Citrus Sinensis ID: 035574

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150------
Protein Sequence
MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILLPFSMFKILPDNQNGSRVLITLTQIKMVTSFQLEDRENIRLDLVPTGGPLRATYQGWPFLILYHGSISLEENIEEVFNIPTGNLTF
Secondary Structure (PSIPRED)
cHHHHHHHHccccccEEEEEEccccccHHHHHHHHHccccHHccccEEEEEEEcccccHHHHHHHHHHHHcHHHHHHHccccccccEEEEEEccHHHHHHHcccccccccccHHHcHHHHHHHcccHHHHHHHHHHccccccHHHHHHcccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHccccHHEEEEEEccccccHHHHHHHHHcccccEEEEEEEEEEEcccccccHHHHHHHHHEEccccHHHHccccccccEEEEEEEEcEEEEEEEccccHHcEEccccccccccEccccccEEEEEcccccHHHcHHHHEccccccccc
Coil and Loop (DISEMBL)
MEELLDLLIEGPTQLSVVAILDsigldktaFTAEAYNSSYMKHYFDylawipapyhydpdqILDIVAVILLpfsmfkilpdnqngsRVLITLTQIKMVtsfqledrenirldlvptggplratyqgwpFLILYHgsisleenieevfniptgnltf
Flexible Loop (DISEMBL)
MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILLPFSMFKILPDNQNGSRVLITLTQIKMVtsfqledreniRLDLVPTGGPLRATYQGWPFLILYHGSISLEENieevfniptgnltf
Low Complexity Region (SEG)
MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILLPFSMFKILPDNQNGSRVLITLTQIKMVTSFQLEDRENIRLDLVPTGGPLRATYQGWPFLILYHGSISLEENIEEVFNIPTGNLTF
Disordered region (IsUnstruct)
****LDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILLPFSMFKILPDNQNGSRVLITLTQIKMVTSFQLEDRENIRLDLVPTGGPLRATYQGWPFLILYHGSISLEENIEEVFNIP******
Disordered Region (DISOPRED)
MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILLPFSMFKILPDNQNGSRVLITLTQIKMVTSFQLEDRENIRLDLVPTGGPLRATYQGWPFLILYHGSISLEENIEEVFNIPTGNL**
Disordered Region (DISEMBL)
MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILLPFSMFKILPDNQNGSRVLITLTQIKMVTSFQLEDRENIRLDLVPTGGPLRATYQGWPFLILYHGSISLEENIEEVFNIPTGNLTF
Disordered Region (DISPRO)
MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILLPFSMFKILPDNQNGSRVLITLTQIKMVTSFQLEDRENIRLDLVPTGGPLRATYQGWPFLILYHGSISLEENIEEVFNIPTGNLTF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILLPFSMFKILPDNQNGSRVLITLTQIKMVTSFQLEDRENIRLDLVPTGGPLRATYQGWPFLILYHGSISLEENIEEVFNIPTGNLTF
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

No hits with e-value below 0.001 by BLAST

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	156
356524195	946	PREDICTED: disease resistance protein RP	0.634	0.104	0.258	0.0006

>gi|356524195|ref|XP_003530717.1| PREDICTED: disease resistance protein RPM1-like [Glycine max]

 Score = 48.9 bits (115), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 37/143 (25%), Positives = 60/143 (41%), Gaps = 44/143 (30%)

Query: 2   EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHY---- 57
           +EL+D L+EGP + +V++++   GL KT   +  +N+  +  +FD+ AWI     Y    
Sbjct: 186 DELIDWLVEGPAERTVISVVGMGGLGKTTLASRVFNNQKVVGHFDFHAWITVSQSYTVEG 245

Query: 58  ---------------DPDQ-------------------------ILDIVAVILLPFSMFK 77
                          +P Q                         ILD V  + L   +  
Sbjct: 246 MMRDLLKKLCKEKRENPPQDISEMDRDSLIDEVRNYLQQKRYVVILDDVWSVELWGQIKS 305

Query: 78  ILPDNQNGSRVLITLTQIKMVTS 100
            + DN+NGSR+LIT  +  +V S
Sbjct: 306 AMFDNKNGSRILITTRKTGVVES 328

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

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)

No hits with e-value below 0.001 by BLAST

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	156
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	0.002

>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain

 Score = 36.9 bits (86), Expect = 0.002
 Identities = 17/51 (33%), Positives = 28/51 (54%)

Query: 1  MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWI 51
          +E L++ L+E    L VV I+   G+ KT    + YN   +  +FD +AW+
Sbjct: 5  IEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWV 55

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	156
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.94
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.89
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.79
cd01128	249	rho_factor Transcription termination factor rho is	98.39
PRK09376	416	rho transcription termination factor Rho; Provisio	98.31
PRK08118	167	topology modulation protein; Reviewed	98.06
PF05729	166	NACHT: NACHT domain	97.96
TIGR00767	415	rho transcription termination factor Rho. Members	97.84
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.68
PRK07261	171	topology modulation protein; Provisional	97.65
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.49
PRK00411	394	cdc6 cell division control protein 6; Reviewed	97.47
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.47
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.46
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	97.39
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.34
PF13173	128	AAA_14: AAA domain	97.34
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.31
PRK07667	193	uridine kinase; Provisional	97.18
PRK06696	223	uridine kinase; Validated	97.13
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.05
KOG2028	554	consensus ATPase related to the helicase subunit o	97.04
PRK05541	176	adenylylsulfate kinase; Provisional	96.97
PTZ00202	550	tuzin; Provisional	96.96
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.96
PRK04841	903	transcriptional regulator MalT; Provisional	96.92
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	96.92
PRK08233	182	hypothetical protein; Provisional	96.88
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.87
PTZ00301	210	uridine kinase; Provisional	96.86
PRK05480	209	uridine/cytidine kinase; Provisional	96.85
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.81
smart00382	148	AAA ATPases associated with a variety of cellular	96.77
PRK05564	313	DNA polymerase III subunit delta'; Validated	96.74
PRK06762	166	hypothetical protein; Provisional	96.72
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.72
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.67
PRK03839	180	putative kinase; Provisional	96.65
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.63
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.56
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.53
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.53
PRK04040	188	adenylate kinase; Provisional	96.52
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.51
PF00004	132	AAA: ATPase family associated with various cellula	96.49
PRK14738	206	gmk guanylate kinase; Provisional	96.48
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.43
PRK00131	175	aroK shikimate kinase; Reviewed	96.43
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.4
PRK06547	172	hypothetical protein; Provisional	96.4
PRK00625	173	shikimate kinase; Provisional	96.38
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.37
PRK13947	171	shikimate kinase; Provisional	96.35
PRK00889	175	adenylylsulfate kinase; Provisional	96.34
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.32
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.32
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.31
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	96.3
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.28
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.24
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.22
PRK06217	183	hypothetical protein; Validated	96.2
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.18
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.18
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.18
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.18
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.17
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.17
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.16
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.15
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.15
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.12
PRK03846	198	adenylylsulfate kinase; Provisional	96.12
PRK13949	169	shikimate kinase; Provisional	96.11
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.1
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	96.09
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	96.09
COG2256	436	MGS1 ATPase related to the helicase subunit of the	96.08
PHA00729	226	NTP-binding motif containing protein	96.08
PRK13975	196	thymidylate kinase; Provisional	96.07
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.06
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	96.05
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.05
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.05
PRK00300	205	gmk guanylate kinase; Provisional	96.04
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	96.03
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.03
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.02
PRK13342	413	recombination factor protein RarA; Reviewed	96.02
PRK13230	279	nitrogenase reductase-like protein; Reviewed	96.02
PRK13236	296	nitrogenase reductase; Reviewed	96.0
cd02040	270	NifH NifH gene encodes component II (iron protein)	96.0
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.0
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.0
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.99
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.98
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.97
PRK06893	229	DNA replication initiation factor; Validated	95.95
TIGR01287	275	nifH nitrogenase iron protein. This model describe	95.94
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.94
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.9
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	95.9
PLN02318	656	phosphoribulokinase/uridine kinase	95.89
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.88
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	95.88
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.87
cd02117	212	NifH_like This family contains the NifH (iron prot	95.86
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.85
PRK13232	273	nifH nitrogenase reductase; Reviewed	95.85
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.84
PRK04182	180	cytidylate kinase; Provisional	95.82
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.81
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.8
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.79
PF07726	131	AAA_3: ATPase family associated with various cellu	95.79
PRK13946	184	shikimate kinase; Provisional	95.78
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	95.78
COG1100	219	GTPase SAR1 and related small G proteins [General	95.78
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.77
PRK08084	235	DNA replication initiation factor; Provisional	95.76
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.76
PRK13948	182	shikimate kinase; Provisional	95.75
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	95.74
PRK05439	311	pantothenate kinase; Provisional	95.73
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.72
PRK14530	215	adenylate kinase; Provisional	95.7
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	95.7
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.69
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	95.68
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	95.67
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.67
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.67
PRK13235	274	nifH nitrogenase reductase; Reviewed	95.67
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	95.66
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.65
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	95.62
PRK05057	172	aroK shikimate kinase I; Reviewed	95.61
PRK08903	227	DnaA regulatory inactivator Hda; Validated	95.61
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	95.6
PRK13231	264	nitrogenase reductase-like protein; Reviewed	95.57
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.57
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	95.57
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	95.56
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	95.55
PRK13233	275	nifH nitrogenase reductase; Reviewed	95.53
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	95.53
PRK06761	282	hypothetical protein; Provisional	95.52
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	95.51
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	95.51
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.5
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.49
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.49
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	95.48
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.48
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	95.47
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	95.47
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	95.46
PRK13695	174	putative NTPase; Provisional	95.46
cd03116	159	MobB Molybdenum is an essential trace element in t	95.46
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	95.45
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	95.44
PF00005	137	ABC_tran: ABC transporter This structure is on hol	95.44
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.43
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	95.39
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.38
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	95.38
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	95.38
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	95.35
PRK03731	171	aroL shikimate kinase II; Reviewed	95.35
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	95.35
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.33
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.33
PRK05973	237	replicative DNA helicase; Provisional	95.3
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.3
PRK00440	319	rfc replication factor C small subunit; Reviewed	95.28
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	95.28
PRK08356	195	hypothetical protein; Provisional	95.28
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	95.27
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	95.27
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.26
PRK09825	176	idnK D-gluconate kinase; Provisional	95.25
PRK00698	205	tmk thymidylate kinase; Validated	95.25
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	95.25
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	95.24
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.23
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	95.21
PRK14737	186	gmk guanylate kinase; Provisional	95.21
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	95.2
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	95.18
PRK13768	253	GTPase; Provisional	95.18
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.18
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	95.18
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.18
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	95.17
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	95.16
PRK14527	191	adenylate kinase; Provisional	95.16
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.15
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.15
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	95.15
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.15
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	95.14
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	95.14
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	95.14
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.13
PRK08099	399	bifunctional DNA-binding transcriptional repressor	95.12
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	95.12
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	95.12
PLN02200	234	adenylate kinase family protein	95.11
cd02032	267	Bchl_like This family of proteins contains bchL an	95.11
PRK08727	233	hypothetical protein; Validated	95.11
PRK06620	214	hypothetical protein; Validated	95.11
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	95.1
PRK09087	226	hypothetical protein; Validated	95.07
PRK14532	188	adenylate kinase; Provisional	95.07
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	95.07
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	95.07
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	95.07
PRK01184	184	hypothetical protein; Provisional	95.06
PRK12402	337	replication factor C small subunit 2; Reviewed	95.06
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.06
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	95.04
PHA02530	300	pseT polynucleotide kinase; Provisional	95.04
PRK13341	725	recombination factor protein RarA/unknown domain f	95.03
PLN02348	395	phosphoribulokinase	95.03
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	95.02
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	95.01
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.01
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	95.01
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	95.01
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	94.99
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	94.97
PRK13234	295	nifH nitrogenase reductase; Reviewed	94.96
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	94.96
PRK07952	244	DNA replication protein DnaC; Validated	94.95
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	94.95
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	94.95
PRK08116	268	hypothetical protein; Validated	94.94
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	94.94
PRK12377	248	putative replication protein; Provisional	94.93
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.93
PRK06067	234	flagellar accessory protein FlaH; Validated	94.92
PRK08533	230	flagellar accessory protein FlaH; Reviewed	94.92
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.91
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	94.91
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	94.9
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	94.89
cd03114	148	ArgK-like The function of this protein family is u	94.89
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	94.88
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	94.88
PRK04195	482	replication factor C large subunit; Provisional	94.87
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	94.87
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	94.86
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	94.85
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	94.85
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	94.83
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	94.82
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	94.82
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	94.82
PRK10416	318	signal recognition particle-docking protein FtsY;	94.82
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	94.81
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	94.81
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	94.81
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	94.81
smart00178	184	SAR Sar1p-like members of the Ras-family of small	94.79
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	94.78
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	94.75
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	94.74
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	94.74
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	94.74
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	94.73
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	94.73
PLN02796	347	D-glycerate 3-kinase	94.72
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	94.71
cd03269	210	ABC_putative_ATPase This subfamily is involved in	94.69
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	94.68
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	94.67
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	94.67
PRK14531	183	adenylate kinase; Provisional	94.66
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	94.65
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	94.65
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	94.64
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	94.64
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	94.63
PLN03025	319	replication factor C subunit; Provisional	94.63
PTZ00088	229	adenylate kinase 1; Provisional	94.63
PRK05642	234	DNA replication initiation factor; Validated	94.63
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	94.61
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	94.61
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	94.61
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	94.6
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	94.59
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	94.59
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	94.59
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	94.58
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	94.58
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	94.58
PLN02924	220	thymidylate kinase	94.57
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	94.57
PRK12608	380	transcription termination factor Rho; Provisional	94.57
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	94.56
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	94.56
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	94.55
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	94.55
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	94.55
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	94.54
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	94.53
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	94.53
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	94.52
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	94.52
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	94.5
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	94.5
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	94.49
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	94.49
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	94.49
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	94.48
PRK14974	336	cell division protein FtsY; Provisional	94.47
PRK09354	349	recA recombinase A; Provisional	94.46
PRK15455	644	PrkA family serine protein kinase; Provisional	94.46
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	94.46
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	94.46
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	94.46
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	94.46
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	94.45
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	94.45
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	94.44
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	94.43
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	94.43
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	94.43
PRK00279	215	adk adenylate kinase; Reviewed	94.42
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	94.42
PRK14088	440	dnaA chromosomal replication initiation protein; P	94.41
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	94.4
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	94.4
TIGR00101	199	ureG urease accessory protein UreG. This model rep	94.39
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	94.39
PRK13973	213	thymidylate kinase; Provisional	94.39
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	94.39
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	94.39
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	94.38
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	94.38
cd02034	116	CooC The accessory protein CooC, which contains a	94.37
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	94.37
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	94.37
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	94.36
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	94.36
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	94.36
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	94.36
PRK06851	367	hypothetical protein; Provisional	94.35
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	94.35
PRK02496	184	adk adenylate kinase; Provisional	94.35
PRK14494	229	putative molybdopterin-guanine dinucleotide biosyn	94.34
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.34
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	94.33
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	94.32
PHA02544	316	44 clamp loader, small subunit; Provisional	94.31
PRK14528	186	adenylate kinase; Provisional	94.3
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	94.3
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	94.3
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	94.3
COG0125	208	Tmk Thymidylate kinase [Nucleotide transport and m	94.29
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	94.28
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	94.28
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	94.28
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	94.27
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	94.27
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	94.27
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	94.27
PTZ00369	189	Ras-like protein; Provisional	94.27
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	94.27
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	94.26
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	94.26
PLN02165	334	adenylate isopentenyltransferase	94.25
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	94.24
PHA02518	211	ParA-like protein; Provisional	94.24
PRK13531	498	regulatory ATPase RavA; Provisional	94.23
PRK04328	249	hypothetical protein; Provisional	94.23
cd02030	219	NDUO42 NADH:Ubiquinone oxioreductase, 42 kDa (NDUO	94.23
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	94.23
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	94.23
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	94.23
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	94.22
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	94.22
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	94.21
PRK06851	367	hypothetical protein; Provisional	94.21
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	94.21
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	94.19
PRK10867	433	signal recognition particle protein; Provisional	94.19
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	94.17
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	94.17
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	94.17
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	94.17
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	94.16
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	94.16
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	94.16
PRK10908	222	cell division protein FtsE; Provisional	94.15
PRK12338	319	hypothetical protein; Provisional	94.14
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	94.14
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	94.14
PTZ00035	337	Rad51 protein; Provisional	94.14
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	94.14
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	94.14
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	94.13
PRK03992	389	proteasome-activating nucleotidase; Provisional	94.13
PF11868	192	DUF3388: Protein of unknown function (DUF3388); In	94.13
PRK15467	158	ethanolamine utilization protein EutP; Provisional	94.12
CHL00181	287	cbbX CbbX; Provisional	94.12
PF13614	157	AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ	94.11
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	94.1
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	94.09
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	94.09
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	94.08
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	94.08
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	94.08
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.08
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	94.07
PRK09183	259	transposase/IS protein; Provisional	94.06
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	94.06
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	94.06
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	94.06
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	94.06
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	94.06
CHL00072	290	chlL photochlorophyllide reductase subunit L	94.06
PRK00149	450	dnaA chromosomal replication initiation protein; R	94.06
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	94.06
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	94.05
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	94.05
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	94.05
PF00154	322	RecA: recA bacterial DNA recombination protein; In	94.05
PRK10536	262	hypothetical protein; Provisional	94.05
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	94.05
PRK00089	292	era GTPase Era; Reviewed	94.03
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	94.03
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	94.03
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	94.03
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	94.02
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	94.02
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	94.02
PRK07933	213	thymidylate kinase; Validated	94.02
PRK06921	266	hypothetical protein; Provisional	94.01
PRK07429	327	phosphoribulokinase; Provisional	94.0
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	94.0
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	93.99
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	93.99
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	93.99
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	93.98
PRK15453	290	phosphoribulokinase; Provisional	93.98
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	93.97
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	93.96
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	93.96
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	93.94
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	93.93
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	93.92
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	93.91
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	93.91
PF13245	76	AAA_19: Part of AAA domain	93.9
COG1123	539	ATPase components of various ABC-type transport sy	93.9
PLN03046	460	D-glycerate 3-kinase; Provisional	93.9
PRK13976	209	thymidylate kinase; Provisional	93.9
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	93.89
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	93.88
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	93.88
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	93.88
cd03246	173	ABCC_Protease_Secretion This family represents the	93.88
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	93.87
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	93.87
PTZ00112	1164	origin recognition complex 1 protein; Provisional	93.86
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	93.86
PRK12422	445	chromosomal replication initiation protein; Provis	93.86
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	93.85
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	93.85
PTZ00133	182	ADP-ribosylation factor; Provisional	93.85
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	93.85
PRK14730	195	coaE dephospho-CoA kinase; Provisional	93.85
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	93.84
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	93.84
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	93.83
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	93.83
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	93.82
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	93.82
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	93.81
cd03215	182	ABC_Carb_Monos_II This family represents domain II	93.8
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	93.79
KOG0781	587	consensus Signal recognition particle receptor, al	93.79
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	93.79
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	93.78
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	93.78
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	93.78
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	93.78
PRK06526	254	transposase; Provisional	93.78
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	93.76
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	93.76
cd03273	251	ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC protein	93.75
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	93.75
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	93.75
cd03234	226	ABCG_White The White subfamily represents ABC tran	93.73
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	93.73
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	93.73
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	93.73
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	93.72
PHA02575	227	1 deoxynucleoside monophosphate kinase; Provisiona	93.72

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.94  E-value=4.7e-27  Score=211.16  Aligned_cols=144  Identities=17%  Similarity=0.281  Sum_probs=116.8

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhcccc-ccccCceEEEEEcCCCCCHHHHHHHHHHHhCCCCc-----
Q 035574            2 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSY-MKHYFDYLAWIPAPYHYDPDQILDIVAVILLPFSM-----   75 (156)
Q Consensus         2 ~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~-v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-----   75 (156)
                      +++.+.|.+++.  .+++|+||||+||||||++++|+.. ++++||..+||+||+.|+...++++|+..+...+.     
T Consensus       168 ~kl~~~L~~d~~--~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~  245 (889)
T KOG4658|consen  168 EKLWNRLMEDDV--GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDK  245 (889)
T ss_pred             HHHHHHhccCCC--CEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchh
Confidence            456666666554  9999999999999999999999988 99999999999999999999999999998764111     


Q ss_pred             ----------------------------------cccCCCCCCCeEEEEEcCCHHHHhh-cCcCcccccccc--------
Q 035574           76 ----------------------------------FKILPDNQNGSRVLITLTQIKMVTS-FQLEDRENIRLD--------  112 (156)
Q Consensus        76 ----------------------------------~~~l~~~~~gsrIivTTR~~~Va~~-~~~~~~~~~~l~--------  112 (156)
                                                        ..+||...+||+|++|||++.||.. |+.+.  .+++.        
T Consensus       246 ~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~--~~~v~~L~~~eaW  323 (889)
T KOG4658|consen  246 EEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDY--PIEVECLTPEEAW  323 (889)
T ss_pred             hHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCc--cccccccCccccH
Confidence                                              6789988889999999999999998 76532  12222        


Q ss_pred             -----------------ccCChhhHhhhcCChHHHHHHHhCCCCccchhhhhhc
Q 035574          113 -----------------LVPTGGPLRATYQGWPFLILYHGSISLEENIEEVFNI  149 (156)
Q Consensus       113 -----------------~~~~~~~i~~~~~g~pl~~~~~gs~~~~~~~~~~~~~  149 (156)
                                       ....|+.++++|.|+|||+.++|++...+.+...|+.
T Consensus       324 ~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~  377 (889)
T KOG4658|consen  324 DLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRR  377 (889)
T ss_pred             HHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHH
Confidence                             3446788999999999999999997554444445543

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=99.89  E-value=7.9e-24  Score=167.87  Aligned_cols=136  Identities=23%  Similarity=0.295  Sum_probs=102.9

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHHhCCC-----Cc-
Q 035574            2 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILLPF-----SM-   75 (156)
Q Consensus         2 ~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~-----~~-   75 (156)
                      +++.++|.+...+.++|+|+||||+||||||.++|++..++.+|+.++|+.+++..+..++++.|+.++...     .. 
T Consensus         6 ~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~   85 (287)
T PF00931_consen    6 EKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPK   85 (287)
T ss_dssp             HHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCS
T ss_pred             HHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            467777777668899999999999999999999999777999999999999999999999999999998643     11 


Q ss_pred             ----------------------------------cccCCCCCCCeEEEEEcCCHHHHhhcCcCcccccc-----------
Q 035574           76 ----------------------------------FKILPDNQNGSRVLITLTQIKMVTSFQLEDRENIR-----------  110 (156)
Q Consensus        76 ----------------------------------~~~l~~~~~gsrIivTTR~~~Va~~~~~~~~~~~~-----------  110 (156)
                                                        ...++....||+||||||+..++..++.. ...++           
T Consensus        86 ~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~-~~~~~l~~L~~~ea~~  164 (287)
T PF00931_consen   86 DIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGT-DKVIELEPLSEEEALE  164 (287)
T ss_dssp             SHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSC-EEEEECSS--HHHHHH
T ss_pred             ccccccccchhhhccccceeeeeeecccccccccccccccccccccccccccccccccccccc-cccccccccccccccc
Confidence                                              23345556799999999999998765421 00111           


Q ss_pred             --------------ccccCChhhHhhhcCChHHHHHHHhCCC
Q 035574          111 --------------LDLVPTGGPLRATYQGWPFLILYHGSIS  138 (156)
Q Consensus       111 --------------l~~~~~~~~i~~~~~g~pl~~~~~gs~~  138 (156)
                                    ......+..|+..|+|+|||+.++|++.
T Consensus       165 L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l  206 (287)
T PF00931_consen  165 LFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYL  206 (287)
T ss_dssp             HHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccc
Confidence                          1223446789999999999999998854

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PLN03210 Resistant to P

Probab=99.79  E-value=8.2e-19  Score=162.40  Aligned_cols=142  Identities=13%  Similarity=0.162  Sum_probs=92.8

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEc---CCC-----------CC-HHHHHHHHH
Q 035574            3 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPA---PYH-----------YD-PDQILDIVA   67 (156)
Q Consensus         3 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~v---s~~-----------~~-~~~l~~~il   67 (156)
                      ++..+|.-+..+.++++||||||+||||||+++|+  ++..+|+..+|+..   ...           ++ ...+++.++
T Consensus       195 ~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l  272 (1153)
T PLN03210        195 KMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFL  272 (1153)
T ss_pred             HHHHHHccccCceEEEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEeeccccccchhhcccccccccchhHHHHHHHH
Confidence            44455544566789999999999999999999999  78889999888742   111           11 123344444


Q ss_pred             HHhCCCC-----------------c-----------------cccCCCCCCCeEEEEEcCCHHHHhhcCcCcccc-----
Q 035574           68 VILLPFS-----------------M-----------------FKILPDNQNGSRVLITLTQIKMVTSFQLEDREN-----  108 (156)
Q Consensus        68 ~~l~~~~-----------------~-----------------~~~l~~~~~gsrIivTTR~~~Va~~~~~~~~~~-----  108 (156)
                      .++....                 .                 .......++||+||||||+.+++..++.++...     
T Consensus       273 ~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~  352 (1153)
T PLN03210        273 SEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPS  352 (1153)
T ss_pred             HHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCC
Confidence            4332110                 0                 111122357999999999999998776432110     


Q ss_pred             ------------cc-----ccccCChhhHhhhcCChHHHHHHHhCCCCccchhhh
Q 035574          109 ------------IR-----LDLVPTGGPLRATYQGWPFLILYHGSISLEENIEEV  146 (156)
Q Consensus       109 ------------~~-----l~~~~~~~~i~~~~~g~pl~~~~~gs~~~~~~~~~~  146 (156)
                                  ..     -++...++.|+++|+|+|||++++|+....++.++|
T Consensus       353 ~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W  407 (1153)
T PLN03210        353 NELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDW  407 (1153)
T ss_pred             HHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHH
Confidence                        00     112234677999999999999999997655554443

syringae 6; Provisional

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.39  E-value=8.2e-07  Score=70.18  Aligned_cols=52  Identities=10%  Similarity=-0.105  Sum_probs=44.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCC--CCHHHHHHHHH
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYH--YDPDQILDIVA   67 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~--~~~~~l~~~il   67 (156)
                      -..+.|.|.+|+|||||++.+|++.... +|+..+|+++.++  ++..++++.+.
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~   69 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVK   69 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhc
Confidence            4568999999999999999999965444 8999999997776  89999999883

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.31  E-value=6.8e-07  Score=74.74  Aligned_cols=51  Identities=12%  Similarity=-0.072  Sum_probs=42.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCC--CHHHHHHHHH
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHY--DPDQILDIVA   67 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~--~~~~l~~~il   67 (156)
                      ....|+|.+|+|||||++.+|++.... +|+.++||++++..  ++.++++.+.
T Consensus       170 QR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIl  222 (416)
T PRK09376        170 QRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVK  222 (416)
T ss_pred             ceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhc
Confidence            345789999999999999999965444 89999999998887  7777777774

>PRK08118 topology modulation protein; Reviewed

Probab=98.06  E-value=2.3e-06  Score=63.63  Aligned_cols=36  Identities=19%  Similarity=0.316  Sum_probs=29.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcccccc-ccCceEEEE
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMK-HYFDYLAWI   51 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~-~~F~~~~wv   51 (156)
                      ..|.|+|.+|+||||||+.+++...+. -+||..+|-
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~   38 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWK   38 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcc
Confidence            358899999999999999999965554 468877753

>PF05729 NACHT: NACHT domain

Probab=97.96  E-value=2e-05  Score=56.76  Aligned_cols=41  Identities=15%  Similarity=0.078  Sum_probs=29.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcccccccc----CceEEEEEcCCC
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHY----FDYLAWIPAPYH   56 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~----F~~~~wv~vs~~   56 (156)
                      |++-|.|.+|+||||+++.++++-.-...    +...+|++..+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~   45 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDI   45 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhh
Confidence            57899999999999999998874332222    456777766443

>TIGR00767 rho transcription termination factor Rho

Probab=97.84  E-value=3.1e-05  Score=65.05  Aligned_cols=53  Identities=8%  Similarity=-0.147  Sum_probs=43.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCC--CCHHHHHHHHHHH
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYH--YDPDQILDIVAVI   69 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~--~~~~~l~~~il~~   69 (156)
                      ..+.|+|.+|.|||||++.+++.... ++|+..+|+.+.++  .++.++++.++..
T Consensus       169 q~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~  223 (415)
T TIGR00767       169 QRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGE  223 (415)
T ss_pred             CEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhce
Confidence            45789999999999999999994332 36999999998865  7888998888443

Members of this family differ in the specificity of RNA binding.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.68  E-value=4.4e-05  Score=53.30  Aligned_cols=57  Identities=12%  Similarity=0.138  Sum_probs=41.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcccccccc-----CceEEEEEcCCCCCHHHHHHHHHHHhCC
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHY-----FDYLAWIPAPYHYDPDQILDIVAVILLP   72 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~-----F~~~~wv~vs~~~~~~~l~~~il~~l~~   72 (156)
                      +-+.+.|+|.+|+|||++++.+.++  ....     -...+|+.++...+...+...+++++..
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~   64 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQ--LNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGL   64 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHH--HHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHH--hHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCc
Confidence            3567899999999999999999883  2221     2346799988877999999999999864

>PRK07261 topology modulation protein; Provisional

Probab=97.65  E-value=0.00014  Score=54.13  Aligned_cols=54  Identities=19%  Similarity=0.220  Sum_probs=35.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhcccccc-ccCceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSSYMK-HYFDYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~~v~-~~F~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      .|.|+|++|+||||||+.+.....+. -+.|...|-......+..++...+...+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~   56 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFL   56 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHH
Confidence            47899999999999999987643222 2456667754444445555555554444

>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=97.49  E-value=0.00038  Score=48.23  Aligned_cols=43  Identities=12%  Similarity=0.022  Sum_probs=29.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCC
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYD   58 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~   58 (156)
                      ..+.+-|+|.+|+|||+|++.+++..  ...-...+++...+...
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~--~~~~~~v~~~~~~~~~~   60 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANEL--FRPGAPFLYLNASDLLE   60 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh--hcCCCCeEEEehhhhhh
Confidence            45678899999999999999999843  22112355665544433

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.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=97.47  E-value=0.00046  Score=57.21  Aligned_cols=57  Identities=16%  Similarity=0.055  Sum_probs=38.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHHhC
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILL   71 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~   71 (156)
                      ...+-|+|.+|+|||++++.++++.......-..+++......+...++..+++++.
T Consensus        55 ~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~  111 (394)
T PRK00411         55 PLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLF  111 (394)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhc
Confidence            345679999999999999999984322221123566655555566666777766664

>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=97.47  E-value=0.00011  Score=50.85  Aligned_cols=21  Identities=24%  Similarity=0.298  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|.|.|.+|+||||+|+.+.+
T Consensus         1 vI~I~G~~gsGKST~a~~La~   21 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAE   21 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999987

...

