 (75)
Q Consensus        62 D~~g~~   67 (75)
                      ||-|..
T Consensus       146 DTEG~~  151 (457)
T 4ido_A          146 DTQGTF  151 (457)
T ss_dssp             EECCBT
T ss_pred             eccCCC
Confidence            998854

>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=97.18  E-value=0.00033  Score=41.33  Aligned_cols=23  Identities=39%  Similarity=0.639  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...+++.|++|+|||++++.+..
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999998874

>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=97.17  E-value=0.00031  Score=38.18  Aligned_cols=19  Identities=21%  Similarity=0.531  Sum_probs=16.6

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~   28 (75)
                      .+++|+.|+|||+++..+.
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            3789999999999999754

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=97.16  E-value=0.00045  Score=40.22  Aligned_cols=24  Identities=21%  Similarity=0.430  Sum_probs=21.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..+.|.+.|.+|+||||+.+.+..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            356799999999999999998864

>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=97.16  E-value=0.00022  Score=43.13  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|..|+|||||++.+...
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            3578999999999999999865

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.16  E-value=0.00045  Score=37.65  Aligned_cols=22  Identities=14%  Similarity=0.306  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -.|++.|.+|+||||+.+.+..
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            4688999999999999998864

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.16  E-value=0.00045  Score=41.24  Aligned_cols=23  Identities=13%  Similarity=0.151  Sum_probs=19.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..-+++.|++|+|||+|++.+..
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34577889999999999998774

>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=97.16  E-value=0.0003  Score=42.05  Aligned_cols=22  Identities=36%  Similarity=0.419  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+++.|++|+|||+|+..+...
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            4789999999999999998753

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=97.16  E-value=0.00029  Score=41.48  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -.++++|.+|+||||+.+.+..
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            3689999999999999998864

>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=97.15  E-value=0.00034  Score=41.79  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||++++.+...
T Consensus        50 ~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           50 KGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCcCHHHHHHHHHHH
Confidence            35899999999999999998753

>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=97.13  E-value=0.00064  Score=39.80  Aligned_cols=25  Identities=24%  Similarity=0.474  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ....+++.|++|+|||++++.+...
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            4567899999999999999998753

>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=97.13  E-value=0.00044  Score=40.43  Aligned_cols=23  Identities=17%  Similarity=0.336  Sum_probs=20.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ..+.+++.|++|+||||+.+.+.
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la   30 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLA   30 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            35689999999999999999876

>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=97.12  E-value=0.00058  Score=39.55  Aligned_cols=23  Identities=22%  Similarity=0.458  Sum_probs=20.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ....++++|.+||||||++..+.
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La   35 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFG   35 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHH
Confidence            45778899999999999999987

>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=97.12  E-value=0.00036  Score=44.70  Aligned_cols=21  Identities=19%  Similarity=0.338  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -+.++|++|+|||||++.+.+
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            467999999999999998763

>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=97.12  E-value=0.00046  Score=41.02  Aligned_cols=23  Identities=26%  Similarity=0.390  Sum_probs=20.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ..+.|++.|.+|+||||+.+.+.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            35689999999999999999886

>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=97.12  E-value=0.00029  Score=42.48  Aligned_cols=20  Identities=20%  Similarity=0.403  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++.|++|+||||+++.+..
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

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=97.11  E-value=0.00049  Score=39.64  Aligned_cols=26  Identities=19%  Similarity=0.294  Sum_probs=21.6

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +.....+.++|.+|+||||+.+.+..
T Consensus        13 ~~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           13 KMKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             -CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            34566899999999999999998774

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.11  E-value=0.0004  Score=41.12  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||++++.+...
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            46899999999999999987643

>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=97.09  E-value=0.00041  Score=41.95  Aligned_cols=21  Identities=29%  Similarity=0.504  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.|++|+|||++++.+...
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            899999999999999988753

>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=97.09  E-value=0.00032  Score=45.48  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++.++|++|+|||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhc
Confidence            5789999999999999998753

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=97.08  E-value=0.0005  Score=44.46  Aligned_cols=23  Identities=35%  Similarity=0.522  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      -+.++|++|+|||||++.+.+-.
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            46799999999999999988643

>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=97.08  E-value=0.00037  Score=42.73  Aligned_cols=22  Identities=27%  Similarity=0.335  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|+|||+|+..++..
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            4679999999999999998854

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=97.08  E-value=0.00042  Score=42.66  Aligned_cols=19  Identities=21%  Similarity=0.427  Sum_probs=16.8

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~   28 (75)
                      .+++|+.|+|||||+..++
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            4589999999999999865

>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=97.07  E-value=0.00057  Score=44.35  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++-+.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998854

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=97.05  E-value=0.00062  Score=41.90  Aligned_cols=22  Identities=23%  Similarity=0.459  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .-|+++|++|+|||+|...+..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            3588999999999999998874

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.05  E-value=0.00036  Score=42.15  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -.+++.|++|+|||++++.+..
T Consensus        45 ~~vll~G~~G~GKT~l~~~~~~   66 (387)
T 2v1u_A           45 SNALLYGLTGTGKTAVARLVLR   66 (387)
T ss_dssp             CCEEECBCTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998874

>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=97.04  E-value=0.00049  Score=42.80  Aligned_cols=22  Identities=23%  Similarity=0.276  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      --++++|++|+|||||++.+..
T Consensus       170 ~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          170 RYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3678999999999999998774

>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=97.04  E-value=0.0005  Score=41.28  Aligned_cols=20  Identities=25%  Similarity=0.463  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++.|++|+|||++++.+..
T Consensus        61 ~ll~G~~G~GKT~la~~la~   80 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTK   80 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998764

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=97.04  E-value=0.00066  Score=44.55  Aligned_cols=23  Identities=13%  Similarity=0.365  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            47899999999999999988643

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.04  E-value=0.00044  Score=41.88  Aligned_cols=23  Identities=26%  Similarity=0.475  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||++++.+...
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999998743

>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=97.04  E-value=0.0004  Score=44.50  Aligned_cols=19  Identities=42%  Similarity=0.546  Sum_probs=17.3

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~   27 (75)
                      -++++|++|+|||||++.+
T Consensus        41 ~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           41 STLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            4689999999999999996

>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=97.02  E-value=0.00051  Score=39.59  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ..++++|++|+|||+|+..+...
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            46899999999999999999854

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.02  E-value=0.00054  Score=41.16  Aligned_cols=23  Identities=30%  Similarity=0.413  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||++++.+...
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            35899999999999999998754

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.01  E-value=0.00054  Score=41.42  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||+|++.+...
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            46899999999999999998854

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.01  E-value=0.00051  Score=43.53  Aligned_cols=24  Identities=25%  Similarity=0.531  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-.++++|++|+|||++++.+...
T Consensus       201 ~~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          201 KNNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHH
Confidence            346899999999999999987643

>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=97.00  E-value=0.00051  Score=41.29  Aligned_cols=21  Identities=24%  Similarity=0.507  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      -.++++|++|+||||++..+.
T Consensus       106 ~vi~lvG~~GsGKTTl~~~LA  126 (296)
T 2px0_A          106 KYIVLFGSTGAGKTTTLAKLA  126 (296)
T ss_dssp             SEEEEEESTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            368899999999999999875

>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=97.00  E-value=1.4e-05  Score=48.02  Aligned_cols=47  Identities=15%  Similarity=-0.036  Sum_probs=35.8

Q ss_pred             HHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927         22 CIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus        22 sl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +|+.+|+.+.|. ..+.||+|..+. ..+..++   .+++||+  |++|+++.+
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~~~~~~---~~~iwD~--qer~~~l~~   79 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YTPDETG---SGVIENV--LHRKNLLTK   79 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EECCCSS---SEEEEEE--CCCSCEETT
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EEEcCCC---eEEEEEE--ccccceeec
Confidence            588888989998 889999995543 3332233   6899999  999998865

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=97.00  E-value=0.00059  Score=39.02  Aligned_cols=20  Identities=30%  Similarity=0.597  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      -+++.|++|+|||+|+.+++
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            36799999999999999876

>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=96.99  E-value=0.00057  Score=41.13  Aligned_cols=24  Identities=29%  Similarity=0.472  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-.+++.|++|+|||++++.+...
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            346999999999999999998753

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.99  E-value=0.00059  Score=42.00  Aligned_cols=22  Identities=14%  Similarity=0.400  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -|+++|++|+|||+|...+...
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999998853

>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=96.99  E-value=0.00053  Score=41.60  Aligned_cols=21  Identities=29%  Similarity=0.393  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -+++.|++|+|||++++.+..
T Consensus        47 ~vll~G~~G~GKT~la~~l~~   67 (384)
T 2qby_B           47 SNLFLGLTGTGKTFVSKYIFN   67 (384)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998875

>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=96.99  E-value=0.00048  Score=43.09  Aligned_cols=20  Identities=20%  Similarity=0.419  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      -+.++|++|+|||+|+..++
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            36899999999999999876

>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=96.98  E-value=0.00068  Score=41.48  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|++|+|||+|...+...
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

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=96.98  E-value=0.0023  Score=42.55  Aligned_cols=23  Identities=22%  Similarity=0.247  Sum_probs=20.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ..=+|.++|.-++|||||..+++
T Consensus        12 ~IRNi~IiaHvd~GKTTL~d~LL   34 (709)
T 4fn5_A           12 RYRNIGICAHVDAGKTTTTERVL   34 (709)
T ss_dssp             GEEEEEEECCSSSCHHHHHHHHH
T ss_pred             HCeEEEEEcCCCCCHHHHHHHHH
Confidence            34579999999999999999876

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.98  E-value=0.00052  Score=42.93  Aligned_cols=24  Identities=13%  Similarity=0.247  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ..-|+++|.+|+||||+.+.+...
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            345789999999999999998743

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.97  E-value=0.00066  Score=41.49  Aligned_cols=22  Identities=27%  Similarity=0.480  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..++++|++|+|||+|...+..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999875

>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=96.96  E-value=0.00067  Score=41.05  Aligned_cols=21  Identities=29%  Similarity=0.544  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      --++++|++|+||||++..+.
T Consensus       105 ~vi~ivG~~GsGKTTl~~~LA  125 (306)
T 1vma_A          105 FVIMVVGVNGTGKTTSCGKLA  125 (306)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHH
Confidence            357899999999999999876

>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=96.96  E-value=0.00066  Score=41.55  Aligned_cols=24  Identities=25%  Similarity=0.504  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...+++.|++|+|||++++.+...
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHH
Confidence            346899999999999999988743

>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=96.95  E-value=0.00072  Score=39.39  Aligned_cols=24  Identities=25%  Similarity=0.462  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ..+++.|++|+|||++++.+....
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            468999999999999999987543

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.94  E-value=0.001  Score=43.03  Aligned_cols=23  Identities=26%  Similarity=0.419  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|+.|+|||||++.+.+-.
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999998653

>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=96.94  E-value=0.00087  Score=43.95  Aligned_cols=23  Identities=22%  Similarity=0.359  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            57899999999999999988643

>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=96.93  E-value=0.00065  Score=43.85  Aligned_cols=21  Identities=24%  Similarity=0.439  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -++++|++|+|||+|++.+..
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            588999999999999998764

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.89  E-value=0.00046  Score=44.97  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++-+.+-
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRF  404 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            6789999999999999988753

>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=96.89  E-value=0.001  Score=43.62  Aligned_cols=23  Identities=26%  Similarity=0.419  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|+.|+|||||++.+.+-.
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46899999999999999998653

>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=96.89  E-value=0.00081  Score=41.16  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||++++.+...
T Consensus        85 ~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Confidence            35899999999999999988753

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.89  E-value=0.00058  Score=40.99  Aligned_cols=21  Identities=29%  Similarity=0.385  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+++.|++|+|||++++.+..
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            589999999999999998875

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.88  E-value=0.00084  Score=40.95  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...+++.|++|+|||++++.+...
T Consensus        51 ~~~vll~GppGtGKT~la~~ia~~   74 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAETLARL   74 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999988743

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.88  E-value=0.00092  Score=37.33  Aligned_cols=21  Identities=24%  Similarity=0.411  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .|.+.|.+|+||||+.+.+..
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            588999999999999998864

>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=96.88  E-value=0.00083  Score=41.06  Aligned_cols=24  Identities=29%  Similarity=0.404  Sum_probs=20.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-.+++.|++|+|||++++.+...
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            456899999999999999998753

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.87  E-value=0.00083  Score=42.45  Aligned_cols=22  Identities=27%  Similarity=0.502  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      --+++.|++|+|||++++.+..
T Consensus       207 rGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          207 RGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999874

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.87  E-value=0.00094  Score=43.21  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+.++|++|+|||||++.+.+-.
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36799999999999999998643

>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=96.87  E-value=0.00027  Score=41.19  Aligned_cols=21  Identities=24%  Similarity=0.488  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+++.|++|+|||++++.+..
T Consensus        46 ~vll~G~~GtGKT~la~~la~   66 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAG   66 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            378999999999999998874

>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=96.87  E-value=0.00081  Score=42.33  Aligned_cols=21  Identities=19%  Similarity=0.525  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -+++.|++|+|||+|++.+..
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            588999999999999998764

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=96.85  E-value=0.0014  Score=38.32  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=19.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      .-.+++++.|.+|||||+++-.+.
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            347899999999999999966543

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.84  E-value=0.00067  Score=39.28  Aligned_cols=20  Identities=25%  Similarity=0.403  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      .+++.|++|+|||+++..+.
T Consensus        60 ~ili~GPPGtGKTt~a~ala   79 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFI   79 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            48999999999998877665

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.84  E-value=0.0011  Score=39.98  Aligned_cols=23  Identities=17%  Similarity=0.455  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .-.+++.|++|+|||.|+..+..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999987764

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=96.84  E-value=0.00055  Score=40.76  Aligned_cols=22  Identities=27%  Similarity=0.570  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..+++.|++|+|||++++.+..
T Consensus        39 ~~vll~G~~GtGKT~la~~i~~   60 (324)
T 1hqc_A           39 EHLLLFGPPGLGKTTLAHVIAH   60 (324)
T ss_dssp             CCCEEECCTTCCCHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>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=96.84  E-value=0.0011  Score=45.70  Aligned_cols=24  Identities=13%  Similarity=0.326  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      .+.++|++|+|||||++.+.++..
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            468999999999999999997654

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.84  E-value=0.0012  Score=42.48  Aligned_cols=23  Identities=22%  Similarity=0.371  Sum_probs=19.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ....|+++|.+||||||++..+.
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA  122 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLA  122 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            35578999999999999999987

>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=96.83  E-value=0.001  Score=37.76  Aligned_cols=19  Identities=21%  Similarity=0.531  Sum_probs=16.2

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~   28 (75)
                      .+++|+.|+||||++..+.
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            3688999999999999753

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=96.83  E-value=5.2e-05  Score=49.79  Aligned_cols=62  Identities=21%  Similarity=0.264  Sum_probs=37.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHH--hCCCCC-----------Cccc---eeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFC--DETYYD-----------TYIS---TIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~--~~~~~~-----------~~~~---t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      +|.++|-.++|||||..+++  .+....           ++.+   ..|+......+...-+.+.+++.||+|+..|.
T Consensus         4 Ni~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~   81 (638)
T 3j25_A            4 NIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFL   81 (638)
T ss_dssp             CCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHH
Confidence            67899999999999999976  222111           0000   00111222222233345678999999998774

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.82  E-value=0.00098  Score=42.22  Aligned_cols=24  Identities=21%  Similarity=0.324  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .--+++.|++|+|||.|++.+...
T Consensus       215 prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          215 PKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCeeEEECcCCCCHHHHHHHHHHH
Confidence            446999999999999999998753

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=96.82  E-value=0.00038  Score=45.13  Aligned_cols=21  Identities=19%  Similarity=0.320  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+.++|++|+|||||++.+.+
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g  389 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPR  389 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCChHHHHHHHHhc
Confidence            578999999999999998764

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=96.82  E-value=0.0017  Score=36.75  Aligned_cols=26  Identities=19%  Similarity=0.285  Sum_probs=22.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .....|.+.|..|+||||+.+.+...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            34678899999999999999988753

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.80  E-value=0.001  Score=42.12  Aligned_cols=24  Identities=21%  Similarity=0.368  Sum_probs=20.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .--+++.|++|+|||.|++.+...
T Consensus       215 prGvLL~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          215 PKGVLLYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            346899999999999999998743

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=96.80  E-value=0.0011  Score=40.08  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -+++.|++|+|||++++.+..
T Consensus        40 ~~ll~G~~G~GKT~la~~la~   60 (373)
T 1jr3_A           40 AYLFSGTRGVGKTSIARLLAK   60 (373)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998864

>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=96.80  E-value=0.0011  Score=39.25  Aligned_cols=22  Identities=32%  Similarity=0.468  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++.|++|+|||++++.+...
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            3899999999999999988743

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.79  E-value=0.001  Score=42.08  Aligned_cols=22  Identities=18%  Similarity=0.377  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++.|++|+|||++++.+...
T Consensus        52 ~vLL~GppGtGKTtlAr~ia~~   73 (447)
T 3pvs_A           52 SMILWGPPGTGKTTLAEVIARY   73 (447)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            6899999999999999998754

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.79  E-value=0.00097  Score=43.78  Aligned_cols=22  Identities=18%  Similarity=0.561  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      +.++|+.|+|||||++.+.+-.
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            6899999999999999988653

>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=96.79  E-value=0.00093  Score=42.82  Aligned_cols=22  Identities=41%  Similarity=0.682  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|++|+|||+|+..++..
T Consensus       283 i~~i~G~~GsGKSTLl~~l~g~  304 (525)
T 1tf7_A          283 IILATGATGTGKTLLVSRFVEN  304 (525)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4689999999999999998854

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.79  E-value=0.0019  Score=40.04  Aligned_cols=23  Identities=22%  Similarity=0.577  Sum_probs=19.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ...+++++|.+|+||||+.+.+.
T Consensus        23 ~~~~i~l~G~~G~GKTTl~~~la   45 (359)
T 2ga8_A           23 YRVCVILVGSPGSGKSTIAEELC   45 (359)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CeeEEEEECCCCCcHHHHHHHHH
Confidence            34679999999999999998655

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.78  E-value=0.00054  Score=44.58  Aligned_cols=22  Identities=23%  Similarity=0.401  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999987743