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=97.46  E-value=0.00019  Score=61.15  Aligned_cols=49  Identities=8%  Similarity=0.008  Sum_probs=38.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHH
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQIL   63 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~   63 (156)
                      .+.+-++|++|+|||++|+.+++.......|+.+.||++++.++-.++.
T Consensus       194 ~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI  242 (459)
T PRK11331        194 KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFI  242 (459)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHh
Confidence            4567889999999999999998854444567788899998877655543

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=97.39  E-value=0.00059  Score=55.94  Aligned_cols=57  Identities=21%  Similarity=0.042  Sum_probs=38.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcccccc-ccC--c-eEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMK-HYF--D-YLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~-~~F--~-~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      ....+-|+|.+|+|||++++.++++..-. ...  + ..+|+......+...++..+++++
T Consensus        39 ~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l   99 (365)
T TIGR02928        39 RPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQL   99 (365)
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34568999999999999999999842111 111  1 256666666566667777777766

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.34  E-value=0.00055  Score=50.29  Aligned_cols=27  Identities=11%  Similarity=0.097  Sum_probs=18.3

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....+.+-|+|.+|+|||+|.+.++..
T Consensus        21 ~~~~~~~ll~G~~G~GKT~ll~~~~~~   47 (185)
T PF13191_consen   21 SGSPRNLLLTGESGSGKTSLLRALLDR   47 (185)
T ss_dssp             S-----EEE-B-TTSSHHHHHHHHHHH
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            455789999999999999999999883

>PF13173 AAA_14: AAA domain

Probab=97.34  E-value=0.00052  Score=48.39  Aligned_cols=83  Identities=14%  Similarity=0.209  Sum_probs=48.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHH----HHHHHHHHhCCCCc---------------
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQ----ILDIVAVILLPFSM---------------   75 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~----l~~~il~~l~~~~~---------------   75 (156)
                      -+++.|.|..|+|||||+++++.+..   .-...+++...+......    +.+.+.+...+...               
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iDEiq~~~~~~~   78 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPDLLEYFLELIKPGKKYIFIDEIQYLPDWED   78 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhhhHHHHHHhhccCCcEEEEehhhhhccHHH
Confidence            36789999999999999999987432   224466666554433221    22333333211111               


Q ss_pred             -cccCCCCCCCeEEEEEcCCHHHHhh
Q 035574           76 -FKILPDNQNGSRVLITLTQIKMVTS  100 (156)
Q Consensus        76 -~~~l~~~~~gsrIivTTR~~~Va~~  100 (156)
                       ...+-+..+..+|++|+.+......
T Consensus        79 ~lk~l~d~~~~~~ii~tgS~~~~l~~  104 (128)
T PF13173_consen   79 ALKFLVDNGPNIKIILTGSSSSLLSK  104 (128)
T ss_pred             HHHHHHHhccCceEEEEccchHHHhh
Confidence             1122233345789999998877743

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=97.31  E-value=0.00091  Score=52.45  Aligned_cols=54  Identities=17%  Similarity=0.148  Sum_probs=35.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHHhC
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILL   71 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~   71 (156)
                      ...+.|+|.+|+|||||++.+++.... ..+ ..+|+.. ...+..+++..+...++
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~-~~~-~~~~~~~-~~~~~~~~l~~i~~~lG   96 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQ-ERV-VAAKLVN-TRVDAEDLLRMVAADFG   96 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCC-CCe-EEeeeeC-CCCCHHHHHHHHHHHcC
Confidence            457899999999999999999984331 111 2334432 33456666666665553

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.

>PRK07667 uridine kinase; Provisional

Probab=97.18  E-value=0.00069  Score=51.26  Aligned_cols=36  Identities=19%  Similarity=0.230  Sum_probs=28.9

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            2 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         2 ~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.+++.+........+|+|.|.+|.||||+|+.+..
T Consensus         4 ~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~   39 (193)
T PRK07667          4 NELINIMKKHKENRFILGIDGLSRSGKTTFVANLKE   39 (193)
T ss_pred             HHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            345666655555668999999999999999999877

>PRK06696 uridine kinase; Validated

Probab=97.13  E-value=0.00065  Score=52.45  Aligned_cols=34  Identities=26%  Similarity=0.213  Sum_probs=26.5

Q ss_pred             HHHHHhc-CCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            4 LLDLLIE-GPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         4 l~~~L~~-~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.+.+.. ......+|+|.|.+|.||||||+.+.+
T Consensus        10 la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~   44 (223)
T PRK06696         10 LAEHILTLNLTRPLRVAIDGITASGKTTFADELAE   44 (223)
T ss_pred             HHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            3444433 345678999999999999999999987

>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=97.05  E-value=0.00051  Score=47.42  Aligned_cols=21  Identities=24%  Similarity=0.227  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|.|..|+||||+|+.+...
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            678999999999999998774

...

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=97.04  E-value=0.0024  Score=53.43  Aligned_cols=53  Identities=8%  Similarity=0.040  Sum_probs=35.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVI   69 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~   69 (156)
                      ..+..+-+||.+|+||||||+.+.+..+-..    ..||..|-.-....=.++|+++
T Consensus       160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~  212 (554)
T KOG2028|consen  160 NRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQ  212 (554)
T ss_pred             CCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHH
Confidence            3466788999999999999999998654444    4566665433333334444443

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.97  E-value=0.001  Score=49.26  Aligned_cols=36  Identities=19%  Similarity=0.271  Sum_probs=28.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEE
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWI   51 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv   51 (156)
                      ...+|.++|+.|.||||+|+.++.  +....+....++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~--~l~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYE--RLKLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH--HHHHcCCcEEEE
Confidence            346899999999999999999988  555555555555

>PTZ00202 tuzin; Provisional

Probab=96.96  E-value=0.0047  Score=52.99  Aligned_cols=51  Identities=16%  Similarity=0.049  Sum_probs=39.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHHhCC
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILLP   72 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~   72 (156)
                      ..+++.|.|++|.|||||++.+...  ..    ..+++..+.  ...++++.++.+|+.
T Consensus       285 ~privvLtG~~G~GKTTLlR~~~~~--l~----~~qL~vNpr--g~eElLr~LL~ALGV  335 (550)
T PTZ00202        285 HPRIVVFTGFRGCGKSSLCRSAVRK--EG----MPAVFVDVR--GTEDTLRSVVKALGV  335 (550)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc--CC----ceEEEECCC--CHHHHHHHHHHHcCC
Confidence            3468899999999999999999873  22    224444444  679999999999984

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.96  E-value=0.0029  Score=47.91  Aligned_cols=51  Identities=14%  Similarity=0.111  Sum_probs=37.5

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHH
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILD   64 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~   64 (156)
                      +-..-+++-|+|.+|.|||+++.++..  ....+-...+|++... ++...+.+
T Consensus         8 Gi~~g~i~~i~G~~GsGKT~l~~~~~~--~~~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237         8 GVERGTITQIYGPPGSGKTNICMILAV--NAARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHH--HHHhCCCeEEEEECCC-CCHHHHHH
Confidence            345568999999999999999999876  3333345688988765 66665544

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK04841 transcriptional regulator MalT; Provisional

Probab=96.92  E-value=0.0037  Score=56.89  Aligned_cols=63  Identities=19%  Similarity=0.289  Sum_probs=44.4

Q ss_pred             CHHHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCC-CCHHHHHHHHHHHh
Q 035574            1 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYH-YDPDQILDIVAVIL   70 (156)
Q Consensus         1 r~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~-~~~~~l~~~il~~l   70 (156)
                      |..|.+.|.. ....+++.|.|.+|.||||++.+...+      ++..+|+++... .+...+...++..+
T Consensus        19 R~rl~~~l~~-~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l   82 (903)
T PRK04841         19 RERLLAKLSG-ANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAAL   82 (903)
T ss_pred             chHHHHHHhc-ccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHH
Confidence            5677777754 346789999999999999999998752      236899998643 45444444444443

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=96.92  E-value=0.001  Score=52.03  Aligned_cols=32  Identities=22%  Similarity=0.206  Sum_probs=23.3

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccC
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF   45 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F   45 (156)
                      ...+.-+-.||.+|+||||||..+.+  ....+|
T Consensus        47 ~~~l~h~lf~GPPG~GKTTLA~IIA~--e~~~~~   78 (233)
T PF05496_consen   47 GEALDHMLFYGPPGLGKTTLARIIAN--ELGVNF   78 (233)
T ss_dssp             TS---EEEEESSTTSSHHHHHHHHHH--HCT--E
T ss_pred             CCCcceEEEECCCccchhHHHHHHHh--ccCCCe
Confidence            45577788999999999999999999  555555

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>PRK08233 hypothetical protein; Provisional

Probab=96.88  E-value=0.001  Score=48.94  Aligned_cols=24  Identities=21%  Similarity=0.238  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+|.|.|.+|+||||||+.+...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            478999999999999999999873

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.87  E-value=0.00091  Score=50.46  Aligned_cols=21  Identities=19%  Similarity=0.303  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ||+|.|.+|+||||+|+.+..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~   21 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQ   21 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999877

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PTZ00301 uridine kinase; Provisional

Probab=96.86  E-value=0.0015  Score=50.46  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|+|.|.+|.||||||+.+.+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            57899999999999999988765

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.85  E-value=0.0012  Score=50.23  Aligned_cols=24  Identities=21%  Similarity=0.364  Sum_probs=22.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|+|.|.+|+|||||++.++.
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~   28 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYE   28 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999987

>TIGR00235 udk uridine kinase

Probab=96.81  E-value=0.0014  Score=49.91  Aligned_cols=25  Identities=20%  Similarity=0.275  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +...+|+|+|.+|.|||||++.+..
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHH
Confidence            3457999999999999999999986

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.77  E-value=0.0021  Score=43.79  Aligned_cols=37  Identities=16%  Similarity=0.120  Sum_probs=26.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcC
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAP   54 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs   54 (156)
                      ..+-|+|.+|+||||+++.+..  .........+++..+
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~--~~~~~~~~~~~~~~~   39 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALAR--ELGPPGGGVIYIDGE   39 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHh--ccCCCCCCEEEECCE
Confidence            5688999999999999999988  333322234555443

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.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=96.74  E-value=0.02  Score=46.31  Aligned_cols=81  Identities=16%  Similarity=0.272  Sum_probs=50.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc----ccccccCceEEEEE-cCCCCCHHHHHHHHHHHhC--CCCc------------
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS----SYMKHYFDYLAWIP-APYHYDPDQILDIVAVILL--PFSM------------   75 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~----~~v~~~F~~~~wv~-vs~~~~~~~l~~~il~~l~--~~~~------------   75 (156)
                      ....-++|..|+||||+|+.++..    .....|.|...|.. -+.....+++ +++.+.+.  +.+.            
T Consensus        26 ~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~i-r~~~~~~~~~p~~~~~kv~iI~~ad~  104 (313)
T PRK05564         26 SHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDI-RNIIEEVNKKPYEGDKKVIIIYNSEK  104 (313)
T ss_pred             CceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHH-HHHHHHHhcCcccCCceEEEEechhh
Confidence            456788999999999999988762    12235667766765 3455555553 34445432  1110            


Q ss_pred             ---------cccCCCCCCCeEEEEEcCCHH
Q 035574           76 ---------FKILPDNQNGSRVLITLTQIK   96 (156)
Q Consensus        76 ---------~~~l~~~~~gsrIivTTR~~~   96 (156)
                               ...+.+..+++.+|++|.+.+
T Consensus       105 m~~~a~naLLK~LEepp~~t~~il~~~~~~  134 (313)
T PRK05564        105 MTEQAQNAFLKTIEEPPKGVFIILLCENLE  134 (313)
T ss_pred             cCHHHHHHHHHHhcCCCCCeEEEEEeCChH
Confidence                     234455556888998887654

>PRK06762 hypothetical protein; Provisional

Probab=96.72  E-value=0.0015  Score=47.69  Aligned_cols=22  Identities=18%  Similarity=0.280  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|+|++|+||||+|+.+.+
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~   24 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQE   24 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999977

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.72  E-value=0.0016  Score=46.05  Aligned_cols=21  Identities=10%  Similarity=0.211  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|-++|++|+||||+|+.+..
T Consensus         1 lii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            577899999999999999875

...

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.67  E-value=0.002  Score=48.01  Aligned_cols=22  Identities=18%  Similarity=0.190  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      --|.|.|++|+|||||++.+.+
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e   27 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAE   27 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHH
Confidence            4578999999999999999987

>PRK03839 putative kinase; Provisional

Probab=96.65  E-value=0.0016  Score=48.38  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .|.|.|++|+||||+++.+++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999883

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.63  E-value=0.011  Score=45.41  Aligned_cols=53  Identities=15%  Similarity=0.206  Sum_probs=37.9

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhcccccccc----CceEEEEEcCCCCCHHHHH
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHY----FDYLAWIPAPYHYDPDQIL   63 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~----F~~~~wv~vs~~~~~~~l~   63 (156)
                      +-..-.++-|+|.+|.|||+|+.++.........    -...+|++....++...+.
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~   71 (235)
T cd01123          15 GIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV   71 (235)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH
Confidence            3455688999999999999999998753222221    2568899887777765543

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.56  E-value=0.0023  Score=47.34  Aligned_cols=24  Identities=13%  Similarity=0.170  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|.|+|.+|+||||+++.+..
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999875

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.

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.53  E-value=0.0035  Score=47.81  Aligned_cols=26  Identities=12%  Similarity=0.091  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .....+-++|..|+|||+||+.+++.
T Consensus        36 ~~~~~lll~G~~G~GKT~la~~~~~~   61 (226)
T TIGR03420        36 KGDRFLYLWGESGSGKSHLLQAACAA   61 (226)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            34567889999999999999999873

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.53  E-value=0.015  Score=44.47  Aligned_cols=51  Identities=14%  Similarity=0.204  Sum_probs=37.1

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhccccccccC------ceEEEEEcCCCCCHHHHH
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF------DYLAWIPAPYHYDPDQIL   63 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F------~~~~wv~vs~~~~~~~l~   63 (156)
                      +-..-.++-|.|.+|.|||+|+.++...  ....-      ...+|+.....++...+.
T Consensus        15 G~~~g~v~~I~G~~GsGKT~l~~~ia~~--~~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          15 GIPTGRITEIFGEFGSGKTQLCLQLAVE--AQLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CCcCCcEEEEeCCCCCChhHHHHHHHHH--hhcccccCCCcceEEEEecCCCCCHHHHH
Confidence            4455689999999999999999998662  22222      347888887777766554

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PRK04040 adenylate kinase; Provisional

Probab=96.52  E-value=0.0031  Score=47.68  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|+|++|+||||+++.+.+
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~   24 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALE   24 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHH
Confidence            35789999999999999999977

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.51  E-value=0.012  Score=45.16  Aligned_cols=49  Identities=14%  Similarity=0.161  Sum_probs=35.2

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHH
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQI   62 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l   62 (156)
                      +-..-.++-|+|.+|.|||+++.++..+  ....-...+|++.. .++...+
T Consensus        19 Gi~~g~i~~i~G~~GsGKT~l~~~la~~--~~~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         19 GFERGTITQIYGPPGSGKTNICLQLAVE--AAKNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEECC-CCCHHHH
Confidence            3355679999999999999999998763  32333557888876 5555443

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=96.49  E-value=0.0022  Score=44.34  Aligned_cols=21  Identities=14%  Similarity=0.158  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |-++|.+|.|||++|+.+.++
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            458999999999999999994

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 ....

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.48  E-value=0.003  Score=48.24  Aligned_cols=32  Identities=25%  Similarity=0.301  Sum_probs=27.4

Q ss_pred             HHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            6 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         6 ~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|+.++....+.+.|+|..|+|||||++.+.+
T Consensus         4 ~~~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738          4 PWLFNKPAKPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             ccccCCCCCCeEEEEECcCCCCHHHHHHHHHh
Confidence            35666667788999999999999999999976

>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=96.43  E-value=0.0027  Score=40.13  Aligned_cols=22  Identities=18%  Similarity=0.291  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +|.|.|..|.||||+++.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4788999999999999998773

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.43  E-value=0.0029  Score=46.00  Aligned_cols=23  Identities=9%  Similarity=0.105  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|-++|++|.||||+|+.+..
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~   26 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAK   26 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHH
Confidence            45789999999999999999988

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.40  E-value=0.0026  Score=49.08  Aligned_cols=24  Identities=21%  Similarity=0.257  Sum_probs=21.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+|+|-||-|+||||||+.+.++
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~   27 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEH   27 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHH
Confidence            468999999999999999999883

>PRK06547 hypothetical protein; Provisional

Probab=96.40  E-value=0.0037  Score=46.68  Aligned_cols=27  Identities=19%  Similarity=0.097  Sum_probs=23.5

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .....+|.|.|..|.||||+|+.+.+.
T Consensus        12 ~~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         12 GGGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            355789999999999999999999773

>PRK00625 shikimate kinase; Provisional

Probab=96.38  E-value=0.0028  Score=47.40  Aligned_cols=20  Identities=15%  Similarity=0.135  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |-++||+|+||||+++.+.+
T Consensus         3 I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          3 IFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77899999999999999977

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.37  E-value=0.0025  Score=48.00  Aligned_cols=21  Identities=24%  Similarity=0.363  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|+|.|..|+|||||++.+..
T Consensus         1 iigi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999866

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.

>PRK13947 shikimate kinase; Provisional

Probab=96.35  E-value=0.003  Score=46.25  Aligned_cols=21  Identities=14%  Similarity=0.248  Sum_probs=19.3

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -|.|+|++|+||||+|+.+.+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~   23 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVAT   23 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999987

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.34  E-value=0.0042  Score=45.86  Aligned_cols=23  Identities=17%  Similarity=0.011  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+|.++|.+|+||||+|+.+..
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~   26 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAE   26 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999987

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=96.32  E-value=0.0029  Score=44.77  Aligned_cols=21  Identities=19%  Similarity=0.210  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|.|.|.+|.||||+|+.+..
T Consensus         1 ~I~i~G~~GsGKst~a~~la~   21 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAK   21 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999876

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.32  E-value=0.0036  Score=46.29  Aligned_cols=23  Identities=13%  Similarity=0.193  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .++.|+|+.|+|||||++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998773

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.

>cd01394 radB RadB

Probab=96.31  E-value=0.02  Score=43.64  Aligned_cols=46  Identities=15%  Similarity=0.067  Sum_probs=31.7

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCC
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYD   58 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~   58 (156)
                      +-..-+++-|.|.+|+|||||+.++...  ...+=...+|++..+.++
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~~a~~--~~~~g~~v~yi~~e~~~~   60 (218)
T cd01394          15 GVERGTVTQVYGPPGTGKTNIAIQLAVE--TAGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCCCCH
Confidence            3455688999999999999999998763  222223466776554443

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>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=96.30  E-value=0.0031  Score=47.57  Aligned_cols=38  Identities=24%  Similarity=0.180  Sum_probs=26.4

Q ss_pred             CHHHHHHHhcC--CCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574            1 MEELLDLLIEG--PTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus         1 r~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |++.++.|.+-  ......+.|+|..|+|||+|++++.+.
T Consensus         4 R~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~   43 (234)
T PF01637_consen    4 REKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINE   43 (234)
T ss_dssp             -HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHH
Confidence            34444555432  223678889999999999999999883

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.28  E-value=0.0071  Score=46.82  Aligned_cols=27  Identities=19%  Similarity=0.256  Sum_probs=23.5

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ......+++|.|..|.|||||++.+..
T Consensus        29 ~~~~~~iigi~G~~GsGKTTl~~~L~~   55 (229)
T PRK09270         29 EPQRRTIVGIAGPPGAGKSTLAEFLEA   55 (229)
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            345678999999999999999998876

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.24  E-value=0.0046  Score=47.97  Aligned_cols=25  Identities=20%  Similarity=0.298  Sum_probs=22.8

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+.+|+|-|.+|.||||+|+.+++
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~   30 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSE   30 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHH
Confidence            4568999999999999999999988

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.22  E-value=0.0034  Score=46.44  Aligned_cols=21  Identities=29%  Similarity=0.260  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|-|+|++|+||||+|+.+..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999877

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.

>PRK06217 hypothetical protein; Validated

Probab=96.20  E-value=0.0047  Score=46.11  Aligned_cols=35  Identities=20%  Similarity=0.300  Sum_probs=25.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhccccccccC--ceEEEEE
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSSYMKHYF--DYLAWIP   52 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~~v~~~F--~~~~wv~   52 (156)
                      .|.|.|.+|.||||||+.+...... .+|  |...|..
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~-~~~~~D~~~~~~   39 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDI-PHLDTDDYFWLP   39 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC-cEEEcCceeecc
Confidence            4889999999999999999874322 233  3455643

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.18  E-value=0.0063  Score=43.20  Aligned_cols=39  Identities=8%  Similarity=0.128  Sum_probs=27.7

Q ss_pred             EEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCC
Q 035574           18 VAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYD   58 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~   58 (156)
                      +.|+|.+|.||||++..+...  ...+-..++|+.......
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~--~~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALN--IATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHH--HHhcCCEEEEEECCcchH
Confidence            678999999999999998773  333334567776655443

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.

>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=96.18  E-value=0.0034  Score=48.62  Aligned_cols=21  Identities=14%  Similarity=0.245  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|+|.|..|.||||||+.+..
T Consensus         1 IigI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHH
Confidence            579999999999999999876

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.18  E-value=0.029  Score=45.33  Aligned_cols=52  Identities=12%  Similarity=0.236  Sum_probs=38.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccC----ceEEEEEcCCCCCHHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF----DYLAWIPAPYHYDPDQILD   64 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F----~~~~wv~vs~~~~~~~l~~   64 (156)
                      ..-.++-|+|.+|+|||+|+.+++.+.......    ...+||.....|+.+++.+
T Consensus        93 ~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~  148 (310)
T TIGR02236        93 ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQ  148 (310)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHH
Confidence            456788899999999999999987643321111    2689999888888877653

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>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=96.18  E-value=0.005  Score=41.98  Aligned_cols=22  Identities=18%  Similarity=0.379  Sum_probs=19.6

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.|+|..|+|||||.+.+.+.+
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            6799999999999999998754

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.

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=96.17  E-value=0.0054  Score=45.88  Aligned_cols=22  Identities=36%  Similarity=0.440  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +|+|.|..|.||||||+.+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998773

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=96.17  E-value=0.0037  Score=47.40  Aligned_cols=22  Identities=18%  Similarity=0.110  Sum_probs=19.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +|+|.|.+|.||||||+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999883

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>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=96.16  E-value=0.015  Score=41.01  Aligned_cols=41  Identities=15%  Similarity=0.215  Sum_probs=27.7

Q ss_pred             EEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHH
Q 035574           18 VAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQIL   63 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~   63 (156)
                      |-++|.+|+|||+||+.++.  ....   ...-+.+++..+..++.
T Consensus         2 vlL~G~~G~GKt~l~~~la~--~~~~---~~~~i~~~~~~~~~dl~   42 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAA--LLGR---PVIRINCSSDTTEEDLI   42 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHH--HHTC---EEEEEE-TTTSTHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH--Hhhc---ceEEEEeccccccccce
Confidence            45799999999999999987  3321   12334566666666554

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.

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.15  E-value=0.0049  Score=45.45  Aligned_cols=22  Identities=14%  Similarity=0.283  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++.|+|..|+|||||++.+..
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~   23 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLE   23 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHc
Confidence            4789999999999999999988

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.15  E-value=0.026  Score=45.89  Aligned_cols=53  Identities=13%  Similarity=0.177  Sum_probs=38.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccC----ceEEEEEcCCCCCHHHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF----DYLAWIPAPYHYDPDQILDI   65 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F----~~~~wv~vs~~~~~~~l~~~   65 (156)
                      ..-.++-|+|.+|+|||+++.++.........+    ...+||+....|+..++.+.
T Consensus       100 ~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~  156 (317)
T PRK04301        100 ETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQM  156 (317)
T ss_pred             cCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHH
Confidence            456788899999999999999987632222111    36899998888888776543

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=96.12  E-value=0.017  Score=42.68  Aligned_cols=21  Identities=14%  Similarity=0.064  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|.|.|..|+||||+++.+.+
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~   22 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAE   22 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999999987

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.12  E-value=0.0066  Score=45.94  Aligned_cols=25  Identities=12%  Similarity=0.021  Sum_probs=22.5

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....++.|+|++|.||||||+.+..
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~   46 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEE   46 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999999877

>PRK13949 shikimate kinase; Provisional

Probab=96.11  E-value=0.0053  Score=45.55  Aligned_cols=22  Identities=14%  Similarity=0.220  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +-|.|+|+.|.||||+++.+..
T Consensus         2 ~~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999999887

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.10  E-value=0.0051  Score=45.53  Aligned_cols=23  Identities=4%  Similarity=0.101  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ++|-+.|++|.||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999998773

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=96.09  E-value=0.012  Score=47.92  Aligned_cols=26  Identities=27%  Similarity=0.293  Sum_probs=22.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .....+-++|.+|+|||+||+.+.+.
T Consensus        49 ~~~~~~ll~GppG~GKT~la~~ia~~   74 (328)
T PRK00080         49 EALDHVLLYGPPGLGKTTLANIIANE   74 (328)
T ss_pred             CCCCcEEEECCCCccHHHHHHHHHHH
Confidence            34567789999999999999999883

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=96.09  E-value=0.011  Score=48.54  Aligned_cols=47  Identities=11%  Similarity=0.049  Sum_probs=30.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHH
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQIL   63 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~   63 (156)
                      .+++-+.|.|||||||+|....-  +.........-|+.....++.+++
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~--~lA~~g~kvLlvStDPAhsL~d~f   48 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAV--KLAESGKKVLLVSTDPAHSLGDVF   48 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHH--HHHHcCCcEEEEEeCCCCchHhhh
Confidence            57889999999999999887543  333333335556555555555444

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=96.08  E-value=0.0051  Score=51.71  Aligned_cols=32  Identities=16%  Similarity=0.179  Sum_probs=25.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFD   46 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~   46 (156)
                      ..+...-.||.+|+||||||+.+..  .....|.
T Consensus        46 ~~l~SmIl~GPPG~GKTTlA~liA~--~~~~~f~   77 (436)
T COG2256          46 GHLHSMILWGPPGTGKTTLARLIAG--TTNAAFE   77 (436)
T ss_pred             CCCceeEEECCCCCCHHHHHHHHHH--hhCCceE
Confidence            3466677899999999999999988  5555553

>PHA00729 NTP-binding motif containing protein

Probab=96.08  E-value=0.011  Score=46.26  Aligned_cols=24  Identities=17%  Similarity=0.256  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +...|.|.|.+|+||||||..+.+
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~   39 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVAR   39 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHH
Confidence            345688999999999999999877

>PRK13975 thymidylate kinase; Provisional

Probab=96.07  E-value=0.0059  Score=45.66  Aligned_cols=22  Identities=14%  Similarity=-0.008  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.|.|+.|+||||+++.+.+
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~   24 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAE   24 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999988

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=96.06  E-value=0.021  Score=43.49  Aligned_cols=55  Identities=27%  Similarity=0.242  Sum_probs=33.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcC-CCCCHHHHHHHHHHHhC
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAP-YHYDPDQILDIVAVILL   71 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs-~~~~~~~l~~~il~~l~   71 (156)
                      .+++.++|..|+||||.+.++...  .+.+=..+..++.. ......+-++..++.+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~--~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~   56 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAAR--LKLKGKKVALISADTYRIGAVEQLKTYAEILG   56 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHH--HHHTT--EEEEEESTSSTHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCchHhHHHHHHHH--HhhccccceeecCCCCCccHHHHHHHHHHHhc
Confidence            368999999999999977777663  22222236666643 22334444566666554

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=96.05  E-value=0.0067  Score=43.24  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=19.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.++|.+|+|||||+..+.++.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999987654

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

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=96.05  E-value=0.006  Score=54.56  Aligned_cols=42  Identities=17%  Similarity=0.287  Sum_probs=31.1

Q ss_pred             HHHHHHHhc----CCCCcEEEEEEcCCCccHHHHHHHHhccccccccC
Q 035574            2 EELLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF   45 (156)
Q Consensus         2 ~~l~~~L~~----~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F   45 (156)
                      |++++.|.-    ....-.++.+||.+|+|||+|++.+..  .....|
T Consensus       333 eRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~--al~Rkf  378 (782)
T COG0466         333 ERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAK--ALGRKF  378 (782)
T ss_pred             HHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHH--HhCCCE
Confidence            455666532    233447899999999999999999988  555555

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.05  E-value=0.0092  Score=49.65  Aligned_cols=38  Identities=11%  Similarity=0.222  Sum_probs=28.5

Q ss_pred             HHHHHHHhcC----CCCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574            2 EELLDLLIEG----PTQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus         2 ~~l~~~L~~~----~~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +++++++...    ....+++.++|.+|.||||||+.+.+..
T Consensus        61 ~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       61 ERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             HHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3455666441    3456889999999999999999998743

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.04  E-value=0.0057  Score=46.13  Aligned_cols=24  Identities=8%  Similarity=0.138  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+|.|+|..|+|||||++.+...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999873

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=96.03  E-value=0.045  Score=49.95  Aligned_cols=67  Identities=22%  Similarity=0.303  Sum_probs=48.0

Q ss_pred             CHHHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCC-CCHHHHHHHHHHHhC
Q 035574            1 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYH-YDPDQILDIVAVILL   71 (156)
Q Consensus         1 r~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~-~~~~~l~~~il~~l~   71 (156)
                      |.++++.|... .+.|.+-|....|.|||||+.+...  +... =..+.|+++.+. -++..+.+-++..+.
T Consensus        24 R~rL~~~L~~~-~~~RL~li~APAGfGKttl~aq~~~--~~~~-~~~v~Wlslde~dndp~rF~~yLi~al~   91 (894)
T COG2909          24 RPRLLDRLRRA-NDYRLILISAPAGFGKTTLLAQWRE--LAAD-GAAVAWLSLDESDNDPARFLSYLIAALQ   91 (894)
T ss_pred             cHHHHHHHhcC-CCceEEEEeCCCCCcHHHHHHHHHH--hcCc-ccceeEeecCCccCCHHHHHHHHHHHHH
Confidence            45666766543 3589999999999999999999865  2221 234899998664 467777777777664

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.03  E-value=0.0051  Score=44.07  Aligned_cols=21  Identities=10%  Similarity=0.196  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +-+.|.+|+||||+|+.+...
T Consensus         2 i~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhh
Confidence            678999999999999999774

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.02  E-value=0.013  Score=42.30  Aligned_cols=38  Identities=16%  Similarity=0.126  Sum_probs=26.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcccccc-ccCceEEEEEcCC
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMK-HYFDYLAWIPAPY   55 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~-~~F~~~~wv~vs~   55 (156)
                      .+|.|+|..++|||||++.+.+  ... ..+...+.....+
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~--~l~~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLIN--ELKRRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHH--HHHHTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHH--HHhHcCCceEEEEEccC
Confidence            3789999999999999999988  443 4455555565544

>PRK13342 recombination factor protein RarA; Reviewed

Probab=96.02  E-value=0.024  Score=47.76  Aligned_cols=23  Identities=22%  Similarity=0.211  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-++|.+|+||||||+.+++
T Consensus        36 ~~~ilL~GppGtGKTtLA~~ia~   58 (413)
T PRK13342         36 LSSMILWGPPGTGKTTLARIIAG   58 (413)
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45677899999999999999988

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=96.02  E-value=0.006  Score=48.51  Aligned_cols=23  Identities=9%  Similarity=0.131  Sum_probs=19.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++|+|+|-||+||||++..+..
T Consensus         1 ~~~i~~~gKGGVGKTT~a~nLA~   23 (279)
T PRK13230          1 MRKFCFYGKGGIGKSTTVCNIAA   23 (279)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHH
Confidence            36789999999999998777644

>PRK13236 nitrogenase reductase; Reviewed

Probab=96.00  E-value=0.0073  Score=48.73  Aligned_cols=26  Identities=12%  Similarity=0.236  Sum_probs=21.1

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.+.+++++.|-||+||||++..+..
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~   28 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLA   28 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHH
Confidence            34679999999999999997666543

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=96.00  E-value=0.006  Score=47.86  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|+|.|-||+||||++..+..
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~   23 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSA   23 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHH
Confidence            5788899999999998877654

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.00  E-value=0.011  Score=44.15  Aligned_cols=36  Identities=8%  Similarity=0.113  Sum_probs=28.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEE
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIP   52 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~   52 (156)
                      .+++.|+|..|+|||||++.+..  .....|...+..+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~--~~~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQ--EFPDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHH--HSTTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH--hcccccccceeec
Confidence            47889999999999999999988  5556675444443

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 ....

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=96.00  E-value=0.0094  Score=43.98  Aligned_cols=34  Identities=12%  Similarity=-0.068  Sum_probs=25.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCceEEEE
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWI   51 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv   51 (156)
                      .+|=+.|.+|.||||||+.+..  +....-....++
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~--~L~~~g~~~~~L   36 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALER--RLFARGIKVYLL   36 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH--HHHHTTS-EEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHH--HHHHcCCcEEEe
Confidence            5778899999999999999988  554443445555

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>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=95.99  E-value=0.006  Score=43.61  Aligned_cols=20  Identities=15%  Similarity=0.248  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.++|++|.||||+|+.+..
T Consensus         2 i~l~G~~GsGKstla~~la~   21 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAK   21 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            67899999999999999976

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.98  E-value=0.009  Score=44.80  Aligned_cols=24  Identities=21%  Similarity=0.224  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+++|+|..|.|||||++.+..
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~   28 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIP   28 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHH
Confidence            457899999999999999999886

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=95.97  E-value=0.014  Score=45.99  Aligned_cols=53  Identities=19%  Similarity=0.167  Sum_probs=40.1

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHH
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAV   68 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~   68 (156)
                      -+.-+++-|.|.+|+|||+++.+...  +.....+..+||+..+.  ..++.+...+
T Consensus        20 ~p~g~~~lI~G~pGsGKT~f~~qfl~--~~~~~ge~vlyvs~~e~--~~~l~~~~~~   72 (260)
T COG0467          20 LPRGSVVLITGPPGTGKTIFALQFLY--EGAREGEPVLYVSTEES--PEELLENARS   72 (260)
T ss_pred             CcCCcEEEEEcCCCCcHHHHHHHHHH--HHHhcCCcEEEEEecCC--HHHHHHHHHH
Confidence            45678999999999999999999877  45555788999987664  4455555543

>PRK06893 DNA replication initiation factor; Validated

Probab=95.95  E-value=0.0074  Score=46.85  Aligned_cols=37  Identities=14%  Similarity=0.065  Sum_probs=27.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcC
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAP   54 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs   54 (156)
                      ..+-++|.+|+|||+|++.+++.  ...+.....|+.+.
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~y~~~~   76 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNH--YLLNQRTAIYIPLS   76 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEeeHH
Confidence            56789999999999999999983  32223345666654

>TIGR01287 nifH nitrogenase iron protein

Probab=95.94  E-value=0.006  Score=48.30  Aligned_cols=22  Identities=23%  Similarity=0.244  Sum_probs=18.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.|+|.|-||+||||++..+..
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~   22 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAA   22 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHH
Confidence            4689999999999998776654

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=95.94  E-value=0.012  Score=46.80  Aligned_cols=35  Identities=23%  Similarity=0.271  Sum_probs=26.4

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            3 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         3 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++..|.....+..+|+|.|.+|.||+||...+-.
T Consensus        17 ~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~   51 (266)
T PF03308_consen   17 ELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIR   51 (266)
T ss_dssp             HHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHH
T ss_pred             HHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHH
Confidence            45666665556778999999999999999887755

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.90  E-value=0.013  Score=42.03  Aligned_cols=36  Identities=14%  Similarity=0.097  Sum_probs=26.2

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574            4 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus         4 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +.+.|.+.-..-.++.+.|.-|.||||+++.+....
T Consensus        11 l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        11 FGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            333443333345689999999999999999998743

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=95.90  E-value=0.013  Score=46.35  Aligned_cols=21  Identities=19%  Similarity=0.213  Sum_probs=18.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -+-+.|.+|+|||+||+.+..
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~   43 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVAR   43 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            345899999999999999986

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PLN02318 phosphoribulokinase/uridine kinase

Probab=95.89  E-value=0.013  Score=51.93  Aligned_cols=33  Identities=27%  Similarity=0.390  Sum_probs=27.1

Q ss_pred             HHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            5 LDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         5 ~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+.|.+...+..+|+|.|..|.||||||+.+..
T Consensus        55 ~qlL~~~~~~riIIGIaGpSGSGKTTLAk~Lag   87 (656)
T PLN02318         55 CQLLAQKNDGIILVGVAGPSGAGKTVFTEKVLN   87 (656)
T ss_pred             HHHHHhcCCCeEEEEEECCCCCcHHHHHHHHHh
Confidence            344555556688999999999999999999977

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.88  E-value=0.0078  Score=45.03  Aligned_cols=23  Identities=13%  Similarity=0.222  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+.|+|+.|.|||||++.+...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            46889999999999999999773

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=95.88  E-value=0.012  Score=46.32  Aligned_cols=35  Identities=26%  Similarity=0.432  Sum_probs=29.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhccccccccCceEEEEEc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPA   53 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~v   53 (156)
                      .+.|+|..|.|||||...+..  ...+.|+.+.+++-
T Consensus        15 r~viIG~sGSGKT~li~~lL~--~~~~~f~~I~l~t~   49 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLY--YLRHKFDHIFLITP   49 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHH--hhcccCCEEEEEec
Confidence            578999999999999999987  56778877776653

This is thought to be an ATPase involved in viral DNA packaging [].

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.87  E-value=0.012  Score=47.52  Aligned_cols=24  Identities=13%  Similarity=0.133  Sum_probs=20.8

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHh
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      ....+|+|.|..|+||||+|+.+.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~   83 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQ   83 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            456899999999999999998663

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=95.86  E-value=0.0075  Score=46.03  Aligned_cols=22  Identities=18%  Similarity=0.228  Sum_probs=18.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|+|.|-||+||||++..+..
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~   22 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSA   22 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHH
Confidence            5789999999999997766544

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.85  E-value=0.019  Score=45.90  Aligned_cols=25  Identities=24%  Similarity=0.282  Sum_probs=21.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+++.++|.+|+||||.+..+..
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~   94 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLAN   94 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHH
Confidence            3468999999999999998887765

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=95.85  E-value=0.0076  Score=47.76  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=18.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|+|.|-||+||||++..+..
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~   23 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTA   23 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHH
Confidence            5788899999999998776544

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.84  E-value=0.0085  Score=42.89  Aligned_cols=20  Identities=10%  Similarity=0.282  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.|+|..|+|||||++.+..
T Consensus         2 i~i~GpsGsGKstl~~~L~~   21 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLE   21 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            68999999999999999987

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.

>PRK04182 cytidylate kinase; Provisional

Probab=95.82  E-value=0.0088  Score=43.80  Aligned_cols=21  Identities=19%  Similarity=0.197  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|.|.|+.|.||||+|+.+.+
T Consensus         2 ~I~i~G~~GsGKstia~~la~   22 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAE   22 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999987

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.81  E-value=0.0095  Score=45.36  Aligned_cols=26  Identities=23%  Similarity=0.305  Sum_probs=23.6

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+.++|.++|..|.|||||..++..
T Consensus        19 ~~~~~~i~~~G~~gsGKTTli~~l~~   44 (207)
T TIGR00073        19 KHGLVVLNFMSSPGSGKTTLIEKLID   44 (207)
T ss_pred             hcCcEEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999999999876

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.80  E-value=0.012  Score=43.17  Aligned_cols=21  Identities=19%  Similarity=0.227  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      |+.|+|..|+|||||+..+..
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~   21 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVK   21 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999888

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=95.79  E-value=0.0062  Score=41.69  Aligned_cols=20  Identities=20%  Similarity=0.325  Sum_probs=16.8

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |-|+|.+|+|||+||+.+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~   20 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAK   20 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999654

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=95.79  E-value=0.0064  Score=43.54  Aligned_cols=27  Identities=19%  Similarity=0.201  Sum_probs=18.0

Q ss_pred             EEEEcCCCccHHHHHHHHhccccccccCc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSSYMKHYFD   46 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~~v~~~F~   46 (156)
                      +=++|.+|+||||+|+.+..  .+...|.
T Consensus         2 vLleg~PG~GKT~la~~lA~--~~~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALAR--SLGLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHH--HTT--EE
T ss_pred             EeeECCCccHHHHHHHHHHH--HcCCcee
Confidence            34799999999999999988  5666664

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>PRK13946 shikimate kinase; Provisional

Probab=95.78  E-value=0.0084  Score=44.86  Aligned_cols=23  Identities=13%  Similarity=0.190  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+.|.++|+.|.||||+++.+.+
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~   32 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLAT   32 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999999987

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=95.78  E-value=0.014  Score=46.85  Aligned_cols=50  Identities=10%  Similarity=0.129  Sum_probs=34.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCce-EEEEEcCCCCC-HHHHHHHHH
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDY-LAWIPAPYHYD-PDQILDIVA   67 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~-~~wv~vs~~~~-~~~l~~~il   67 (156)
                      .-+.|.|-.|+|||||++.+++  .++.+|+. ++++-+++... ..++.+++.
T Consensus        70 Qr~~If~~~G~GKTtLa~~i~~--~i~~~~~~~~V~~~iGer~~Ev~e~~~~~~  121 (274)
T cd01133          70 GKIGLFGGAGVGKTVLIMELIN--NIAKAHGGYSVFAGVGERTREGNDLYHEMK  121 (274)
T ss_pred             CEEEEecCCCCChhHHHHHHHH--HHHhcCCCEEEEEEeccCcHHHHHHHHHHH
Confidence            4568899999999999999999  55555654 55555666543 445555543

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

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

Probab=95.78  E-value=0.0084  Score=45.29  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .-|.++|.+|+|||||+..+..+.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~   29 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDE   29 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCc
Confidence            467899999999999999998754

>cd04155 Arl3 Arl3 subfamily

Probab=95.77  E-value=0.016  Score=41.98  Aligned_cols=24  Identities=17%  Similarity=0.058  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...+.|+|..|+|||||...+.+.
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcC
Confidence            455899999999999999999884

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.

>PRK08084 DNA replication initiation factor; Provisional

Probab=95.76  E-value=0.019  Score=44.75  Aligned_cols=38  Identities=8%  Similarity=0.162  Sum_probs=26.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcC
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAP   54 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs   54 (156)
                      ...+-|+|..|+|||+|++.+++.  ....-....++.+.
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~--~~~~~~~v~y~~~~   82 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAE--LSQRGRAVGYVPLD   82 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEEHH
Confidence            457889999999999999998873  22222234555553

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.76  E-value=0.017  Score=47.56  Aligned_cols=26  Identities=15%  Similarity=0.130  Sum_probs=22.5

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....+|+|.|.+|+|||||+..+..
T Consensus        53 ~~~~~~igi~G~~GaGKSTl~~~l~~   78 (332)
T PRK09435         53 TGNALRIGITGVPGVGKSTFIEALGM   78 (332)
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999998655

>PRK13948 shikimate kinase; Provisional

Probab=95.75  E-value=0.01  Score=44.71  Aligned_cols=24  Identities=21%  Similarity=0.201  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+.|.++||.|+||||+++.+.+
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~   32 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSR   32 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            457788999999999999999977

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=95.74  E-value=0.012  Score=47.31  Aligned_cols=23  Identities=17%  Similarity=0.277  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++++|+|..|+|||||+.++..
T Consensus         1 M~~i~i~G~~gSGKTTLi~~Li~   23 (274)
T PRK14493          1 MKVLSIVGYKATGKTTLVERLVD   23 (274)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998876

>PRK05439 pantothenate kinase; Provisional

Probab=95.73  E-value=0.019  Score=46.98  Aligned_cols=26  Identities=12%  Similarity=0.101  Sum_probs=22.6

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....-+|+|.|.+|+||||+|+.+..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~  108 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQA  108 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45567999999999999999998765

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.72  E-value=0.011  Score=45.09  Aligned_cols=24  Identities=17%  Similarity=0.088  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+|-|.|.+|+||||+|+.+...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~   26 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARH   26 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            468899999999999999998873

>PRK14530 adenylate kinase; Provisional

Probab=95.70  E-value=0.0092  Score=45.66  Aligned_cols=21  Identities=14%  Similarity=0.191  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.|+|++|+||||+|+.+..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999866

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=95.70  E-value=0.018  Score=51.80  Aligned_cols=42  Identities=19%  Similarity=0.382  Sum_probs=32.2

Q ss_pred             HHHHHHHhc----CCCCcEEEEEEcCCCccHHHHHHHHhccccccccC
Q 035574            2 EELLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF   45 (156)
Q Consensus         2 ~~l~~~L~~----~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F   45 (156)
                      ++++++|.-    ++.+-.++..+|.+|||||++|+.+..  .....|
T Consensus       421 eRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~--ALnRkF  466 (906)
T KOG2004|consen  421 ERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIAR--ALNRKF  466 (906)
T ss_pred             HHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHH--HhCCce
Confidence            456666632    456678999999999999999999988  555554

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=95.69  E-value=0.017  Score=45.52  Aligned_cols=23  Identities=13%  Similarity=0.125  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        33 Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          33 GETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhc
Confidence            46889999999999999999854

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=95.68  E-value=0.017  Score=46.31  Aligned_cols=26  Identities=23%  Similarity=0.266  Sum_probs=21.8

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .....+-++|.+|+|||+||+.+.+.
T Consensus        28 ~~~~~~ll~Gp~G~GKT~la~~ia~~   53 (305)
T TIGR00635        28 EALDHLLLYGPPGLGKTTLAHIIANE   53 (305)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            33556789999999999999999883

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=95.67  E-value=0.012  Score=41.92  Aligned_cols=22  Identities=14%  Similarity=0.234  Sum_probs=19.3

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|.+|+|||||+..+.++.
T Consensus         3 i~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6899999999999999987653

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.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.67  E-value=0.009  Score=43.56  Aligned_cols=20  Identities=15%  Similarity=0.119  Sum_probs=16.8

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|.|..|+|||||++.+..
T Consensus         2 I~i~G~~stGKTTL~~~L~~   21 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAA   21 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999987

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=95.67  E-value=0.0086  Score=43.40  Aligned_cols=21  Identities=14%  Similarity=0.137  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++-|+|.+|.||||||+.+..
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~   21 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEE   21 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            467899999999999999877

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=95.67  E-value=0.0093  Score=47.27  Aligned_cols=22  Identities=27%  Similarity=0.283  Sum_probs=18.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|+|.|-||+||||++-.+..
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~   23 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVA   23 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHH
Confidence            6899999999999998776544

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=95.66  E-value=0.011  Score=43.00  Aligned_cols=21  Identities=19%  Similarity=0.202  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|.|.|..|.||||+|+.+.+
T Consensus         2 iI~i~G~~GSGKstia~~la~   22 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAE   22 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999976

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.65  E-value=0.008  Score=43.71  Aligned_cols=20  Identities=10%  Similarity=0.243  Sum_probs=17.9

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.++|..|.||||+|+.+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~   20 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAH   20 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999877

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.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=95.62  E-value=0.022  Score=44.85  Aligned_cols=21  Identities=29%  Similarity=0.284  Sum_probs=18.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|+|+|-||+||||+|..+..
T Consensus         2 kIaI~GKGG~GKTtiaalll~   22 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLK   22 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHH
Confidence            589999999999999888444

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.61  E-value=0.012  Score=43.69  Aligned_cols=23  Identities=9%  Similarity=0.190  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|.|+|+.|.|||||++.+..
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~   26 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQ   26 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHH
Confidence            34689999999999999999987

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=95.61  E-value=0.018  Score=44.20  Aligned_cols=26  Identities=4%  Similarity=0.023  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...+.+-++|..|+|||+||+.+++.
T Consensus        40 ~~~~~~~l~G~~G~GKT~La~ai~~~   65 (227)
T PRK08903         40 VADRFFYLWGEAGSGRSHLLQALVAD   65 (227)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            34467889999999999999999884

>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=95.60  E-value=0.012  Score=40.17  Aligned_cols=21  Identities=19%  Similarity=0.256  Sum_probs=19.4

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|+|+.|+|||||...+.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            689999999999999999974

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 ....

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=95.57  E-value=0.013  Score=46.19  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .++|+|.|-||+||||++.++...
T Consensus         2 ~~~iav~~KGGvGKTT~a~nLA~~   25 (264)
T PRK13231          2 MKKIAIYGKGGIGKSTTVSNMAAA   25 (264)
T ss_pred             ceEEEEECCCCCcHHHHHHHHhcc
Confidence            468999999999999999998773

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.57  E-value=0.043  Score=40.92  Aligned_cols=23  Identities=17%  Similarity=-0.002  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..|.|.|..|+||||+++.+.+.
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~   26 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKL   26 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            56899999999999999999873

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=95.57  E-value=0.019  Score=46.63  Aligned_cols=23  Identities=17%  Similarity=0.133  Sum_probs=18.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+++-+.|-||+||||+|....-
T Consensus         1 ~r~~~~~GKGGVGKTT~aaA~A~   23 (305)
T PF02374_consen    1 MRILFFGGKGGVGKTTVAAALAL   23 (305)
T ss_dssp             -SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEecCCCCCcHHHHHHHHH
Confidence            36788999999999999866543

...

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=95.56  E-value=0.011  Score=38.17  Aligned_cols=21  Identities=24%  Similarity=0.336  Sum_probs=18.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++.+.|.+|+||||++..+..
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~   21 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAA   21 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            467889999999999998877

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>cd04163 Era Era subfamily

Probab=95.55  E-value=0.016  Score=40.89  Aligned_cols=24  Identities=17%  Similarity=0.191  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+|.++|..|+|||||...+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999998664

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.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=95.53  E-value=0.012  Score=46.50  Aligned_cols=22  Identities=23%  Similarity=0.262  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|+|.|-||+||||++..+..
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~   24 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAA   24 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Confidence            6889999999999998876544

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=95.53  E-value=0.093  Score=42.69  Aligned_cols=58  Identities=10%  Similarity=0.071  Sum_probs=44.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcccccc-----ccCceEEEEEcCCCCCHHHHHHHHHHHhC
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMK-----HYFDYLAWIPAPYHYDPDQILDIVAVILL   71 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~-----~~F~~~~wv~vs~~~~~~~l~~~il~~l~   71 (156)
                      ....-+-|||-.+.|||+++++...+--..     ..+ .++.|.+....+...+...|+.+++
T Consensus        59 ~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~-PVv~vq~P~~p~~~~~Y~~IL~~lg  121 (302)
T PF05621_consen   59 HRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERI-PVVYVQMPPEPDERRFYSAILEALG  121 (302)
T ss_pred             cCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccc-cEEEEecCCCCChHHHHHHHHHHhC
Confidence            445678899999999999999987531111     111 4677788899999999999999996

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK06761 hypothetical protein; Provisional

Probab=95.52  E-value=0.031  Score=45.07  Aligned_cols=23  Identities=13%  Similarity=0.127  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+|.|.|.+|.||||+++.+++.
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~   26 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDI   26 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999984

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=95.51  E-value=0.015  Score=41.69  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.|+|-+|+|||||+..+.++
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999988764

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=95.51  E-value=0.016  Score=40.69  Aligned_cols=21  Identities=10%  Similarity=0.109  Sum_probs=19.3

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|+|..|+|||||.+.+.+.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999999875

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.50  E-value=0.019  Score=46.37  Aligned_cols=26  Identities=15%  Similarity=0.079  Sum_probs=22.6

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....++.|.|.+|+|||||+..+..
T Consensus        31 ~~~~~~i~i~G~~G~GKttl~~~l~~   56 (300)
T TIGR00750        31 TGNAHRVGITGTPGAGKSTLLEALGM   56 (300)
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999988765

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=95.49  E-value=0.022  Score=46.30  Aligned_cols=61  Identities=16%  Similarity=0.099  Sum_probs=37.9

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHH
Q 035574            3 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQIL   63 (156)
Q Consensus         3 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~   63 (156)
                      +++..|.....+..+|+|.|.+|+||+||...+-....-+.+==.++=|.-|.+++--.++
T Consensus        39 ~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiL   99 (323)
T COG1703          39 ELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSIL   99 (323)
T ss_pred             HHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccc
Confidence            4455555556677899999999999999988775522212221123334446666655544

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=95.49  E-value=0.011  Score=44.30  Aligned_cols=20  Identities=25%  Similarity=0.288  Sum_probs=17.9

Q ss_pred             EEEEEcCCCccHHHHHHHHh
Q 035574           17 VVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy   36 (156)
                      .|.|.|.+|+||||+++.+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            47899999999999999875

>cd01858 NGP_1 NGP-1

Probab=95.48  E-value=0.023  Score=41.18  Aligned_cols=25  Identities=8%  Similarity=0.070  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ...+.++|++|+|||||...+..+.
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~~  126 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKK  126 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcCC
Confidence            3457799999999999999998754

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.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=95.48  E-value=0.012  Score=46.13  Aligned_cols=20  Identities=20%  Similarity=0.370  Sum_probs=18.3

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.++|.+|+||||+|+.+..
T Consensus         2 Ivl~G~pGSGKST~a~~La~   21 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAK   21 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            67899999999999999876

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=95.47  E-value=0.057  Score=45.07  Aligned_cols=52  Identities=19%  Similarity=0.135  Sum_probs=42.0

Q ss_pred             EEEEcCCCccHHHHHHHHhccccccccCc-e-EEEEEcCCCCCHHHHHHHHHHHhC
Q 035574           18 VAILDSIGLDKTAFTAEAYNSSYMKHYFD-Y-LAWIPAPYHYDPDQILDIVAVILL   71 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~~v~~~F~-~-~~wv~vs~~~~~~~l~~~il~~l~   71 (156)
                      +-|+|..|.|||+.++.+.+  ++..... . .++|..-......+++..|++++.
T Consensus        45 ~~iyG~~GTGKT~~~~~v~~--~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~   98 (366)
T COG1474          45 IIIYGPTGTGKTATVKFVME--ELEESSANVEVVYINCLELRTPYQVLSKILNKLG   98 (366)
T ss_pred             EEEECCCCCCHhHHHHHHHH--HHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcC
Confidence            88899999999999999998  4443321 1 688888888888999999999874

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=95.47  E-value=0.046  Score=43.32  Aligned_cols=57  Identities=14%  Similarity=0.206  Sum_probs=40.0

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcccccccc---C-ceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHY---F-DYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~---F-~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      ..-.++-|+|.+|+|||.|+.+++-+..+...   . ...+|++-...|+.+.+. +|++..
T Consensus        36 ~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~   96 (256)
T PF08423_consen   36 PTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERF   96 (256)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHT
T ss_pred             CCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhcc
Confidence            34568899999999999999887653333322   1 248999988889988765 455543

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=95.46  E-value=0.015  Score=40.42  Aligned_cols=23  Identities=9%  Similarity=0.203  Sum_probs=20.3

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.++|..|+|||||+..+....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987765

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.

>PRK13695 putative NTPase; Provisional

Probab=95.46  E-value=0.017  Score=42.56  Aligned_cols=21  Identities=19%  Similarity=0.268  Sum_probs=19.0

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.|.|.+|+|||||++.+++.
T Consensus         3 i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          3 IGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            688999999999999998874

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=95.46  E-value=0.016  Score=42.83  Aligned_cols=22  Identities=18%  Similarity=0.249  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++.|+|..|+|||||+..+..
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~   23 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIP   23 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999887

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

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

Probab=95.45  E-value=0.016  Score=41.06  Aligned_cols=21  Identities=19%  Similarity=0.385  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||+..+.++
T Consensus         4 i~iiG~~~vGKTsl~~~~~~~   24 (162)
T cd04138           4 LVVVGAGGVGKSALTIQLIQN   24 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            688999999999999988764

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.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=95.44  E-value=0.016  Score=43.43  Aligned_cols=23  Identities=30%  Similarity=0.258  Sum_probs=20.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++.|+|.+|+||||+.+.+-.
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~   26 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALK   26 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHH
Confidence            68999999999999998877655

>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=95.44  E-value=0.015  Score=40.76  Aligned_cols=34  Identities=18%  Similarity=0.069  Sum_probs=25.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEE
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWI   51 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv   51 (156)
                      -.++.|+|..|.|||||.+.+...  ... ....+++
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~--~~~-~~G~i~~   44 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGL--LPP-DSGSILI   44 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTS--SHE-SEEEEEE
T ss_pred             CCEEEEEccCCCccccceeeeccc--ccc-ccccccc
Confidence            357899999999999999999883  222 3445554

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 ....