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.78  E-value=0.0011  Score=40.84  Aligned_cols=24  Identities=25%  Similarity=0.432  Sum_probs=20.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-.+++.|++|+|||++++.+...
T Consensus       148 ~~~vLL~GppGtGKT~la~aia~~  171 (389)
T 3vfd_A          148 ARGLLLFGPPGNGKTMLAKAVAAE  171 (389)
T ss_dssp             CSEEEEESSTTSCHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHh
Confidence            357999999999999999998754

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.77  E-value=0.00038  Score=37.32  Aligned_cols=22  Identities=9%  Similarity=0.238  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..+++.|++|+|||++++.+..
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCC
T ss_pred             CcEEEECCCCccHHHHHHHHHH
Confidence            4589999999999999988764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.75  E-value=0.0011  Score=42.62  Aligned_cols=22  Identities=32%  Similarity=0.575  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|++|+|||+|++.+...
T Consensus        66 GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3899999999999999998753

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=96.74  E-value=0.0012  Score=42.19  Aligned_cols=22  Identities=32%  Similarity=0.534  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -++++|++|+|||+|++.+...
T Consensus        51 gvLL~GppGtGKT~Laraia~~   72 (476)
T 2ce7_A           51 GILLVGPPGTGKTLLARAVAGE   72 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999998753

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=96.74  E-value=0.001  Score=41.07  Aligned_cols=20  Identities=20%  Similarity=0.380  Sum_probs=17.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++.|++|+|||+|+.++..
T Consensus        64 ~~I~GppGsGKSTLal~la~   83 (356)
T 3hr8_A           64 VEIFGQESSGKTTLALHAIA   83 (356)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999998774

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.73  E-value=0.0012  Score=42.26  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      --+++.|++|+|||++++.+...
T Consensus        78 ~~lLL~GppGtGKTtla~~la~~  100 (516)
T 1sxj_A           78 RAAMLYGPPGIGKTTAAHLVAQE  100 (516)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998753

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=96.73  E-value=0.00055  Score=41.11  Aligned_cols=21  Identities=33%  Similarity=0.612  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+++.|++|+|||++++.+..
T Consensus        47 ~vLl~G~~GtGKT~la~~la~   67 (350)
T 1g8p_A           47 GVLVFGDRGTGKSTAVRALAA   67 (350)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            489999999999999999875

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=96.73  E-value=0.0013  Score=37.16  Aligned_cols=23  Identities=26%  Similarity=0.559  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-+++.|++|+|||++...+...
T Consensus        17 ~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            35789999999999999998754

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=96.72  E-value=0.0012  Score=41.51  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||+|++.+...
T Consensus       168 ~~vLL~GppGtGKT~lA~aia~~  190 (444)
T 2zan_A          168 RGILLFGPPGTGKSYLAKAVATE  190 (444)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998854

---

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	75
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	4e-16
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-15
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	4e-15
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	8e-15
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	4e-14
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	1e-12
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	2e-12
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	5e-12
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	6e-12
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	8e-12
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	8e-12
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	1e-11
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	2e-11
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	2e-11
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	2e-11
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	3e-11
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	4e-11
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	7e-11
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	1e-10
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	1e-10
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	1e-10
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	2e-10
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	2e-10
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-10
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	2e-10
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	3e-10
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	4e-10
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	5e-10
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	5e-10
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	6e-10
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	6e-10
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	8e-10
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	9e-10
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	1e-09
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	1e-09
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	2e-09
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	2e-09
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	2e-09
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	2e-09
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	4e-09
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	5e-09
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	7e-09
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	1e-08
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	2e-08
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	2e-08
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	3e-08
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	5e-08
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	5e-08
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	6e-08
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	7e-08
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-07
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	1e-07
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	1e-07
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-07
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	2e-07
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-07
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	3e-04

>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 = 65.9 bits (160), Expect = 4e-16
 Identities = 30/54 (55%), Positives = 42/54 (77%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++GDS VGKTC++ RF ++ +  T+ISTIGIDFK + I+LD    KLQIW
Sbjct: 7  FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIW 60

>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 = 64.1 bits (155), Expect = 2e-15
 Identities = 23/59 (38%), Positives = 38/59 (64%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D +  +KI+++G++ VGKTC+V RF    +     +TIG+DF  K ++++    KLQIW
Sbjct: 1  DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIW 59

>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 = 63.6 bits (154), Expect = 4e-15
 Identities = 27/54 (50%), Positives = 41/54 (75%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           KIL++GDS VGK+C++ RF ++ +  ++I+TIGIDFK K +D++    KLQIW
Sbjct: 3  MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIW 56

>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 = 63.3 bits (153), Expect = 8e-15
 Identities = 30/54 (55%), Positives = 43/54 (79%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+L++G+S VGK+C++ RF D+TY + YISTIG+DFK K ++LD    KLQIW
Sbjct: 7  FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIW 60

>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 = 61.0 bits (147), Expect = 4e-14
 Identities = 27/59 (45%), Positives = 38/59 (64%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          D   T KIL++G+S VGK+ ++ RF D+T+     +TIG+DFK K I +D    KL IW
Sbjct: 3  DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIW 61

>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 = 57.7 bits (138), Expect = 1e-12
 Identities = 13/48 (27%), Positives = 26/48 (54%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDD 53
          QT K +V+GD  VGKTC++  +    +   Y+ T+  ++   ++   +
Sbjct: 2  QTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE 49

>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 = 56.1 bits (134), Expect = 2e-12
 Identities = 23/54 (42%), Positives = 39/54 (72%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++ LG+ +VGKT ++ RF  +++ +TY +TIGIDF  K + L+D   +LQ+W
Sbjct: 1  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLW 54

>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 = 55.6 bits (133), Expect = 5e-12
 Identities = 28/55 (50%), Positives = 43/55 (78%), Gaps = 1/55 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GDS VGKTC++ RF D  +   T+IST+GIDF+ K++D+D V  KLQ+W
Sbjct: 7  FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMW 61

>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 = 55.3 bits (132), Expect = 6e-12
 Identities = 26/59 (44%), Positives = 42/59 (71%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + +  +KIL++G+S+VGKT  + R+ D+++   ++ST+GIDFK K I  +D   KLQIW
Sbjct: 1  NFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIW 59

>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 = 54.9 bits (131), Expect = 8e-12
 Identities = 20/54 (37%), Positives = 33/54 (61%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GDS VGK+ ++ RF    +     STIG++F  + I +D    K QIW
Sbjct: 5  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW 58

>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 = 55.0 bits (131), Expect = 8e-12
 Identities = 26/54 (48%), Positives = 41/54 (75%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +KI+V+GDSNVGKTC+ +RFC   + D   +TIG+DF+++ +D+D    K+Q+W
Sbjct: 3  FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLW 56

>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 = 54.5 bits (130), Expect = 1e-11
 Identities = 22/54 (40%), Positives = 37/54 (68%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K LV+G++  GK+C++H+F ++ + D    TIG++F  KII++     KLQIW
Sbjct: 6  FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW 59

>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 = 54.2 bits (129), Expect = 2e-11
 Identities = 13/54 (24%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           K++++GD   GKTC++     + + + Y+ T+  +     I++D    +L +W
Sbjct: 3  KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALW 55

>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 = 54.2 bits (129), Expect = 2e-11
 Identities = 17/54 (31%), Positives = 33/54 (61%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LGD  VGK+ +++R+    +      TIG++F  K +++D     +QIW
Sbjct: 7  FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIW 60

>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 = 53.9 bits (128), Expect = 2e-11
 Identities = 21/54 (38%), Positives = 37/54 (68%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           K+++LGDS VGKT +++++ ++ + + Y +TIG DF  K + +DD    +QIW
Sbjct: 3  LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIW 56

>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 = 53.7 bits (128), Expect = 3e-11
 Identities = 20/51 (39%), Positives = 33/51 (64%)

Query: 3  DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDD 53
          D +   K+L LGDS VGKT  ++R+ D  +   +I+T+GIDF++K +  + 
Sbjct: 1  DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNA 51

>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 = 53.6 bits (128), Expect = 4e-11
 Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 6/57 (10%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
            T+++L+LG    GK+ IV +          + T GI   +    +D V   +   
Sbjct: 4  RATHRLLLLGAGESGKSTIVKQMRI----LHVVLTSGIFETK--FQVDKVNFHMFDV 54

>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 = 52.6 bits (125), Expect = 7e-11
 Identities = 20/55 (36%), Positives = 36/55 (65%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWT 62
          +K +++GD  VGK+C++H+F ++ +      TIG++F  +II++     KLQIW 
Sbjct: 5  FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWD 59

>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 = 52.0 bits (123), Expect = 1e-10
 Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 1/57 (1%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          ++T+K++V+G   VGK+ +  +F    +   Y      D   KI  +D +P +L I 
Sbjct: 4  SETHKLVVVGGGGVGKSALTIQFIQSYFVSDYD-PTIEDSYTKICSVDGIPARLDIL 59

>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 = 52.3 bits (124), Expect = 1e-10
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          Q  K +V+GD  VGKTC++  +    +   YI T+  D     + +D  P  L +W
Sbjct: 4  QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLW 58

>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 = 51.9 bits (123), Expect = 1e-10
 Identities = 13/57 (22%), Positives = 27/57 (47%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWT 62
          + YK++VLG   VGK+ +  +F    + + Y  TI   +++++           + T
Sbjct: 2  REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDT 58

>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 = 51.9 bits (123), Expect = 2e-10
 Identities = 9/42 (21%), Positives = 17/42 (40%), Gaps = 2/42 (4%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKII 49
           K+L+LG    GK+  + +        + + T GI      +
Sbjct: 3  LKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYPFDL 42

>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 = 51.5 bits (122), Expect = 2e-10
 Identities = 13/36 (36%), Positives = 21/36 (58%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIG 41
          + YK++VLG   VGK+ +  +F   T+ + Y  TI 
Sbjct: 2  REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE 37

>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 = 51.4 bits (122), Expect = 2e-10
 Identities = 19/54 (35%), Positives = 38/54 (70%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K +++GD+ VGK+C++ +F D+ +   +  TIG++F  +++++D    KLQIW
Sbjct: 4  FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIW 57

>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 = 51.2 bits (121), Expect = 2e-10
 Identities = 13/54 (24%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           K+ + G + VGK+ +V RF  + +   Y  T+   ++ +    DD    ++I 
Sbjct: 3  VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATI-DDEVVSMEIL 55

>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 = 50.8 bits (120), Expect = 3e-10
 Identities = 11/42 (26%), Positives = 24/42 (57%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKII 49
          YK++V+G   VGK+ +  +     + D Y  TI   ++++++
Sbjct: 4  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV 45

>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 = 50.8 bits (120), Expect = 4e-10
 Identities = 13/33 (39%), Positives = 21/33 (63%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTI 40
          Y++ V G   VGK+ +V RF   T+ ++YI T+
Sbjct: 3  YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTV 35

>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 = 50.4 bits (119), Expect = 5e-10
 Identities = 14/54 (25%), Positives = 28/54 (51%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K++++GD   GKT  V R     +   Y++T+G++    +   +  P K  +W
Sbjct: 4  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW 57

>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 = 50.4 bits (119), Expect = 5e-10
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 3/63 (4%)

Query: 1  MAD--CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKL 58
          MA        K +V+GD  VGKTC++  + ++ + + Y+ T+  D     + +      L
Sbjct: 1  MAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLL 59

Query: 59 QIW 61
           ++
Sbjct: 60 GLY 62

>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 = 50.0 bits (118), Expect = 6e-10
 Identities = 10/34 (29%), Positives = 18/34 (52%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIG 41
          Y+++V+G   VGK+ +  +F    +   Y  TI 
Sbjct: 6  YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE 39

>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 = 50.0 bits (118), Expect = 6e-10
 Identities = 21/54 (38%), Positives = 34/54 (62%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+S VGK+ +V RF    +++   STIG  F  + + LDD   K +IW
Sbjct: 7  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

>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 = 49.7 bits (117), Expect = 8e-10
 Identities = 13/55 (23%), Positives = 25/55 (45%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          TYK++V+GD  VGK+ +  +F  + +   Y  TI   + +     +       + 
Sbjct: 4  TYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLD 58

>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 = 49.3 bits (116), Expect = 9e-10
 Identities = 14/44 (31%), Positives = 26/44 (59%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKI 48
          +++ KI +LG  +VGK+ +  +F +  + D+Y  TI   F + I
Sbjct: 2  SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLI 45

>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 = 49.7 bits (117), Expect = 1e-09
 Identities = 13/32 (40%), Positives = 22/32 (68%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTI 40
          KI+V+GDS  GKT ++H F  + + + Y+ T+
Sbjct: 4  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV 35

>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 = 48.9 bits (115), Expect = 1e-09
 Identities = 20/53 (37%), Positives = 31/53 (58%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQI 60
           K+++LGDS VGKT ++HR+ ++ Y   Y +TIG DF  K + +D        
Sbjct: 3  LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQ 55

>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 = 48.8 bits (115), Expect = 2e-09
 Identities = 12/56 (21%), Positives = 25/56 (44%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
             ++ VLGD+  GK+ ++HRF   +Y     +      K+ ++D       ++  
Sbjct: 4  PELRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQYKKEMLVDGQTHLVLIREE 59

>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 = 48.8 bits (115), Expect = 2e-09
 Identities = 19/54 (35%), Positives = 34/54 (62%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +K+++LG+  VGKT +V R+C+  + D +I+T+G  F  K +++      L IW
Sbjct: 4  FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIW 57

>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 = 48.5 bits (114), Expect = 2e-09
 Identities = 18/56 (32%), Positives = 30/56 (53%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +  K+ +LGD+ VGK+ I+ RF ++++      TIG  F  K +   +   K  IW
Sbjct: 3  RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIW 58

>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 = 48.4 bits (114), Expect = 2e-09
 Identities = 8/40 (20%), Positives = 22/40 (55%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQ 46
           +K++++G   VGK+ +  +F  + + + Y  T    +++
Sbjct: 4  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRK 43

>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 = 47.7 bits (112), Expect = 4e-09
 Identities = 17/55 (30%), Positives = 32/55 (58%)

Query: 7  TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          + K+++LG++ VGK+ IV RF    + +    TIG  F  + + +++   K +IW
Sbjct: 3  SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIW 57

>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 = 47.6 bits (112), Expect = 5e-09
 Identities = 14/55 (25%), Positives = 20/55 (36%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWT 62
           K+L+LG    GK+ IV +        T I      FK     + DV  +     
Sbjct: 3  VKLLLLGAGESGKSTIVKQMKIIHEAGTGIVETHFTFKDLHFKMFDVGGQRSERK 57

>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 = 47.6 bits (112), Expect = 7e-09
 Identities = 10/39 (25%), Positives = 14/39 (35%), Gaps = 3/39 (7%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQ 46
           KIL+LG    GK+  + +            T GI    
Sbjct: 3  VKILLLGAGESGKSTFLKQMRII---HGQDPTKGIHEYD 38

>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 = 46.7 bits (109), Expect = 1e-08
 Identities = 11/58 (18%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETY-YDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          N  Y+++++G+  VGK+ + + F       D+    +G D  ++ + +D     + + 
Sbjct: 1  NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILL 58

>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 = 46.5 bits (109), Expect = 2e-08
 Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 1/42 (2%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIID 50
           +L +G  + GKT +  R     Y DT  ++I        ++
Sbjct: 2  AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVN 42

>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 = 46.3 bits (108), Expect = 2e-08
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 2/54 (3%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          YK+L+LG   VGK+ +   F      D   +        + I +D     L ++
Sbjct: 2  YKVLLLGAPGVGKSALARIFGGV--EDGPEAEAAGHTYDRSIVVDGEEASLMVY 53

>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 = 45.7 bits (107), Expect = 3e-08
 Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 5/57 (8%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          N+  +IL+LG    GKT I++R        T   TIG + +           KL +W
Sbjct: 15 NKELRILILGLDGAGKTTILYRLQIG-EVVTTKPTIGFNVETLSYK----NLKLNVW 66

>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 = 45.1 bits (105), Expect = 5e-08
 Identities = 8/41 (19%), Positives = 20/41 (48%)

Query: 6  QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQ 46
          +  ++ ++G    GKT  V+      + +  I T+G + ++
Sbjct: 1  EEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK 41

>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 = 45.0 bits (105), Expect = 5e-08
 Identities = 11/46 (23%), Positives = 23/46 (50%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIID 50
          +Q +K++++G  N GKT I+++F       T  +      +  I +
Sbjct: 13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVEEIVINN 58

>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 = 44.7 bits (104), Expect = 6e-08
 Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 5/54 (9%)

Query: 8  YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
           ++L+LG  N GKT I+ +F  E      + TI       I  L+    KL IW
Sbjct: 3  LRLLMLGLDNAGKTTILKKFNGE-----DVDTISPTLGFNIKTLEHRGFKLNIW 51

>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 = 44.7 bits (104), Expect = 7e-08
 Identities = 18/53 (33%), Positives = 34/53 (64%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          K++V+G+  VGK+ ++ R+C   +   Y  TIG+DF ++ I ++D   +L +W
Sbjct: 4  KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLW 56

>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 = 44.2 bits (103), Expect = 1e-07
 Identities = 10/35 (28%), Positives = 17/35 (48%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYIST 39
          N+  +IL+LG    GKT I+++        T  + 
Sbjct: 10 NKEMRILMLGLDAAGKTTILYKLKLGQSVTTIPTV 44

>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 = 44.3 bits (103), Expect = 1e-07
 Identities = 10/33 (30%), Positives = 16/33 (48%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYI 37
           +T K++ LG  N GKT ++H   D+       
Sbjct: 11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVP 43

>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 = 43.5 bits (101), Expect = 1e-07
 Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 1/42 (2%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIID 50
          K+L LG  N GKT ++H   ++    T   T     ++  I 
Sbjct: 2  KLLFLGLDNAGKTTLLHMLKND-RLATLQPTWHPTSEELAIG 42

>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 = 43.1 bits (100), Expect = 2e-07
 Identities = 9/53 (16%), Positives = 19/53 (35%), Gaps = 5/53 (9%)

Query: 9  KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIW 61
          +IL++G    GKT I+++            T        +  ++       +W
Sbjct: 2  RILMVGLDAAGKTTILYKLKLGEI-----VTTIPTIGFNVETVEYKNISFTVW 49

>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 = 43.0 bits (100), Expect = 2e-07
 Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 1/46 (2%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIID 50
          +Q  +IL+LG  N GKT ++ +   E        T G + K     
Sbjct: 14 DQEVRILLLGLDNAGKTTLLKQLASEDISHITP-TQGFNIKSVQSQ 58

>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 = 42.8 bits (99), Expect = 3e-07
 Identities = 10/32 (31%), Positives = 15/32 (46%)

Query: 5  NQTYKILVLGDSNVGKTCIVHRFCDETYYDTY 36
           +  +IL+LG    GKT I++R        T 
Sbjct: 3  TREMRILILGLDGAGKTTILYRLQVGEVVTTI 34

>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 = 35.0 bits (79), Expect = 3e-04
 Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 3/49 (6%)

Query: 10 ILVLGDSNVGKTCIVHRFCDETYYDTYISTIG---IDFKQKIIDLDDVP 55
          I++ G  N GKT ++     ++   T +S       D+    + L D P
Sbjct: 6  IIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFP 54

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	75
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.89
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.88
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.87
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.87
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.86
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.86
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.86
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.86
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.85
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.85
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.85
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.85
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.84
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.84
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.84
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.84
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.84
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.83
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.83
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.83
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.83
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.83
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.83
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.83
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.83
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.82
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.82
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.82
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.82
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.82
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.81
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.8
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.8
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.79
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.79
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.78
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.78
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.75
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.75
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.75
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.74
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.73
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.71
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.7
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.68
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.65
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.63
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.6
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.59
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.58
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.56
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.45
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.44
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.44
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.35
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.31
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.27
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.19
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.17
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.16
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.06
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.99
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.96
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.96
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.95
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	98.92
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.85
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.78
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	98.76
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.74
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.62
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	98.6
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.59
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.55
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.54
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.52
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.5
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.38
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	98.36
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.34
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.31
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.29
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	98.27
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	98.22
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.19
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	98.11
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	98.09
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	98.08
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.07
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	98.07
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	98.06
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	98.05
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	98.05
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	98.05
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	98.05
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	98.05
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.04
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	98.01
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	98.01
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.01
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	98.0
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.99
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.99
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.99
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	97.95
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.92
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	97.89
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.88
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.86
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	97.86
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.85
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.85
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.84
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.83
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.82
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.82
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.81
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.81
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.79
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.78
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.77
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.77
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.76
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.76
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.76
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.76
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.75
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.75
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.74
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.73
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.71
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.71
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.71
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.71
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.7
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	97.69
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.68
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.68
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.65
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.64
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.64
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.64
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.64
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.63
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.63
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.63
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.62
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.62
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.62
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.57
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.57
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.56
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	97.56
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.55
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.53
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	97.53
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.5
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.48
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.47
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	97.47
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.47
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.47
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.46
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	97.45
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	97.42
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.38
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.38
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	97.38
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.37
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.35
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	97.35
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	97.34
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	97.34
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.34
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.34
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.34
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.33
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.28
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.27
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.26
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.26
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	97.25
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.24
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	97.23
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.22
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	97.21
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	97.2
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	97.18
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.14
d1okkd2	207	GTPase domain of the signal recognition particle r	97.09
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.07
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.07
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.07
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.06
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	97.05
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	97.03
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	97.02
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	97.02
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.02
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.02
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.01
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	96.96
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	96.94
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	96.91
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.91
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	96.88
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.87
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.83
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.79
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	96.77
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	96.77
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	96.74
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.74
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.72
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.7
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	96.67
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.66
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.64
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.63
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.6
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.56
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	96.56
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.52
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	96.44
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	96.36
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.32
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.3
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	96.3
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.28
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	96.27
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.21
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.2
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.19
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	96.19
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.16
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	95.97
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.87
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	95.83
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	95.82
d1tuea_	205	Replication protein E1 helicase domain {Human papi	95.66
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	95.56
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.48
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.39
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.39
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.37
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	95.2
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.86
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	94.84
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	94.82
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	94.79
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	94.7
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	94.67
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	94.04
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	93.97
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	93.82
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	93.6
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	93.38
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	93.22
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	92.87
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	92.83
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	92.66
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	92.39
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	92.03
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	91.7
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	91.49
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	91.05
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	90.94
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	90.67
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	90.06
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	89.27
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	89.23
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	89.19
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	89.07
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	88.67
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	88.48
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	87.87
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	87.86
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	87.66
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	87.41
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	86.69
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	84.61
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	84.27
d1p3da1	96	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	83.9
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	83.24
d1pzga1	154	Lactate dehydrogenase {Toxoplasma gondii [TaxId: 5	81.99
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	81.33
d1j6ua1	89	UDP-N-acetylmuramate-alanine ligase MurC {Thermoto	80.05

>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=99.89  E-value=5.1e-23  Score=113.63  Aligned_cols=72  Identities=32%  Similarity=0.619  Sum_probs=66.4

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ++++.+||+++|++|||||||+++++.++|...+.++.+.++..+.+.+++..+.+++|||+|+++|+.+++
T Consensus         1 ~~~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~   72 (171)
T d2ew1a1           1 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQ   72 (171)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHG
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHH
Confidence            367889999999999999999999999999999999999999999999999999999999999999987653

>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=99.88  E-value=1.1e-22  Score=112.15  Aligned_cols=72  Identities=38%  Similarity=0.700  Sum_probs=66.1

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ++++.+||+++|++|||||||++++..++|...+.++.+.+...+.+..++..+.+++||++|+++|..+++
T Consensus         1 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~   72 (169)
T d3raba_           1 NFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITT   72 (169)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHH
T ss_pred             CCCeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHH
Confidence            467899999999999999999999999999999999999899888888899999999999999999987654

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.87  E-value=2.6e-22  Score=112.79  Aligned_cols=73  Identities=41%  Similarity=0.813  Sum_probs=67.1

Q ss_pred             CCCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          2 ADCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         2 ~~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ++.++.+||+++|+++||||||+++|..+.+...+.|+.+..+....+.+++..+.+.+||++|+++|+.+++
T Consensus         1 ~~~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~   73 (194)
T d2bcgy1           1 SEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITS   73 (194)
T ss_dssp             CCCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCG
T ss_pred             CCCCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHH
Confidence            4578899999999999999999999999999999999999888888888999999999999999999988754

>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=99.87  E-value=2.3e-22  Score=110.48  Aligned_cols=67  Identities=40%  Similarity=0.796  Sum_probs=56.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      -+||+++|+++||||||+++++.++|...+.||.+.++..+.+.+++..+.+.+||++|+++|+.++
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~   68 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTIT   68 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCC
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHH
Confidence            4899999999999999999999999999999999999999999999999999999999999998775

>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=99.86  E-value=6.6e-22  Score=108.68  Aligned_cols=70  Identities=29%  Similarity=0.660  Sum_probs=64.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +++.+||+++|+++||||||+++++.++|..++.++.+.++......+++..+.+++||++|+++|+.++
T Consensus         1 ~~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   70 (166)
T d1z0fa1           1 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVT   70 (166)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHH
T ss_pred             CcEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHH
Confidence            3678999999999999999999999999999999988888888888899999999999999999998764

>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=99.86  E-value=1.8e-21  Score=107.21  Aligned_cols=71  Identities=38%  Similarity=0.795  Sum_probs=56.2

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCC-ccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDT-YISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ++..+||+++|+++||||||+++++.++|... +.++.+.++....+..++..+.+++|||+|+++|+.+.+
T Consensus         3 ~d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~   74 (170)
T d2g6ba1           3 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTH   74 (170)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------
T ss_pred             CceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHH
Confidence            56789999999999999999999999988654 466677888888888999999999999999999987654

>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=99.86  E-value=1.7e-21  Score=107.05  Aligned_cols=70  Identities=29%  Similarity=0.614  Sum_probs=59.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+.+||+++|++|||||||+++|+.++|.+.+.||.+.+...+.+..++..+.+++||++|+++++.+++
T Consensus         1 ~y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~   70 (167)
T d1z08a1           1 AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGP   70 (167)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------C
T ss_pred             CceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccch
Confidence            3689999999999999999999999999999999999999888988899999999999999999887754

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.86  E-value=2.2e-21  Score=106.80  Aligned_cols=67  Identities=27%  Similarity=0.545  Sum_probs=63.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+||+++|++|||||||+++|+.++|...+.||.+.++..+.+..++..+.+++||++|++++..++
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~   69 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLA   69 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHH
Confidence            6899999999999999999999999999999999999988899899999999999999999987764

>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=99.85  E-value=6.6e-22  Score=109.34  Aligned_cols=71  Identities=42%  Similarity=0.805  Sum_probs=42.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .++.+||+++|+++||||||+++++.+.+...+.++++.++..+.+.+++..+.+++||++|+++|..+++
T Consensus         3 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~   73 (173)
T d2fu5c1           3 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITT   73 (173)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CC
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHH
Confidence            57789999999999999999999999999999999999999999999999999999999999999988764

>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=99.85  E-value=3.4e-21  Score=106.35  Aligned_cols=70  Identities=31%  Similarity=0.647  Sum_probs=64.0

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +++.+||+++|++|||||||+++|..++|...+.++.+.......+..++..+.+++||++|+++|..+.
T Consensus         2 ~~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   71 (174)
T d2bmea1           2 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVT   71 (174)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHH
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhH
Confidence            5788999999999999999999999999999999999888877778789999999999999999987764

>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=99.85  E-value=2.1e-21  Score=108.39  Aligned_cols=73  Identities=23%  Similarity=0.403  Sum_probs=63.9

Q ss_pred             CCCC--CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          1 MADC--NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         1 m~~~--~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      |++.  ...+||+++|++|||||||+++|+.+.|.+++.||++ +...+.+.+++..+.+++||++|+++|+.+++
T Consensus         1 m~~~~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~-~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~   75 (185)
T d2atxa1           1 MAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRP   75 (185)
T ss_dssp             CSSCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSC-CCEEEEEESSSCEEEEEEECCCCSSSSTTTGG
T ss_pred             CCCCCCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCcee-eeeeEEEeeCCceEEeecccccccchhhhhhh
Confidence            5543  5689999999999999999999999999999999987 55667777889999999999999999987754

>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=99.85  E-value=4.3e-22  Score=109.99  Aligned_cols=68  Identities=22%  Similarity=0.519  Sum_probs=58.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ++|++++|+++||||||+++|+.++|...+.||++.++..+.+..++..+.+.+||++|+++++.+.+
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   70 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRD   70 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGG
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecc
Confidence            68999999999999999999999999999999999999998988899999999999999999887654

>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=99.84  E-value=8.3e-21  Score=104.93  Aligned_cols=70  Identities=26%  Similarity=0.421  Sum_probs=62.6

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+...+||+++|++|||||||+++|+.++|...+.|+.. +...+.+.+++..+.+.+||++|+++|..++
T Consensus         2 ~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~   71 (173)
T d2fn4a1           2 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQEEFGAMR   71 (173)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTTTSCCH
T ss_pred             CCCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeEeccCCeeeeeecccccccccccccc
Confidence            356789999999999999999999999999999988875 6667888899999999999999999988764

>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=99.84  E-value=1.1e-20  Score=105.88  Aligned_cols=67  Identities=25%  Similarity=0.419  Sum_probs=60.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+||+++|++|||||||+++|+.++|..++.||++ +.......+++..+.+++||++|+++|+.+++
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   69 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRP   69 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGG
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eecceeEeeCCceeeeeccccccchhhhhhhh
Confidence            58999999999999999999999999999999998 44566777899999999999999999988764

>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=99.84  E-value=1.2e-20  Score=104.53  Aligned_cols=67  Identities=24%  Similarity=0.462  Sum_probs=60.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +.||+++|++|||||||+++|+.+.|++.+.||++ +...+...+++..+.+++||++|+++|+.+++
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   68 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDRLRP   68 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGG
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccchhcccch
Confidence            57999999999999999999999999999999987 55567777899999999999999999988764

>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=99.84  E-value=1.4e-20  Score=104.13  Aligned_cols=70  Identities=30%  Similarity=0.554  Sum_probs=61.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +++.+||+++|+++||||||++++..+.+...+.++.+.+...+.+.+++..+.+.+||++|+++|+.+.
T Consensus         1 ~~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~   70 (175)
T d2f9la1           1 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRIT   70 (175)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCC
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHH
Confidence            4678999999999999999999999999998888888888888888899999999999999999998764

>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=99.84  E-value=2.3e-20  Score=102.45  Aligned_cols=69  Identities=26%  Similarity=0.446  Sum_probs=62.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+.+||+++|++|||||||+++|+.+.|...+.||++.++ .+.+.+++..+.+.+||++|+++|..+.+
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~   70 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQ   70 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCG
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccc
Confidence            4678999999999999999999999999999999998765 57778899999999999999999987753

>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=99.83  E-value=9.7e-21  Score=103.61  Aligned_cols=66  Identities=36%  Similarity=0.681  Sum_probs=61.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|++|||||||+++|..++|...+.|+++.+........++..+.+.+||++|+++++.+.
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~   66 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLI   66 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGH
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccch
Confidence            699999999999999999999999999999999988888888888999999999999999988764

>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=99.83  E-value=2.2e-20  Score=103.92  Aligned_cols=70  Identities=29%  Similarity=0.484  Sum_probs=62.8

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .++.+||+++|++|||||||+++|+.+.|..++.||++ +...+.+..++..+.+.+||++|++.|..+++
T Consensus         2 ~p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~   71 (183)
T d1mh1a_           2 SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRP   71 (183)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSC-CEEEEEEEETTEEEEEEEECCCCSGGGTTTGG
T ss_pred             CceeEEEEEECCCCCCHHHHHHHHHhCCCCccccccee-eceeeeeeccCcceEEEeecccccccchhhhh
Confidence            46789999999999999999999999999999999997 45566777899999999999999999988754

>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=99.83  E-value=2.3e-20  Score=103.37  Aligned_cols=70  Identities=39%  Similarity=0.641  Sum_probs=63.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ...+||+++|+++||||||++++..++|...+.++.+.....+.+.+++..+.+.+||++|+++++.+.+
T Consensus         5 ~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   74 (177)
T d1x3sa1           5 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTP   74 (177)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHH
T ss_pred             cceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHH
Confidence            4579999999999999999999999999999999888888888888999999999999999999987653

>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=99.83  E-value=1.4e-20  Score=103.18  Aligned_cols=67  Identities=27%  Similarity=0.658  Sum_probs=62.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+||+++|++|||||||+++|..+.|...+.||++.+........++..+.+.+||++|++++..+.
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~   68 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAIT   68 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCC
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhh
Confidence            4899999999999999999999999999999999988888888889999999999999999988765

>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=99.83  E-value=2.5e-20  Score=102.59  Aligned_cols=64  Identities=20%  Similarity=0.362  Sum_probs=57.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ++||+++|++|||||||+++|+.++|.+.+.||++.++. ..+..++..+.+++||++|++.+..
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~-~~~~~~~~~~~l~i~D~~g~~~~~~   65 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTAGQEDTIQ   65 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCCCCCCHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceecccc-ccccccccceEEEEeeccccccccc
Confidence            589999999999999999999999999999999987764 4555789999999999999987753

>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=99.83  E-value=3.6e-20  Score=101.69  Aligned_cols=69  Identities=29%  Similarity=0.544  Sum_probs=63.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +++||+++|+++||||||+++|+.++|...+.+|.+..+.......++....+.+||++|+++++.+.+
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~   71 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAP   71 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTH
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHH
Confidence            579999999999999999999999999999999999888888888889999999999999999987753

>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=99.83  E-value=3e-20  Score=103.35  Aligned_cols=67  Identities=25%  Similarity=0.488  Sum_probs=59.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ++||+++|++|||||||+++|+.++|+.++.||++ +...+.+.+++..+.+++||++|++++..+++
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~   68 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVF-ENYTASFEIDTQRIELSLWDTSGSPYYDNVRP   68 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEECSSCEEEEEEEEECCSGGGTTTGG
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-ecccccccccceEEeecccccccccccccccc
Confidence            58999999999999999999999999999999986 45566777899999999999999999887654

>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=99.83  E-value=3.7e-20  Score=101.89  Aligned_cols=69  Identities=33%  Similarity=0.564  Sum_probs=63.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .++||+++|++|||||||+++|+.++|+..+.++.+.++.......+...+.+.+||++|+++|..+++
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~   73 (170)
T d1r2qa_           5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAP   73 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHH
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHH
Confidence            478999999999999999999999999999999999988888888899999999999999999987653

>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=99.82  E-value=2.9e-20  Score=102.12  Aligned_cols=67  Identities=24%  Similarity=0.460  Sum_probs=60.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +++||+++|++|||||||+++|+.++|.+++.|+++..+ ...+.+++..+.+.+||++|+++++.++
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~   68 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMR   68 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccc
Confidence            468999999999999999999999999999999998555 5667788999999999999999998764

>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=99.82  E-value=3.9e-20  Score=101.72  Aligned_cols=66  Identities=27%  Similarity=0.517  Sum_probs=58.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ++||+++|++|||||||+++|+.+.|.+.+.||++..+ .....+++..+.+.+||++|+++|..+.
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~d~~g~~~~~~~~   67 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQ   67 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceeccccccccccccccc
Confidence            68999999999999999999999999999999998554 5566789999999999999999987654

>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=99.82  E-value=4.3e-20  Score=101.31  Aligned_cols=67  Identities=31%  Similarity=0.577  Sum_probs=60.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +++||+++|++|||||||+++|+.++|...+.|+++ +++.....+++..+.+++||++|++.+..+.
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~   68 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMR   68 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHHHH
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecCcceEeeccccCCCccccccch
Confidence            468999999999999999999999999999999987 5667777889999999999999999887653

>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=99.82  E-value=8.3e-20  Score=100.62  Aligned_cols=67  Identities=24%  Similarity=0.386  Sum_probs=60.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.+||+++|+++||||||+++|++++|.+.+.||++.. +.+.+.+++..+.+++||++|++++..++
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~d~~g~~~~~~~~   69 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDS-YLKHTEIDNQWAILDVLDTAGQEEFSAMR   69 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEE-EEEEEEETTEEEEEEEEECCSCGGGCSSH
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeec-cccccccccccccccccccccccccccch
Confidence            46899999999999999999999999999999998754 46777889999999999999999998764