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.43  E-value=0.049  Score=44.52  Aligned_cols=57  Identities=16%  Similarity=0.246  Sum_probs=39.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccc---c-CceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKH---Y-FDYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~---~-F~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      ..-+++-|+|.+|+|||+|+.+++-......   . =...+||+....|+++++.+ +++.+
T Consensus        94 ~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~  154 (313)
T TIGR02238        94 ESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERF  154 (313)
T ss_pred             cCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHc
Confidence            4457888999999999999988654222221   1 13588999888888887654 34444

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>cd00154 Rab Rab family

Probab=95.39  E-value=0.016  Score=40.61  Aligned_cols=22  Identities=14%  Similarity=0.336  Sum_probs=19.4

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|.+|+|||||...+.+..
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            6789999999999999987753

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

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.38  E-value=0.014  Score=43.94  Aligned_cols=22  Identities=18%  Similarity=0.267  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .|-|.|.+|.||||+|+.+.+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3678999999999999999884

>cd00876 Ras Ras family

Probab=95.38  E-value=0.018  Score=40.74  Aligned_cols=21  Identities=29%  Similarity=0.400  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|+|..|+|||||...+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999988653

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

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=95.38  E-value=0.083  Score=42.45  Aligned_cols=66  Identities=15%  Similarity=0.123  Sum_probs=40.3

Q ss_pred             HHHHHhcCC-CCcEEEEEEcCCCccHHHHHHHHhcccccccc----C---ceEEEEEcCCCCCHHHHHHHHHHHhC
Q 035574            4 LLDLLIEGP-TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHY----F---DYLAWIPAPYHYDPDQILDIVAVILL   71 (156)
Q Consensus         4 l~~~L~~~~-~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~----F---~~~~wv~vs~~~~~~~l~~~il~~l~   71 (156)
                      +.+.|.+.+ ....+|+|.|.=|.||||+.+.+.+  +.+..    +   ..-+|-.-....-...++..+..++.
T Consensus         8 la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~--~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l~   81 (325)
T PF07693_consen    8 LAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKE--ELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQLE   81 (325)
T ss_pred             HHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHH--HHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHHH
Confidence            444444433 6788999999999999999999887  33333    1   11333332322234455566666553

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional

Probab=95.35  E-value=0.027  Score=46.81  Aligned_cols=24  Identities=17%  Similarity=0.092  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-+|+|+|..|.|||||+..+..
T Consensus         4 ~~~~i~i~G~~gsGKTTl~~~l~~   27 (369)
T PRK14490          4 HPFEIAFCGYSGSGKTTLITALVR   27 (369)
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHH
Confidence            356899999999999999999887

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=95.35  E-value=0.014  Score=42.80  Aligned_cols=22  Identities=14%  Similarity=0.129  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.|+|+.|.||||+++.+.+
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~   24 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQ   24 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3578899999999999999987

>cd01862 Rab7 Rab7 subfamily

Probab=95.35  E-value=0.016  Score=41.71  Aligned_cols=21  Identities=33%  Similarity=0.447  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|+|.+|+|||||+..+.++
T Consensus         3 i~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           3 VIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999988764

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-

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=95.33  E-value=0.091  Score=40.87  Aligned_cols=53  Identities=17%  Similarity=0.159  Sum_probs=36.1

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHH
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVA   67 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il   67 (156)
                      +-..-+++-|.|.+|.|||+||.++... ..+ .=+..+|++..+  +..++.+.+.
T Consensus        17 G~~~gs~~lI~G~pGsGKT~la~~~l~~-~~~-~ge~~lyvs~ee--~~~~i~~~~~   69 (237)
T TIGR03877        17 GIPERNVVLLSGGPGTGKSIFSQQFLWN-GLQ-MGEPGIYVALEE--HPVQVRRNMA   69 (237)
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHH-HHH-cCCcEEEEEeeC--CHHHHHHHHH
Confidence            4455688999999999999999886442 122 234577877654  5556666543

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.33  E-value=0.061  Score=44.56  Aligned_cols=57  Identities=14%  Similarity=0.197  Sum_probs=39.8

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcccccccc----CceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHY----FDYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~----F~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      ..-.++=|+|.+|+|||+|+.+++-.......    -...+||+-...|+++++.+ +++.+
T Consensus       124 ~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~  184 (344)
T PLN03187        124 ETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERF  184 (344)
T ss_pred             CCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHc
Confidence            44567779999999999999887542222211    13589999888889888654 34444

>PRK05973 replicative DNA helicase; Provisional

Probab=95.30  E-value=0.076  Score=41.76  Aligned_cols=53  Identities=17%  Similarity=0.088  Sum_probs=33.2

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHH
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVA   67 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il   67 (156)
                      +-..-.++-|.|.+|+|||+++.++..+- .+.. ...++++..+  +..++...+.
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~-a~~G-e~vlyfSlEe--s~~~i~~R~~  112 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEA-MKSG-RTGVFFTLEY--TEQDVRDRLR  112 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHH-HhcC-CeEEEEEEeC--CHHHHHHHHH
Confidence            33455788899999999999999875522 1222 2355555443  3555655543

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=95.30  E-value=0.015  Score=43.19  Aligned_cols=20  Identities=15%  Similarity=0.164  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |-|.|++|+||||+|+.+..
T Consensus         2 I~i~G~pGsGKst~a~~La~   21 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAK   21 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999977

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=95.28  E-value=0.18  Score=40.32  Aligned_cols=24  Identities=13%  Similarity=0.077  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...+-++|..|+||||+++.+.+.
T Consensus        38 ~~~~ll~G~~G~GKt~~~~~l~~~   61 (319)
T PRK00440         38 MPHLLFAGPPGTGKTTAALALARE   61 (319)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            345789999999999999999873

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=95.28  E-value=0.015  Score=43.13  Aligned_cols=23  Identities=13%  Similarity=0.226  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+++|+|..++|||||...+..
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~   24 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVR   24 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHH
Confidence            47899999999999999999866

>PRK08356 hypothetical protein; Provisional

Probab=95.28  E-value=0.022  Score=42.98  Aligned_cols=21  Identities=19%  Similarity=0.199  Sum_probs=19.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHH
Q 035574           15 LSVVAILDSIGLDKTAFTAEA   35 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~v   35 (156)
                      ..+|.|+|++|+||||+|+.+
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l   25 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFF   25 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHH
Confidence            357899999999999999999

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.27  E-value=0.16  Score=44.69  Aligned_cols=36  Identities=25%  Similarity=0.268  Sum_probs=27.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEE
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIP   52 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~   52 (156)
                      ..+..+-+.|.+|+|||+||..+..    .+.|+.+--++
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~----~S~FPFvKiiS  571 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIAL----SSDFPFVKIIS  571 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHh----hcCCCeEEEeC
Confidence            4456667789999999999999955    46788765554

>cd04113 Rab4 Rab4 subfamily

Probab=95.27  E-value=0.018  Score=41.24  Aligned_cols=22  Identities=18%  Similarity=0.244  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +.|+|.+|+|||||+..+.+..
T Consensus         3 i~v~G~~~vGKTsli~~l~~~~   24 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVENK   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999987643

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

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=95.26  E-value=0.025  Score=47.69  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=18.2

Q ss_pred             CcEEEEEEcCCCccHHH-HHHHH
Q 035574           14 QLSVVAILDSIGLDKTA-FTAEA   35 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTt-La~~v   35 (156)
                      .-+++.++|..|||||| ||+..
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLA  224 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLA  224 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHH
Confidence            37899999999999998 55543

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=95.25  E-value=0.017  Score=43.09  Aligned_cols=22  Identities=9%  Similarity=0.111  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++.|+|..|.|||||++.+..
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~   25 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAA   25 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999987

>PRK00698 tmk thymidylate kinase; Validated

Probab=95.25  E-value=0.019  Score=43.07  Aligned_cols=22  Identities=14%  Similarity=0.010  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.|.|..|+||||+++.+.+
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~   25 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKE   25 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999977

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=95.25  E-value=0.017  Score=45.50  Aligned_cols=21  Identities=14%  Similarity=0.270  Sum_probs=16.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|++.|-||+||||++..+..
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~   22 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSV   22 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHH
Confidence            478889999999997766543

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>smart00175 RAB Rab subfamily of small GTPases

Probab=95.24  E-value=0.019  Score=40.98  Aligned_cols=22  Identities=9%  Similarity=0.330  Sum_probs=19.4

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|.+|+|||||+..+.+..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999997643

Rab GTPases are implicated in vesicle trafficking.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.23  E-value=0.014  Score=43.51  Aligned_cols=21  Identities=29%  Similarity=0.264  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|+|-|.+|.||||+|+.+.+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe   22 (179)
T COG1102           2 VITISGLPGSGKTTVARELAE   22 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHH
Confidence            689999999999999999988

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=95.21  E-value=0.02  Score=45.19  Aligned_cols=24  Identities=17%  Similarity=0.047  Sum_probs=20.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...-+-++|.+|+||||+|+.++.
T Consensus        41 ~~~~vll~GppGtGKTtlA~~ia~   64 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVARILGK   64 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHH
Confidence            345567899999999999999866

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.21  E-value=0.023  Score=42.83  Aligned_cols=24  Identities=13%  Similarity=0.102  Sum_probs=21.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +..+|.|+|..|+|||||++.+..
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~   26 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLE   26 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHh
Confidence            457899999999999999999987

>cd04177 RSR1 RSR1 subgroup

Probab=95.20  E-value=0.021  Score=41.36  Aligned_cols=22  Identities=23%  Similarity=0.397  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|.+|+|||||++.+.++.
T Consensus         4 i~liG~~~~GKTsli~~~~~~~   25 (168)
T cd04177           4 IVVLGAGGVGKSALTVQFVQNV   25 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999876544

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

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=95.18  E-value=0.021  Score=45.80  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+++.++|..|+||||++..+..
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~  216 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAA  216 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999988876

>PRK13768 GTPase; Provisional

Probab=95.18  E-value=0.02  Score=45.16  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=19.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++.|.|.+|+||||++..+..
T Consensus         2 ~~~i~v~G~~G~GKTt~~~~~~~   24 (253)
T PRK13768          2 MYIVFFLGTAGSGKTTLTKALSD   24 (253)
T ss_pred             cEEEEEECCCCccHHHHHHHHHH
Confidence            35788999999999998877654

>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=95.18  E-value=0.017  Score=42.94  Aligned_cols=21  Identities=19%  Similarity=0.290  Sum_probs=17.6

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |-|.|.+|+|||||++.+.+.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~   22 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEE   22 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHH
Confidence            568899999999999998873

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.

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=95.18  E-value=0.02  Score=45.13  Aligned_cols=22  Identities=18%  Similarity=0.259  Sum_probs=18.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|+|.|-||+||||++..+..
T Consensus         3 ~iIav~~KGGVGKTT~~~nLA~   24 (270)
T PRK13185          3 LVLAVYGKGGIGKSTTSSNLSA   24 (270)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6888999999999997776544

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.18  E-value=0.046  Score=44.93  Aligned_cols=46  Identities=20%  Similarity=0.195  Sum_probs=30.8

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCH
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDP   59 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~   59 (156)
                      -+.-+++-|+|.+|+||||||.+++..  ....-...+|+...+.++.
T Consensus        52 lp~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~~   97 (325)
T cd00983          52 YPKGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALDP   97 (325)
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEECccccHHH
Confidence            345678889999999999999987652  2222234666665444443

RecA couples ATP hydrolysis to DNA strand exchange.

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

Probab=95.17  E-value=0.019  Score=40.93  Aligned_cols=22  Identities=23%  Similarity=0.137  Sum_probs=19.6

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|.+|+|||||...+.+..
T Consensus         2 i~iiG~~~~GKssli~~~~~~~   23 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGE   23 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            6899999999999999997753

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

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=95.16  E-value=0.02  Score=43.87  Aligned_cols=23  Identities=13%  Similarity=0.268  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|++.|+.|+||||.|+.+-+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            46899999999999999998754

>PRK14527 adenylate kinase; Provisional

Probab=95.16  E-value=0.021  Score=42.83  Aligned_cols=24  Identities=21%  Similarity=0.160  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|.|+|.+|.||||+|+.+.+
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~   28 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQ   28 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999875

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=95.15  E-value=0.021  Score=44.77  Aligned_cols=19  Identities=21%  Similarity=0.287  Sum_probs=16.5

Q ss_pred             EEcCCCccHHHHHHHHhcc
Q 035574           20 ILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        20 I~G~gGvGKTtLa~~vy~~   38 (156)
                      |+|++|+||||+++.+.+.
T Consensus         1 ViGpaGSGKTT~~~~~~~~   19 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEW   19 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHH
Confidence            6899999999999998873

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.15  E-value=0.066  Score=44.33  Aligned_cols=57  Identities=12%  Similarity=0.115  Sum_probs=40.0

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcccccccc---C-ceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHY---F-DYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~---F-~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      ....++-|.|.+|+|||+|+..++-.......   - ...+|+.....|+.+++. ++++.+
T Consensus       121 ~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~  181 (342)
T PLN03186        121 ETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERF  181 (342)
T ss_pred             cCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHc
Confidence            45678889999999999999887643222211   1 258999999888888764 444444

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=95.15  E-value=0.017  Score=46.74  Aligned_cols=32  Identities=22%  Similarity=0.210  Sum_probs=25.5

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccC
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF   45 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F   45 (156)
                      ...+.=+-++|.+|+||||||.-+.+  ++..++
T Consensus        49 ~e~lDHvLl~GPPGlGKTTLA~IIA~--Emgvn~   80 (332)
T COG2255          49 GEALDHVLLFGPPGLGKTTLAHIIAN--ELGVNL   80 (332)
T ss_pred             CCCcCeEEeeCCCCCcHHHHHHHHHH--HhcCCe
Confidence            44566788999999999999999999  444443

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=95.15  E-value=0.093  Score=42.29  Aligned_cols=50  Identities=14%  Similarity=0.106  Sum_probs=39.2

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHH
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQIL   63 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~   63 (156)
                      -+.-+++-|+|..|.||||+|-+++-.  .+..-...+|+.--+.+++..+.
T Consensus        57 l~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~  106 (279)
T COG0468          57 LPRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAK  106 (279)
T ss_pred             cccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHH
Confidence            355688999999999999999998763  33334478999988888887654

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=95.14  E-value=0.15  Score=46.48  Aligned_cols=23  Identities=13%  Similarity=0.088  Sum_probs=18.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-++|..|+||||+|+.+.+
T Consensus        38 ~HAyLFtGPpGvGKTTlAriLAK   60 (830)
T PRK07003         38 HHAYLFTGTRGVGKTTLSRIFAK   60 (830)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34555999999999999886654

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=95.14  E-value=0.016  Score=43.31  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +|.|.|+.|+||||+++.+.+.
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~   22 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEH   22 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999873

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>cd04136 Rap_like Rap-like subfamily

Probab=95.14  E-value=0.023  Score=40.49  Aligned_cols=22  Identities=32%  Similarity=0.400  Sum_probs=18.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.|+|.+|+|||||+..+..+
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~   24 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQG   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999998887653

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.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.13  E-value=0.045  Score=44.30  Aligned_cols=26  Identities=23%  Similarity=0.280  Sum_probs=23.5

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+..++.|.|.+|.|||||...+.+
T Consensus       101 ~~~~~~v~l~G~pGsGKTTLl~~l~~  126 (290)
T PRK10463        101 ARKQLVLNLVSSPGSGKTTLLTETLM  126 (290)
T ss_pred             hcCCeEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999999999887

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=95.12  E-value=0.018  Score=48.57  Aligned_cols=25  Identities=24%  Similarity=0.207  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.+.|.|+|..|.|||||++.+..
T Consensus       217 ~~~~~IvI~G~~gsGKTTL~~~La~  241 (399)
T PRK08099        217 FFVRTVAILGGESSGKSTLVNKLAN  241 (399)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3468899999999999999999877

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=95.12  E-value=0.02  Score=40.18  Aligned_cols=23  Identities=22%  Similarity=0.339  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.++|.+|+|||||...+.++.
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~   24 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEE   24 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCc
Confidence            37899999999999999987653

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.

>smart00072 GuKc Guanylate kinase homologues

Probab=95.12  E-value=0.029  Score=41.90  Aligned_cols=24  Identities=17%  Similarity=0.214  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+.+.++|..|+||+||+..+...
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~   25 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQE   25 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhc
Confidence            467899999999999999999883

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.

>PLN02200 adenylate kinase family protein

Probab=95.11  E-value=0.024  Score=44.35  Aligned_cols=24  Identities=13%  Similarity=0.073  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|.|.|++|+||||+|+.+..
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999998876

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=95.11  E-value=0.02  Score=45.13  Aligned_cols=21  Identities=19%  Similarity=0.275  Sum_probs=17.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|+|.|-||+||||++..+..
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA~   22 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLSV   22 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHHH
Confidence            588889999999997776544

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>PRK08727 hypothetical protein; Validated

Probab=95.11  E-value=0.024  Score=44.14  Aligned_cols=39  Identities=13%  Similarity=0.087  Sum_probs=27.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCC
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPY   55 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~   55 (156)
                      ...+-++|..|+|||.|++.+++.  ...+.....|+++.+
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~~--~~~~~~~~~y~~~~~   79 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCAA--AEQAGRSSAYLPLQA   79 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEeHHH
Confidence            356999999999999999999873  333333456666543

>PRK06620 hypothetical protein; Validated

Probab=95.11  E-value=0.02  Score=44.18  Aligned_cols=23  Identities=22%  Similarity=-0.025  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.+-|||..|+|||+|++.+.+.
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~   67 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNL   67 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhc
Confidence            66899999999999999998774

>cd00879 Sar1 Sar1 subfamily

Probab=95.10  E-value=0.043  Score=40.48  Aligned_cols=24  Identities=13%  Similarity=0.011  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...|.|+|.+|+|||||+..+..+
T Consensus        19 ~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            455699999999999999998763

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.

>PRK09087 hypothetical protein; Validated

Probab=95.07  E-value=0.038  Score=42.93  Aligned_cols=24  Identities=21%  Similarity=0.231  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -..+.|||..|+|||+|++..+.+
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~   67 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREK   67 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh
Confidence            356899999999999999998863

>PRK14532 adenylate kinase; Provisional

Probab=95.07  E-value=0.019  Score=42.70  Aligned_cols=20  Identities=5%  Similarity=0.042  Sum_probs=18.2

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |-+.|++|+||||+|+.+..
T Consensus         3 i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999976

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=95.07  E-value=0.022  Score=47.13  Aligned_cols=23  Identities=17%  Similarity=0.127  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+-++|.+|+|||+||+.+++
T Consensus       156 p~gvLL~GppGtGKT~lakaia~  178 (364)
T TIGR01242       156 PKGVLLYGPPGTGKTLLAKAVAH  178 (364)
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            44578999999999999999988

Many proteins may score above the trusted cutoff because an internal

>cd01878 HflX HflX subfamily

Probab=95.07  E-value=0.031  Score=41.90  Aligned_cols=27  Identities=11%  Similarity=0.183  Sum_probs=22.9

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .+...|.|+|.+|+|||||...+.++.
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            445788999999999999999888753

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.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=95.07  E-value=0.024  Score=42.41  Aligned_cols=23  Identities=17%  Similarity=0.135  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -..+.|+|..|.|||||++.+..
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~   47 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLA   47 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46789999999999999998875

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.

>PRK01184 hypothetical protein; Provisional

Probab=95.06  E-value=0.019  Score=42.61  Aligned_cols=19  Identities=16%  Similarity=0.351  Sum_probs=16.9

Q ss_pred             EEEEEEcCCCccHHHHHHH
Q 035574           16 SVVAILDSIGLDKTAFTAE   34 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~   34 (156)
                      .+|.++|.+|.||||+++.
T Consensus         2 ~~i~l~G~~GsGKsT~a~~   20 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSKI   20 (184)
T ss_pred             cEEEEECCCCCCHHHHHHH
Confidence            4789999999999999873

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=95.06  E-value=0.033  Score=44.96  Aligned_cols=22  Identities=18%  Similarity=0.080  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+-++|..|+||||+|+.+.+
T Consensus        37 ~~lll~Gp~GtGKT~la~~~~~   58 (337)
T PRK12402         37 PHLLVQGPPGSGKTAAVRALAR   58 (337)
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3567999999999999998876

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.06  E-value=0.084  Score=45.10  Aligned_cols=24  Identities=17%  Similarity=0.173  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++-++|.+|+||||.+..+..
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~  117 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLAR  117 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            468999999999999999988876

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=95.04  E-value=0.021  Score=42.82  Aligned_cols=21  Identities=10%  Similarity=0.222  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -|.++||.|.||||+.+.+..
T Consensus         4 ~IvLiG~mGaGKSTIGr~LAk   24 (172)
T COG0703           4 NIVLIGFMGAGKSTIGRALAK   24 (172)
T ss_pred             cEEEEcCCCCCHhHHHHHHHH
Confidence            477899999999999999976

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=95.04  E-value=0.023  Score=45.42  Aligned_cols=22  Identities=14%  Similarity=0.231  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|-+.|.+|+||||+|+.+..
T Consensus         3 ~liil~G~pGSGKSTla~~L~~   24 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAA   24 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            5678899999999999999876

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=95.03  E-value=0.033  Score=50.40  Aligned_cols=30  Identities=17%  Similarity=0.259  Sum_probs=23.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccccccC
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF   45 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F   45 (156)
                      ....+-++|.+|+||||||+.+++  .....|
T Consensus        51 ~~~slLL~GPpGtGKTTLA~aIA~--~~~~~f   80 (725)
T PRK13341         51 RVGSLILYGPPGVGKTTLARIIAN--HTRAHF   80 (725)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH--HhcCcc
Confidence            344567899999999999999998  444444

>PLN02348 phosphoribulokinase

Probab=95.03  E-value=0.034  Score=46.83  Aligned_cols=26  Identities=15%  Similarity=0.226  Sum_probs=23.2

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....+|+|.|-+|.||||+|+.+.+
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~   71 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTS   71 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999999877

>cd04124 RabL2 RabL2 subfamily

Probab=95.02  E-value=0.023  Score=41.02  Aligned_cols=21  Identities=10%  Similarity=0.208  Sum_probs=18.1

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||+..+.++
T Consensus         3 i~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999887653

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

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=95.01  E-value=0.021  Score=46.21  Aligned_cols=22  Identities=23%  Similarity=0.229  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|+|.|-||+||||+|..+..
T Consensus         1 ~vIav~gKGGvGKTT~a~nLA~   22 (296)
T TIGR02016         1 RIIAIYGKGGSGKSFTTTNLSH   22 (296)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999998776654

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.01  E-value=0.022  Score=44.39  Aligned_cols=25  Identities=20%  Similarity=0.167  Sum_probs=21.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-.|+.|+|..|.|||||.+.+..=
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~L   51 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGL   51 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4578999999999999999998663

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=95.01  E-value=0.019  Score=42.79  Aligned_cols=21  Identities=14%  Similarity=0.283  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|+|.|+.|.||||+++.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999865

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=95.01  E-value=0.023  Score=43.25  Aligned_cols=24  Identities=21%  Similarity=0.098  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+..-
T Consensus        30 G~~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          30 GEFVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            468899999999999999999773

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=94.99  E-value=0.024  Score=42.97  Aligned_cols=25  Identities=16%  Similarity=0.082  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-.+++|+|..|.|||||++.++.-
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G~   50 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNGL   50 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            3468899999999999999999873

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=94.97  E-value=0.022  Score=40.30  Aligned_cols=19  Identities=11%  Similarity=0.169  Sum_probs=18.0

Q ss_pred             EEEEcCCCccHHHHHHHHh
Q 035574           18 VAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy   36 (156)
                      |.++|..|+|||||...+.
T Consensus         2 i~l~G~~g~GKTtL~~~l~   20 (170)
T cd01876           2 IAFAGRSNVGKSSLINALT   20 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHh
Confidence            6899999999999999998

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.

>PRK13234 nifH nitrogenase reductase; Reviewed

Probab=94.96  E-value=0.026  Score=45.51  Aligned_cols=24  Identities=17%  Similarity=0.295  Sum_probs=19.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++|+|.|-||+||||.+..+..
T Consensus         3 ~~~~iai~~KGGvGKTt~~~nLa~   26 (295)
T PRK13234          3 KLRQIAFYGKGGIGKSTTSQNTLA   26 (295)
T ss_pred             cceEEEEECCCCccHHHHHHHHHH
Confidence            468999999999999997776543

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=94.96  E-value=0.08  Score=43.26  Aligned_cols=51  Identities=12%  Similarity=0.110  Sum_probs=36.1

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccC----ceEEEEEcCCCCCHHHH
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF----DYLAWIPAPYHYDPDQI   62 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F----~~~~wv~vs~~~~~~~l   62 (156)
                      -....++-|+|.+|.|||+|+..++.........    ...+|+.-...++...+
T Consensus        93 i~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl  147 (316)
T TIGR02239        93 IETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL  147 (316)
T ss_pred             CCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH
Confidence            3557888999999999999999886522221111    24688888777777764

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>PRK07952 DNA replication protein DnaC; Validated

Probab=94.95  E-value=0.041  Score=43.43  Aligned_cols=37  Identities=14%  Similarity=0.075  Sum_probs=26.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPA   53 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~v   53 (156)
                      ...+-++|.+|+|||+||..+.+.  ....-...+++++
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~--l~~~g~~v~~it~  135 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNE--LLLRGKSVLIITV  135 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEEH
Confidence            356789999999999999999883  3322234555544

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=94.95  E-value=0.09  Score=40.59  Aligned_cols=25  Identities=20%  Similarity=0.247  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....+-|+|..|+|||.|.+.+++
T Consensus        32 ~~~~~l~l~G~~G~GKTHLL~Ai~~   56 (219)
T PF00308_consen   32 ERYNPLFLYGPSGLGKTHLLQAIAN   56 (219)
T ss_dssp             TSSSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHH
Confidence            3456788999999999999999999

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>cd04123 Rab21 Rab21 subfamily

Probab=94.95  E-value=0.025  Score=40.04  Aligned_cols=21  Identities=19%  Similarity=0.216  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|+|.+|+|||||...+.++
T Consensus         3 i~i~G~~~~GKStli~~l~~~   23 (162)
T cd04123           3 VVLLGEGRVGKTSLVLRYVEN   23 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999888764

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

>PRK08116 hypothetical protein; Validated

Probab=94.94  E-value=0.038  Score=44.06  Aligned_cols=36  Identities=17%  Similarity=0.050  Sum_probs=26.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPA   53 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~v   53 (156)
                      .-+-++|..|+|||.||..+++  ....+-...+++++
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~--~l~~~~~~v~~~~~  150 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIAN--ELIEKGVPVIFVNF  150 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEEH
Confidence            3578999999999999999999  44333233566653

>cd01898 Obg Obg subfamily

Probab=94.94  E-value=0.023  Score=40.85  Aligned_cols=21  Identities=14%  Similarity=0.200  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |+|+|..|+|||||.+.+.+.
T Consensus         3 v~ivG~~~~GKStl~~~l~~~   23 (170)
T cd01898           3 VGLVGLPNAGKSTLLSAISNA   23 (170)
T ss_pred             eEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999998753

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.