>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=99.82  E-value=5.1e-20  Score=101.39  Aligned_cols=67  Identities=19%  Similarity=0.375  Sum_probs=57.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.+||+++|+++||||||+++|+.++|..++.||++.++ .+.+.+++..+.+.+||++|++++..+.
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~   69 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIR   69 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHH
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccccccccccccccchhhhh
Confidence            468999999999999999999999999999999998665 5677789999999999999999987654

>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=99.81  E-value=7.3e-20  Score=100.79  Aligned_cols=67  Identities=24%  Similarity=0.407  Sum_probs=56.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .++||+++|+++||||||+++|+.++|..++.||.+ +...+.+.+++..+.+.+||++|++++..++
T Consensus         4 ~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~   70 (171)
T d2erya1           4 EKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMR   70 (171)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccc
Confidence            358999999999999999999999999999999987 5667788899999999999999999987654

>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=99.80  E-value=4.6e-20  Score=102.67  Aligned_cols=71  Identities=34%  Similarity=0.626  Sum_probs=61.5

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCC----------eEEEEEEEeCCCccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDD----------VPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~----------~~~~l~i~D~~g~~~~~~~   72 (75)
                      ++++.+||+++|+++||||||+++|+.++|...+.++.+.++..+.+.+++          ..+.+.+||++|+++|+.+
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            367889999999999999999999999999999999988888777776543          3578999999999999876


Q ss_pred             c
Q psy12927         73 D   73 (75)
Q Consensus        73 ~   73 (75)
                      +
T Consensus        81 ~   81 (186)
T d2f7sa1          81 T   81 (186)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=99.80  E-value=1.4e-19  Score=99.91  Aligned_cols=70  Identities=27%  Similarity=0.644  Sum_probs=58.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ++.+||+++|++|||||||++++.+++|...+.++...+........++..+.+.+||++|++.++.+.+
T Consensus         1 ~y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~   70 (173)
T d2a5ja1           1 SYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITR   70 (173)
T ss_dssp             CEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCH
T ss_pred             CeeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHH
Confidence            4679999999999999999999999999998888887777777777889999999999999999987653

>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=99.79  E-value=6.1e-19  Score=97.99  Aligned_cols=68  Identities=32%  Similarity=0.607  Sum_probs=62.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      .+||+++|+++||||||+++++++.|...+.||++.+...+.....+..+.+.+||++|++++..+.+
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~   69 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGV   69 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCC
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCccccccccc
Confidence            48999999999999999999999999999999999999888888889999999999999998776653

>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=99.79  E-value=7.2e-19  Score=96.96  Aligned_cols=69  Identities=26%  Similarity=0.563  Sum_probs=58.7

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ....+||+++|+++||||||+++|..++|...+.+|++.....+....++..+.+++||++|+.+++..
T Consensus         3 ~~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~   71 (174)
T d1wmsa_           3 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSL   71 (174)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHH
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhh
Confidence            456789999999999999999999999999999999998888888888999999999999998876654

>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=99.78  E-value=6.5e-19  Score=96.52  Aligned_cols=67  Identities=24%  Similarity=0.424  Sum_probs=58.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +++||+++|+++||||||+++|+.+.|+..+.++++..+. ..+..++..+.+.+||++|++.+...+
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~d~~~~~~~~~~~   68 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMR   68 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEEETTEEEEEEEEEECCCGGGHHHH
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeec-cceeeeceeeeeeeeeccCccccccch
Confidence            3689999999999999999999999999999999986654 456678899999999999999887654

>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=99.78  E-value=4.2e-19  Score=97.62  Aligned_cols=64  Identities=22%  Similarity=0.257  Sum_probs=42.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +||+++|++|||||||+++|.+..+.. +.++.+ +.+.+.+.+++..+.+.+||++|+++|+.+.
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~-~~~~~~-~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~   65 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGP-EAEAAG-HTYDRSIVVDGEEASLMVYDIWEQDGGRWLP   65 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC----------C-EEEEEEEEETTEEEEEEEEECC-------CH
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCC-cCCeee-eeecceeeccccccceeeeecccccccceec
Confidence            799999999999999999999877643 445554 4556778889999999999999999998764

>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=99.75  E-value=5.6e-19  Score=96.63  Aligned_cols=64  Identities=16%  Similarity=0.402  Sum_probs=53.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .++||+++|+++||||||++++..+++...+.||++.++..  +..+  .+.+.+||++|++.|+...
T Consensus         1 ~e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~   64 (164)
T d1zd9a1           1 EEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--ITKG--NVTIKLWDIGGQPRFRSMW   64 (164)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EEET--TEEEEEEEECCSHHHHTTH
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeeee--eeee--eEEEEEeeccccccccccc
Confidence            36899999999999999999999999999999999876543  3343  4789999999999887643

>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=99.75  E-value=6.4e-19  Score=98.06  Aligned_cols=62  Identities=16%  Similarity=0.121  Sum_probs=52.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +++||+++|+.|||||||+++|+.++|  ++.||+|+++..    ++...+.+++||++|+++++.+.
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~~~----~~~~~~~~~~~d~~g~~~~~~~~   62 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYP----FDLQSVIFRMVDVGGQRSERRKW   62 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEEEE----EECSSCEEEEEECCCSTTGGGGG
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEEEE----Eeccceeeeeccccccccccccc
Confidence            478999999999999999999998887  467999977643    34456789999999999988765

>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=99.75  E-value=5.2e-18  Score=94.07  Aligned_cols=64  Identities=22%  Similarity=0.236  Sum_probs=54.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      +.+|++++|+++||||||+++|+.++|.. +.++.+. .+.+.+.++++.+.+++||++|+++++.
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~-~~~~~i~v~~~~~~l~i~Dt~g~~~~~~   67 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESE-QYKKEMLVDGQTHLVLIREEAGAPDAKF   67 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCE-EEEEEEEETTEEEEEEEEECSSCCCHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccce-eEEEEeecCceEEEEEEeeccccccccc
Confidence            57999999999999999999999999855 4566654 4467788999999999999999987653

>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=99.74  E-value=2e-18  Score=95.72  Aligned_cols=60  Identities=17%  Similarity=0.114  Sum_probs=47.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      +++|++++|+.|||||||+++|..+++++.+.++       .  .++...+.+++||++||++|+++.+
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~t~~~~~-------~--~~~~~~~~~~i~D~~Gq~~~~~~~~   60 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEAGTGIVE-------T--HFTFKDLHFKMFDVGGQRSERKKWI   60 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSCCCSEEE-------E--EEEETTEEEEEEEECCSGGGGGGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCCccEEE-------E--EEEeeeeeeeeeccccccccccchh
Confidence            4789999999999999999999988876543222       1  2334557899999999999998764

>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=99.73  E-value=3.3e-18  Score=94.08  Aligned_cols=67  Identities=34%  Similarity=0.677  Sum_probs=46.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEe-CCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDL-DDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+||+++|+++||||||+++|+.++|...+.|+.+.......... +...+.+.+||++|++++..+.
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~   69 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLG   69 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC---------
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHH
Confidence            589999999999999999999999999988888876655555444 4456789999999999887654

>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=99.71  E-value=5.2e-18  Score=92.58  Aligned_cols=63  Identities=30%  Similarity=0.494  Sum_probs=50.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      +.+||+++|++|||||||+++|.++.+ ..+.||.+....  .+  +...+.+.+||++|+++++.+.
T Consensus         1 k~~ki~ivG~~~~GKTsLi~~l~~~~~-~~~~~t~~~~~~--~~--~~~~~~~~~~D~~G~~~~~~~~   63 (165)
T d1ksha_           1 RELRLLMLGLDNAGKTTILKKFNGEDV-DTISPTLGFNIK--TL--EHRGFKLNIWDVGGQKSLRSYW   63 (165)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCCC-SSCCCCSSEEEE--EE--EETTEEEEEEEECCSHHHHTTG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHcCCCC-CcccceEeeeee--ec--cccccceeeeecCcchhhhhHH
Confidence            368999999999999999999998766 567888875543  33  3345789999999999887654

>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=99.70  E-value=6.4e-17  Score=88.16  Aligned_cols=65  Identities=40%  Similarity=0.808  Sum_probs=58.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      .+||+++|++|||||||+++|+.++|...+.++.+.....+...+......+.+||++|++.+..
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   66 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRK   66 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHT
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhcc
Confidence            58999999999999999999999999999999988888788888899999999999999876543

>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=99.68  E-value=6.3e-18  Score=94.26  Aligned_cols=60  Identities=17%  Similarity=0.122  Sum_probs=42.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+||+++|++|||||||+++|.   +...+.||+|+....  +  +.+.+.+++||++|++.++...
T Consensus         2 ~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~~~~--~--~~~~~~~~~~D~~gq~~~~~~~   61 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHEYD--F--EIKNVPFKMVDVGGQRSERKRW   61 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEEEEE--E--EETTEEEEEEEECC-------C
T ss_pred             eEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeEEEE--E--eeeeeeeeeecccceeeecccc
Confidence            5899999999999999999994   445678999965533  3  3355788999999999887654

>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=99.65  E-value=2e-16  Score=87.05  Aligned_cols=64  Identities=14%  Similarity=0.320  Sum_probs=50.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCC-CccceeeEEEEEEEEEeCCeEEEEEEEeC---CCcccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYD-TYISTIGIDFKQKIIDLDDVPTKLQIWTL---NALLTY   69 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~D~---~g~~~~   69 (75)
                      .-+||+++|+++||||||+++|+...+.. ...++.+.+++.+.+.++++.+.+.+||+   +|+++|
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~   69 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW   69 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc
Confidence            35899999999999999999999776543 45566777888888889999999999985   567765

>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=99.63  E-value=6.5e-17  Score=88.81  Aligned_cols=65  Identities=25%  Similarity=0.383  Sum_probs=50.5

Q ss_pred             CCCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          3 DCNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         3 ~~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      .+.+.+||+++|+++||||||++++..+++. ...++.+....  .+..  ..+.+.+||++|+++++.+
T Consensus        12 ~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~-~~~~~~~~~~~--~i~~--~~~~~~i~d~~g~~~~~~~   76 (176)
T d1fzqa_          12 APDQEVRILLLGLDNAGKTTLLKQLASEDIS-HITPTQGFNIK--SVQS--QGFKLNVWDIGGQRKIRPY   76 (176)
T ss_dssp             CCSSCEEEEEEESTTSSHHHHHHHHCCSCCE-EEEEETTEEEE--EEEE--TTEEEEEEECSSCGGGHHH
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHhcCCCC-cceeeeeeeEE--Eecc--CCeeEeEeeccccccchhH
Confidence            4567899999999999999999999988874 34456664443  3333  3478999999999998764

>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=99.60  E-value=5.2e-17  Score=89.84  Aligned_cols=66  Identities=26%  Similarity=0.375  Sum_probs=47.2

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLDK   74 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~   74 (75)
                      ..+.+||+++|++|||||||++++..+++.. ..||.+.....  ...  ..+.+.+||++|+++|+.+.+
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~~~~--~~~--~~~~~~i~D~~g~~~~~~~~~   79 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNVET--LSY--KNLKLNVWDLGGQTSIRPYWR   79 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTCCEEE--EEE--TTEEEEEEEEC----CCTTGG
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceEEEE--Eee--CCEEEEEEecccccccchhHH
Confidence            4678999999999999999999999887643 45676644432  223  347889999999999887654

>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=99.59  E-value=5.4e-16  Score=88.41  Aligned_cols=61  Identities=20%  Similarity=0.217  Sum_probs=48.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+.+||+++|++|||||||++++..+++    .||+|+...  .+.+++  +.+++||++||++++...
T Consensus         4 k~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~~~~--~~~~~~--~~~~~~D~~Gq~~~r~~w   64 (221)
T d1azta2           4 RATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGIFET--KFQVDK--VNFHMFDVGGQRDERRKW   64 (221)
T ss_dssp             HHSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSCEEE--EEEETT--EEEEEEECCCSTTTTTGG
T ss_pred             hhcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCeEEE--EEEECc--EEEEEEecCccceeccch
Confidence            4578999999999999999999987754    478885543  344544  778999999999988754

>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=99.58  E-value=2.4e-16  Score=86.58  Aligned_cols=64  Identities=23%  Similarity=0.331  Sum_probs=49.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      .+.+||+++|+++||||||+++++.+.+.. ..+|.+.....    .....+.+.+||++|+++++...
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~~~~----~~~~~~~~~i~D~~g~~~~~~~~   73 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNVET----VTYKNVKFNVWDVGGQDKIRPLW   73 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETTEEEEE----EEETTEEEEEEEESCCGGGHHHH
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceeeeeEEE----eeccceeeEEecCCCcchhhhHH
Confidence            457999999999999999999999887644 44666655433    22345788999999999877654

>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=99.56  E-value=1.3e-15  Score=81.77  Aligned_cols=60  Identities=17%  Similarity=0.165  Sum_probs=46.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +||+++|++|||||||+++++.+++...+..+...     ....+...+.+.+||++|++.++..
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~d~~g~~~~~~~   60 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFN-----VETVEYKNISFTVWDVGGQDKIRPL   60 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCC-----EEEEECSSCEEEEEECCCCGGGHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceeeE-----EEEEeeeeEEEEEecCCCcccchhh
Confidence            59999999999999999999998886655443321     1224566788999999999887543

>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=99.45  E-value=5.3e-14  Score=78.85  Aligned_cols=60  Identities=20%  Similarity=0.212  Sum_probs=47.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      +|+++|+++||||||++++..+++... .|+.+.++....+ .+...+.+.+||++|+++++
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~~~~~-~~~~~~~~~~~d~~g~~~~~   61 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSAIYKV-NNNRGNSLTLIDLPGHESLR   61 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEEEEEC-SSTTCCEEEEEECCCCHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEEEEEE-eeeeeeeeeeeecccccccc
Confidence            689999999999999999999888664 4666655543332 24567789999999998775

>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=99.44  E-value=1.1e-13  Score=73.97  Aligned_cols=60  Identities=25%  Similarity=0.238  Sum_probs=45.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLLD   73 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   73 (75)
                      ||+++|+++||||||++++..+++. .+.|+.+.....    .....+...+||+.+...+..+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~   61 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTSEE----LAIGNIKFTTFDLGGHIQARRLW   61 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEEEE----ECCTTCCEEEEECCCSGGGGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeEEE----eccCCeeEEEEeeccchhhhhhH
Confidence            8999999999999999999998875 467777644432    33344568899999987765543

>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=99.44  E-value=1.7e-13  Score=73.73  Aligned_cols=62  Identities=31%  Similarity=0.477  Sum_probs=46.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      +++||+++|+++||||||+++++.+++... .++.+....  ....  ..+.+.+||.++.+.++..
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~-~~~~~~~~~--~~~~--~~~~~~~~~~~~~~~~~~~   65 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIGFNVE--TVTY--KNLKFQVWDLGGLTSIRPY   65 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSSEEEE--EEEE--TTEEEEEEEECCCGGGGGG
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCcce-ecccceeee--eecc--CceEEEEeecccccccccc
Confidence            468999999999999999999999988653 456553332  2223  3467889999888877654

>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=99.35  E-value=3.2e-13  Score=75.27  Aligned_cols=60  Identities=13%  Similarity=0.125  Sum_probs=42.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      ++.+|+++|+++||||||+++++++++...    .........  ++.....+.+||++|+++++.
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~~~----tt~~~~~~~--~~~~~~~~~l~D~~g~~~~~~   61 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVRPT----VVSQEPLSA--ADYDGSGVTLVDFPGHVKLRY   61 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCCB----CCCSSCEEE--TTGGGSSCEEEECCCCGGGTH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCe----EEecceEEE--EEeCCeEEEEEecccccchhh
Confidence            566899999999999999999998876432    222222222  333445678999999987653

>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=99.31  E-value=3.9e-13  Score=73.25  Aligned_cols=63  Identities=24%  Similarity=0.357  Sum_probs=42.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      .+.+||+++|++|||||||++++..+++.. ..++.+..  ......  ..+.+.+||+++++..+..
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~-~~~~~~~~--~~~~~~--~~~~~~~~d~~~~~~~~~~   75 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVH-TSPTIGSN--VEEIVI--NNTRFLMWDIGGQESLRSS   75 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEE-EECCSCSS--CEEEEE--TTEEEEEEECCC----CGG
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCc-ccccccee--EEEEee--cceEEEEeccccccccccc
Confidence            567999999999999999999999887753 23333322  222223  3467899999998876654

>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=99.27  E-value=8.2e-13  Score=71.92  Aligned_cols=64  Identities=19%  Similarity=0.284  Sum_probs=39.9

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTYLLL   72 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   72 (75)
                      ..+..||+++|++|||||||++++..+.+... .|+.+....  .+..++  .....||+.++..+...
T Consensus        10 ~~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~~~--~~~~~~--~~~~~~~~~~~~~~~~~   73 (186)
T d1f6ba_          10 YKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTSE--ELTIAG--MTFTTFDLGGHIQARRV   73 (186)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSCE--EEEETT--EEEEEEEECC----CCG
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCCCcce-eccccccee--EEEecc--cccccccccchhhhhhH
Confidence            35679999999999999999999998877543 355543332  333444  35678898888776544

>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=99.19  E-value=5.5e-11  Score=63.77  Aligned_cols=60  Identities=22%  Similarity=0.285  Sum_probs=39.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCCC-CccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYYD-TYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      +||+++|+++||||||++++++.+... ...+....+.....+...+  ..+.+||++|..+.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~d~~g~~~~   62 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREA   62 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC--ceeeeccccccccc
Confidence            799999999999999999999665321 2222222222233344444  45779999997654

>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=99.17  E-value=2.2e-11  Score=66.64  Aligned_cols=62  Identities=13%  Similarity=0.120  Sum_probs=39.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCC--CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYY--DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      .+.-+|+++|.+|||||||++++++.+..  .....+.. +.........+  ..+.+|||+|....
T Consensus         3 ~~~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~-~~~~~~~~~~~--~~~~~~DtpG~~~~   66 (178)
T d1wf3a1           3 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTR-KRLRGILTEGR--RQIVFVDTPGLHKP   66 (178)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCC-SCEEEEEEETT--EEEEEEECCCCCCC
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeecccCCccc-ccccceeeeee--eeeeeccccccccc
Confidence            34457999999999999999999976532  12222221 22222223333  46789999998654