>PRK12377 putative replication protein; Provisional

Probab=94.93  E-value=0.028  Score=44.46  Aligned_cols=38  Identities=13%  Similarity=0.044  Sum_probs=28.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcC
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAP   54 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs   54 (156)
                      ...+-++|.+|+|||.||..+.+  ..........++++.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~--~l~~~g~~v~~i~~~  138 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGN--RLLAKGRSVIVVTVP  138 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHHcCCCeEEEEHH
Confidence            45788999999999999999998  444333335666553

>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=94.93  E-value=0.028  Score=38.88  Aligned_cols=22  Identities=27%  Similarity=0.238  Sum_probs=19.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHh
Q 035574           15 LSVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      -..+.|.|..|.|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4678999999999999999975

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

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=94.92  E-value=0.11  Score=40.05  Aligned_cols=51  Identities=16%  Similarity=0.108  Sum_probs=33.3

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHH
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDI   65 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~   65 (156)
                      +-..-+++-|.|.+|+|||+|+.++... ..+. =...+|++..+.  ..++.+.
T Consensus        21 G~~~g~~~~i~G~~GsGKt~l~~~~~~~-~~~~-g~~~~y~~~e~~--~~~~~~~   71 (234)
T PRK06067         21 GIPFPSLILIEGDHGTGKSVLSQQFVYG-ALKQ-GKKVYVITTENT--SKSYLKQ   71 (234)
T ss_pred             CCcCCcEEEEECCCCCChHHHHHHHHHH-HHhC-CCEEEEEEcCCC--HHHHHHH
Confidence            3455688899999999999999998432 1222 134677776543  3444444

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=94.92  E-value=0.086  Score=41.01  Aligned_cols=50  Identities=6%  Similarity=0.138  Sum_probs=30.9

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIV   66 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~i   66 (156)
                      ..-.++.|.|..|.|||||+.++... -.+.. ...++++  ...+..++++.+
T Consensus        22 ~~g~~~~i~G~~G~GKTtl~~~~~~~-~~~~g-~~~~yi~--~e~~~~~~~~~~   71 (230)
T PRK08533         22 PAGSLILIEGDESTGKSILSQRLAYG-FLQNG-YSVSYVS--TQLTTTEFIKQM   71 (230)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH-HHhCC-CcEEEEe--CCCCHHHHHHHH
Confidence            44568999999999999998655442 11222 2345555  333445665555

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=94.91  E-value=0.027  Score=41.36  Aligned_cols=21  Identities=24%  Similarity=0.262  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++.++|.+|.||||++..+..
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~   22 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLAL   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            678899999999999888776

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>cd01864 Rab19 Rab19 subfamily

Probab=94.91  E-value=0.039  Score=39.70  Aligned_cols=24  Identities=13%  Similarity=0.167  Sum_probs=20.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..-+.|+|.+|+|||||+..+..+
T Consensus         3 ~~kv~vvG~~~~GKTsli~~l~~~   26 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKSG   26 (165)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhhC
Confidence            356789999999999999988653

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.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=94.90  E-value=0.026  Score=43.00  Aligned_cols=23  Identities=17%  Similarity=0.206  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~G   51 (216)
T TIGR00960        29 GEMVFLVGHSGAGKSTFLKLILG   51 (216)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46889999999999999999987

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=94.89  E-value=0.032  Score=41.94  Aligned_cols=52  Identities=17%  Similarity=0.090  Sum_probs=29.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhcccc-----ccccCceEEEEEcCCCCCHHHHHHHHHH
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSSY-----MKHYFDYLAWIPAPYHYDPDQILDIVAV   68 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~~-----v~~~F~~~~wv~vs~~~~~~~l~~~il~   68 (156)
                      +..|+|.+|.||||++..+.....     ....-+..+-++...+..++.++..+.+
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            678899999999986555544210     1123344555555666666666666655

>cd03114 ArgK-like The function of this protein family is unkown

Probab=94.89  E-value=0.022  Score=41.33  Aligned_cols=21  Identities=19%  Similarity=0.267  Sum_probs=18.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++.+.|.+|+||||++..+..
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~   21 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALIT   21 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999988766

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=94.88  E-value=0.032  Score=41.48  Aligned_cols=24  Identities=13%  Similarity=0.069  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.+.|.+|.||||+|+.+..
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~   40 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEK   40 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999887

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=94.88  E-value=0.14  Score=39.52  Aligned_cols=56  Identities=16%  Similarity=0.163  Sum_probs=36.0

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHH
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVI   69 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~   69 (156)
                      +-..-.++.|.|.+|.|||+++.++..+.-.... ...+|++...  +..++...++..
T Consensus         9 Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g-~~vly~s~E~--~~~~~~~r~~~~   64 (242)
T cd00984           9 GLQPGDLIIIAARPSMGKTAFALNIAENIAKKQG-KPVLFFSLEM--SKEQLLQRLLAS   64 (242)
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCC-CceEEEeCCC--CHHHHHHHHHHH
Confidence            4344578899999999999999987663222212 2366665444  555666666544

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK04195 replication factor C large subunit; Provisional

Probab=94.87  E-value=0.031  Score=48.04  Aligned_cols=36  Identities=14%  Similarity=0.191  Sum_probs=26.6

Q ss_pred             HHHHHHhc--CCCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574            3 ELLDLLIE--GPTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus         3 ~l~~~L~~--~~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+.+|+..  .....+.+-|+|.+|+||||+|+.++++
T Consensus        25 ~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~e   62 (482)
T PRK04195         25 QLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALAND   62 (482)
T ss_pred             HHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            45555533  1222678889999999999999999883

>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=94.87  E-value=0.03  Score=42.63  Aligned_cols=25  Identities=16%  Similarity=0.201  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .. .+++|+|..|.|||||++.+..-
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G~   46 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAGL   46 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhCC
Confidence            35 78999999999999999999773

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.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=94.86  E-value=0.038  Score=41.95  Aligned_cols=25  Identities=8%  Similarity=0.189  Sum_probs=21.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -..+.|.|..|+||+||++.++++.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            3578899999999999999999954

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

Probab=94.85  E-value=0.03  Score=40.93  Aligned_cols=23  Identities=22%  Similarity=0.333  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +-|.++|.+|+|||||+..+.+.
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~   24 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEG   24 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            34779999999999999988753

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

>cd04171 SelB SelB subfamily

Probab=94.85  E-value=0.028  Score=39.97  Aligned_cols=21  Identities=14%  Similarity=0.188  Sum_probs=19.3

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|+|+|-.|+|||||...+.+
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~   22 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTG   22 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhC
Confidence            689999999999999999874

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

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=94.83  E-value=0.42  Score=35.52  Aligned_cols=23  Identities=9%  Similarity=0.049  Sum_probs=19.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-++|..|+||||+|+.+..
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~   36 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAK   36 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36678899999999999987755

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>TIGR02012 tigrfam_recA protein RecA

Probab=94.82  E-value=0.078  Score=43.54  Aligned_cols=44  Identities=16%  Similarity=0.078  Sum_probs=28.9

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCC
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHY   57 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~   57 (156)
                      -+.-+++-|.|.+|+||||||.++...  ....=...+|+...+.+
T Consensus        52 lp~G~iteI~G~~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~~~   95 (321)
T TIGR02012        52 LPRGRIIEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHAL   95 (321)
T ss_pred             CcCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEcccchh
Confidence            355678999999999999999887652  22222335566544433

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>cd00157 Rho Rho (Ras homology) family

Probab=94.82  E-value=0.028  Score=40.39  Aligned_cols=22  Identities=9%  Similarity=0.151  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|.+|+|||||...+.+..
T Consensus         3 i~i~G~~~~GKSsli~~l~~~~   24 (171)
T cd00157           3 IVVVGDGAVGKTCLLISYTTGK   24 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5699999999999999987653

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

>cd01131 PilT Pilus retraction ATPase PilT

Probab=94.82  E-value=0.043  Score=41.62  Aligned_cols=22  Identities=18%  Similarity=0.240  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+.|+|..|.||||++..+..
T Consensus         2 GlilI~GptGSGKTTll~~ll~   23 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMID   23 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3678999999999999887654

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.82  E-value=0.032  Score=45.68  Aligned_cols=24  Identities=17%  Similarity=0.202  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.++|.+|+||||++..+..
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~  136 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAH  136 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            468999999999999999888766

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=94.81  E-value=0.038  Score=40.69  Aligned_cols=44  Identities=11%  Similarity=0.200  Sum_probs=27.8

Q ss_pred             EEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHH
Q 035574           18 VAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDI   65 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~   65 (156)
                      +-|.|.+|.|||+|+.++....- +.. ...+|++..+  +..++.+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~-~~g-~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL-ARG-EPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH-HCC-CcEEEEECCC--CHHHHHHH
Confidence            56889999999999998755321 221 3366776543  34454444

A related protein is found in archaea.

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

Probab=94.81  E-value=0.034  Score=39.74  Aligned_cols=22  Identities=18%  Similarity=0.398  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|.+|+|||||+..+.+..
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~   23 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE   23 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            6789999999999999887753

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 ....

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=94.81  E-value=0.086  Score=44.22  Aligned_cols=36  Identities=17%  Similarity=0.196  Sum_probs=26.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCc--eEEEEE
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFD--YLAWIP   52 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~--~~~wv~   52 (156)
                      ...+-|+|..|+|||+|++.+++  .+.....  ..++++
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~--~l~~~~~~~~v~yi~  173 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGN--EILENNPNAKVVYVS  173 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH--HHHHhCCCCcEEEEE
Confidence            45688999999999999999998  4433322  245554

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>cd01860 Rab5_related Rab5-related subfamily

Probab=94.81  E-value=0.029  Score=40.05  Aligned_cols=23  Identities=9%  Similarity=0.199  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKNE   25 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36899999999999999887754

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

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

Probab=94.79  E-value=0.053  Score=40.21  Aligned_cols=24  Identities=17%  Similarity=0.046  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...|.++|.+|+|||||...+..+
T Consensus        17 ~~~i~ivG~~~~GKTsli~~l~~~   40 (184)
T smart00178       17 HAKILFLGLDNAGKTTLLHMLKND   40 (184)
T ss_pred             cCEEEEECCCCCCHHHHHHHHhcC
Confidence            356789999999999999998764

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=94.78  E-value=0.027  Score=40.49  Aligned_cols=20  Identities=30%  Similarity=0.245  Sum_probs=17.5

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.++|..|+|||||...+..
T Consensus         2 i~~vG~~~~GKstLi~~l~~   21 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKT   21 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhh
Confidence            67899999999999998754

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.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=94.75  E-value=0.03  Score=41.79  Aligned_cols=23  Identities=22%  Similarity=0.250  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        18 Ge~~~i~G~nGsGKSTLl~~i~G   40 (190)
T TIGR01166        18 GEVLALLGANGAGKSTLLLHLNG   40 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45889999999999999999987

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.

>cd04140 ARHI_like ARHI subfamily

Probab=94.74  E-value=0.03  Score=40.43  Aligned_cols=22  Identities=14%  Similarity=0.253  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .|.++|.+|+|||||...+.++
T Consensus         3 kv~~vG~~~vGKTsli~~~~~~   24 (165)
T cd04140           3 RVVVFGAGGVGKSSLVLRFVKG   24 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3689999999999999888654

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

>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=94.74  E-value=0.031  Score=41.40  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G   48 (178)
T cd03229          26 GEIVALLGPSGSGKSTLLRCIAG   48 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46889999999999999999875

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=94.74  E-value=0.031  Score=40.24  Aligned_cols=22  Identities=9%  Similarity=0.231  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -+.|+|.+|+|||||...+.++
T Consensus         4 ki~i~G~~~vGKSsli~~~~~~   25 (166)
T cd01869           4 KLLLIGDSGVGKSCLLLRFADD   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4788999999999999998764

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

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

Probab=94.73  E-value=0.03  Score=40.22  Aligned_cols=22  Identities=9%  Similarity=0.148  Sum_probs=19.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .|.++|..|+|||||+..+.+.
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~   23 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRA   23 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Confidence            5789999999999999998775

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.

>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=94.73  E-value=0.03  Score=43.24  Aligned_cols=24  Identities=17%  Similarity=0.171  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (235)
T cd03261          26 GEILAIIGPSGSGKSTLLRLIVGL   49 (235)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458899999999999999998763

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.

>PLN02796 D-glycerate 3-kinase

Probab=94.72  E-value=0.034  Score=46.09  Aligned_cols=24  Identities=21%  Similarity=0.141  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-+|+|.|..|.|||||++.+..
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~  122 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVY  122 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHH
Confidence            456899999999999999999877

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=94.71  E-value=0.03  Score=42.67  Aligned_cols=24  Identities=17%  Similarity=0.097  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.++.-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (220)
T cd03263          28 GEIFGLLGHNGAGKTTTLKMLTGE   51 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999873

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.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=94.69  E-value=0.031  Score=42.34  Aligned_cols=24  Identities=17%  Similarity=0.116  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+...
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          26 GEIFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999999874

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.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=94.68  E-value=0.032  Score=42.38  Aligned_cols=23  Identities=22%  Similarity=0.173  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G   48 (213)
T cd03259          26 GEFLALLGPSGCGKTTLLRLIAG   48 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            46789999999999999999876

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.

>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=94.67  E-value=0.031  Score=42.69  Aligned_cols=24  Identities=17%  Similarity=0.116  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+..-
T Consensus        30 G~~~~i~G~nGsGKSTLl~~l~Gl   53 (220)
T cd03293          30 GEFVALVGPSGCGKSTLLRIIAGL   53 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            367899999999999999999774

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.

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=94.67  E-value=0.11  Score=43.72  Aligned_cols=51  Identities=16%  Similarity=0.147  Sum_probs=43.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHHhC
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILL   71 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~   71 (156)
                      ..+-|.|-.|.|||.+.+.+++..  .   -..+|+++-+.+....++..|+.++.
T Consensus        31 S~~~iyG~sgTGKT~~~r~~l~~~--n---~~~vw~n~~ecft~~~lle~IL~~~~   81 (438)
T KOG2543|consen   31 SIVHIYGHSGTGKTYLVRQLLRKL--N---LENVWLNCVECFTYAILLEKILNKSQ   81 (438)
T ss_pred             eeEEEeccCCCchhHHHHHHHhhc--C---CcceeeehHHhccHHHHHHHHHHHhc
Confidence            445788999999999999999944  1   23699999999999999999999883

>PRK14531 adenylate kinase; Provisional

Probab=94.66  E-value=0.032  Score=41.63  Aligned_cols=21  Identities=19%  Similarity=0.137  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|-|+|.+|.||||+++.+..
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~   24 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCA   24 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478899999999999999876

>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=94.65  E-value=0.033  Score=42.73  Aligned_cols=23  Identities=13%  Similarity=0.163  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G   48 (227)
T cd03260          26 GEITALIGPSGCGKSTLLRLLNR   48 (227)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46889999999999999999877

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).

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=94.65  E-value=0.033  Score=44.08  Aligned_cols=41  Identities=10%  Similarity=0.048  Sum_probs=28.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCC
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPY   55 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~   55 (156)
                      ..-+++-|.|.+|.|||+++.++...- .+ +=+..++++..+
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~~~-a~-~Ge~vlyis~Ee   74 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAVTQ-AS-RGNPVLFVTVES   74 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHHHH-Hh-CCCcEEEEEecC
Confidence            446788999999999999999874421 11 113466776653

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=94.64  E-value=0.2  Score=38.40  Aligned_cols=51  Identities=18%  Similarity=0.174  Sum_probs=33.4

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHH
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDI   65 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~   65 (156)
                      +-..-..+.|.|.+|.|||||+.++..+- .+ .-+..+|++...  +.+++.+.
T Consensus        16 Gi~~G~~~~i~G~~G~GKT~l~~~~~~~~-~~-~g~~~~~is~e~--~~~~i~~~   66 (229)
T TIGR03881        16 GIPRGFFVAVTGEPGTGKTIFCLHFAYKG-LR-DGDPVIYVTTEE--SRESIIRQ   66 (229)
T ss_pred             CCcCCeEEEEECCCCCChHHHHHHHHHHH-Hh-cCCeEEEEEccC--CHHHHHHH
Confidence            33456889999999999999999865421 12 234577887644  34455433

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=94.64  E-value=0.033  Score=42.27  Aligned_cols=23  Identities=17%  Similarity=0.174  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        28 G~~~~l~G~nGsGKSTLl~~i~G   50 (214)
T TIGR02673        28 GEFLFLTGPSGAGKTTLLKLLYG   50 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45889999999999999999977

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.63  E-value=0.034  Score=47.18  Aligned_cols=24  Identities=21%  Similarity=0.322  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++|.++|.+|+||||++..+..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~  263 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAW  263 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHH
Confidence            357999999999999999888865

>PLN03025 replication factor C subunit; Provisional

Probab=94.63  E-value=0.047  Score=44.38  Aligned_cols=21  Identities=14%  Similarity=0.039  Sum_probs=18.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -+-++|.+|+||||+|+.+.+
T Consensus        36 ~lll~Gp~G~GKTtla~~la~   56 (319)
T PLN03025         36 NLILSGPPGTGKTTSILALAH   56 (319)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999998877

>PTZ00088 adenylate kinase 1; Provisional

Probab=94.63  E-value=0.029  Score=43.83  Aligned_cols=20  Identities=15%  Similarity=0.341  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|.|++|+||||+|+.+.+
T Consensus         9 Ivl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78899999999999999876

>PRK05642 DNA replication initiation factor; Validated

Probab=94.63  E-value=0.042  Score=42.82  Aligned_cols=38  Identities=11%  Similarity=0.170  Sum_probs=26.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcC
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAP   54 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs   54 (156)
                      .+.+-|+|..|+|||.|++.+++  .....-...+|++..
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~--~~~~~~~~v~y~~~~   82 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACL--RFEQRGEPAVYLPLA   82 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHhCCCcEEEeeHH
Confidence            36789999999999999999877  322221235666553

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=94.61  E-value=0.033  Score=43.11  Aligned_cols=23  Identities=22%  Similarity=0.193  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        28 Ge~~~l~G~nGsGKSTLl~~l~G   50 (243)
T TIGR02315        28 GEFVAIIGPSGAGKSTLLRCINR   50 (243)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            36899999999999999999876

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.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=94.61  E-value=0.033  Score=42.99  Aligned_cols=23  Identities=17%  Similarity=0.172  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G   49 (241)
T cd03256          27 GEFVALIGPSGAGKSTLLRCLNG   49 (241)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45889999999999999999876

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.

>cd00880 Era_like Era (E

Probab=94.61  E-value=0.02  Score=39.75  Aligned_cols=19  Identities=5%  Similarity=0.160  Sum_probs=17.0

Q ss_pred             EEcCCCccHHHHHHHHhcc
Q 035574           20 ILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        20 I~G~gGvGKTtLa~~vy~~   38 (156)
                      |+|..|+|||||++.++..
T Consensus         1 i~G~~gsGKstl~~~l~~~   19 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQ   19 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCc
Confidence            5799999999999998874

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=94.60  E-value=0.038  Score=39.79  Aligned_cols=20  Identities=25%  Similarity=0.473  Sum_probs=17.3

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|+|.+|+|||||...+..
T Consensus         2 i~vvG~~~~GKtsli~~~~~   21 (165)
T cd04146           2 IAVLGASGVGKSALVVRFLT   21 (165)
T ss_pred             EEEECCCCCcHHHHHHHHHh
Confidence            68999999999999977654

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

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=94.59  E-value=0.12  Score=40.61  Aligned_cols=52  Identities=12%  Similarity=-0.048  Sum_probs=34.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcccccccc-CceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHY-FDYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~-F~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      -.++.|.|.+|+||||++.++..+  ...+ =...+|++...  +..++...+...+
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~--~~~~~g~~vl~iS~E~--~~~~~~~r~~~~~   82 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALD--LITQHGVRVGTISLEE--PVVRTARRLLGQY   82 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH--HHHhcCceEEEEEccc--CHHHHHHHHHHHH
Confidence            457788999999999999988663  2222 13477877654  4455666655543

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=94.59  E-value=0.033  Score=43.97  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=18.9

Q ss_pred             cEEEEEEcC-CCccHHHHHHHHhc
Q 035574           15 LSVVAILDS-IGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~-gGvGKTtLa~~vy~   37 (156)
                      +.+|.|+|. ||+||||++..+..
T Consensus         1 M~~iai~s~kGGvG~TTltAnLA~   24 (243)
T PF06564_consen    1 MKVIAIVSPKGGVGKTTLTANLAW   24 (243)
T ss_pred             CcEEEEecCCCCCCHHHHHHHHHH
Confidence            367899998 78999999887655

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=94.59  E-value=0.047  Score=48.54  Aligned_cols=26  Identities=15%  Similarity=0.144  Sum_probs=22.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSY   40 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~   40 (156)
                      ...+-|+|.+|+||||||+.+++..+
T Consensus       175 ~~~vlL~Gp~GtGKTTLAr~i~~~~~  200 (615)
T TIGR02903       175 PQHIILYGPPGVGKTTAARLALEEAK  200 (615)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhhh
Confidence            45689999999999999999987543

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=94.58  E-value=0.032  Score=42.33  Aligned_cols=24  Identities=17%  Similarity=0.171  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+...
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          25 GEFLAIVGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468899999999999999999773

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=94.58  E-value=0.035  Score=39.71  Aligned_cols=20  Identities=25%  Similarity=0.285  Sum_probs=18.0

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.++|.+|+|||+|+..+.+
T Consensus         3 i~vvG~~~~GKtsl~~~l~~   22 (164)
T cd04101           3 CAVVGDPAVGKTAFVQMFHS   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            68999999999999998865

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.

>cd04135 Tc10 TC10 subfamily

Probab=94.58  E-value=0.044  Score=39.67  Aligned_cols=21  Identities=14%  Similarity=0.158  Sum_probs=18.1

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.++|.+|+|||||...+..+
T Consensus         3 i~i~G~~~~GKTsl~~~~~~~   23 (174)
T cd04135           3 CVVVGDGAVGKTCLLMSYAND   23 (174)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999887554

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

>PLN02924 thymidylate kinase

Probab=94.57  E-value=0.12  Score=40.01  Aligned_cols=25  Identities=8%  Similarity=-0.051  Sum_probs=22.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....|.|.|..|+||||+++.+.+.
T Consensus        15 ~g~~IviEGiDGsGKsTq~~~L~~~   39 (220)
T PLN02924         15 RGALIVLEGLDRSGKSTQCAKLVSF   39 (220)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999884

>cd04154 Arl2 Arl2 subfamily

Probab=94.57  E-value=0.055  Score=39.43  Aligned_cols=23  Identities=17%  Similarity=0.092  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+.++|.+|+|||||+..+...
T Consensus        15 ~kv~ivG~~~~GKTsL~~~l~~~   37 (173)
T cd04154          15 MRILILGLDNAGKTTILKKLLGE   37 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHccC
Confidence            35679999999999999988653

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.

>PRK12608 transcription termination factor Rho; Provisional

Probab=94.57  E-value=0.086  Score=44.21  Aligned_cols=54  Identities=9%  Similarity=-0.060  Sum_probs=37.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccC-ce-EEEEEcCC-CCCHHHHHHHHHHHhC
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYF-DY-LAWIPAPY-HYDPDQILDIVAVILL   71 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F-~~-~~wv~vs~-~~~~~~l~~~il~~l~   71 (156)
                      .-..|+|..|+|||||++.+.+  .+..+. +. .+|+.+.+ .-.+.++.+.+...+.
T Consensus       134 QR~LIvG~pGtGKTTLl~~la~--~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vv  190 (380)
T PRK12608        134 QRGLIVAPPRAGKTVLLQQIAA--AVAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVY  190 (380)
T ss_pred             ceEEEECCCCCCHHHHHHHHHH--HHHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEE
Confidence            3458999999999999999887  443322 44 36666655 4567778877766553

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=94.56  E-value=0.22  Score=41.63  Aligned_cols=24  Identities=21%  Similarity=0.160  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+=|-++|.+|.|||-||++|.++
T Consensus       185 PKGVLLYGPPGTGKTLLAkAVA~~  208 (406)
T COG1222         185 PKGVLLYGPPGTGKTLLAKAVANQ  208 (406)
T ss_pred             CCceEeeCCCCCcHHHHHHHHHhc
Confidence            444668999999999999999993

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.56  E-value=0.056  Score=43.22  Aligned_cols=24  Identities=8%  Similarity=0.148  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.+++++|..|.|||||++.+..
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~   61 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILG   61 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHc
Confidence            356889999999999999999987

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=94.55  E-value=0.036  Score=41.62  Aligned_cols=24  Identities=13%  Similarity=0.070  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (195)
T PRK13541         26 SAITYIKGANGCGKSSLLRMIAGI   49 (195)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            358899999999999999999884

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=94.55  E-value=0.035  Score=42.56  Aligned_cols=24  Identities=17%  Similarity=0.149  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.++.-
T Consensus        36 Ge~~~i~G~nGsGKSTLl~~i~Gl   59 (228)
T PRK10584         36 GETIALIGESGSGKSTLLAILAGL   59 (228)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            468999999999999999999873

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=94.55  E-value=0.027  Score=45.06  Aligned_cols=21  Identities=14%  Similarity=0.338  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++|.|..|.|||||++.+..
T Consensus         1 iigI~G~sGsGKSTl~~~L~~   21 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTS   21 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            579999999999999999875

This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=94.54  E-value=0.036  Score=44.82  Aligned_cols=25  Identities=16%  Similarity=0.290  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....|-++||.|.||||..+.++.+
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~h   42 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSH   42 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHH
Confidence            3457788999999999999999884

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=94.53  E-value=0.028  Score=40.43  Aligned_cols=18  Identities=22%  Similarity=0.161  Sum_probs=16.9

Q ss_pred             EEcCCCccHHHHHHHHhc
Q 035574           20 ILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        20 I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|.+|+||||+|+.+..
T Consensus         1 i~G~PgsGK~t~~~~la~   18 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAK   18 (151)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHH
Confidence            689999999999999988

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>cd01855 YqeH YqeH

Probab=94.53  E-value=0.042  Score=40.98  Aligned_cols=36  Identities=11%  Similarity=0.178  Sum_probs=25.5

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574            3 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus         3 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +|.+.|.+.-.....+.++|.+|+|||||...+...
T Consensus       115 eL~~~l~~~l~~~~~~~~~G~~nvGKStliN~l~~~  150 (190)
T cd01855         115 ELINAIKKLAKKGGDVYVVGATNVGKSTLINALLKK  150 (190)
T ss_pred             HHHHHHHHHhhcCCcEEEEcCCCCCHHHHHHHHHHh
Confidence            445555432223356889999999999999999874

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.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=94.52  E-value=0.036  Score=42.84  Aligned_cols=24  Identities=21%  Similarity=0.144  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+...
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~   50 (236)
T TIGR03864        27 GEFVALLGPNGAGKSTLFSLLTRL   50 (236)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999999763

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=94.52  E-value=0.042  Score=40.66  Aligned_cols=26  Identities=12%  Similarity=0.106  Sum_probs=22.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....-|.|+|.+|+|||||...+.++
T Consensus        22 ~~~~~v~ivG~~~~GKSsli~~l~~~   47 (196)
T PRK00454         22 DDGPEIAFAGRSNVGKSSLINALTNR   47 (196)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            34567999999999999999999874

>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=94.50  E-value=0.037  Score=41.92  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+...
T Consensus        27 G~~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          27 GEFVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            457899999999999999999873

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.50  E-value=0.25  Score=45.80  Aligned_cols=23  Identities=13%  Similarity=0.081  Sum_probs=19.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-++|..|+||||+|+.+.+
T Consensus        38 ~HAyLFtGPpGtGKTTLARiLAk   60 (944)
T PRK14949         38 HHAYLFTGTRGVGKTSLARLFAK   60 (944)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34557899999999999999876

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=94.49  E-value=0.035  Score=40.39  Aligned_cols=21  Identities=19%  Similarity=0.218  Sum_probs=18.7

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|+|.+|+|||||...+.+.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~   22 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSE   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            678999999999999988764

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.

>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=94.49  E-value=0.034  Score=41.24  Aligned_cols=24  Identities=13%  Similarity=0.267  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +++.++|..|+|||||...+..+.
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhc
Confidence            788999999999999999998854

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.

>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=94.49  E-value=0.037  Score=42.24  Aligned_cols=24  Identities=17%  Similarity=0.084  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+...
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          26 GEIFGLLGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999999873

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.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=94.48  E-value=0.037  Score=42.89  Aligned_cols=24  Identities=25%  Similarity=0.174  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (239)
T cd03296          28 GELVALLGPSGSGKTTLLRLIAGL   51 (239)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999998763

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=94.47  E-value=0.04  Score=45.48  Aligned_cols=24  Identities=21%  Similarity=0.163  Sum_probs=20.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.++|..|+||||++..+..
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~  162 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAY  162 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            368999999999999997777765

>PRK09354 recA recombinase A; Provisional

Probab=94.46  E-value=0.11  Score=43.07  Aligned_cols=46  Identities=22%  Similarity=0.166  Sum_probs=31.4

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCH
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDP   59 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~   59 (156)
                      -+.-+++-|+|.+|+|||||+.++...  ....=...+|+...+.++.
T Consensus        57 ip~G~IteI~G~~GsGKTtLal~~~~~--~~~~G~~~~yId~E~s~~~  102 (349)
T PRK09354         57 LPRGRIVEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDP  102 (349)
T ss_pred             CcCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchHH
Confidence            345678889999999999999987652  2222234667665555544

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=94.46  E-value=0.049  Score=48.20  Aligned_cols=26  Identities=12%  Similarity=0.268  Sum_probs=23.0

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...-+++-++|.+|+||||||+.+..
T Consensus       100 ~~~~~IL~LvGPpG~GKSsLa~~la~  125 (644)
T PRK15455        100 EEKKQILYLLGPVGGGKSSLAERLKS  125 (644)
T ss_pred             CCCCceEEEecCCCCCchHHHHHHHH
Confidence            44567999999999999999999977

>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=94.46  E-value=0.04  Score=42.01  Aligned_cols=23  Identities=26%  Similarity=0.291  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G   48 (222)
T cd03224          26 GEIVALLGRNGAGKTTLLKTIMG   48 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999876

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.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=94.46  E-value=0.037  Score=42.18  Aligned_cols=24  Identities=25%  Similarity=0.156  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.++..
T Consensus        31 G~~~~i~G~nGsGKSTLl~~i~G~   54 (221)
T TIGR02211        31 GEIVAIVGSSGSGKSTLLHLLGGL   54 (221)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458899999999999999999773

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=94.46  E-value=0.036  Score=40.36  Aligned_cols=21  Identities=10%  Similarity=0.041  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||+..+.+.
T Consensus         2 i~~~G~~~~GKTsl~~~l~~~   22 (167)
T cd04161           2 LLTVGLDNAGKTTLVSALQGE   22 (167)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            678999999999999988664

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.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=94.46  E-value=0.038  Score=41.72  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.++.-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          26 GEIIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468899999999999999999873

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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=94.45  E-value=0.049  Score=39.88  Aligned_cols=21  Identities=14%  Similarity=0.309  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|-+|+|||+|++.+.++
T Consensus         3 i~ivG~~~vGKTsli~~~~~~   23 (170)
T cd04108           3 VIVVGDLSVGKTCLINRFCKD   23 (170)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998775

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

>TIGR01351 adk adenylate kinases

Probab=94.45  E-value=0.034  Score=42.37  Aligned_cols=20  Identities=15%  Similarity=0.165  Sum_probs=18.2

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |-|.|.+|+||||+|+.+..
T Consensus         2 I~i~G~pGsGKsT~a~~La~   21 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAE   21 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999876

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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=94.44  E-value=0.034  Score=42.12  Aligned_cols=21  Identities=19%  Similarity=0.200  Sum_probs=20.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++|+|..|.|||||++.++.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~G   47 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILAT   47 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhC
Confidence            889999999999999999986

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.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=94.43  E-value=0.039  Score=41.56  Aligned_cols=23  Identities=17%  Similarity=0.056  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G   46 (206)
T TIGR03608        24 GKMYAIIGESGSGKSTLLNIIGL   46 (206)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            35789999999999999999987

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.

>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=94.43  E-value=0.04  Score=41.31  Aligned_cols=23  Identities=22%  Similarity=0.141  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~G   47 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAG   47 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            46899999999999999999977

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.43  E-value=0.073  Score=45.33  Aligned_cols=23  Identities=26%  Similarity=0.183  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++.++|.+|+||||++.++..
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~  245 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAA  245 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998875

>PRK00279 adk adenylate kinase; Reviewed

Probab=94.42  E-value=0.034  Score=42.47  Aligned_cols=20  Identities=15%  Similarity=0.094  Sum_probs=18.4

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|.|.+|+||||+|+.+..
T Consensus         3 I~v~G~pGsGKsT~a~~la~   22 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAE   22 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78899999999999999876

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=94.42  E-value=0.036  Score=44.39  Aligned_cols=22  Identities=14%  Similarity=0.027  Sum_probs=17.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|-|+|.+|+||||+|+++..
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~   23 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKK   23 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Confidence            4678999999999999999977

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=94.41  E-value=0.12  Score=44.20  Aligned_cols=36  Identities=25%  Similarity=0.347  Sum_probs=26.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccC-c-eEEEEE
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYF-D-YLAWIP   52 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F-~-~~~wv~   52 (156)
                      ..-+-|+|..|+|||+|++.+.+  .+.... + ...|++
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~--~l~~~~~~~~v~yi~  167 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGN--YVVQNEPDLRVMYIT  167 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHH--HHHHhCCCCeEEEEE
Confidence            45689999999999999999998  444332 2 255554

>cd04175 Rap1 Rap1 subgroup

Probab=94.40  E-value=0.045  Score=39.27  Aligned_cols=22  Identities=27%  Similarity=0.376  Sum_probs=18.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .|.++|.+|+|||||+..+.++
T Consensus         3 ki~~~G~~~~GKTsli~~~~~~   24 (164)
T cd04175           3 KLVVLGSGGVGKSALTVQFVQG   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3689999999999998887653

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

>cd01868 Rab11_like Rab11-like

Probab=94.40  E-value=0.052  Score=38.91  Aligned_cols=24  Identities=8%  Similarity=0.216  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      --+.++|.+|+|||||..++..+.
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~~~   27 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTRNE   27 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            357899999999999999987643

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

>TIGR00101 ureG urease accessory protein UreG

Probab=94.39  E-value=0.054  Score=41.26  Aligned_cols=21  Identities=19%  Similarity=0.298  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++|.|..|.|||||.+.+.+
T Consensus         3 ~i~i~G~~GsGKTTll~~l~~   23 (199)
T TIGR00101         3 KIGVAGPVGSGKTALIEALTR   23 (199)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999987

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.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=94.39  E-value=0.04  Score=41.69  Aligned_cols=24  Identities=21%  Similarity=0.062  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+...
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~l~G~   50 (204)
T PRK13538         27 GELVQIEGPNGAGKTSLLRILAGL   50 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458899999999999999999873

>PRK13973 thymidylate kinase; Provisional

Probab=94.39  E-value=0.15  Score=39.06  Aligned_cols=22  Identities=9%  Similarity=0.022  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.|-|..|+||||+++.+++
T Consensus         4 ~~IviEG~dGsGKtTq~~~l~~   25 (213)
T PRK13973          4 RFITFEGGEGAGKSTQIRLLAE   25 (213)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5788999999999999999988

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=94.39  E-value=0.061  Score=43.71  Aligned_cols=25  Identities=12%  Similarity=0.133  Sum_probs=22.0

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-..|.++|+.|.||||+++.+..
T Consensus       131 ~~~~~I~l~G~~GsGKStvg~~La~  155 (309)
T PRK08154        131 ARRRRIALIGLRGAGKSTLGRMLAA  155 (309)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHH
Confidence            4456899999999999999999977

>cd04114 Rab30 Rab30 subfamily

Probab=94.39  E-value=0.049  Score=39.18  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=20.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+.++|.+|+|||||...+..
T Consensus         6 ~~~~v~v~G~~~~GKSsli~~l~~   29 (169)
T cd04114           6 FLFKIVLIGNAGVGKTCLVRRFTQ   29 (169)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHh
Confidence            357789999999999999998864

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.

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=94.38  E-value=0.19  Score=37.31  Aligned_cols=23  Identities=22%  Similarity=0.172  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-|-|+|-.|+||+.+|+.+++.
T Consensus        23 ~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen   23 LPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             S-EEEECSTTSSHHHHHHHHHHC
T ss_pred             CCEEEEcCCCCcHHHHHHHHHHh
Confidence            44559999999999999999993

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=94.38  E-value=0.04  Score=42.48  Aligned_cols=24  Identities=21%  Similarity=0.111  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.++.-
T Consensus        35 Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         35 GEMMAIVGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            357899999999999999999763

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=94.37  E-value=0.04  Score=38.45  Aligned_cols=20  Identities=30%  Similarity=0.282  Sum_probs=18.4

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.+.|.||+||||++..+..
T Consensus         2 i~~~GkgG~GKTt~a~~la~   21 (116)
T cd02034           2 IAITGKGGVGKTTIAALLAR   21 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999877

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=94.37  E-value=0.086  Score=40.37  Aligned_cols=31  Identities=16%  Similarity=0.233  Sum_probs=25.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCce
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDY   47 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~   47 (156)
                      ...|.+-|..|+|||+|..+...  ..++.|..
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~--~L~~~~~~   43 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLR--ALKDEYKI   43 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHH--HHHhhCCe
Confidence            57899999999999999999888  55555554

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=94.37  E-value=0.042  Score=41.66  Aligned_cols=24  Identities=21%  Similarity=0.080  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|.|..|.|||||++.+...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03301          26 GEFVVLLGPSGCGKTTTLRMIAGL   49 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999999874

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.

>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=94.36  E-value=0.041  Score=42.34  Aligned_cols=24  Identities=13%  Similarity=0.129  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+..-
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~G~   54 (233)
T cd03258          31 GEIFGIIGRSGAGKSTLIRCINGL   54 (233)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999998763

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=94.36  E-value=0.038  Score=39.96  Aligned_cols=20  Identities=10%  Similarity=-0.022  Sum_probs=17.7

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.++|.+|+|||||+..+..
T Consensus         3 v~~~G~~~~GKTsli~~l~~   22 (159)
T cd04150           3 ILMVGLDAAGKTTILYKLKL   22 (159)
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            67899999999999999844

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=94.36  E-value=0.042  Score=39.16  Aligned_cols=22  Identities=14%  Similarity=0.104  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|.+|+|||||+..+....
T Consensus         2 i~i~G~~~~GKTsl~~~~~~~~   23 (160)
T cd04156           2 VLLLGLDSAGKSTLLYKLKHAE   23 (160)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            6789999999999999987653

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

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=94.36  E-value=0.099  Score=46.46  Aligned_cols=52  Identities=12%  Similarity=0.071  Sum_probs=34.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhcccccccc-CceEEEEEcCCCCCHHHHHHHHHHHhC
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSSYMKHY-FDYLAWIPAPYHYDPDQILDIVAVILL   71 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~~v~~~-F~~~~wv~vs~~~~~~~l~~~il~~l~   71 (156)
                      -+-++|.+|+||||+++.+.+  .+... |...+++..+ ..+..++++.++..++
T Consensus        39 ~~ll~G~pG~GKT~la~~la~--~l~~~~~~~~~~~~n~-~~~~~~~~~~v~~~~g   91 (608)
T TIGR00764        39 NVLLIGEPGVGKSMLAKAMAE--LLPDEELEDILVYPNP-EDPNMPRIVEVPAGEG   91 (608)
T ss_pred             CEEEECCCCCCHHHHHHHHHH--HcCchhheeEEEEeCC-CCCchHHHHHHHHhhc
Confidence            344899999999999999987  55433 3444444333 2345556777766654

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK06851 hypothetical protein; Provisional

Probab=94.35  E-value=0.061  Score=44.96  Aligned_cols=45  Identities=9%  Similarity=-0.015  Sum_probs=34.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcccccc-ccCceEEEEEcCCCCCHH
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMK-HYFDYLAWIPAPYHYDPD   60 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~-~~F~~~~wv~vs~~~~~~   60 (156)
                      .-+++-|.|.+|+|||||++.+.+  ... ..|+...+.|-+.+.+++
T Consensus        29 ~~~~~il~G~pGtGKStl~~~i~~--~~~~~g~~Ve~~~~~~d~~slD   74 (367)
T PRK06851         29 ANRIFILKGGPGTGKSTLMKKIGE--EFLEKGYDVEFLHCSSDNDSLD   74 (367)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEEcCCCCCcee
Confidence            357889999999999999999988  442 357776777766665544

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.35  E-value=0.37  Score=41.97  Aligned_cols=23  Identities=13%  Similarity=0.089  Sum_probs=18.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+=++|..|+||||+|+.+..
T Consensus        38 ~ha~Lf~Gp~G~GKTt~A~~lAk   60 (509)
T PRK14958         38 HHAYLFTGTRGVGKTTISRILAK   60 (509)
T ss_pred             CeeEEEECCCCCCHHHHHHHHHH
Confidence            34567899999999999987765

>PRK02496 adk adenylate kinase; Provisional

Probab=94.35  E-value=0.045  Score=40.60  Aligned_cols=21  Identities=14%  Similarity=0.063  Sum_probs=18.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+.|.|.+|.||||+|+.+..
T Consensus         3 ~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            377899999999999999866

>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional

Probab=94.34  E-value=0.043  Score=42.93  Aligned_cols=23  Identities=9%  Similarity=0.211  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++++|+|..|+|||||+..+..
T Consensus         1 m~vi~ivG~~gsGKTtl~~~l~~   23 (229)
T PRK14494          1 MRAIGVIGFKDSGKTTLIEKILK   23 (229)
T ss_pred             CeEEEEECCCCChHHHHHHHHHH
Confidence            36899999999999999887765

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.34  E-value=0.051  Score=46.21  Aligned_cols=23  Identities=30%  Similarity=0.304  Sum_probs=19.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+++.++|.+|+||||++..+..
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~  243 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAA  243 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999998777655

>cd01865 Rab3 Rab3 subfamily

Probab=94.33  E-value=0.044  Score=39.58  Aligned_cols=23  Identities=22%  Similarity=0.267  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.++|.+|+|||||...+.++.
T Consensus         3 ki~i~G~~~~GKSsli~~l~~~~   25 (165)
T cd01865           3 KLLIIGNSSVGKTSFLFRYADDS   25 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37899999999999999987654

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

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=94.32  E-value=0.042  Score=42.01  Aligned_cols=24  Identities=8%  Similarity=0.149  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+...
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          31 GETLGLVGESGSGKSTLARAILGL   54 (228)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999763

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=94.31  E-value=0.062  Score=43.19  Aligned_cols=23  Identities=22%  Similarity=0.140  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++-++|.+|+|||++|+.+++
T Consensus        43 ~~~lll~G~~G~GKT~la~~l~~   65 (316)
T PHA02544         43 PNMLLHSPSPGTGKTTVAKALCN   65 (316)
T ss_pred             CeEEEeeCcCCCCHHHHHHHHHH
Confidence            46777799999999999999988

>PRK14528 adenylate kinase; Provisional

Probab=94.30  E-value=0.043  Score=41.17  Aligned_cols=22  Identities=9%  Similarity=0.066  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.|.|.|.+|+||||+|+.+..
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~   23 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCE   23 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999865

>cd01866 Rab2 Rab2 subfamily

Probab=94.30  E-value=0.042  Score=39.84  Aligned_cols=23  Identities=13%  Similarity=0.196  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --+.|+|.+|+|||||...+.+.
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~   27 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDK   27 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999998764

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

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=94.30  E-value=0.041  Score=43.80  Aligned_cols=24  Identities=17%  Similarity=0.152  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.+++|+|..|.|||||.+.++.
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            357899999999999999999877

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

Probab=94.30  E-value=0.05  Score=38.78  Aligned_cols=22  Identities=23%  Similarity=0.335  Sum_probs=18.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|-+|+|||||+..+.++
T Consensus         4 ki~i~G~~~~GKtsl~~~~~~~   25 (164)
T cd04145           4 KLVVVGGGGVGKSALTIQFIQS   25 (164)
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            4789999999999999886543

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

>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]

Probab=94.29  E-value=0.12  Score=39.88  Aligned_cols=36  Identities=11%  Similarity=-0.115  Sum_probs=27.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEE
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIP   52 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~   52 (156)
                      ...|+|-|+-|.||||.++.++.  +.+...-.++|..
T Consensus         3 g~fI~iEGiDGaGKTT~~~~L~~--~l~~~g~~v~~tr   38 (208)
T COG0125           3 GMFIVIEGIDGAGKTTQAELLKE--RLEERGIKVVLTR   38 (208)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEe
Confidence            35689999999999999999999  6555433444443

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=94.28  E-value=0.044  Score=42.34  Aligned_cols=24  Identities=8%  Similarity=0.106  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+..-
T Consensus        11 Ge~~~i~G~nGsGKSTLl~~l~Gl   34 (230)
T TIGR01184        11 GEFISLIGHSGCGKSTLLNLISGL   34 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358899999999999999998763

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.

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=94.28  E-value=0.066  Score=47.18  Aligned_cols=25  Identities=16%  Similarity=0.016  Sum_probs=21.8

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-.+|-++|+.|.||||+|+.++.
T Consensus       390 ~~g~~Ivl~Gl~GSGKSTia~~La~  414 (568)
T PRK05537        390 KQGFTVFFTGLSGAGKSTIAKALMV  414 (568)
T ss_pred             CCCeEEEEECCCCChHHHHHHHHHH
Confidence            3445889999999999999999987

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=94.28  E-value=0.042  Score=42.06  Aligned_cols=24  Identities=25%  Similarity=0.206  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.++.-
T Consensus        13 Ge~~~l~G~NGsGKSTLlk~i~Gl   36 (213)
T PRK15177         13 HEHIGILAAPGSGKTTLTRLLCGL   36 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999873

>cd04118 Rab24 Rab24 subfamily

Probab=94.27  E-value=0.044  Score=40.63  Aligned_cols=21  Identities=19%  Similarity=0.267  Sum_probs=18.7

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|+|.+|+|||||...+.++
T Consensus         3 i~vvG~~~vGKSsLi~~~~~~   23 (193)
T cd04118           3 VVMLGKESVGKTSLVERYVHH   23 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999988764

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

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=94.27  E-value=0.043  Score=43.06  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+...
T Consensus        25 Ge~~~i~G~NGsGKSTLlk~L~G~   48 (246)
T cd03237          25 SEVIGILGPNGIGKTTFIKMLAGV   48 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999774

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.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=94.27  E-value=0.045  Score=39.79  Aligned_cols=23  Identities=13%  Similarity=0.161  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-|.++|.+|+|||||...+...
T Consensus         3 ~ki~vvG~~~vGKTsli~~~~~~   25 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCAG   25 (170)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999988654

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

>cd04158 ARD1 ARD1 subfamily

Probab=94.27  E-value=0.043  Score=39.95  Aligned_cols=21  Identities=24%  Similarity=0.151  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||+..+.++
T Consensus         2 vvlvG~~~~GKTsl~~~l~~~   22 (169)
T cd04158           2 VVTLGLDGAGKTTILFKLKQD   22 (169)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            569999999999999988764

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

>PTZ00369 Ras-like protein; Provisional

Probab=94.27  E-value=0.051  Score=40.42  Aligned_cols=22  Identities=18%  Similarity=0.315  Sum_probs=18.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.|+|-+|+|||||+..+.++
T Consensus         7 Ki~iiG~~~~GKTsLi~~~~~~   28 (189)
T PTZ00369          7 KLVVVGGGGVGKSALTIQFIQN   28 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4668999999999999887764

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=94.27  E-value=0.048  Score=44.06  Aligned_cols=23  Identities=13%  Similarity=0.104  Sum_probs=20.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHh
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      ...+|.|.|+.|.||||+++.+.
T Consensus         5 ~~~~i~i~G~~GsGKtt~~~~l~   27 (288)
T PRK05416          5 PMRLVIVTGLSGAGKSVALRALE   27 (288)
T ss_pred             CceEEEEECCCCCcHHHHHHHHH
Confidence            35789999999999999999984

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.26  E-value=0.052  Score=47.17  Aligned_cols=24  Identities=13%  Similarity=-0.054  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...+-++|.+|+||||+|+.+...
T Consensus        36 ~ha~Lf~GppGtGKTTlA~~lA~~   59 (504)
T PRK14963         36 GHAYLFSGPRGVGKTTTARLIAMA   59 (504)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            356689999999999999988763

>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=94.26  E-value=0.042  Score=42.34  Aligned_cols=23  Identities=13%  Similarity=0.102  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G   48 (236)
T cd03219          26 GEIHGLIGPNGAGKTTLFNLISG   48 (236)
T ss_pred             CcEEEEECCCCCCHHHHHHHHcC
Confidence            46889999999999999999876

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).

>PLN02165 adenylate isopentenyltransferase

Probab=94.25  E-value=0.046  Score=45.11  Aligned_cols=25  Identities=20%  Similarity=0.319  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-.++.|+|+.|+|||+||..+...
T Consensus        42 ~g~iivIiGPTGSGKStLA~~LA~~   66 (334)
T PLN02165         42 KDKVVVIMGATGSGKSRLSVDLATR   66 (334)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHH
Confidence            3458999999999999999987663

>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=94.24  E-value=0.043  Score=41.11  Aligned_cols=24  Identities=17%  Similarity=0.184  Sum_probs=20.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.++.|+|..|.|||||.+.+..
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            346889999999999999998863

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.

>PHA02518 ParA-like protein; Provisional

Probab=94.24  E-value=0.043  Score=41.18  Aligned_cols=21  Identities=24%  Similarity=0.398  Sum_probs=16.4

Q ss_pred             EEEEEc-CCCccHHHHHHHHhc
Q 035574           17 VVAILD-SIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G-~gGvGKTtLa~~vy~   37 (156)
                      +|+|++ -||+||||+|.++..
T Consensus         2 ii~v~~~KGGvGKTT~a~~la~   23 (211)
T PHA02518          2 IIAVLNQKGGAGKTTVATNLAS   23 (211)
T ss_pred             EEEEEcCCCCCCHHHHHHHHHH
Confidence            677774 588999999887644

>PRK13531 regulatory ATPase RavA; Provisional

Probab=94.23  E-value=0.048  Score=47.19  Aligned_cols=36  Identities=14%  Similarity=0.116  Sum_probs=24.7

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            2 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         2 ~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++++.+..--..-.-+-+.|.+|+|||+||+.+..
T Consensus        26 e~vI~lll~aalag~hVLL~GpPGTGKT~LAraLa~   61 (498)
T PRK13531         26 SHAIRLCLLAALSGESVFLLGPPGIAKSLIARRLKF   61 (498)
T ss_pred             HHHHHHHHHHHccCCCEEEECCCChhHHHHHHHHHH
Confidence            444444433212234467899999999999999987

>PRK04328 hypothetical protein; Provisional

Probab=94.23  E-value=0.23  Score=39.06  Aligned_cols=50  Identities=14%  Similarity=0.097  Sum_probs=33.5

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHH
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDI   65 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~   65 (156)
                      -..-.++-|.|.+|.|||+|+.++... ..+. =+..+|++..+  ++.++.+.
T Consensus        20 ip~gs~ili~G~pGsGKT~l~~~fl~~-~~~~-ge~~lyis~ee--~~~~i~~~   69 (249)
T PRK04328         20 IPERNVVLLSGGPGTGKSIFSQQFLWN-GLQM-GEPGVYVALEE--HPVQVRRN   69 (249)
T ss_pred             CcCCcEEEEEcCCCCCHHHHHHHHHHH-HHhc-CCcEEEEEeeC--CHHHHHHH
Confidence            345678899999999999999986542 2222 34577777655  44444443

>cd02030 NDUO42 NADH:Ubiquinone oxioreductase, 42 kDa (NDUO42) is a family of proteins that are highly similar to deoxyribonucleoside kinases (dNK)

Probab=94.23  E-value=0.036  Score=42.67  Aligned_cols=21  Identities=19%  Similarity=0.235  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|+|-|+-|+||||+++.+.+
T Consensus         1 ~I~iEG~~GsGKSTl~~~L~~   21 (219)
T cd02030           1 VITVDGNIASGKGKLAKELAE   21 (219)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999876

Members of this family have been identified as one of the subunits of NADH:Ubiquinone oxioreductase (complex I), a multi-protein complex located in the inner mitochondrial membrane. The main function of the complex is to transport electrons from NADH to ubiquinone, which is accompanied by the translocation of protons from the mitochondrial matrix to the inter membrane space.

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

Probab=94.23  E-value=0.069  Score=43.68  Aligned_cols=37  Identities=19%  Similarity=0.275  Sum_probs=27.8

Q ss_pred             HHHHHH---hcCCCCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574            3 ELLDLL---IEGPTQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus         3 ~l~~~L---~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +|++.|   .+.+.+...|.++|.+|+|||++...+....
T Consensus        23 ~l~~~l~~l~~~~~~~~rIllvGktGVGKSSliNsIlG~~   62 (313)
T TIGR00991        23 KLLELLGKLKEEDVSSLTILVMGKGGVGKSSTVNSIIGER   62 (313)
T ss_pred             HHHHHHHhcccccccceEEEEECCCCCCHHHHHHHHhCCC
Confidence            455555   3445556678899999999999999988743

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=94.23  E-value=0.045  Score=43.06  Aligned_cols=24  Identities=17%  Similarity=0.127  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (255)
T PRK11248         27 GELLVVLGPSGCGKTTLLNLIAGF   50 (255)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999998763

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=94.23  E-value=0.043  Score=41.21  Aligned_cols=21  Identities=19%  Similarity=0.406  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|+|.+|+|||||+..+.+.
T Consensus         3 ivivG~~~vGKTsli~~l~~~   23 (201)
T cd04107           3 VLVIGDLGVGKTSIIKRYVHG   23 (201)
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            679999999999999987653

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.

>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=94.22  E-value=0.045  Score=42.04  Aligned_cols=24  Identities=21%  Similarity=0.098  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~Gl   49 (232)
T cd03218          26 GEIVGLLGPNGAGKTTTFYMIVGL   49 (232)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999998763

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.

>cd01895 EngA2 EngA2 subfamily

Probab=94.22  E-value=0.052  Score=38.65  Aligned_cols=23  Identities=13%  Similarity=0.219  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..|.++|..|+|||||+..+.+.
T Consensus         3 ~~i~i~G~~~~GKstli~~l~~~   25 (174)
T cd01895           3 IRIAIIGRPNVGKSSLVNALLGE   25 (174)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhCc
Confidence            45899999999999999998664

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.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=94.21  E-value=0.045  Score=42.19  Aligned_cols=24  Identities=17%  Similarity=0.116  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|.|..|.|||||++.++..
T Consensus        12 Ge~~~i~G~nGsGKSTLl~~l~Gl   35 (230)
T TIGR02770        12 GEVLALVGESGSGKSLTCLAILGL   35 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468899999999999999998774

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.

>PRK06851 hypothetical protein; Provisional

Probab=94.21  E-value=0.046  Score=45.67  Aligned_cols=45  Identities=11%  Similarity=-0.008  Sum_probs=35.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHH
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPD   60 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~   60 (156)
                      -+++-|-|.+|+|||||++.++... .+..++..++-|-+.+.+++
T Consensus       214 ~~~~~i~G~pG~GKstl~~~i~~~a-~~~G~~v~~~hC~~dPdslD  258 (367)
T PRK06851        214 KNRYFLKGRPGTGKSTMLKKIAKAA-EERGFDVEVYHCGFDPDSLD  258 (367)
T ss_pred             ceEEEEeCCCCCcHHHHHHHHHHHH-HhCCCeEEEEeCCCCCCCcc
Confidence            4778999999999999999998843 24567887777766665554

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=94.21  E-value=0.048  Score=39.66  Aligned_cols=24  Identities=13%  Similarity=0.228  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +.|-++|..|.|||||++.+...+
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            457789999999999999997744

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

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=94.19  E-value=0.047  Score=41.95  Aligned_cols=24  Identities=13%  Similarity=-0.009  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+...
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~   56 (225)
T PRK10247         33 GEFKLITGPSGCGKSTLLKIVASL   56 (225)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            457899999999999999999874

>PRK10867 signal recognition particle protein; Provisional

Probab=94.19  E-value=0.11  Score=44.37  Aligned_cols=24  Identities=17%  Similarity=0.203  Sum_probs=19.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|-++|.+|+||||.+..+..
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~  122 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAK  122 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHH
Confidence            368999999999999996666544

>cd01861 Rab6 Rab6 subfamily

Probab=94.17  E-value=0.05  Score=38.73  Aligned_cols=22  Identities=14%  Similarity=0.169  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|.+|+|||||...+...
T Consensus         2 ki~liG~~~~GKSsli~~l~~~   23 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMYD   23 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3789999999999999887654

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

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=94.17  E-value=0.048  Score=41.24  Aligned_cols=23  Identities=17%  Similarity=0.096  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.++.|+|..|.|||||.+.+..
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G   48 (208)
T cd03268          26 GEIYGFLGPNGAGKTTTMKIILG   48 (208)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            46889999999999999999976

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.

>cd04120 Rab12 Rab12 subfamily

Probab=94.17  E-value=0.046  Score=41.67  Aligned_cols=21  Identities=29%  Similarity=0.387  Sum_probs=18.3

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||+|+..+.++
T Consensus         3 vvvlG~~gVGKTSli~r~~~~   23 (202)
T cd04120           3 VIIIGSRGVGKTSLMRRFTDD   23 (202)
T ss_pred             EEEECcCCCCHHHHHHHHHhC
Confidence            678999999999999887664

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

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

Probab=94.17  E-value=0.088  Score=41.60  Aligned_cols=31  Identities=13%  Similarity=0.177  Sum_probs=25.0

Q ss_pred             hcCCCCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574            9 IEGPTQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus         9 ~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .+.....-.|.++|..|+|||||+..+....
T Consensus        25 ~~~~~~~~~IllvG~tGvGKSSliNaLlg~~   55 (249)
T cd01853          25 KEELDFSLTILVLGKTGVGKSSTINSIFGER   55 (249)
T ss_pred             hhhccCCeEEEEECCCCCcHHHHHHHHhCCC
Confidence            3344556678899999999999999998854

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.

>cd04122 Rab14 Rab14 subfamily

Probab=94.16  E-value=0.057  Score=38.94  Aligned_cols=22  Identities=14%  Similarity=0.280  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -+.++|.+|+|||+|...+.+.
T Consensus         4 ki~iiG~~~vGKTsli~~~~~~   25 (166)
T cd04122           4 KYIIIGDMGVGKSCLLHQFTEK   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3678999999999999988664

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

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=94.16  E-value=0.047  Score=42.29  Aligned_cols=24  Identities=13%  Similarity=0.072  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|.|..|.|||||++.++..
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G~   51 (242)
T PRK11124         28 GETLVLLGPSGAGKSSLLRVLNLL   51 (242)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999999764

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=94.16  E-value=0.047  Score=42.21  Aligned_cols=24  Identities=17%  Similarity=0.195  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+...
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        26 GEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358899999999999999999874

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.