>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=99.16  E-value=7.1e-13  Score=71.33  Aligned_cols=57  Identities=21%  Similarity=0.318  Sum_probs=36.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCCC-CCccceeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETYY-DTYISTIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      +||+++|.++||||||++++++.+.. ....+..........+..++  ..+.+||++|.
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Dt~G~   58 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGV   58 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC--eeEEecccccc
Confidence            69999999999999999999865432 11111111112222333444  56789999984

>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=99.06  E-value=3.6e-11  Score=65.79  Aligned_cols=56  Identities=9%  Similarity=0.163  Sum_probs=34.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCC-C-ccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYD-T-YISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~-~-~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      .|.++|.++||||||++++++..... + ...+......   .........+.+|||+|..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~---~~~~~~~~~~~~~DtpG~~   60 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLG---VVEVSEEERFTLADIPGII   60 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEE---EEECSSSCEEEEEECCCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeec---eeeecCCCeEEEcCCCeee
Confidence            48899999999999999998654321 1 1122221111   1123333467899999954

>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=98.99  E-value=1.3e-10  Score=63.12  Aligned_cols=58  Identities=12%  Similarity=0.199  Sum_probs=32.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      +|+++|++|||||||++++++..... .....+.........++.....+.+||++|..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~   59 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAI-VEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVF   59 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC---------------CCSEEEEEETTEEEEEEECTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcce-ecccCceeecccccccccccccccccccccee
Confidence            68999999999999999998654321 11111111111111233344568899999853

>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=98.96  E-value=1.3e-09  Score=62.93  Aligned_cols=60  Identities=22%  Similarity=0.200  Sum_probs=40.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC-CCCC-ccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET-YYDT-YISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~-~~~~-~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ...++|+++|.+|||||||++.+++.. +... ..++.. +........++.  .+.++||+|-.
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~-~~~~~~~~~~g~--~i~viDTPGl~   91 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGP-RPVMVSRSRAGF--TLNIIDTPGLI   91 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCS-SCEEEEEEETTE--EEEEEECCCSE
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcce-eEEEEEEEeccE--EEEEEeeeccc
Confidence            457999999999999999999999764 3221 222221 122223345554  57899999964

>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=98.96  E-value=9e-10  Score=60.17  Aligned_cols=62  Identities=18%  Similarity=0.209  Sum_probs=37.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCC--CCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETY--YDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      ...+||+++|.++||||||++++++...  ...+..+.. ......+..++.  .+.++|++|....
T Consensus         6 ~~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~-~~~~~~~~~~~~--~~~~~d~~g~~~~   69 (186)
T d1mkya2           6 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTR-DPVDDEVFIDGR--KYVFVDTAGLRRK   69 (186)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC-------CCEEEEETTE--EEEESSCSCC---
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCCCcceeeccccccc-ccceeeeccCCc--eeeeeccCCcccc
Confidence            3469999999999999999999996542  122222221 122223345554  4678899887643

>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=98.95  E-value=4.6e-11  Score=65.57  Aligned_cols=55  Identities=16%  Similarity=0.289  Sum_probs=34.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCC-CCcc-ceeeEEEEEEEEEe-CCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYY-DTYI-STIGIDFKQKIIDL-DDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~-~~~~-~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~   67 (75)
                      +|.++|.+|||||||++++.+.... .++. .|......  .... ++.  .+.+|||+|..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~--~~~~~~~~--~~~~~DtpG~~   60 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLG--MVETDDGR--SFVMADLPGLI   60 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEE--EEECSSSC--EEEEEEHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeec--eeEecCCc--EEEEecCCCcc
Confidence            5899999999999999999754421 1222 22222221  2222 333  46799999963

>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=98.92  E-value=5.2e-10  Score=60.94  Aligned_cols=50  Identities=22%  Similarity=0.284  Sum_probs=32.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCCccc--eeeEEEEEEEEEeCCeEEEEEEEeCCCc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDTYIS--TIGIDFKQKIIDLDDVPTKLQIWTLNAL   66 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~--t~~~~~~~~~~~~~~~~~~l~i~D~~g~   66 (75)
                      .|+++|.+|||||||++++.+........|  |..    ...+...+    +.+||++|.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~----~~~~~~~~----~~ivDtpG~   53 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRK----IIEIEWKN----HKIIDMPGF   53 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTS----CEEEEETT----EEEEECCCB
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeec----cccccccc----ceecccCCc
Confidence            589999999999999999987654322222  221    11122222    478999995

>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=98.85  E-value=1.6e-09  Score=66.07  Aligned_cols=26  Identities=15%  Similarity=0.358  Sum_probs=23.1

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ..++|+++|.+|||||||++.+.+..
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~   80 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIG   80 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            36899999999999999999998643

>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=98.78  E-value=6.6e-09  Score=60.35  Aligned_cols=59  Identities=20%  Similarity=0.394  Sum_probs=36.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      ...++++++|-++||||||++.+.+.+-. ...+..|.......+..+.   .+.+.||+|--
T Consensus       110 ~~~~~v~vvG~PNvGKSsliN~L~~~~~~-~~~~~pG~Tr~~~~i~~~~---~~~l~DTPGi~  168 (273)
T d1puja_         110 PRAIRALIIGIPNVGKSTLINRLAKKNIA-KTGDRPGITTSQQWVKVGK---ELELLDTPGIL  168 (273)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEETT---TEEEEECCCCC
T ss_pred             CCceEEEEEecCccchhhhhhhhhccceE-EECCcccccccceEEECCC---CeEEecCCCcc
Confidence            45789999999999999999999976532 2233334333333333333   37899999963

>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=98.76  E-value=8.9e-09  Score=56.27  Aligned_cols=65  Identities=11%  Similarity=0.134  Sum_probs=37.5

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCCCCCCcc--c---eeeEEE--EEEEEEeCCeEEEEEEEeCCCcccccc
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDETYYDTYI--S---TIGIDF--KQKIIDLDDVPTKLQIWTLNALLTYLL   71 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~~~~~~~--~---t~~~~~--~~~~~~~~~~~~~l~i~D~~g~~~~~~   71 (75)
                      .+.++|.++|.+++|||||+++++...-.....  +   ..+...  ....+..+  ...+.++|++|+.+|..
T Consensus         3 ~k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~--~~~~~~~d~~g~~~~~~   74 (179)
T d1wb1a4           3 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLE--NYRITLVDAPGHADLIR   74 (179)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEET--TEEEEECCCSSHHHHHH
T ss_pred             CCCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccC--Ccccccccccccccccc
Confidence            467899999999999999999998532211111  1   001101  11111122  34678999999887653

>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=98.74  E-value=2.8e-09  Score=57.69  Aligned_cols=29  Identities=17%  Similarity=0.368  Sum_probs=24.2

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      .+..++|+++|.++||||||++++.....
T Consensus        13 ~~~~~~I~lvG~~NvGKSSL~n~L~~~~~   41 (188)
T d1puia_          13 SDTGIEVAFAGRSNAGKSSALNTLTNQKS   41 (188)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC--
T ss_pred             CccCCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            35679999999999999999999986654

>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=98.62  E-value=7.7e-08  Score=56.53  Aligned_cols=24  Identities=29%  Similarity=0.320  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      +||.++|.++||||||++.+.+.+
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~   24 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVD   24 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCC
Confidence            589999999999999999998543

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=98.60  E-value=9.9e-09  Score=58.10  Aligned_cols=21  Identities=29%  Similarity=0.495  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |+++|.+++|||||+++++..
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCccHHHHHHHHHhh
Confidence            899999999999999998754

>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=98.59  E-value=4.3e-08  Score=52.88  Aligned_cols=26  Identities=23%  Similarity=0.434  Sum_probs=22.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      +--.|+++|.+|||||||++++++.+
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~~   29 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQK   29 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCS
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCCC
Confidence            44468999999999999999999654

>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=98.55  E-value=6.7e-08  Score=53.00  Aligned_cols=24  Identities=29%  Similarity=0.519  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+|+++|.+|||||||++.+.+.+
T Consensus        24 ~~I~lvG~~n~GKSTLin~L~g~~   47 (195)
T d1svia_          24 PEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CEEEEECCCCCCHHHHHHHhcCCC
Confidence            389999999999999999998654

>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=98.54  E-value=3.9e-08  Score=55.01  Aligned_cols=23  Identities=17%  Similarity=0.315  Sum_probs=21.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      +.++|+++|-.++|||||+.+++
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHH
Confidence            45899999999999999999985

>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=98.52  E-value=4.9e-08  Score=54.37  Aligned_cols=63  Identities=11%  Similarity=0.159  Sum_probs=40.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhC----------------CCCCCccceeeEEEEEEEEEeCCeEEEEEEEeCCCcccc
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDE----------------TYYDTYISTIGIDFKQKIIDLDDVPTKLQIWTLNALLTY   69 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~----------------~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~   69 (75)
                      +.++|+++|-.++|||||+.++...                ....+  ...|.......+..+.....+.+.|++|...|
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~E--r~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f   79 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEE--RARGITINAAHVEYSTAARHYAHTDCPGHADY   79 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEE--EETTEEEECEEEEEECSSCEEEEEECSSHHHH
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhh--cCCCccCCcceEEEEeceeeEEeecCcchHHH
Confidence            4589999999999999999988631                11111  11222233333334444457889999999877


Q ss_pred             c
Q psy12927         70 L   70 (75)
Q Consensus        70 ~   70 (75)
                      .
T Consensus        80 ~   80 (196)
T d1d2ea3          80 V   80 (196)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.50  E-value=4.2e-08  Score=52.81  Aligned_cols=23  Identities=35%  Similarity=0.732  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +||+++|++|+|||||++.++..
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            58999999999999999998853

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.38  E-value=3.2e-07  Score=52.18  Aligned_cols=59  Identities=12%  Similarity=0.082  Sum_probs=33.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCC--cccee--eE--EEEEEEEEeCCeEEEEEEEeCCCccccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDT--YISTI--GI--DFKQKIIDLDDVPTKLQIWTLNALLTYL   70 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~--~~~t~--~~--~~~~~~~~~~~~~~~l~i~D~~g~~~~~   70 (75)
                      ..+++|.+|||||||++.+..+.-...  .....  |.  ......+.+++.   -.+.||+|-..|.
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~g---g~iiDTPG~r~~~  161 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFG---GYVVDTPGFANLE  161 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTS---CEEESSCSSTTCC
T ss_pred             eEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCC---cEEEeCCcccccc
Confidence            568999999999999999985532211  11111  10  011122224332   2688999987765

>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=98.36  E-value=1.8e-06  Score=47.39  Aligned_cols=25  Identities=20%  Similarity=0.341  Sum_probs=22.7

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...++|.++|..++|||||++++..
T Consensus         3 ~~~inIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           3 QAEVNIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCcEEEEEEeccCCcHHHHHHHHHh
Confidence            5678999999999999999999975

>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=98.34  E-value=3.4e-07  Score=53.51  Aligned_cols=27  Identities=22%  Similarity=0.359  Sum_probs=23.9

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      ...+|+-+||.|+||||||++.+....
T Consensus         8 ~~~~kiGivG~Pn~GKSTlfnalT~~~   34 (296)
T d1ni3a1           8 GNNLKTGIVGMPNVGKSTFFRAITKSV   34 (296)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHST
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHCCC
Confidence            457899999999999999999999653

>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=98.31  E-value=2.3e-07  Score=49.58  Aligned_cols=24  Identities=21%  Similarity=0.493  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +.-+|++.|++|+|||||++.+..
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            345899999999999999999875

>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=98.29  E-value=2.6e-07  Score=53.56  Aligned_cols=25  Identities=24%  Similarity=0.428  Sum_probs=22.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      .+||-+||.++||||||++.+....
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCC
Confidence            3799999999999999999998654

>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=98.27  E-value=3.9e-07  Score=48.57  Aligned_cols=27  Identities=26%  Similarity=0.407  Sum_probs=23.6

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++.++|++.|++||||||+.+.+...
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            456789999999999999999998753

>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=98.22  E-value=1.7e-06  Score=48.82  Aligned_cols=25  Identities=20%  Similarity=0.448  Sum_probs=22.5

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ....++++++|-.++|||||+.+++
T Consensus         6 ~~~~~~i~viGHVd~GKSTL~~~Ll   30 (222)
T d1zunb3           6 RKEMLRFLTCGNVDDGKSTLIGRLL   30 (222)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHH
T ss_pred             cCCcceEEEEcCCCCCHHHHHHHHH
Confidence            4567899999999999999999986

>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=98.19  E-value=4.7e-07  Score=48.07  Aligned_cols=24  Identities=29%  Similarity=0.448  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ..+|+++|++|+||||+++.+...
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            358999999999999999998743

>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=98.11  E-value=1.2e-06  Score=47.19  Aligned_cols=22  Identities=14%  Similarity=0.357  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ++|+++|++|+||||++..+..
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            5799999999999999998864

>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=98.09  E-value=1.2e-05  Score=44.30  Aligned_cols=25  Identities=28%  Similarity=0.405  Sum_probs=22.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+.++++++|.-++|||||+.++..
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHS
T ss_pred             CCCeEEEEEEccCCcHHHHHHHHHh
Confidence            4568999999999999999999974

>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=98.08  E-value=1.6e-06  Score=47.23  Aligned_cols=24  Identities=17%  Similarity=0.371  Sum_probs=21.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +.++|+++|++|+||||.++.+..
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            457999999999999999999874

>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=98.07  E-value=8.2e-07  Score=51.77  Aligned_cols=20  Identities=25%  Similarity=0.326  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      +|.++|..++|||||+.+++
T Consensus         8 ni~i~gh~~~GKTtL~e~ll   27 (276)
T d2bv3a2           8 NIGIAAHIDAGKTTTTERIL   27 (276)
T ss_dssp             EEEEEECTTSCHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            69999999999999999976

>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=98.07  E-value=1.6e-06  Score=46.85  Aligned_cols=23  Identities=22%  Similarity=0.518  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++|+++|++|+||||+.+.+...
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            58999999999999999998743

>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=98.06  E-value=2e-06  Score=47.22  Aligned_cols=27  Identities=15%  Similarity=0.358  Sum_probs=23.7

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.+.++|+++|++|+||||+...+...
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            356789999999999999999998853

>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=98.05  E-value=1.7e-06  Score=46.85  Aligned_cols=23  Identities=22%  Similarity=0.449  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++|+++|++|+||||++..+...
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            58999999999999999988753

>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=98.05  E-value=1.3e-06  Score=50.71  Aligned_cols=59  Identities=8%  Similarity=0.111  Sum_probs=36.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC--CCCC-----------C-------ccceeeEEEEEEEEEeCCeEEEEEEEeCCCccc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE--TYYD-----------T-------YISTIGIDFKQKIIDLDDVPTKLQIWTLNALLT   68 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~--~~~~-----------~-------~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~   68 (75)
                      ++.++|..++|||||+.+++..  ....           +       ...|+...  ...+..++  .++.++||+|...
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~--~~~~~~~~--~~~n~iDtPGh~d   79 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTG--VAPLLFRG--HRVFLLDAPGYGD   79 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCE--EEEEEETT--EEEEEEECCCSGG
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEee--cccccccc--cceeEEccCchhh
Confidence            5899999999999999998521  1100           0       01122211  12233344  4678999999988


Q ss_pred             ccc
Q psy12927         69 YLL   71 (75)
Q Consensus        69 ~~~   71 (75)
                      |..
T Consensus        80 F~~   82 (267)
T d2dy1a2          80 FVG   82 (267)
T ss_dssp             GHH
T ss_pred             hhh
Confidence            753

>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=98.05  E-value=2.4e-06  Score=46.52  Aligned_cols=28  Identities=21%  Similarity=0.355  Sum_probs=22.3

Q ss_pred             CCCCCeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          1 MADCNQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         1 m~~~~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      |+. .+..-|+++|++|+||||+++++..
T Consensus         1 ~~~-~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           1 MEK-SKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCC-CCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCC-CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            443 3445789999999999999999874

>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=98.05  E-value=1.8e-06  Score=45.15  Aligned_cols=21  Identities=29%  Similarity=0.491  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |++.|.+|+||||+++.+...
T Consensus         5 Iii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            678999999999999998643

>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=98.05  E-value=1.7e-06  Score=45.71  Aligned_cols=20  Identities=20%  Similarity=0.307  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      +.++|.+|+|||||++++..
T Consensus         5 i~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            68999999999999999874

>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=98.04  E-value=3.3e-06  Score=50.42  Aligned_cols=24  Identities=13%  Similarity=0.286  Sum_probs=20.7

Q ss_pred             Ceee-EEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTY-KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~-ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ...+ +|+++|..++|||||+.+++
T Consensus        14 ~~~IRNI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2          14 VTNVRNMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHH
T ss_pred             cccCcEEEEEeCCCCcHHHHHHHHH
Confidence            3456 59999999999999999986

>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=98.01  E-value=2.2e-06  Score=45.24  Aligned_cols=21  Identities=24%  Similarity=0.542  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |++.|++|+||||+++.+...
T Consensus         5 I~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998743

>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=98.01  E-value=2.4e-06  Score=46.22  Aligned_cols=24  Identities=13%  Similarity=0.383  Sum_probs=21.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++|+++|++|+||||+++.+...
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999998743

>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=98.01  E-value=1.9e-06  Score=44.99  Aligned_cols=22  Identities=23%  Similarity=0.518  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .|+++|++||||||+.+.+...
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            5899999999999999998753

>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=98.00  E-value=1.5e-06  Score=48.90  Aligned_cols=23  Identities=26%  Similarity=0.567  Sum_probs=20.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      +.++|+++|--++|||||+.+++
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll   24 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLL   24 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHH
T ss_pred             CccEEEEEecCCCCHHHHHHHHH
Confidence            36899999999999999999875

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.99  E-value=2.5e-06  Score=45.35  Aligned_cols=21  Identities=29%  Similarity=0.686  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .|++.|++|+|||+|+..+..
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            378999999999999998773

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.99  E-value=2.3e-06  Score=46.14  Aligned_cols=22  Identities=23%  Similarity=0.409  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +||+++|++|+||||.+..+..
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            5899999999999999988864