>PRK10908 cell division protein FtsE; Provisional

Probab=94.15  E-value=0.049  Score=41.66  Aligned_cols=25  Identities=8%  Similarity=0.005  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-.+++|+|..|.|||||.+.+...
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~   51 (222)
T PRK10908         27 PGEMAFLTGHSGAGKSTLLKLICGI   51 (222)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468899999999999999999763

>PRK12338 hypothetical protein; Provisional

Probab=94.14  E-value=0.051  Score=44.56  Aligned_cols=24  Identities=21%  Similarity=0.279  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+|.|.|.+|+||||+|+.+...
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~   27 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELART   27 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999998763

>cd04110 Rab35 Rab35 subfamily

Probab=94.14  E-value=0.046  Score=41.09  Aligned_cols=24  Identities=17%  Similarity=0.259  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|.+|+|||||+..+.+.
T Consensus         6 ~~kivvvG~~~vGKTsli~~l~~~   29 (199)
T cd04110           6 LFKLLIIGDSGVGKSSLLLRFADN   29 (199)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            445789999999999999988653

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

>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family

Probab=94.14  E-value=0.053  Score=43.40  Aligned_cols=22  Identities=18%  Similarity=0.231  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.|.|+|-|||||+|.+..+.-
T Consensus         1 r~IAiYGKGGIGKST~~~Nlsa   22 (273)
T PF00142_consen    1 RKIAIYGKGGIGKSTTASNLSA   22 (273)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEcCCCcccChhhhHHHH
Confidence            4689999999999999887755

Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....

>PTZ00035 Rad51 protein; Provisional

Probab=94.14  E-value=0.25  Score=40.80  Aligned_cols=50  Identities=12%  Similarity=0.144  Sum_probs=34.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccc----cCceEEEEEcCCCCCHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKH----YFDYLAWIPAPYHYDPDQI   62 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~----~F~~~~wv~vs~~~~~~~l   62 (156)
                      ..-.++-|+|..|.|||+|+..++-......    .=...+|+.-...|+.+++
T Consensus       116 ~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri  169 (337)
T PTZ00035        116 ETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI  169 (337)
T ss_pred             CCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH
Confidence            4567889999999999999998865333211    1123568887777777664

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=94.14  E-value=0.049  Score=39.97  Aligned_cols=21  Identities=24%  Similarity=0.347  Sum_probs=18.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -|.|+|.+|+|||||+..+..
T Consensus         4 ki~vvG~~~vGKTsL~~~~~~   24 (172)
T cd04141           4 KIVMLGAGGVGKSAVTMQFIS   24 (172)
T ss_pred             EEEEECCCCCcHHHHHHHHHh
Confidence            368999999999999987754

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

>cd04116 Rab9 Rab9 subfamily

Probab=94.14  E-value=0.063  Score=38.75  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=19.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|.+|+|||||+..+.++
T Consensus         5 ~~ki~vvG~~~~GKTsli~~~~~~   28 (170)
T cd04116           5 LLKVILLGDGGVGKSSLMNRYVTN   28 (170)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcC
Confidence            345788999999999999988653

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

>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=94.13  E-value=0.049  Score=42.26  Aligned_cols=24  Identities=13%  Similarity=0.055  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.++..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~   50 (242)
T cd03295          27 GEFLVLIGPSGSGKTTTMKMINRL   50 (242)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357899999999999999998763

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=94.13  E-value=0.04  Score=46.19  Aligned_cols=24  Identities=17%  Similarity=0.119  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+-+-++|.+|+|||++|+.+++
T Consensus       164 ~p~gvLL~GppGtGKT~lAkaia~  187 (389)
T PRK03992        164 PPKGVLLYGPPGTGKTLLAKAVAH  187 (389)
T ss_pred             CCCceEEECCCCCChHHHHHHHHH
Confidence            345678899999999999999988

>PF11868 DUF3388: Protein of unknown function (DUF3388); InterPro: IPR024514 This domain is found in a family of bacterial proteins that are functionally uncharacterised

Probab=94.13  E-value=0.054  Score=40.34  Aligned_cols=43  Identities=19%  Similarity=0.271  Sum_probs=30.3

Q ss_pred             HHHHHhc--CCCCcEEEEEEcCCCccHHH--HHHHHhccccccccCceEEEEEcCC
Q 035574            4 LLDLLIE--GPTQLSVVAILDSIGLDKTA--FTAEAYNSSYMKHYFDYLAWIPAPY   55 (156)
Q Consensus         4 l~~~L~~--~~~~~~vi~I~G~gGvGKTt--La~~vy~~~~v~~~F~~~~wv~vs~   55 (156)
                      |+++|.+  ...+-++|+|-||+-||||.  .|..||.+         .-|+-+|.
T Consensus        41 LVDFmaEl~K~~Gh~lIGiRGmPRVGKTEsivAasVcAn---------KrW~f~SS   87 (192)
T PF11868_consen   41 LVDFMAELFKEEGHKLIGIRGMPRVGKTESIVAASVCAN---------KRWLFLSS   87 (192)
T ss_pred             HHHHHHHHHHhcCceEEeecCCCccCchhHHHHHhhhcC---------ceEEEeeH
Confidence            3444433  34568999999999999997  56777774         34776654

Proteins in this family are typically between 261 to 275 amino acids in length and have a N-terminal ACT domain.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=94.12  E-value=0.086  Score=38.33  Aligned_cols=24  Identities=17%  Similarity=0.259  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +.|.++|.+|+|||||...++...
T Consensus         2 ~~i~~iG~~~~GKstl~~~l~~~~   25 (158)
T PRK15467          2 KRIAFVGAVGAGKTTLFNALQGNY   25 (158)
T ss_pred             cEEEEECCCCCCHHHHHHHHcCCC
Confidence            468999999999999999988754

>CHL00181 cbbX CbbX; Provisional

Probab=94.12  E-value=0.042  Score=44.29  Aligned_cols=21  Identities=19%  Similarity=0.189  Sum_probs=18.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-++|.+|+||||+|+.++.
T Consensus        61 ~ill~G~pGtGKT~lAr~la~   81 (287)
T CHL00181         61 HMSFTGSPGTGKTTVALKMAD   81 (287)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999966

>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D

Probab=94.11  E-value=0.13  Score=36.68  Aligned_cols=39  Identities=15%  Similarity=0.156  Sum_probs=26.5

Q ss_pred             EEEEEEc-CCCccHHHHHHHHhccccccccCceEEEEEcCCC
Q 035574           16 SVVAILD-SIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYH   56 (156)
Q Consensus        16 ~vi~I~G-~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~   56 (156)
                      ++|+++| .||+|||++|..+..  .....-..++.|.....
T Consensus         1 k~i~v~s~~~g~G~t~~a~~lA~--~la~~~~~Vllid~~~~   40 (157)
T PF13614_consen    1 KVIAVWSPKGGVGKTTLALNLAA--ALARKGKKVLLIDFDFF   40 (157)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHH--HHHHTTT-EEEEE--SS
T ss_pred             CEEEEECCCCCCCHHHHHHHHHH--HHHhcCCCeEEEECCCC
Confidence            6899999 689999999998877  44433323666765443

>cd04127 Rab27A Rab27a subfamily

Probab=94.10  E-value=0.058  Score=39.30  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|.+|+|||||+..+.+.
T Consensus         6 ki~ivG~~~vGKTsli~~~~~~   27 (180)
T cd04127           6 KFLALGDSGVGKTSFLYQYTDN   27 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4679999999999999998664

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=94.09  E-value=0.051  Score=39.47  Aligned_cols=20  Identities=15%  Similarity=0.267  Sum_probs=17.2

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.++|.+|+|||||...+..
T Consensus         3 i~vvG~~gvGKTsli~~~~~   22 (158)
T cd04103           3 LGIVGNLQSGKSALVHRYLT   22 (158)
T ss_pred             EEEECCCCCcHHHHHHHHHh
Confidence            68999999999999987643

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.09  E-value=0.069  Score=44.73  Aligned_cols=23  Identities=30%  Similarity=0.326  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.++.++|..|+||||++.++..
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~  159 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAA  159 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998876

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=94.08  E-value=0.057  Score=46.03  Aligned_cols=24  Identities=17%  Similarity=0.151  Sum_probs=20.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|.++|..|+||||++..+..
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~  122 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAY  122 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            368999999999999998887754

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=94.08  E-value=0.051  Score=42.39  Aligned_cols=24  Identities=17%  Similarity=0.147  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.++.-
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (255)
T PRK11300         31 QEIVSLIGPNGAGKTTVFNCLTGF   54 (255)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999998763

>cd01870 RhoA_like RhoA-like subfamily

Probab=94.08  E-value=0.06  Score=38.98  Aligned_cols=24  Identities=13%  Similarity=0.041  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .-|.|+|-.|+|||||...+.++.
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~   25 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQ   25 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            347899999999999999887743

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

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=94.08  E-value=0.04  Score=40.70  Aligned_cols=21  Identities=10%  Similarity=0.188  Sum_probs=18.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -|-|.|.+|+|||||+..+..
T Consensus         9 NILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    9 NILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             CEEEeCCCCCCchhHHHHHHH
Confidence            367899999999999999875

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=94.07  E-value=0.049  Score=41.21  Aligned_cols=23  Identities=22%  Similarity=0.147  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        26 G~~~~l~G~nGsGKSTLl~~l~G   48 (213)
T cd03262          26 GEVVVIIGPSGSGKSTLLRCINL   48 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45889999999999999999987

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

>PRK09183 transposase/IS protein; Provisional

Probab=94.06  E-value=0.043  Score=43.50  Aligned_cols=22  Identities=18%  Similarity=0.234  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+.|+|..|+|||+||..+..
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~  124 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGY  124 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHH
Confidence            4577999999999999999966

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

Probab=94.06  E-value=0.052  Score=39.51  Aligned_cols=21  Identities=19%  Similarity=0.308  Sum_probs=18.3

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -|.++|..|+|||||...+.+
T Consensus         2 ki~vvG~~~vGKTsli~~~~~   22 (166)
T cd00877           2 KLVLVGDGGTGKTTFVKRHLT   22 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            368999999999999998764

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

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=94.06  E-value=0.047  Score=36.56  Aligned_cols=21  Identities=24%  Similarity=0.305  Sum_probs=16.4

Q ss_pred             EEEEEc-CCCccHHHHHHHHhc
Q 035574           17 VVAILD-SIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G-~gGvGKTtLa~~vy~   37 (156)
                      ++++.| -||+||||++.++..
T Consensus         1 ~i~~~~~kgG~Gkst~~~~la~   22 (104)
T cd02042           1 VIAVANQKGGVGKTTTAVNLAA   22 (104)
T ss_pred             CEEEEeCCCCcCHHHHHHHHHH
Confidence            356776 689999999888755

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=94.06  E-value=0.052  Score=41.53  Aligned_cols=24  Identities=21%  Similarity=0.272  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+...
T Consensus        34 Ge~~~l~G~nGsGKSTLl~~i~G~   57 (224)
T TIGR02324        34 GECVALSGPSGAGKSTLLKSLYAN   57 (224)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999999873

Members of this family are the PhnL 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 C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>cd04117 Rab15 Rab15 subfamily

Probab=94.06  E-value=0.066  Score=38.62  Aligned_cols=21  Identities=14%  Similarity=0.322  Sum_probs=18.1

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||...+.+.
T Consensus         3 i~vvG~~~~GKTsli~~~~~~   23 (161)
T cd04117           3 LLLIGDSGVGKTCLLCRFTDN   23 (161)
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            679999999999999877653

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

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=94.06  E-value=0.029  Score=38.24  Aligned_cols=20  Identities=15%  Similarity=0.328  Sum_probs=17.4

Q ss_pred             EEcCCCccHHHHHHHHhccc
Q 035574           20 ILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        20 I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |+|..|+|||||+..+....
T Consensus         1 iiG~~~~GKStl~~~l~~~~   20 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGE   20 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCC
Confidence            57999999999999998744

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

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=94.06  E-value=0.045  Score=44.08  Aligned_cols=20  Identities=15%  Similarity=0.218  Sum_probs=17.0

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |++.|-||+||||++..+..
T Consensus         3 ia~~gKGGVGKTTta~nLA~   22 (290)
T CHL00072          3 LAVYGKGGIGKSTTSCNISI   22 (290)
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            78999999999998776544

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=94.06  E-value=0.071  Score=45.43  Aligned_cols=38  Identities=18%  Similarity=0.277  Sum_probs=27.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccccccCc--eEEEEEc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFD--YLAWIPA   53 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~--~~~wv~v   53 (156)
                      ....+-|+|..|+|||+|++.+.+  ++..++.  ...+++.
T Consensus       147 ~~~~l~l~G~~G~GKThL~~ai~~--~~~~~~~~~~v~yi~~  186 (450)
T PRK00149        147 AYNPLFIYGGVGLGKTHLLHAIGN--YILEKNPNAKVVYVTS  186 (450)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHH--HHHHhCCCCeEEEEEH
Confidence            346688999999999999999998  4444432  2445543

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=94.06  E-value=0.052  Score=39.26  Aligned_cols=23  Identities=9%  Similarity=0.166  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|.+|+|||||+..+.+.
T Consensus         4 ~ki~vvG~~~~GKSsl~~~~~~~   26 (167)
T cd01867           4 FKLLLIGDSGVGKSCLLLRFSED   26 (167)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            45789999999999999998764

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=94.05  E-value=0.051  Score=38.71  Aligned_cols=21  Identities=10%  Similarity=0.178  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||...+.+.
T Consensus         3 v~~vG~~~~GKTsl~~~~~~~   23 (162)
T cd04106           3 VIVVGNGNVGKSSMIQRFVKG   23 (162)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999998764

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

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=94.05  E-value=0.052  Score=41.90  Aligned_cols=24  Identities=25%  Similarity=0.221  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.+++|+|..|.|||||++.+..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G   50 (237)
T cd03252          27 PGEVVGIVGRSGSGKSTLTKLIQR   50 (237)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346889999999999999999875

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

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

Probab=94.05  E-value=0.053  Score=38.78  Aligned_cols=22  Identities=18%  Similarity=0.338  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +|.|+|..|+|||||...+...
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~   23 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKT   23 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhc
Confidence            6899999999999999998764

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.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=94.05  E-value=0.1  Score=42.81  Aligned_cols=47  Identities=21%  Similarity=0.175  Sum_probs=33.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQ   61 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~   61 (156)
                      +.-+++-|+|..++||||||-++..  ..+..-...+||...+.++...
T Consensus        51 p~G~ivEi~G~~ssGKttLaL~~ia--~~q~~g~~~a~ID~e~~ld~~~   97 (322)
T PF00154_consen   51 PRGRIVEIYGPESSGKTTLALHAIA--EAQKQGGICAFIDAEHALDPEY   97 (322)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHH--HHHHTT-EEEEEESSS---HHH
T ss_pred             ccCceEEEeCCCCCchhhhHHHHHH--hhhcccceeEEecCcccchhhH
Confidence            3457999999999999999999877  3433445589998887777643

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>PRK10536 hypothetical protein; Provisional

Probab=94.05  E-value=0.12  Score=41.20  Aligned_cols=32  Identities=16%  Similarity=0.155  Sum_probs=23.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCce
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDY   47 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~   47 (156)
                      ..+.+.|..|.|||+||..+..+.-....|+.
T Consensus        75 ~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~k  106 (262)
T PRK10536         75 QLIFATGEAGCGKTWISAAKAAEALIHKDVDR  106 (262)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeE
Confidence            48899999999999999987664322334543

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=94.05  E-value=0.05  Score=42.09  Aligned_cols=24  Identities=21%  Similarity=0.165  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+...
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~l~G~   50 (240)
T PRK09493         27 GEVVVIIGPSGSGKSTLLRCINKL   50 (240)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999998763

>PRK00089 era GTPase Era; Reviewed

Probab=94.03  E-value=0.057  Score=43.05  Aligned_cols=25  Identities=16%  Similarity=0.203  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....|+|+|.+|+|||||...+...
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~   28 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQ   28 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCC
Confidence            4678999999999999999998653

>cd04144 Ras2 Ras2 subfamily

Probab=94.03  E-value=0.052  Score=40.39  Aligned_cols=21  Identities=29%  Similarity=0.371  Sum_probs=18.2

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|+|-+|+|||||+..+.++
T Consensus         2 i~ivG~~~vGKTsli~~l~~~   22 (190)
T cd04144           2 LVVLGDGGVGKTALTIQLCLN   22 (190)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999987653

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.

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=94.03  E-value=0.053  Score=42.32  Aligned_cols=23  Identities=22%  Similarity=0.257  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        32 Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14242         32 NQVTALIGPSGCGKSTFLRCLNR   54 (253)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35789999999999999999874

>cd04128 Spg1 Spg1p

Probab=94.03  E-value=0.066  Score=39.81  Aligned_cols=21  Identities=14%  Similarity=0.313  Sum_probs=18.0

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.++|..|+|||+|+..+.++
T Consensus         3 i~vlG~~~vGKTsLi~~~~~~   23 (182)
T cd04128           3 IGLLGDAQIGKTSLMVKYVEG   23 (182)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999887554

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

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=94.02  E-value=0.054  Score=40.66  Aligned_cols=23  Identities=17%  Similarity=0.186  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.++.|+|..|.|||||.+.+..
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~G   55 (192)
T cd03232          33 GTLTALMGESGAGKTTLLDVLAG   55 (192)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            46889999999999999999986

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.

>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=94.02  E-value=0.053  Score=41.23  Aligned_cols=24  Identities=21%  Similarity=0.069  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -..++|+|..|.|||||.+.+..-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (218)
T cd03266          31 GEVTGLLGPNGAGKTTTLRMLAGL   54 (218)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999999773

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.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=94.02  E-value=0.053  Score=42.87  Aligned_cols=23  Identities=26%  Similarity=0.199  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -..++|+|..|+|||||.+.+..
T Consensus        29 GEfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          29 GEFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46789999999999999998865

>PRK07933 thymidylate kinase; Validated

Probab=94.02  E-value=0.051  Score=41.78  Aligned_cols=21  Identities=24%  Similarity=0.226  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|+|.|+-|+||||+++.+.+
T Consensus         2 ~IviEG~dGsGKST~~~~L~~   22 (213)
T PRK07933          2 LIAIEGVDGAGKRTLTEALRA   22 (213)
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            589999999999999999988

>PRK06921 hypothetical protein; Provisional

Probab=94.01  E-value=0.072  Score=42.46  Aligned_cols=38  Identities=21%  Similarity=0.187  Sum_probs=27.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcccccccc-CceEEEEEc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHY-FDYLAWIPA   53 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~-F~~~~wv~v   53 (156)
                      ...-+-++|..|+|||.|+..+.+  .+... -...+|++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~--~l~~~~g~~v~y~~~  154 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAAN--ELMRKKGVPVLYFPF  154 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHH--HHhhhcCceEEEEEH
Confidence            356789999999999999999988  44433 233566664

>PRK07429 phosphoribulokinase; Provisional

Probab=94.00  E-value=0.062  Score=44.18  Aligned_cols=25  Identities=16%  Similarity=0.236  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...-+|+|.|..|.||||+++.+..
T Consensus         6 ~~~~IIgI~G~SGSGKSTla~~L~~   30 (327)
T PRK07429          6 DRPVLLGVAGDSGCGKTTFLRGLAD   30 (327)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHh
Confidence            4567999999999999999999876

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=94.00  E-value=0.05  Score=41.25  Aligned_cols=21  Identities=19%  Similarity=0.170  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++.|+|..|.|||||++.++.
T Consensus        24 ~~~i~G~nGsGKStll~al~~   44 (197)
T cd03278          24 LTAIVGPNGSGKSNIIDAIRW   44 (197)
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            789999999999999998863

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=93.99  E-value=0.054  Score=42.16  Aligned_cols=24  Identities=17%  Similarity=0.242  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.+++|+|..|.|||||++.+..
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G   49 (247)
T TIGR00972        26 KNQVTALIGPSGCGKSTLLRSLNR   49 (247)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999999865

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.99  E-value=0.054  Score=42.24  Aligned_cols=22  Identities=32%  Similarity=0.318  Sum_probs=19.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHh
Q 035574           15 LSVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      -.+++|+|..|.|||||++.+.
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~   50 (250)
T PRK14245         29 KSVVAFIGPSGCGKSTFLRLFN   50 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            4678999999999999999985

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.99  E-value=0.053  Score=42.21  Aligned_cols=23  Identities=13%  Similarity=0.190  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14247         29 NTITALMGPSGSGKSTLLRVFNR   51 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46889999999999999999876

>cd04125 RabA_like RabA-like subfamily

Probab=93.98  E-value=0.055  Score=40.01  Aligned_cols=21  Identities=19%  Similarity=0.357  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||+..+.+.
T Consensus         3 i~v~G~~~vGKSsli~~~~~~   23 (188)
T cd04125           3 VVIIGDYGVGKSSLLKRFTED   23 (188)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999998764

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.

>PRK15453 phosphoribulokinase; Provisional

Probab=93.98  E-value=0.061  Score=43.49  Aligned_cols=24  Identities=17%  Similarity=0.210  Sum_probs=20.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|+|.|-+|.||||+++.+.+
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~   27 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEK   27 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999998764

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.97  E-value=0.054  Score=41.11  Aligned_cols=25  Identities=12%  Similarity=0.007  Sum_probs=21.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-.+++|+|..|.|||||++.+...
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~   51 (207)
T PRK13539         27 AGEALVLTGPNGSGKTTLLRLIAGL   51 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468899999999999999999874

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=93.96  E-value=0.055  Score=42.09  Aligned_cols=24  Identities=29%  Similarity=0.158  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+...
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~G~   52 (250)
T PRK11264         29 GEVVAIIGPSGSGKTTLLRCINLL   52 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357899999999999999998763

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

Probab=93.96  E-value=0.045  Score=39.64  Aligned_cols=21  Identities=10%  Similarity=0.143  Sum_probs=18.0

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|+|-+|+|||||...+...
T Consensus         1 i~i~G~~~vGKTsli~~~~~~   21 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTN   21 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhC
Confidence            468999999999999987654

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=93.94  E-value=0.064  Score=39.44  Aligned_cols=23  Identities=13%  Similarity=0.133  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.|+|..|+|||||...+.++.
T Consensus         2 ki~vvG~~~vGKTsli~~l~~~~   24 (187)
T cd04132           2 KIVVVGDGGCGKTCLLIVYSQGK   24 (187)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCc
Confidence            36899999999999999887653

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.

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=93.93  E-value=0.056  Score=41.12  Aligned_cols=24  Identities=21%  Similarity=0.185  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|.|..|.|||||++.++..
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~   47 (213)
T TIGR01277        24 GEIVAIMGPSGAGKSTLLNLIAGF   47 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            467899999999999999999874

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.92  E-value=0.058  Score=40.65  Aligned_cols=25  Identities=16%  Similarity=0.048  Sum_probs=22.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-.+++|+|..|.|||||.+.+...
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i~G~   50 (200)
T PRK13540         26 AGGLLHLKGSNGAGKTTLLKLIAGL   50 (200)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3468899999999999999999873

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=93.91  E-value=0.059  Score=40.51  Aligned_cols=25  Identities=12%  Similarity=0.068  Sum_probs=21.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-.+++|+|..|.|||||.+.+...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~   49 (198)
T TIGR01189        25 AGEALQVTGPNGIGKTTLLRILAGL   49 (198)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3468899999999999999999874

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.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.91  E-value=0.057  Score=41.95  Aligned_cols=24  Identities=13%  Similarity=0.124  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+..-
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (241)
T PRK14250         29 GAIYTIVGPSGAGKSTLIKLINRL   52 (241)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            357899999999999999998763

>PF13245 AAA_19: Part of AAA domain

Probab=93.90  E-value=0.12  Score=33.40  Aligned_cols=23  Identities=17%  Similarity=0.154  Sum_probs=16.5

Q ss_pred             cEEEEEEcCCCccHHHH-HHHHhc
Q 035574           15 LSVVAILDSIGLDKTAF-TAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtL-a~~vy~   37 (156)
                      -++..|.|.+|.|||++ +..+..
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            45677899999999954 444433

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=93.90  E-value=0.05  Score=47.51  Aligned_cols=23  Identities=9%  Similarity=0.109  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|||..|.||||||+.+..
T Consensus       317 GE~lglVGeSGsGKSTlar~i~g  339 (539)
T COG1123         317 GETLGLVGESGSGKSTLARILAG  339 (539)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35789999999999999999876

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=93.90  E-value=0.22  Score=42.55  Aligned_cols=24  Identities=17%  Similarity=0.076  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-+|+|.|..|.|||||++.+..
T Consensus       211 ~PlIIGIsG~qGSGKSTLa~~L~~  234 (460)
T PLN03046        211 PPLVIGFSAPQGCGKTTLVFALDY  234 (460)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            567999999999999999999855

>PRK13976 thymidylate kinase; Provisional

Probab=93.90  E-value=0.14  Score=39.35  Aligned_cols=21  Identities=14%  Similarity=0.009  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|+|-|.-|+||||+++.+++
T Consensus         2 fIv~EGiDGsGKsTq~~~L~~   22 (209)
T PRK13976          2 FITFEGIDGSGKTTQSRLLAE   22 (209)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999988

>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=93.89  E-value=0.06  Score=39.66  Aligned_cols=24  Identities=17%  Similarity=0.146  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.++.|+|..|.|||||.+.+...
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGL   49 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999999773

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.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.88  E-value=0.058  Score=42.32  Aligned_cols=23  Identities=26%  Similarity=0.281  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        38 Ge~~~l~G~nGsGKSTLl~~l~G   60 (259)
T PRK14274         38 NEVTAIIGPSGCGKSTFIKTLNL   60 (259)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45789999999999999999864

>TIGR00017 cmk cytidylate kinase

Probab=93.88  E-value=0.06  Score=41.64  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|+|.|..|.||||+++.+..
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~   24 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAE   24 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999976

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=93.88  E-value=0.057  Score=42.30  Aligned_cols=25  Identities=24%  Similarity=0.207  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-.+++|+|..|.|||||++.+...
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~i~G~   54 (257)
T PRK10619         30 AGDVISIIGSSGSGKSTFLRCINFL   54 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468899999999999999998774

>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=93.88  E-value=0.063  Score=39.58  Aligned_cols=23  Identities=17%  Similarity=0.193  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.++.|+|..|.|||||.+.+..
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G   50 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILG   50 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45789999999999999999876

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

>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=93.87  E-value=0.059  Score=39.97  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.++.|+|..|.|||||.+.++..
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~   48 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGL   48 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999999883

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.

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

Probab=93.87  E-value=0.061  Score=40.15  Aligned_cols=23  Identities=17%  Similarity=0.309  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|-|.|+|-.|+|||||+..+.+
T Consensus         2 ~r~i~ivG~~~~GKTsL~~~l~~   24 (194)
T cd01891           2 IRNIAIIAHVDHGKTTLVDALLK   24 (194)
T ss_pred             ccEEEEEecCCCCHHHHHHHHHH
Confidence            57899999999999999998875

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

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=93.86  E-value=0.22  Score=46.36  Aligned_cols=58  Identities=14%  Similarity=0.076  Sum_probs=38.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccc---cccCc-e-EEEEEcCCCCCHHHHHHHHHHHh
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYM---KHYFD-Y-LAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v---~~~F~-~-~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      ....++-|.|.+|.|||+.++.|.+..+-   ....+ + .++|....-.+...+...|++++
T Consensus       779 gpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIYqvI~qqL  841 (1164)
T PTZ00112        779 GSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAYQVLYKQL  841 (1164)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHHHHHHHHH
Confidence            33467889999999999999999873211   11222 1 45665555556666666666666

>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=93.86  E-value=0.059  Score=41.78  Aligned_cols=24  Identities=17%  Similarity=0.068  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+...
T Consensus        47 Ge~~~i~G~NGsGKSTLl~~i~Gl   70 (236)
T cd03267          47 GEIVGFIGPNGAGKTTTLKILSGL   70 (236)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999999863

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.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=93.86  E-value=0.12  Score=44.27  Aligned_cols=23  Identities=17%  Similarity=0.260  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-|+|..|+|||+|++.+.+
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~  163 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVH  163 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHH
Confidence            45688999999999999999998

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=93.85  E-value=0.056  Score=44.22  Aligned_cols=24  Identities=21%  Similarity=0.163  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+..-
T Consensus        33 Ge~~~lvG~sGsGKSTL~~~l~Gl   56 (326)
T PRK11022         33 GEVVGIVGESGSGKSVSSLAIMGL   56 (326)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcC
Confidence            368999999999999999998773

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=93.85  E-value=0.059  Score=42.25  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~laG   52 (258)
T PRK14241         30 RSVTAFIGPSGCGKSTVLRTLNR   52 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            46889999999999999999876

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=93.85  E-value=0.057  Score=40.09  Aligned_cols=23  Identities=9%  Similarity=-0.057  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-|.++|.+|+|||+|+..+...
T Consensus        18 ~kv~lvG~~~vGKTsli~~~~~~   40 (182)
T PTZ00133         18 VRILMVGLDAAGKTTILYKLKLG   40 (182)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhcC
Confidence            34788999999999999998553

>cd04148 RGK RGK subfamily

Probab=93.85  E-value=0.069  Score=41.05  Aligned_cols=20  Identities=25%  Similarity=0.436  Sum_probs=18.1

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.++|-+|+|||||+..+..
T Consensus         3 I~lvG~~gvGKTsLi~~~~~   22 (221)
T cd04148           3 VVMLGSPGVGKSSLASQFTS   22 (221)
T ss_pred             EEEECCCCCcHHHHHHHHhc
Confidence            78999999999999999854

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

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=93.85  E-value=0.059  Score=40.87  Aligned_cols=22  Identities=9%  Similarity=0.071  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|+|.|..|.||||+++.+.+
T Consensus         2 ~~i~itG~~gsGKst~~~~l~~   23 (195)
T PRK14730          2 RRIGLTGGIASGKSTVGNYLAQ   23 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998865

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

Probab=93.84  E-value=0.07  Score=39.30  Aligned_cols=27  Identities=11%  Similarity=0.104  Sum_probs=22.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .+...|.|+|..|+|||||...+..+.
T Consensus        16 ~~~~~i~ivG~~~~GKStlin~l~~~~   42 (179)
T TIGR03598        16 DDGPEIAFAGRSNVGKSSLINALTNRK   42 (179)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            445678999999999999999988753

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.