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.99  E-value=1.8e-06  Score=47.01  Aligned_cols=24  Identities=17%  Similarity=0.273  Sum_probs=20.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++|+++|++|+||||++..+...
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999987643

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.95  E-value=1.1e-05  Score=46.55  Aligned_cols=34  Identities=18%  Similarity=0.289  Sum_probs=27.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhCCC-CCCcccee
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDETY-YDTYISTI   40 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~~~-~~~~~~t~   40 (75)
                      .-+++|+|+.++|||||++.+++..+ +....|+.
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            44799999999999999999998885 55444443

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.92  E-value=4e-06  Score=45.70  Aligned_cols=21  Identities=29%  Similarity=0.612  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |+++|++||||+||++++...
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            789999999999999998754

>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=97.89  E-value=2.3e-06  Score=48.78  Aligned_cols=24  Identities=17%  Similarity=0.409  Sum_probs=21.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ...++|+++|--++|||||+.+++
T Consensus         4 k~~iNi~iiGHvD~GKsTl~~~ll   27 (239)
T d1f60a3           4 KSHINVVVIGHVDSGKSTTTGHLI   27 (239)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCccEEEEEeCCCCCHHHHHHHHH
Confidence            346899999999999999999985

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.88  E-value=5e-06  Score=45.36  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .=|+++|.+|+||||+++++..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999998773

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.86  E-value=7.3e-06  Score=44.51  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +.|+++|++|+||||.++.+..
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999998874

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.86  E-value=1.1e-05  Score=46.87  Aligned_cols=25  Identities=20%  Similarity=0.537  Sum_probs=23.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      -+++|+|+.++|||||++.+++.++
T Consensus        25 P~ivVvG~~ssGKSSliNaLlG~~~   49 (306)
T d1jwyb_          25 PQIVVVGSQSSGKSSVLENIVGRDF   49 (306)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHTSCC
T ss_pred             CeEEEEeCCCCCHHHHHHHHhCCCC
Confidence            4799999999999999999998876

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.85  E-value=4.9e-06  Score=44.36  Aligned_cols=21  Identities=24%  Similarity=0.544  Sum_probs=18.0

Q ss_pred             EE-EEEcCCCCcHHHHHHHHHh
Q psy12927          9 KI-LVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki-~~~G~~~~GKtsl~~~~~~   29 (75)
                      |+ .++|.+|+|||||+.++..
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            45 4999999999999998863

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.85  E-value=6e-06  Score=44.67  Aligned_cols=21  Identities=29%  Similarity=0.547  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |+++|++||||+||++.+...
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            678999999999999998754

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.84  E-value=5.7e-06  Score=44.78  Aligned_cols=23  Identities=13%  Similarity=0.255  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..=|+++|.+|+||||++.++..
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            44688999999999999999864

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.83  E-value=5e-06  Score=44.36  Aligned_cols=21  Identities=29%  Similarity=0.477  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +|+++|.+||||||+.+.+..
T Consensus         3 ~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988763

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.82  E-value=7.4e-06  Score=44.82  Aligned_cols=21  Identities=24%  Similarity=0.597  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |+++|++||||+||++.+...
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999998743

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.82  E-value=7.6e-06  Score=44.52  Aligned_cols=21  Identities=24%  Similarity=0.532  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |+++|++|+||+||+++++..
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            789999999999999998853

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.81  E-value=7.8e-06  Score=43.24  Aligned_cols=21  Identities=19%  Similarity=0.400  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      =++++|.+|+||||+.+.+..
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            356799999999999999874

>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=97.81  E-value=7.9e-06  Score=43.66  Aligned_cols=21  Identities=33%  Similarity=0.423  Sum_probs=17.5

Q ss_pred             eEEE-EEcCCCCcHHHHHHHHH
Q psy12927          8 YKIL-VLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~-~~G~~~~GKtsl~~~~~   28 (75)
                      +|++ +.|.+||||||+++.+.
T Consensus         1 mkiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            3665 57999999999999875

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.79  E-value=8.1e-06  Score=45.39  Aligned_cols=20  Identities=25%  Similarity=0.537  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      ++++|..|+|||||++++..
T Consensus         3 i~v~G~~GsGKTTLl~~ll~   22 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGR   22 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEcCCCCcHHHHHHHHHH
Confidence            68999999999999999874

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.78  E-value=1.8e-05  Score=45.92  Aligned_cols=58  Identities=14%  Similarity=0.051  Sum_probs=39.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCCCCCC-----ccceeeEEEEEEEEEeCCeEEEEEEEeCCCcc
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDETYYDT-----YISTIGIDFKQKIIDLDDVPTKLQIWTLNALL   67 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~~~~~-----~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~   67 (75)
                      =|.++|+.++|||+|++++.+..+.-.     ...|.|+-.....+ .++....+.++||.|..
T Consensus        34 vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~-~~~~~~~~~~lDteG~~   96 (277)
T d1f5na2          34 VVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH-PKKPGHILVLLDTEGLG   96 (277)
T ss_dssp             EEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC-SSSTTCEEEEEEECCBC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeec-cCCCCceEEEEeccccc
Confidence            456999999999999999997653211     23566654443332 24455678899998864

>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=97.77  E-value=1.8e-06  Score=49.14  Aligned_cols=22  Identities=27%  Similarity=0.520  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ..+++|.+|||||||++.+..+
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            5679999999999999999865

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.77  E-value=1e-05  Score=42.98  Aligned_cols=19  Identities=26%  Similarity=0.293  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~   28 (75)
                      |++.|.+||||||+++.+.
T Consensus         4 I~i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6788999999999999875

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.76  E-value=9.5e-06  Score=45.12  Aligned_cols=21  Identities=19%  Similarity=0.393  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++++|++||||+||+++++..
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            678999999999999998854

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.76  E-value=8.9e-06  Score=43.34  Aligned_cols=21  Identities=19%  Similarity=0.419  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +|+++|.+||||||+.+.+..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998763

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.76  E-value=1.5e-05  Score=44.89  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-+++.|++|+|||++++.+...
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            34889999999999999998754

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.76  E-value=1.1e-05  Score=44.74  Aligned_cols=23  Identities=30%  Similarity=0.577  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .-+++++|++|||||+++..+..
T Consensus        43 k~n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          43 KNNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEecCCcccHHHHHHHHH
Confidence            45789999999999999987664

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.75  E-value=1e-05  Score=42.86  Aligned_cols=21  Identities=24%  Similarity=0.476  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |++.|++|+||||+.+.+...
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            678899999999999988753

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.75  E-value=1.9e-05  Score=41.64  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=19.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      .-+-|.++|.+|+||||+.+.+.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La   27 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQ   27 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            34678899999999999988766

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.74  E-value=1.2e-05  Score=46.55  Aligned_cols=23  Identities=35%  Similarity=0.485  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .-++++||++|||||++++.+..
T Consensus        39 k~n~lLVG~~GvGKTalv~~la~   61 (268)
T d1r6bx2          39 KNNPLLVGESGVGKTAIAEGLAW   61 (268)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCCcEEECCCCCcHHHHHHHHHH
Confidence            45789999999999999997764

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.73  E-value=1.3e-05  Score=42.31  Aligned_cols=21  Identities=33%  Similarity=0.458  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |++.|.+|+||||+.+.+...
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            456699999999999998753

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.71  E-value=1.3e-05  Score=44.79  Aligned_cols=23  Identities=30%  Similarity=0.598  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||++++.+...
T Consensus        36 ~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999998754

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.71  E-value=1.3e-05  Score=44.69  Aligned_cols=22  Identities=32%  Similarity=0.617  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++.|++|+|||++++.+...
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHhc
Confidence            5899999999999999998754

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.71  E-value=1.3e-05  Score=45.81  Aligned_cols=21  Identities=19%  Similarity=0.408  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|++|||||||++.+.+-
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCChHHHHHHHHHcC
Confidence            568999999999999999864

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=97.71  E-value=1.4e-05  Score=44.28  Aligned_cols=21  Identities=19%  Similarity=0.379  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|+.|+|||||++.+++-
T Consensus        30 ~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          30 VNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCChHHHHHHHHhcc
Confidence            579999999999999999854

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.70  E-value=1.4e-05  Score=43.51  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .--|+++|++|+||||++..+..
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            33578999999999999999875

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.69  E-value=1.2e-05  Score=45.78  Aligned_cols=23  Identities=17%  Similarity=0.390  Sum_probs=20.8

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ..++|+++|--++|||||+.+++
T Consensus        23 ~~iNi~iiGHVD~GKSTL~~~Ll   45 (245)
T d1r5ba3          23 EHVNIVFIGHVDAGKSTLGGNIL   45 (245)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHH
T ss_pred             CceEEEEEeeCCCCHHHHHHHHH
Confidence            46789999999999999999984

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.68  E-value=1.4e-05  Score=45.63  Aligned_cols=22  Identities=23%  Similarity=0.261  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++.++|++|+|||||++-+.+-
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5789999999999999998853

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.68  E-value=1.5e-05  Score=45.29  Aligned_cols=22  Identities=18%  Similarity=0.382  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|||||||++.+.+-
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            3679999999999999988754

>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=97.65  E-value=1.6e-05  Score=44.55  Aligned_cols=21  Identities=33%  Similarity=0.382  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -+++.|++|+|||+|+.++..
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            467889999999999999874

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.64  E-value=1.8e-05  Score=45.11  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|||||||++.+.+-
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            3689999999999999998854

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.64  E-value=2e-05  Score=44.75  Aligned_cols=22  Identities=18%  Similarity=0.274  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCcchhhHhccCC
Confidence            3579999999999999977653

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.64  E-value=1.8e-05  Score=43.04  Aligned_cols=21  Identities=24%  Similarity=0.480  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |+++|++|+||||+++.+...
T Consensus        11 I~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_          11 IFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             EEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            778999999999999998753

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.64  E-value=2.2e-05  Score=41.96  Aligned_cols=20  Identities=20%  Similarity=0.436  Sum_probs=17.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      |+++|.+||||||+.+.+..
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

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.63  E-value=1.8e-05  Score=45.36  Aligned_cols=22  Identities=14%  Similarity=0.249  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++.++|++|+|||||++-+.+-
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcc
Confidence            5789999999999999998753

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.63  E-value=2.3e-05  Score=46.40  Aligned_cols=25  Identities=24%  Similarity=0.397  Sum_probs=22.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...++|.+.|.+|+|||||+.++..
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHH
Confidence            4578899999999999999999863

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.63  E-value=1.6e-05  Score=45.56  Aligned_cols=21  Identities=24%  Similarity=0.417  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ++.++|++|+|||||++-+.+
T Consensus        43 ~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCChHHHHHHHHhc
Confidence            678999999999999998874

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=97.62  E-value=2.8e-05  Score=44.29  Aligned_cols=22  Identities=27%  Similarity=0.185  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++.++|++|+|||||++-+.+-
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            6789999999999999998753

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.62  E-value=1.9e-05  Score=45.89  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+-
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            5789999999999999998853

>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=97.62  E-value=2.1e-05  Score=46.05  Aligned_cols=23  Identities=39%  Similarity=0.598  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.++++||+|||||.|++.+...
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhhc
Confidence            35899999999999999988743

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.57  E-value=1.6e-05  Score=42.73  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -.-|+++|.+|+||||+.+.+..
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999998863

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.57  E-value=4e-05  Score=41.09  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=20.3

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..+=|.+.|++|+|||||++.+..
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            455678999999999999998863

>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=97.56  E-value=2.9e-05  Score=43.42  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||++++.+...
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988753

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=97.56  E-value=1.9e-05  Score=44.80  Aligned_cols=22  Identities=23%  Similarity=0.410  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      +.++|++|||||||++.+.+-.
T Consensus        29 ~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          29 FVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCc
Confidence            6799999999999999998643

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=97.55  E-value=2.9e-05  Score=44.30  Aligned_cols=22  Identities=27%  Similarity=0.410  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|+|||||++.+.+-
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            3679999999999999988754

>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=97.53  E-value=3.8e-05  Score=42.26  Aligned_cols=24  Identities=21%  Similarity=0.404  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.|++-|++||||||.+..+...
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            467888899999999999998753

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=97.53  E-value=2.4e-05  Score=44.66  Aligned_cols=21  Identities=24%  Similarity=0.267  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|++|+|||||++.+.+-
T Consensus        34 ~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          34 YGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            579999999999999998753

>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=97.50  E-value=3.9e-05  Score=42.94  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||++++.++..
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999998854

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.48  E-value=7.5e-05  Score=42.40  Aligned_cols=24  Identities=25%  Similarity=0.497  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...+++.|++|+|||++++.+...
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHhhc
Confidence            456999999999999999998743

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=97.47  E-value=3.5e-05  Score=43.85  Aligned_cols=21  Identities=19%  Similarity=0.400  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|+.|+|||||++.+.+-
T Consensus        35 ~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          35 VTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            579999999999999998864

>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=97.47  E-value=2.4e-05  Score=44.24  Aligned_cols=20  Identities=20%  Similarity=0.556  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      +.++|+.|+|||||++.+.+
T Consensus        28 ~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          28 LHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EECBCCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHhC
Confidence            57999999999999999875

>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=97.47  E-value=5.8e-05  Score=44.58  Aligned_cols=25  Identities=16%  Similarity=0.355  Sum_probs=22.1

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ...++|-+.|.+|+|||||+.++..
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHH
Confidence            4568899999999999999999874

>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=97.47  E-value=4.7e-05  Score=43.27  Aligned_cols=22  Identities=18%  Similarity=0.265  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      +.++|+.|+|||||++.+.+-.
T Consensus        31 ~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          31 FGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5699999999999999988653

>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=97.46  E-value=4.9e-05  Score=42.19  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+++.|++|+|||++++.+..
T Consensus        47 ~lll~Gp~G~GKTtla~~iak   67 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALAR   67 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            489999999999999998864

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=97.45  E-value=4.3e-05  Score=41.38  Aligned_cols=26  Identities=27%  Similarity=0.507  Sum_probs=22.4

Q ss_pred             CCeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          4 CNQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         4 ~~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..+.+=|++-|..||||||+++.+..
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            45567899999999999999999874

>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=97.42  E-value=3.4e-05  Score=44.30  Aligned_cols=21  Identities=19%  Similarity=0.320  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++++|++|+|||||++-+.+
T Consensus        46 ~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCCcHHHHHHHHHh
Confidence            679999999999999987664

>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=97.38  E-value=6.7e-05  Score=41.52  Aligned_cols=22  Identities=27%  Similarity=0.484  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++.|++|+|||++++.++..
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHHH
Confidence            3889999999999999988743

>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=97.38  E-value=3e-05  Score=43.60  Aligned_cols=20  Identities=20%  Similarity=0.267  Sum_probs=16.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++.|++|+|||++++.+..
T Consensus        49 l~l~GppGtGKT~l~~~l~~   68 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVK   68 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHH
Confidence            34569999999999998774

>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=97.38  E-value=5.3e-05  Score=43.35  Aligned_cols=21  Identities=19%  Similarity=0.447  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +.++|+.|+|||||++.+.+-
T Consensus        33 ~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             EEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHHCC
Confidence            579999999999999998864

>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=97.37  E-value=3e-05  Score=44.31  Aligned_cols=22  Identities=27%  Similarity=0.401  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+.++|++|+|||||++.+.+=
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            4679999999999999998864

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=97.35  E-value=8.7e-05  Score=43.80  Aligned_cols=25  Identities=20%  Similarity=0.320  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhCCC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDETY   32 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~~~   32 (75)
                      .++++.|.+|+||||+++.++..-.
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~  191 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIP  191 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CCEEEEeeccccchHHHHHHhhhcc
Confidence            4589999999999999999886443

>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=97.35  E-value=6.2e-05  Score=43.23  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -+.++|++|+|||||++.+.+-
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            3679999999999999998753

>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=97.34  E-value=6.1e-05  Score=46.20  Aligned_cols=23  Identities=39%  Similarity=0.639  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .-+|+++||+|||||-|++++..
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             cccEEEECCCCCCHHHHHHHHHH
Confidence            34799999999999999999864

>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=97.34  E-value=8.1e-05  Score=39.92  Aligned_cols=21  Identities=29%  Similarity=0.417  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.|++|+|||+|+.++..+
T Consensus        26 ~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          26 TEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            578999999999999998854

>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=97.34  E-value=4e-05  Score=46.35  Aligned_cols=22  Identities=32%  Similarity=0.590  Sum_probs=17.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      .-++++||++|||||+++..+.
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            3457999999999999886443

>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=97.34  E-value=6.1e-05  Score=42.04  Aligned_cols=22  Identities=18%  Similarity=0.378  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++.|++|+|||++++.+...
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            5899999999999999988754

>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=97.34  E-value=8.2e-05  Score=42.30  Aligned_cols=22  Identities=32%  Similarity=0.575  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++.|++|+|||++++.+...
T Consensus        44 giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHHH
Confidence            5899999999999999998853

>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=97.33  E-value=8.4e-05  Score=41.11  Aligned_cols=21  Identities=29%  Similarity=0.548  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+++.|++|+||||+++.+..
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHH
Confidence            489999999999999987753

>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=97.28  E-value=9.9e-05  Score=40.74  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+++.|++|+|||++++.++..
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            4899999999999999998754

>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=97.27  E-value=0.00017  Score=40.34  Aligned_cols=24  Identities=25%  Similarity=0.487  Sum_probs=19.3

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ....-++++|++||||||-+-++.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLA   32 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLA   32 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            455678999999999999766654

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.26  E-value=0.00015  Score=39.76  Aligned_cols=23  Identities=22%  Similarity=0.424  Sum_probs=19.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+-|.+.|.+|+||||+.+.+..
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            35678999999999999998753

>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=97.26  E-value=0.00012  Score=39.93  Aligned_cols=21  Identities=24%  Similarity=0.417  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |++.|++|+||+|+.+.+...
T Consensus         6 I~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            456699999999999988754

>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=97.25  E-value=9.8e-05  Score=41.00  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.|++|+|||+|..+|...
T Consensus        39 ~li~G~pGsGKT~~~lq~~~~   59 (254)
T d1pzna2          39 TEVFGEFGSGKTQLAHTLAVM   59 (254)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            679999999999999998743

>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=97.24  E-value=0.00012  Score=41.80  Aligned_cols=22  Identities=23%  Similarity=0.445  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -.+++.|++|+|||++++.+..
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHH
Confidence            3589999999999999999874

>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=97.22  E-value=0.00013  Score=41.54  Aligned_cols=23  Identities=35%  Similarity=0.507  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -.+++.|++|+|||++++.+...
T Consensus        39 ~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceeEEecCCCCCchHHHHHHHHH
Confidence            46899999999999999998853

>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=97.21  E-value=9.4e-05  Score=40.70  Aligned_cols=21  Identities=19%  Similarity=0.385  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.|++|+|||+|+.++...
T Consensus        37 ~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          37 TELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             EEEEESTTSSHHHHHHHHTTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            578999999999999998743

>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=97.20  E-value=0.00016  Score=39.25  Aligned_cols=21  Identities=24%  Similarity=0.419  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -|++-|..||||||+++.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999997763

>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=97.18  E-value=0.00011  Score=43.91  Aligned_cols=24  Identities=25%  Similarity=0.501  Sum_probs=20.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..-+++++|++|||||-|++++..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            345699999999999999998763

>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=97.14  E-value=0.00023  Score=41.64  Aligned_cols=22  Identities=27%  Similarity=0.391  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -.++++|++|||||.|++.+..
T Consensus        53 ~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          53 GSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCcchhHHHHHHHHh
Confidence            3689999999999999998764

>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=97.09  E-value=0.00018  Score=40.01  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=17.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      --++++|++||||||-+-++.
T Consensus         7 ~vi~lvGptGvGKTTTiaKLA   27 (207)
T d1okkd2           7 RVVLVVGVNGVGKTTTIAKLG   27 (207)
T ss_dssp             SEEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            356889999999999877654

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.07  E-value=0.00021  Score=39.79  Aligned_cols=19  Identities=21%  Similarity=0.382  Sum_probs=16.1

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~   28 (75)
                      ++++|++||||||.+-++.
T Consensus        13 i~lvGp~GvGKTTTiaKLA   31 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLA   31 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5779999999999887654

>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=97.07  E-value=0.00017  Score=40.33  Aligned_cols=22  Identities=23%  Similarity=0.517  Sum_probs=13.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ..-++++|++||||||.+-++.
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA   33 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLA   33 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3447789999999999876654

>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=97.07  E-value=0.00021  Score=39.94  Aligned_cols=22  Identities=32%  Similarity=0.628  Sum_probs=18.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ..-++++|++||||||-+-++.
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA   30 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLA   30 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3457789999999999888765

>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=97.06  E-value=0.00033  Score=38.76  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=20.2

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ...+-|.+.|.+|+|||||.+.+.
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~   45 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELE   45 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            345568999999999999998875

>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=97.05  E-value=0.00023  Score=39.33  Aligned_cols=22  Identities=27%  Similarity=0.477  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      =+++.|++|+|||+|+.+++..
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3679999999999999999853

>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=97.02  E-value=0.00022  Score=39.09  Aligned_cols=21  Identities=33%  Similarity=0.406  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.|++|+|||+|+.++..+
T Consensus        37 ~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          37 TEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            578999999999999999854

>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=97.02  E-value=0.00011  Score=43.02  Aligned_cols=20  Identities=35%  Similarity=0.647  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      .++++|++|+|||+|++++.
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            58999999999999999885

>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=97.02  E-value=0.00023  Score=39.42  Aligned_cols=22  Identities=41%  Similarity=0.682  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      =+++.|++|+|||+|+.++..+
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            3678999999999999998855

>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=97.02  E-value=0.00026  Score=40.60  Aligned_cols=21  Identities=19%  Similarity=0.344  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -+.+.|.+|+|||+|+..+..
T Consensus        46 ~v~I~GmgGiGKTtLA~~v~~   66 (277)
T d2a5yb3          46 FLFLHGRAGSGKSVIASQALS   66 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999998764

>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=97.01  E-value=0.00021  Score=40.81  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      --+++.|++|+|||+|++.+...
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcchhHHHHHHHH
Confidence            45899999999999999998754

>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=96.96  E-value=0.00039  Score=37.84  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-+++.|++|+|||+++-.+...
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            34789999999999999998865

>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=96.91  E-value=4.3e-05  Score=40.70  Aligned_cols=18  Identities=22%  Similarity=0.444  Sum_probs=15.7

Q ss_pred             EEEcCCCCcHHHHHHHHH
Q psy12927         11 LVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        11 ~~~G~~~~GKtsl~~~~~   28 (75)
                      +++|+.|+||||++..+.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            478999999999999864

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.91  E-value=0.00063  Score=36.51  Aligned_cols=24  Identities=17%  Similarity=0.170  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++=|.+.|..|+||||+++.+...
T Consensus         3 p~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC
Confidence            456779999999999999988643

>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=96.88  E-value=0.0002  Score=40.91  Aligned_cols=17  Identities=24%  Similarity=0.536  Sum_probs=15.5

Q ss_pred             EEEcCCCCcHHHHHHHH
Q psy12927         11 LVLGDSNVGKTCIVHRF   27 (75)
Q Consensus        11 ~~~G~~~~GKtsl~~~~   27 (75)
                      +++|+.|+|||+++..+
T Consensus        28 vlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEECCTTTCSTHHHHHH
T ss_pred             EEECCCCCcHHHHHHHH
Confidence            68999999999999865

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.87  E-value=0.00041  Score=37.92  Aligned_cols=20  Identities=25%  Similarity=0.341  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      |++-|..|+||||++..+..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67779999999999998763

>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=96.83  E-value=0.00041  Score=37.83  Aligned_cols=20  Identities=40%  Similarity=0.494  Sum_probs=17.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      -+++.|++|+|||+|+.+++
T Consensus        28 ~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            35788999999999998865

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=96.79  E-value=0.0005  Score=41.06  Aligned_cols=21  Identities=24%  Similarity=0.246  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q psy12927          8 YKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      --+++.|++|+|||++++.+.
T Consensus       155 ~~~~~~g~~~~gk~~~~~~~~  175 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAAALL  175 (362)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            368999999999999999876

>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=96.77  E-value=0.00023  Score=39.33  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .|++-|..||||||+++.+..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478899999999999998774

>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=96.77  E-value=0.00052  Score=37.35  Aligned_cols=23  Identities=22%  Similarity=0.390  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-+++.|++|+|||+++..+...
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            34789999999999999998854

>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=96.74  E-value=0.00064  Score=36.71  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .-+++.|++|+|||++.-.+...
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            45799999999999999888755

>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=96.74  E-value=0.00066  Score=36.30  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .=|++-|+=|+|||+|++.++..
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEecCCCccHHHHHHHHHhh
Confidence            34788999999999999998854

>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=96.72  E-value=0.0006  Score=37.59  Aligned_cols=19  Identities=21%  Similarity=0.398  Sum_probs=15.8

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~   28 (75)
                      |++-|..|+||||+++.+.
T Consensus         6 I~ieG~dGsGKsT~~~~L~   24 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLV   24 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5666999999999887765

>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=96.70  E-value=0.00064  Score=40.12  Aligned_cols=20  Identities=40%  Similarity=0.697  Sum_probs=17.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++.|++|+|||.|.+.+..
T Consensus       126 ~l~~G~pG~GKT~la~ala~  145 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGE  145 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHH
Confidence            45579999999999998874

>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=96.67  E-value=0.00057  Score=40.28  Aligned_cols=18  Identities=17%  Similarity=0.455  Sum_probs=15.9

Q ss_pred             EEEcCCCCcHHHHHHHHH
Q psy12927         11 LVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        11 ~~~G~~~~GKtsl~~~~~   28 (75)
                      +++|+.|+|||+++..++
T Consensus        29 ~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          29 SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEECSTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            588999999999999864

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.66  E-value=0.00098  Score=39.06  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=20.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ...+=|.+.|.+||||||+.+.+.
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHH
Confidence            446778899999999999988865

>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=96.64  E-value=0.00086  Score=36.85  Aligned_cols=21  Identities=10%  Similarity=0.308  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -+++.|++|+|||+++..+..
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            489999999999999997764

>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=96.63  E-value=0.00075  Score=37.31  Aligned_cols=21  Identities=24%  Similarity=0.468  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -|++=|..||||||+++.+..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            367889999999999999874

>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=96.60  E-value=0.00089  Score=37.35  Aligned_cols=20  Identities=35%  Similarity=0.476  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      -+++.|++|+|||+++..+.
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~   55 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLA   55 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHH
Confidence            47899999999999999875

>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=96.56  E-value=0.0009  Score=37.77  Aligned_cols=20  Identities=30%  Similarity=0.415  Sum_probs=17.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++.|.+|+|||+|+.++..
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            57899999999999988764

>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=96.56  E-value=0.00069  Score=37.72  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++.|--|+|||||+++++..
T Consensus         6 ~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEeeCCCCCHHHHHHHHHhc
Confidence            578899999999999999875

>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=96.52  E-value=0.00089  Score=37.64  Aligned_cols=19  Identities=11%  Similarity=0.246  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~   28 (75)
                      .++.|++|+|||+|+.++.
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            4689999999999998875

>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=96.44  E-value=0.0014  Score=38.81  Aligned_cols=24  Identities=17%  Similarity=0.227  Sum_probs=21.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..++|.+=|..|+||||+++.+..
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~   28 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMAS   28 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHS
T ss_pred             ceEEEEEECCccCCHHHHHHHHHH
Confidence            468999999999999999998874

>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=96.36  E-value=0.001  Score=39.33  Aligned_cols=25  Identities=24%  Similarity=0.396  Sum_probs=21.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ..++|.+=|..|+||||+++.+...
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999998754

>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=96.32  E-value=0.0018  Score=37.84  Aligned_cols=21  Identities=33%  Similarity=0.559  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -++++|++|+|||.+++.+..
T Consensus        55 ~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHHH
Confidence            578889999999999997664

>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=96.30  E-value=0.0016  Score=39.19  Aligned_cols=21  Identities=33%  Similarity=0.381  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.|+.|+||||.++.++..
T Consensus       161 iLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         161 ILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEcCCCCCccHHHHHHhhh
Confidence            789999999999999998854

>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=96.30  E-value=0.0016  Score=35.90  Aligned_cols=20  Identities=30%  Similarity=0.375  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      |++-|..||||||+++.+..
T Consensus         6 I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            67899999999999988763

>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=96.28  E-value=0.0018  Score=35.80  Aligned_cols=21  Identities=29%  Similarity=0.529  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +++.|++|+|||-|++.++..
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            789999999999999987754

>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=96.27  E-value=0.0015  Score=38.65  Aligned_cols=24  Identities=17%  Similarity=0.324  Sum_probs=20.9

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..++|.+=|..|+||||+++.+..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            357899999999999999998863

>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=96.21  E-value=0.00068  Score=39.46  Aligned_cols=19  Identities=37%  Similarity=0.571  Sum_probs=14.2

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~   28 (75)
                      |.+.|.+|+||||+.+.+.
T Consensus         7 IgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             EEEESCC---CCTHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            7899999999999998764

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=96.20  E-value=0.0035  Score=34.21  Aligned_cols=23  Identities=26%  Similarity=0.528  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      +-|.+.|..|+||||.++.|...
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~   26 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADL   26 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEECCCcCCHHHHHHHHHHC
Confidence            34668999999999999988643

>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=96.19  E-value=0.0016  Score=37.83  Aligned_cols=23  Identities=17%  Similarity=0.387  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      -|+.++|++|+|||+|+..+..+
T Consensus        44 Qr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          44 QRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CeeeEeCCCCCCHHHHHHHHHHH
Confidence            37899999999999999988753

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=96.19  E-value=0.0035  Score=34.06  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      +-|.+.|..|+||||+++.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4577999999999999998763

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.16  E-value=0.0037  Score=36.23  Aligned_cols=23  Identities=17%  Similarity=0.185  Sum_probs=18.6

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      ..+=|.+.|.+|+|||||...+.
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHH
Confidence            35667789999999999987653

>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=95.97  E-value=0.0025  Score=37.95  Aligned_cols=22  Identities=23%  Similarity=0.493  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .++++|.+|+|||+++..++..
T Consensus        52 H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          52 HLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEeCCCCcHHHHHHHHHHH
Confidence            4899999999999998876644

>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=95.87  E-value=0.0033  Score=35.31  Aligned_cols=20  Identities=15%  Similarity=0.512  Sum_probs=17.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      +|++.|-+||||||+.-.+.
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA   22 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLT   22 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            57789999999999998754

>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=95.83  E-value=0.0019  Score=36.54  Aligned_cols=16  Identities=38%  Similarity=0.571  Sum_probs=13.6

Q ss_pred             EEEEcCCCCcHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVH   25 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~   25 (75)
                      ++|+|.+|+|||+.+-
T Consensus        17 ~lI~g~aGTGKTt~l~   32 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVIT   32 (306)
T ss_dssp             EEECCCTTSCHHHHHH
T ss_pred             EEEEeeCCccHHHHHH
Confidence            6899999999997653

>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=95.82  E-value=0.0023  Score=36.54  Aligned_cols=16  Identities=25%  Similarity=0.594  Sum_probs=13.8

Q ss_pred             EEEEcCCCCcHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVH   25 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~   25 (75)
                      ++|.|.+|+|||+.+-
T Consensus        27 ~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             EEEEECTTSCHHHHHH
T ss_pred             EEEEecCCccHHHHHH
Confidence            7899999999997654

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=95.66  E-value=0.0034  Score=34.79  Aligned_cols=24  Identities=21%  Similarity=0.326  Sum_probs=19.6

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      .++--+++.|++++|||.++..++
T Consensus        51 PKkn~i~~~GP~~TGKS~f~~sl~   74 (205)
T d1tuea_          51 PKKNCLVFCGPANTGKSYFGMSFI   74 (205)
T ss_dssp             TTCSEEEEESCGGGCHHHHHHHHH
T ss_pred             CCceEEEEECCCCccHHHHHHHHH
Confidence            344568899999999999998765

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=95.56  E-value=0.0054  Score=35.00  Aligned_cols=21  Identities=19%  Similarity=0.355  Sum_probs=17.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ..+.|++++|||+|+.+++..
T Consensus        57 tei~G~~gsGKTtl~l~~~~~   77 (263)
T d1u94a1          57 VEIYGPESSGKTTLTLQVIAA   77 (263)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHHHHH
Confidence            468999999999999987743

>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=95.48  E-value=0.0051  Score=35.49  Aligned_cols=22  Identities=32%  Similarity=0.599  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      |+.++|++++|||+|+..+..+
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            7899999999999999998754

>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=95.39  E-value=0.0074  Score=33.20  Aligned_cols=21  Identities=19%  Similarity=0.213  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -|.+.|..|+||||.++.+..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            367889999999999999864

>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=95.39  E-value=0.0063  Score=34.51  Aligned_cols=20  Identities=15%  Similarity=0.451  Sum_probs=16.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      +|++.|-+||||||+.-.+.
T Consensus         4 ~IaisgKGGVGKTT~a~NLA   23 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLV   23 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            56778999999999777653

>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=95.37  E-value=0.0062  Score=34.26  Aligned_cols=18  Identities=33%  Similarity=0.486  Sum_probs=14.7

Q ss_pred             EEEEcCCCCcHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~   27 (75)
                      +++.|-+||||||+.-.+
T Consensus        11 i~~sGKGGVGKTTvaa~l   28 (296)
T d1ihua1          11 LFFTGKGGVGKTSISCAT   28 (296)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHH
Confidence            468999999999966654

>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=95.20  E-value=0.0076  Score=33.78  Aligned_cols=20  Identities=25%  Similarity=0.537  Sum_probs=14.8

Q ss_pred             eEEE-EEcCCCCcHHHHHHHH
Q psy12927          8 YKIL-VLGDSNVGKTCIVHRF   27 (75)
Q Consensus         8 ~ki~-~~G~~~~GKtsl~~~~   27 (75)
                      .||+ +.|-+||||||+.-.+
T Consensus        20 ~~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            4554 5599999999976554

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.86  E-value=0.011  Score=33.22  Aligned_cols=23  Identities=26%  Similarity=0.501  Sum_probs=19.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..-+++.|++|+||+.+++.+..
T Consensus        23 ~~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          23 ECPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CSCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCcCHHHHHHHHHH
Confidence            34589999999999999988753

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.84  E-value=0.013  Score=32.82  Aligned_cols=19  Identities=16%  Similarity=0.366  Sum_probs=17.0

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~   28 (75)
                      +++.|+..+|||++++.+.
T Consensus        44 ~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHH
Confidence            5789999999999999864

>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=94.82  E-value=0.014  Score=31.23  Aligned_cols=20  Identities=30%  Similarity=0.444  Sum_probs=16.7

Q ss_pred             EEEEEcCC-CCcHHHHHHHHH
Q psy12927          9 KILVLGDS-NVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~-~~GKtsl~~~~~   28 (75)
                      |+++.|-. |||||++.--+.
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHH
Confidence            78899975 999999877655

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=94.79  E-value=0.013  Score=33.36  Aligned_cols=25  Identities=24%  Similarity=0.419  Sum_probs=20.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..+--+++.|+++.|||+|+..+..
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHH
Confidence            3455678899999999999998763

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=94.70  E-value=0.013  Score=34.67  Aligned_cols=17  Identities=29%  Similarity=0.491  Sum_probs=14.5

Q ss_pred             EEEEcCCCCcHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHR   26 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~   26 (75)
                      .++.|++|+|||+.+..
T Consensus       166 ~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         166 SVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             EEEECCTTSTHHHHHHH
T ss_pred             EEEEcCCCCCceehHHH
Confidence            57889999999998754

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=94.67  E-value=0.015  Score=32.40  Aligned_cols=19  Identities=21%  Similarity=0.485  Sum_probs=17.0

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~   28 (75)
                      +++.|+..+|||++++.+.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            6899999999999999754

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.04  E-value=0.027  Score=28.66  Aligned_cols=24  Identities=13%  Similarity=0.191  Sum_probs=21.0

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      .+-+.|++-|..++||++|.+.+.
T Consensus         4 kqgf~i~~tg~~~~gk~~ia~al~   27 (122)
T d1g8fa3           4 KQGFSIVLGNSLTVSREQLSIALL   27 (122)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHH
T ss_pred             ccceEEEEeCCCCCCHHHHHHHHH
Confidence            456889999999999999998875

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.97  E-value=0.024  Score=32.42  Aligned_cols=20  Identities=25%  Similarity=0.358  Sum_probs=17.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..+.|++++|||+|+.+++.
T Consensus        63 ~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          63 IEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             EEEECSSSSSHHHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHHHH
Confidence            46899999999999987763

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=93.82  E-value=0.024  Score=32.35  Aligned_cols=20  Identities=20%  Similarity=0.273  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q psy12927         10 ILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..+.|++++|||+|+.+++.
T Consensus        60 tei~G~~~sGKT~l~l~~~~   79 (268)
T d1xp8a1          60 TEIYGPESGGKTTLALAIVA   79 (268)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEecCCccchHHHHHHHHH
Confidence            45889999999999998763

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.60  E-value=0.018  Score=33.29  Aligned_cols=22  Identities=32%  Similarity=0.409  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q psy12927          8 YKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         8 ~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      -|+.++|++|+|||+|+..+..
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~   90 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTII   90 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEeecCCCCChHHHHHHHHH
Confidence            3778999999999999887663

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.38  E-value=0.027  Score=30.38  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q psy12927         10 ILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ++++|...+|||.+..++...
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            589999999999999998743

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=93.22  E-value=0.024  Score=28.40  Aligned_cols=21  Identities=14%  Similarity=0.058  Sum_probs=16.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q psy12927          9 KILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ..++.++.|+|||.++-.+..
T Consensus        10 ~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            357899999999988876554

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=92.87  E-value=0.024  Score=32.55  Aligned_cols=23  Identities=26%  Similarity=0.446  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhCC
Q psy12927          9 KILVLGDSNVGKTCIVHRFCDET   31 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~~~~   31 (75)
                      |+.++|++|+|||+|+.......
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTC
T ss_pred             eEeeccCCCCChHHHHHHHHhhh
Confidence            67899999999999998866543

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.66  E-value=0.06  Score=29.12  Aligned_cols=24  Identities=13%  Similarity=0.117  Sum_probs=20.7

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      ....+++-|++|+||++++..+..
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999998664

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=92.39  E-value=0.033  Score=32.60  Aligned_cols=16  Identities=31%  Similarity=0.451  Sum_probs=13.8

Q ss_pred             EEEEcCCCCcHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVH   25 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~   25 (75)
                      .++.|.+|.|||||-.
T Consensus        17 alfFGLSGTGKTTLs~   32 (313)
T d2olra1          17 AVFFGLSGTGKTTLST   32 (313)
T ss_dssp             EEEECSTTSSHHHHHC
T ss_pred             EEEEccCCCCccccee
Confidence            3799999999999764

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=92.03  E-value=0.035  Score=32.54  Aligned_cols=16  Identities=31%  Similarity=0.451  Sum_probs=14.0

Q ss_pred             EEEEcCCCCcHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVH   25 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~   25 (75)
                      .++.|.+|.|||||-.
T Consensus        17 alffGLSGTGKTTLs~   32 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLST   32 (318)
T ss_dssp             EEEEECTTSCHHHHTC
T ss_pred             EEEEccCCCCcccccc
Confidence            4899999999999764

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=91.70  E-value=0.045  Score=32.13  Aligned_cols=16  Identities=31%  Similarity=0.445  Sum_probs=14.0

Q ss_pred             EEEEcCCCCcHHHHHH
Q psy12927         10 ILVLGDSNVGKTCIVH   25 (75)
Q Consensus        10 i~~~G~~~~GKtsl~~   25 (75)
                      .++.|.+|.|||||-.
T Consensus        17 alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          17 TVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             EEEECCTTSSHHHHHC
T ss_pred             EEEEccCCCCccccee
Confidence            4699999999999984

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.49  E-value=0.091  Score=28.22  Aligned_cols=16  Identities=31%  Similarity=0.441  Sum_probs=13.2

Q ss_pred             EcCCCCcHHHHHHHHH
Q psy12927         13 LGDSNVGKTCIVHRFC   28 (75)
Q Consensus        13 ~G~~~~GKtsl~~~~~   28 (75)
                      -|.+||||||+...+.
T Consensus         8 s~KGGvGKTtia~nlA   23 (232)
T d1hyqa_           8 SGKGGTGKTTITANLG   23 (232)
T ss_dssp             ESSSCSCHHHHHHHHH
T ss_pred             CCCCCChHHHHHHHHH
Confidence            3799999999988654

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=91.05  E-value=0.11  Score=27.94  Aligned_cols=19  Identities=26%  Similarity=0.548  Sum_probs=15.0

Q ss_pred             EEEE-cCCCCcHHHHHHHHH
Q psy12927         10 ILVL-GDSNVGKTCIVHRFC   28 (75)
Q Consensus        10 i~~~-G~~~~GKtsl~~~~~   28 (75)
                      |.+. +.+||||||+...+.
T Consensus         5 Iav~~~kGGvGKTtia~nLA   24 (237)
T d1g3qa_           5 ISIVSGKGGTGKTTVTANLS   24 (237)
T ss_dssp             EEEECSSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCcHHHHHHHHH
Confidence            4456 689999999988764

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=90.94  E-value=0.097  Score=27.57  Aligned_cols=15  Identities=33%  Similarity=0.490  Sum_probs=12.8

Q ss_pred             EEEEEcCCCCcHHHH
Q psy12927          9 KILVLGDSNVGKTCI   23 (75)
Q Consensus         9 ki~~~G~~~~GKtsl   23 (75)
                      +++++++.|+|||..
T Consensus        25 n~lv~~pTGsGKT~i   39 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLI   39 (200)
T ss_dssp             CEEEECCTTSCHHHH
T ss_pred             CeEEEeCCCCcHHHH
Confidence            478899999999964

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=90.67  E-value=0.11  Score=33.21  Aligned_cols=21  Identities=24%  Similarity=0.425  Sum_probs=16.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHH
Q psy12927          7 TYKILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~   27 (75)
                      .--|++.|++|+|||.-.+.+
T Consensus        86 ~QsIiisGeSGsGKTe~~k~i  106 (684)
T d1lkxa_          86 NQCVIISGESGAGKTEASKKI  106 (684)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHH
Confidence            346899999999999766644

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=90.06  E-value=0.16  Score=28.28  Aligned_cols=23  Identities=35%  Similarity=0.403  Sum_probs=18.0

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~~   28 (75)
                      .....++.|+.|+|||-..-+..
T Consensus        75 ~~~~~LL~GdvGsGKT~V~~~a~   97 (233)
T d2eyqa3          75 LAMDRLVCGDVGFGKTEVAMRAA   97 (233)
T ss_dssp             SCCEEEEECCCCTTTHHHHHHHH
T ss_pred             CccCeEEEcCCCCCcHHHHHHHH
Confidence            45678899999999997766543

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=89.27  E-value=0.053  Score=26.63  Aligned_cols=14  Identities=21%  Similarity=0.176  Sum_probs=11.9

Q ss_pred             eEEEEEcCCCCcHH
Q psy12927          8 YKILVLGDSNVGKT   21 (75)
Q Consensus         8 ~ki~~~G~~~~GKt   21 (75)
                      -.+++..++|+|||
T Consensus         8 ~~~il~~~tGsGKT   21 (140)
T d1yksa1           8 MTTVLDFHPGAGKT   21 (140)
T ss_dssp             CEEEECCCTTSSTT
T ss_pred             CcEEEEcCCCCChh
Confidence            45678889999999

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, 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: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.23  E-value=0.2  Score=25.41  Aligned_cols=19  Identities=26%  Similarity=0.337  Sum_probs=15.7

Q ss_pred             EEEcCCCCcHHHHHHHHHh
Q psy12927         11 LVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus        11 ~~~G~~~~GKtsl~~~~~~   29 (75)
                      +++|+-.+|||+-+-+...
T Consensus         6 li~GpMfsGKTt~Li~~~~   24 (133)
T d1xbta1           6 VILGPMFSGKSTELMRRVR   24 (133)
T ss_dssp             EEECCTTSCHHHHHHHHHH
T ss_pred             EEEecccCHHHHHHHHHHH
Confidence            5689999999998887553

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=89.19  E-value=0.15  Score=33.09  Aligned_cols=20  Identities=40%  Similarity=0.592  Sum_probs=15.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHH
Q psy12927          7 TYKILVLGDSNVGKTCIVHR   26 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~   26 (75)
                      .--|++.|++|+|||.-.+.
T Consensus       123 ~QsIiisGeSGaGKTe~~K~  142 (794)
T d2mysa2         123 NQSILITGESGAGKTVNTKR  142 (794)
T ss_dssp             CEEEEEEECTTSCHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHH
Confidence            44689999999999955553

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor 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: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=89.07  E-value=0.092  Score=33.72  Aligned_cols=22  Identities=32%  Similarity=0.487  Sum_probs=17.4

Q ss_pred             eeeEEEEEcCCCCcHHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~~   27 (75)
                      ..--|++.|++|+|||.-.+.+
T Consensus       124 ~nQsIiisGeSGaGKTe~~k~i  145 (712)
T d1d0xa2         124 QNQSLLITGESGAGKTENTKKV  145 (712)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCceEEEeCCCCCCHHHHHHHH
Confidence            3457899999999999766654

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=88.67  E-value=0.1  Score=33.43  Aligned_cols=21  Identities=33%  Similarity=0.430  Sum_probs=16.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHH
Q psy12927          7 TYKILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~   27 (75)
                      .--|++.|++|+|||.-.+.+
T Consensus        91 ~Q~IiisGeSGaGKTe~~k~i  111 (710)
T d1br2a2          91 DQSILCTGESGAGKTENTKKV  111 (710)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHH
Confidence            346999999999999776654

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {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: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=88.48  E-value=0.057  Score=28.82  Aligned_cols=16  Identities=25%  Similarity=0.397  Sum_probs=13.7

Q ss_pred             EEEEEcCCCCcHHHHH
Q psy12927          9 KILVLGDSNVGKTCIV   24 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~   24 (75)
                      ++++..++|+|||...
T Consensus        42 ~~il~apTGsGKT~~a   57 (202)
T d2p6ra3          42 NLLLAMPTAAGKTLLA   57 (202)
T ss_dssp             CEEEECSSHHHHHHHH
T ss_pred             CEEEEcCCCCchhHHH
Confidence            5789999999999654

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=87.87  E-value=0.12  Score=33.12  Aligned_cols=21  Identities=33%  Similarity=0.415  Sum_probs=16.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHH
Q psy12927          7 TYKILVLGDSNVGKTCIVHRF   27 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~   27 (75)
                      .-.|++.|++|+|||.-.+.+
T Consensus        94 ~Q~IiisGeSGsGKTe~~k~i  114 (730)
T d1w7ja2          94 NQSIIVSGESGAGKTVSAKYA  114 (730)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHH
Confidence            447899999999999766654

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=87.86  E-value=0.2  Score=25.72  Aligned_cols=22  Identities=18%  Similarity=0.184  Sum_probs=16.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCD   29 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~   29 (75)
                      .+.+ ++|+-.+||||-+-+...
T Consensus         8 ~l~l-I~GpMfSGKTteLi~~~~   29 (141)
T d1xx6a1           8 WVEV-IVGPMYSGKSEELIRRIR   29 (141)
T ss_dssp             EEEE-EECSTTSSHHHHHHHHHH
T ss_pred             eEEE-EEeccccHHHHHHHHHHH
Confidence            3444 589999999998877653

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=87.66  E-value=0.13  Score=33.30  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=16.5

Q ss_pred             eeeEEEEEcCCCCcHHHHHHH
Q psy12927          6 QTYKILVLGDSNVGKTCIVHR   26 (75)
Q Consensus         6 ~~~ki~~~G~~~~GKtsl~~~   26 (75)
                      ..--|++.|++|+|||.-.+.
T Consensus       120 ~nQ~IiisGESGaGKTe~~K~  140 (789)
T d1kk8a2         120 ENQSCLITGESGAGKTENTKK  140 (789)
T ss_dssp             SEEEEEEECSTTSSHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHH
Confidence            345789999999999966443

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase 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: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=87.41  E-value=0.19  Score=28.52  Aligned_cols=22  Identities=27%  Similarity=0.442  Sum_probs=16.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHH
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHR   26 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~   26 (75)
                      ......++.|+.|+|||-..-.
T Consensus       102 ~~~m~rLL~GdvGSGKT~Va~~  123 (264)
T d1gm5a3         102 EKPMNRLLQGDVGSGKTVVAQL  123 (264)
T ss_dssp             SSCCCCEEECCSSSSHHHHHHH
T ss_pred             cCcceeeeeccccccccHHHHH
Confidence            3456778999999999965543

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=86.69  E-value=0.26  Score=25.16  Aligned_cols=17  Identities=29%  Similarity=0.325  Sum_probs=13.3

Q ss_pred             EEEcCCCCcHHHHHHHH
Q psy12927         11 LVLGDSNVGKTCIVHRF   27 (75)
Q Consensus        11 ~~~G~~~~GKtsl~~~~   27 (75)
                      +++|+-.+||||-+-+.
T Consensus         6 ~i~GpMfsGKTteLi~~   22 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRR   22 (139)
T ss_dssp             EEECSTTSCHHHHHHHH
T ss_pred             EEEccccCHHHHHHHHH
Confidence            57899999999955443

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=84.61  E-value=0.18  Score=28.06  Aligned_cols=14  Identities=21%  Similarity=0.100  Sum_probs=12.0

Q ss_pred             EEEEEcCCCCcHHH
Q psy12927          9 KILVLGDSNVGKTC   22 (75)
Q Consensus         9 ki~~~G~~~~GKts   22 (75)
                      .+++.+++|+|||.
T Consensus        11 ~~lv~~~TGsGKT~   24 (305)
T d2bmfa2          11 LTIMDLHPGAGKTK   24 (305)
T ss_dssp             EEEECCCTTSSTTT
T ss_pred             cEEEEECCCCCHHH
Confidence            46889999999993

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {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: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=84.27  E-value=0.49  Score=25.20  Aligned_cols=20  Identities=15%  Similarity=0.107  Sum_probs=15.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHRFC   28 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~~~   28 (75)
                      +.++..+.|+|||-.+-.+.
T Consensus        87 ~~ll~~~tG~GKT~~a~~~~  106 (206)
T d2fz4a1          87 RGCIVLPTGSGKTHVAMAAI  106 (206)
T ss_dssp             EEEEEESSSTTHHHHHHHHH
T ss_pred             CcEEEeCCCCCceehHHhHH
Confidence            56788999999997666554

>d1p3da1 c.5.1.1 (A:11-106) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=83.90  E-value=0.79  Score=21.73  Aligned_cols=26  Identities=19%  Similarity=0.302  Sum_probs=21.8

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      ...-|+-++|-.|+|-|+|+..+...
T Consensus         6 ~~~~~ihfiGigG~GMs~LA~~L~~~   31 (96)
T d1p3da1           6 RRVQQIHFIGIGGAGMSGIAEILLNE   31 (96)
T ss_dssp             TTCCEEEEETTTSTTHHHHHHHHHHH
T ss_pred             hhCCEEEEEEECHHHHHHHHHHHHhC
Confidence            34568999999999999998888754

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=83.24  E-value=0.15  Score=27.72  Aligned_cols=16  Identities=25%  Similarity=0.291  Sum_probs=13.1

Q ss_pred             EEEEEcCCCCcHHHHH
Q psy12927          9 KILVLGDSNVGKTCIV   24 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~   24 (75)
                      .++++.++|+|||...
T Consensus        60 ~~~i~apTGsGKT~~~   75 (237)
T d1gkub1          60 SFAATAPTGVGKTSFG   75 (237)
T ss_dssp             CEECCCCBTSCSHHHH
T ss_pred             CEEEEecCCChHHHHH
Confidence            4788899999999643

>d1pzga1 c.2.1.5 (A:14-163) Lactate dehydrogenase {Toxoplasma gondii [TaxId: 5811]}

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: Lactate dehydrogenase
species: Toxoplasma gondii [TaxId: 5811]

Probab=81.99  E-value=0.34  Score=25.01  Aligned_cols=25  Identities=12%  Similarity=0.185  Sum_probs=18.4

Q ss_pred             CeeeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          5 NQTYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         5 ~~~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+..||.++|.+++| +++...+...
T Consensus         5 ~k~~KI~IIGaG~VG-~~lA~~l~~~   29 (154)
T d1pzga1           5 QRRKKVAMIGSGMIG-GTMGYLCALR   29 (154)
T ss_dssp             SCCCEEEEECCSHHH-HHHHHHHHHH
T ss_pred             cCCCcEEEECCCHHH-HHHHHHHHhC
Confidence            456799999999999 5566655543

>d1w36b1 c.37.1.19 (B:1-485) Exodeoxyribonuclease V beta chain (RecB), 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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=81.33  E-value=0.5  Score=27.63  Aligned_cols=18  Identities=22%  Similarity=0.338  Sum_probs=14.1

Q ss_pred             EEEEEcCCCCcHHHHHHH
Q psy12927          9 KILVLGDSNVGKTCIVHR   26 (75)
Q Consensus         9 ki~~~G~~~~GKtsl~~~   26 (75)
                      ..+|....|+|||+.+-.
T Consensus        18 ~~lv~A~AGsGKT~~l~~   35 (485)
T d1w36b1          18 ERLIEASAGTGKTFTIAA   35 (485)
T ss_dssp             CEEEECCTTSCHHHHHHH
T ss_pred             CeEEEEcCchHHHHHHHH
Confidence            467888899999976643

>d1j6ua1 c.5.1.1 (A:0-88) UDP-N-acetylmuramate-alanine ligase MurC {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Thermotoga maritima [TaxId: 2336]

Probab=80.05  E-value=1  Score=21.10  Aligned_cols=24  Identities=17%  Similarity=0.268  Sum_probs=20.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhC
Q psy12927          7 TYKILVLGDSNVGKTCIVHRFCDE   30 (75)
Q Consensus         7 ~~ki~~~G~~~~GKtsl~~~~~~~   30 (75)
                      .+|+-++|-.|+|-|.|+.-+...
T Consensus         1 ~~~ihfiGIgG~GMs~LA~~L~~~   24 (89)
T d1j6ua1           1 HMKIHFVGIGGIGMSAVALHEFSN   24 (89)
T ss_dssp             CCEEEEETTTSHHHHHHHHHHHHT
T ss_pred             CcEEEEEeECHHHHHHHHHHHHhC
Confidence            368999999999999998887754