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=93.84  E-value=0.28  Score=41.41  Aligned_cols=56  Identities=7%  Similarity=0.047  Sum_probs=38.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHHhC
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILL   71 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~   71 (156)
                      ..-.++.|-|.+|+|||++|..+..+...+..+ .++|++  -+.+..++...++....
T Consensus       192 ~~g~liviag~pg~GKT~~al~ia~~~a~~~g~-~v~~fS--lEm~~~~l~~Rl~~~~~  247 (421)
T TIGR03600       192 VKGDLIVIGARPSMGKTTLALNIAENVALREGK-PVLFFS--LEMSAEQLGERLLASKS  247 (421)
T ss_pred             CCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCC-cEEEEE--CCCCHHHHHHHHHHHHc
Confidence            345688889999999999999987533223333 345554  44577888877776543

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=93.83  E-value=0.055  Score=42.67  Aligned_cols=24  Identities=13%  Similarity=0.077  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+..-
T Consensus        37 Ge~~~i~G~nGsGKSTLl~~l~Gl   60 (265)
T PRK10575         37 GKVTGLIGHNGSGKSTLLKMLGRH   60 (265)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            358899999999999999998763

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=93.83  E-value=0.06  Score=42.55  Aligned_cols=24  Identities=17%  Similarity=0.105  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        38 Ge~~~I~G~NGsGKSTLlk~l~Gl   61 (257)
T PRK11247         38 GQFVAVVGRSGCGKSTLLRLLAGL   61 (257)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357899999999999999999763

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=93.82  E-value=0.059  Score=39.84  Aligned_cols=24  Identities=17%  Similarity=0.140  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.++.|.|..|.|||||++.+...
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            357899999999999999998774

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.

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=93.82  E-value=0.06  Score=41.54  Aligned_cols=25  Identities=20%  Similarity=0.121  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        28 ~Ge~~~l~G~nGsGKSTLl~~i~G~   52 (238)
T cd03249          28 PGKTVALVGSSGCGKSTVVSLLERF   52 (238)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHhcc
Confidence            3468899999999999999998763

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=93.81  E-value=0.06  Score=42.30  Aligned_cols=24  Identities=13%  Similarity=0.202  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.++.-
T Consensus        30 Ge~~~I~G~NGsGKSTLl~~i~Gl   53 (251)
T PRK09544         30 GKILTLLGPNGAGKSTLVRVVLGL   53 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999999873

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=93.80  E-value=0.063  Score=39.91  Aligned_cols=24  Identities=17%  Similarity=0.268  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.++.|+|..|.|||||.+.+..-
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (182)
T cd03215          26 GEIVGIAGLVGNGQTELAEALFGL   49 (182)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            357899999999999999998763

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.

>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=93.79  E-value=0.064  Score=38.54  Aligned_cols=24  Identities=8%  Similarity=0.076  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.++.|+|..|.|||||++.+...
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            467899999999999999999774

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.

>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.79  E-value=0.15  Score=44.14  Aligned_cols=39  Identities=18%  Similarity=0.239  Sum_probs=30.8

Q ss_pred             CCCcEEEEEEcCCCccHHH-HHHHHhccccccccCceEEEEE
Q 035574           12 PTQLSVVAILDSIGLDKTA-FTAEAYNSSYMKHYFDYLAWIP   52 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTt-La~~vy~~~~v~~~F~~~~wv~   52 (156)
                      ...+.||++||-.||||+| ||+..|-  -.++.|...+=.|
T Consensus       375 ~krPYVi~fvGVNGVGKSTNLAKIayW--LlqNkfrVLIAAC  414 (587)
T KOG0781|consen  375 RKRPYVISFVGVNGVGKSTNLAKIAYW--LLQNKFRVLIAAC  414 (587)
T ss_pred             cCCCeEEEEEeecCccccchHHHHHHH--HHhCCceEEEEec
Confidence            4578999999999999988 8888887  6667786544444

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=93.79  E-value=0.12  Score=45.23  Aligned_cols=47  Identities=23%  Similarity=0.315  Sum_probs=34.7

Q ss_pred             HHHHHHHhc---CCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEE
Q 035574            2 EELLDLLIE---GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIP   52 (156)
Q Consensus         2 ~~l~~~L~~---~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~   52 (156)
                      +++-.||..   +....+++-+.|.+|.||||.++.+++..    .|+.+-|..
T Consensus        29 ~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el----g~~v~Ew~n   78 (519)
T PF03215_consen   29 EEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL----GFEVQEWIN   78 (519)
T ss_pred             HHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh----CCeeEEecC
Confidence            467778755   33446799999999999999999988732    356666753

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=93.78  E-value=0.061  Score=41.88  Aligned_cols=23  Identities=13%  Similarity=0.224  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G   53 (252)
T PRK14239         31 NEITALIGPSGSGKSTLLRSINR   53 (252)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            35799999999999999999964

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=93.78  E-value=0.14  Score=36.50  Aligned_cols=26  Identities=15%  Similarity=0.117  Sum_probs=21.2

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +...-|++.+|..|+|||.+++.+.+
T Consensus        50 p~KpLVlSfHG~tGtGKn~v~~liA~   75 (127)
T PF06309_consen   50 PRKPLVLSFHGWTGTGKNFVSRLIAE   75 (127)
T ss_pred             CCCCEEEEeecCCCCcHHHHHHHHHH
Confidence            56678999999999999997666544

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.78  E-value=0.055  Score=44.75  Aligned_cols=38  Identities=11%  Similarity=0.093  Sum_probs=27.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcccccc--ccCceEEEEEc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMK--HYFDYLAWIPA   53 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~--~~F~~~~wv~v   53 (156)
                      |+|-++|.+|.|||+|.+.+++...++  +.|....-+.+
T Consensus       178 RliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEi  217 (423)
T KOG0744|consen  178 RLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEI  217 (423)
T ss_pred             eEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEE
Confidence            677889999999999999999865554  34444444443

>cd01874 Cdc42 Cdc42 subfamily

Probab=93.78  E-value=0.073  Score=39.19  Aligned_cols=22  Identities=9%  Similarity=0.084  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -+.++|-+|+|||+|+..+.++
T Consensus         3 ki~vvG~~~vGKTsl~~~~~~~   24 (175)
T cd01874           3 KCVVVGDGAVGKTCLLISYTTN   24 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999988654

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

>PRK06526 transposase; Provisional

Probab=93.78  E-value=0.052  Score=43.01  Aligned_cols=23  Identities=22%  Similarity=0.083  Sum_probs=20.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-+-++|.+|+|||+||..+..
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~  120 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGI  120 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHH
Confidence            34578999999999999999876

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=93.76  E-value=0.062  Score=42.21  Aligned_cols=23  Identities=17%  Similarity=0.185  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        39 Ge~~~i~G~nGsGKSTLl~~l~G   61 (260)
T PRK10744         39 NQVTAFIGPSGCGKSTLLRTFNR   61 (260)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46789999999999999999875

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=93.76  E-value=0.062  Score=42.59  Aligned_cols=23  Identities=22%  Similarity=0.302  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        50 Ge~~~I~G~nGsGKSTLl~~i~G   72 (271)
T PRK14238         50 NEVTAIIGPSGCGKSTYIKTLNR   72 (271)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46889999999999999999875

>cd03273 ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=93.75  E-value=0.063  Score=42.00  Aligned_cols=23  Identities=17%  Similarity=0.004  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+..|+|..|.|||||+..++.
T Consensus        25 ~~~~~IvG~NGsGKStll~Ai~~   47 (251)
T cd03273          25 PQFNAITGLNGSGKSNILDAICF   47 (251)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            56789999999999999999874

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=93.75  E-value=0.062  Score=41.62  Aligned_cols=24  Identities=21%  Similarity=0.115  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+...
T Consensus        29 Ge~~~l~G~nGsGKSTLl~~l~G~   52 (241)
T PRK10895         29 GEIVGLLGPNGAGKTTTFYMVVGI   52 (241)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999998763

>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=93.75  E-value=0.063  Score=39.42  Aligned_cols=24  Identities=13%  Similarity=0.022  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -..+.|+|..|.|||||++.+...
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            457899999999999999999874

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

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=93.73  E-value=0.069  Score=40.97  Aligned_cols=24  Identities=33%  Similarity=0.286  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+..-
T Consensus        33 Ge~~~l~G~nGsGKSTLlk~l~G~   56 (226)
T cd03234          33 GQVMAILGSSGSGKTTLLDAISGR   56 (226)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCc
Confidence            468899999999999999999773

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>cd01892 Miro2 Miro2 subfamily

Probab=93.73  E-value=0.089  Score=38.42  Aligned_cols=25  Identities=20%  Similarity=0.223  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ..-+.++|-+|+|||+|...+....
T Consensus         4 ~~kv~~vG~~~vGKTsli~~~~~~~   28 (169)
T cd01892           4 VFLCFVLGAKGSGKSALLRAFLGRS   28 (169)
T ss_pred             EEEEEEECCCCCcHHHHHHHHhCCC
Confidence            4457889999999999999987753

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.

>cd04151 Arl1 Arl1 subfamily

Probab=93.73  E-value=0.059  Score=38.55  Aligned_cols=20  Identities=20%  Similarity=0.031  Sum_probs=17.8

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.++|.+|+|||||+..+..
T Consensus         2 v~lvG~~~~GKTsl~~~l~~   21 (158)
T cd04151           2 ILILGLDNAGKTTILYRLQL   21 (158)
T ss_pred             EEEECCCCCCHHHHHHHHcc
Confidence            67899999999999999844

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.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=93.73  E-value=0.063  Score=41.22  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.+++|+|..|.|||||++.+..
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G   48 (230)
T TIGR03410        25 KGEVTCVLGRNGVGKTTLLKTLMG   48 (230)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            346899999999999999999876

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.

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=93.72  E-value=0.14  Score=38.07  Aligned_cols=39  Identities=15%  Similarity=0.018  Sum_probs=26.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcccccc-ccCceEEEEEcCC
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMK-HYFDYLAWIPAPY   55 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~-~~F~~~~wv~vs~   55 (156)
                      ..++-+.|..|+|||.||+.+.+  .+. ......+-+.+++
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~--~l~~~~~~~~~~~d~s~   42 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAE--LLFVGSERPLIRIDMSE   42 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHH--HHT-SSCCEEEEEEGGG
T ss_pred             EEEEEEECCCCCCHHHHHHHHHH--HhccCCccchHHHhhhc
Confidence            45778899999999999998877  333 3333444444443

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 ATPase AAA-2 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 []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>PHA02575 1 deoxynucleoside monophosphate kinase; Provisional

Probab=93.72  E-value=0.062  Score=42.01  Aligned_cols=21  Identities=14%  Similarity=0.066  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|+|+||.|+||+|.|+.+-.
T Consensus         2 iI~i~G~~gsGKstva~~~~~   22 (227)
T PHA02575          2 LIAISGKKRSGKDTVADFIIE   22 (227)
T ss_pred             EEEEeCCCCCCHHHHHHHHHh
Confidence            689999999999999998844

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	156
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	1e-04

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score = 39.8 bits (93), Expect = 1e-04
 Identities = 13/89 (14%), Positives = 28/89 (31%), Gaps = 5/89 (5%)

Query: 1   MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMK--HYFDYLAWIPAPYHYD 58
           +  +   L +   +   V I    G  K+   AEA     +    +   + W+       
Sbjct: 133 VNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDK 192

Query: 59  PD---QILDIVAVILLPFSMFKILPDNQN 84
                ++ ++   +    S  + LP N  
Sbjct: 193 SGLLMKLQNLCTRLDQDESFSQRLPLNIE 221

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	156
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.89
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.75
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.72
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.63
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.7
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	97.62
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.59
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.57
2fna_A	357	Conserved hypothetical protein; structural genomic	97.55
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.49
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.41
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.25
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.12
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.99
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.94
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	96.91
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.88
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.81
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.79
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.76
3bos_A	242	Putative DNA replication factor; P-loop containing	96.72
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.7
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.7
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.69
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.69
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.65
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.64
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.64
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.57
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.49
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.49
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.48
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.45
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.44
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.44
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.43
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.4
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.39
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.39
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.38
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.37
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.37
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.32
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.31
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.3
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.3
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.3
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.28
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.27
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.26
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.25
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.25
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.25
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.24
1via_A	175	Shikimate kinase; structural genomics, transferase	96.24
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.24
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.23
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.23
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.22
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.21
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.18
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.18
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.17
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.15
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.15
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.15
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.15
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.14
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.12
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.12
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.12
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.11
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	96.1
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.09
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.06
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.05
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.04
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.04
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.03
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.03
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.03
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.0
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.98
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.98
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.97
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.97
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	95.94
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.93
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.91
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.9
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.89
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	95.88
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.88
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.88
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.88
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.88
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.87
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.86
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.85
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.82
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.82
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.81
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.81
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.78
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.78
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.78
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.77
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.76
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.76
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.74
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.72
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.7
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.67
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.67
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	95.66
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.66
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.65
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.65
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.64
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.64
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.64
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.64
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.63
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.61
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	95.61
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.59
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.59
3end_A	307	Light-independent protochlorophyllide reductase ir	95.59
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.57
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.56
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.56
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.53
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.52
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.5
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.48
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.48
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.47
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.47
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.46
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	95.46
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.46
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.45
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	95.45
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	95.44
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.44
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.43
2xxa_A	433	Signal recognition particle protein; protein trans	95.42
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.42
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.39
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.39
3co5_A	143	Putative two-component system transcriptional RES	95.39
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.36
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.36
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.35
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.35
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.34
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.34
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.34
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.32
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.3
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.29
2qgz_A	308	Helicase loader, putative primosome component; str	95.29
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.28
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	95.28
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	95.25
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.25
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.23
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.23
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	95.22
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.2
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.2
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.2
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.19
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.17
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.15
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.15
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.15
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.14
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.13
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.12
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.11
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.09
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	95.09
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.08
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.08
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.08
3pvs_A	447	Replication-associated recombination protein A; ma	95.04
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.04
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.04
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	95.03
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.02
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.02
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.01
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	94.99
2og2_A	359	Putative signal recognition particle receptor; nuc	94.99
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.98
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.98
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	94.98
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.97
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.95
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.95
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	94.94
1g6h_A	257	High-affinity branched-chain amino acid transport	94.94
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.93
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.92
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	94.92
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.91
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.9
2chq_A	319	Replication factor C small subunit; DNA-binding pr	94.9
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.9
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	94.88
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.87
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	94.87
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.87
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.86
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	94.86
1u94_A	356	RECA protein, recombinase A; homologous recombinat	94.83
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.83
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	94.83
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	94.82
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.81
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.81
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.8
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.8
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	94.8
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.8
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.8
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	94.79
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	94.79
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	94.79
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.77
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.77
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.77
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.76
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.76
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	94.75
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.75
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	94.73
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.73
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	94.73
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.72
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.72
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.71
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.71
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.71
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.7
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	94.69
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.69
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	94.68
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.68
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.68
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	94.67
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	94.67
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	94.66
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	94.65
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	94.65
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.64
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.64
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.64
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.63
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	94.62
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	94.62
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	94.61
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.61
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.6
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	94.6
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.59
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.59
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	94.58
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	94.58
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.58
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	94.58
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.56
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.56
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	94.54
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	94.54
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	94.53
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.53
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.51
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.49
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	94.48
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.47
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.47
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.46
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.46
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	94.45
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.44
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	94.44
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.44
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	94.42
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.42
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	94.41
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	94.4
2eyu_A	261	Twitching motility protein PILT; pilus retraction	94.39
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	94.39
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	94.38
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	94.38
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	94.36
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	94.32
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	94.31
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	94.3
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	94.3
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	94.29
2fh5_B	214	SR-beta, signal recognition particle receptor beta	94.28
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	94.27
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	94.27
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	94.26
1xp8_A	366	RECA protein, recombinase A; recombination, radior	94.25
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.25
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	94.25
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	94.25
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.25
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	94.24
3llu_A	196	RAS-related GTP-binding protein C; structural geno	94.24
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	94.21
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	94.21
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	94.21
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.19
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.18
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	94.18
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.18
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.17
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	94.16
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	94.16
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	94.15
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.14
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	94.13
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.13
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.13
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	94.12
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	94.12
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	94.12
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.11
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	94.07
3io5_A	333	Recombination and repair protein; storage dimer, i	94.06
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	94.05
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	94.04
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	94.03
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	94.03
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.02
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.01
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	94.01
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	93.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	93.95
1tue_A	212	Replication protein E1; helicase, replication, E1E	93.94
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	93.93
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	93.93
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	93.91
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.91
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	93.9
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	93.9
2r6a_A	454	DNAB helicase, replicative helicase; replication,	93.89
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	93.88
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	93.87
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	93.87
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.86
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	93.86
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	93.86
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.83
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.8
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	93.79
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	93.78
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.78
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	93.78
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	93.77
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	93.77
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	93.76
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	93.74
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	93.72
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	93.72
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.71
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	93.7
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	93.68
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	93.68
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	93.65
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.65
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	93.62
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	93.59
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	93.59
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.58
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	93.58
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	93.57
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	93.56
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	93.55
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	93.53
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	93.53
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	93.51
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	93.51
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.5
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	93.49
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	93.48
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.47
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	93.47
2r44_A	331	Uncharacterized protein; putative ATPase, structur	93.46
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.44
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	93.42
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	93.4
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	93.39
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.38
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	93.37
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	93.36
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	93.32
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.31
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	93.3
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.26
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.22
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	93.22
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	93.21
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	93.2
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.19
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	93.19
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	93.18
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.17
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.15
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	93.12
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	93.1
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.1
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	93.09
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	93.08
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.07
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	93.05
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.04
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.02
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	93.0
3cwq_A	209	Para family chromosome partitioning protein; alpha	92.98
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	92.98
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	92.98
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	92.97
2ewv_A	372	Twitching motility protein PILT; pilus retraction	92.96
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	92.96
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	92.94
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	92.89
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	92.89
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	92.88
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	92.84
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	92.83
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	92.82
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	92.81
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	92.8
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	92.8
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	92.76
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.74
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	92.74
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	92.73
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	92.65
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	92.65
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	92.63
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	92.62
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	92.58
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	92.58
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	92.57
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	92.55
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	92.54
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	92.45
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	92.45
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.45
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	92.4
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	92.37
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	92.35
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	92.35
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	92.35
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	92.34
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.33
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	92.33
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	92.32
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	92.31
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	92.3
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	92.25
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	92.24
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	92.22
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	92.2
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	92.19
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	92.14
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	92.1
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	92.08
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	92.07
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	92.06
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	92.03
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	92.01
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	91.97
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	91.93
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	91.86
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	91.81
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	91.78
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	91.75
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	91.74
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	91.73
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	91.68
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	91.67
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	91.63
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	91.63
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	91.61
1p6x_A	334	Thymidine kinase; P-loop, LID, transferase; HET: T	91.59
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	91.48
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	91.45
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	91.45
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	91.44
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	90.76
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	91.42
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	91.4

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=99.89  E-value=3.3e-23  Score=177.14  Aligned_cols=137  Identities=11%  Similarity=0.091  Sum_probs=104.2

Q ss_pred             HHHHHHHhcC-CCCcEEEEEEcCCCccHHHHHHHHhc--cccccccCceEEEEEcCCCC--CHHHHHHHHHHHhCCCC--
Q 035574            2 EELLDLLIEG-PTQLSVVAILDSIGLDKTAFTAEAYN--SSYMKHYFDYLAWIPAPYHY--DPDQILDIVAVILLPFS--   74 (156)
Q Consensus         2 ~~l~~~L~~~-~~~~~vi~I~G~gGvGKTtLa~~vy~--~~~v~~~F~~~~wv~vs~~~--~~~~l~~~il~~l~~~~--   74 (156)
                      ++|.++|..+ +...++|+|+||||+||||||+++|+  |.+++.+|+.++||++++.+  +...+++.|+.++....  
T Consensus       138 ~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~l~~~~~~  217 (549)
T 2a5y_B          138 DRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDL  217 (549)
T ss_dssp             HHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCC
T ss_pred             HHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHHHhcCccc
Confidence            4567777554 45689999999999999999999998  77899999999999999985  88899999999886320  


Q ss_pred             -------c----------------c-c--------------cCCCCCCCeEEEEEcCCHHHHhhcCcCccccccccc---
Q 035574           75 -------M----------------F-K--------------ILPDNQNGSRVLITLTQIKMVTSFQLEDRENIRLDL---  113 (156)
Q Consensus        75 -------~----------------~-~--------------~l~~~~~gsrIivTTR~~~Va~~~~~~~~~~~~l~~---  113 (156)
                             .                + .              .++. .+||+||||||+..|+..++... ..++++.   
T Consensus       218 ~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~~~~~-~~gs~ilvTTR~~~v~~~~~~~~-~~~~l~~L~~  295 (549)
T 2a5y_B          218 LNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ-ELRLRCLVTTRDVEISNAASQTC-EFIEVTSLEI  295 (549)
T ss_dssp             TTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH-HTTCEEEEEESBGGGGGGCCSCE-EEEECCCCCH
T ss_pred             ccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhhcccc-cCCCEEEEEcCCHHHHHHcCCCC-eEEECCCCCH
Confidence                   0                1 1              1221 27999999999999998875211 1122221   


Q ss_pred             --------------------cCChhhHhhhcCChHHHHHHHhCCCCc
Q 035574          114 --------------------VPTGGPLRATYQGWPFLILYHGSISLE  140 (156)
Q Consensus       114 --------------------~~~~~~i~~~~~g~pl~~~~~gs~~~~  140 (156)
                                          ...+..|+++|+|+|||+.++|+....
T Consensus       296 ~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~  342 (549)
T 2a5y_B          296 DECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEP  342 (549)
T ss_dssp             HHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhcc
Confidence                                224677999999999999999997533

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=99.75  E-value=2.6e-18  Score=155.69  Aligned_cols=135  Identities=16%  Similarity=0.182  Sum_probs=91.6

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccccc-cccCc-eEEEEEcCCCCCH--HHHHHHHHHHhCCCC---
Q 035574            2 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYM-KHYFD-YLAWIPAPYHYDP--DQILDIVAVILLPFS---   74 (156)
Q Consensus         2 ~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v-~~~F~-~~~wv~vs~~~~~--~~l~~~il~~l~~~~---   74 (156)
                      ++|.++|...+...++++|+||||+||||||+++|++.+. ..+|. .++|+++++..+.  ...+..++..+....   
T Consensus       134 ~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~  213 (1249)
T 3sfz_A          134 HAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFS  213 (1249)
T ss_dssp             HHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHHHHHHHTTTCTTC
T ss_pred             HHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHHHHHHhhhhcccc
Confidence            3455666556677899999999999999999999997544 45554 5789999886543  333555555553211   


Q ss_pred             -----c----------------------------cccCCCCCCCeEEEEEcCCHHHHhhc-CcCccccccc---------
Q 035574           75 -----M----------------------------FKILPDNQNGSRVLITLTQIKMVTSF-QLEDRENIRL---------  111 (156)
Q Consensus        75 -----~----------------------------~~~l~~~~~gsrIivTTR~~~Va~~~-~~~~~~~~~l---------  111 (156)
                           .                            ...+..-.+||+||||||++.|+..+ +...  .+.+         
T Consensus       214 ~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~~~~~~ilvTtR~~~~~~~~~~~~~--~~~~~~~l~~~~a  291 (1249)
T 3sfz_A          214 QRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQCQILLTTRDKSVTDSVMGPKH--VVPVESGLGREKG  291 (1249)
T ss_dssp             SSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTTCSSCEEEEEESSTTTTTTCCSCBC--CEECCSSCCHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhhcCCCEEEEEcCCHHHHHhhcCCce--EEEecCCCCHHHH
Confidence                 0                            00112225799999999999998643 2211  1111         


Q ss_pred             -------------cccCChhhHhhhcCChHHHHHHHhCCC
Q 035574          112 -------------DLVPTGGPLRATYQGWPFLILYHGSIS  138 (156)
Q Consensus       112 -------------~~~~~~~~i~~~~~g~pl~~~~~gs~~  138 (156)
                                   +..+.+.+|+++|+|+|||+..+|+..
T Consensus       292 ~~l~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~l  331 (1249)
T 3sfz_A          292 LEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALL  331 (1249)
T ss_dssp             HHHHHHHHTSCSTTCCTHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhCCChhhCcHHHHHHHHHhCCCHHHHHHHHHHh
Confidence                         222346789999999999999999853

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.72  E-value=1.6e-18  Score=156.88  Aligned_cols=130  Identities=15%  Similarity=0.191  Sum_probs=91.0

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccccccccCce-EEEEEcCCCCCHHHHHHHHHHHhC---C------
Q 035574            3 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDY-LAWIPAPYHYDPDQILDIVAVILL---P------   72 (156)
Q Consensus         3 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~-~~wv~vs~~~~~~~l~~~il~~l~---~------   72 (156)
                      +|.++|.+. ...++|+|+||||+||||||+++|++.+++.+|+. ++|+++++.++...++..+++.+.   +      
T Consensus       139 eL~elL~~~-d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i~~~~~~~~  217 (1221)
T 1vt4_I          139 KLRQALLEL-RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS  217 (1221)
T ss_dssp             HHHHHHHHC-CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHHCSSSTTTS
T ss_pred             HHHHHHhcc-CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhcCccccccc
Confidence            455555542 34799999999999999999999998889999997 999999999998887777666421   0      


Q ss_pred             CC------------------------c--------------cccCCCCCCCeEEEEEcCCHHHHhhcCcCcccccccc--
Q 035574           73 FS------------------------M--------------FKILPDNQNGSRVLITLTQIKMVTSFQLEDRENIRLD--  112 (156)
Q Consensus        73 ~~------------------------~--------------~~~l~~~~~gsrIivTTR~~~Va~~~~~~~~~~~~l~--  112 (156)
                      ..                        .              ...|+   +||+||||||++.++..+....  .+.++  
T Consensus       218 d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~---pGSRILVTTRd~~Va~~l~g~~--vy~LeL~  292 (1221)
T 1vt4_I          218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN---LSCKILLTTRFKQVTDFLSAAT--TTHISLD  292 (1221)
T ss_dssp             CCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH---SSCCEEEECSCSHHHHHHHHHS--SCEEEEC
T ss_pred             ccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC---CCeEEEEeccChHHHHhcCCCe--EEEecCc
Confidence            00                        0              11222   6999999999999986443211  12222  


Q ss_pred             ----ccCC---------------hhhHhhhcCChHHHHHHHhCCC
Q 035574          113 ----LVPT---------------GGPLRATYQGWPFLILYHGSIS  138 (156)
Q Consensus       113 ----~~~~---------------~~~i~~~~~g~pl~~~~~gs~~  138 (156)
                          .++.               .....+-|+|||||+.++|+..
T Consensus       293 d~dL~LS~eEA~eLF~~~~g~~~eeL~~eICgGLPLALkLaGs~L  337 (1221)
T 1vt4_I          293 HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESI  337 (1221)
T ss_dssp             SSSSCCCHHHHHHHHHHHHCCCTTTHHHHHCCCCHHHHHHHHHHH
T ss_pred             cccCCcCHHHHHHHHHHHcCCCHHHHHHHHhCCCHHHHHHHHHHH
Confidence                1221               1123345999999999999863

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.63  E-value=6.3e-16  Score=132.07  Aligned_cols=130  Identities=17%  Similarity=0.197  Sum_probs=85.7

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccccc-cccCc-eEEEEEcCCCCCHHHHHHHHH---HHhCC-----C
Q 035574            4 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYM-KHYFD-YLAWIPAPYHYDPDQILDIVA---VILLP-----F   73 (156)
Q Consensus         4 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v-~~~F~-~~~wv~vs~~~~~~~l~~~il---~~l~~-----~   73 (156)
                      |.++|.....+.++++|+||||+||||||.++|++.++ ..+|+ .++|+++++. +...++..+.   ..+..     .
T Consensus       136 L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~~l~~~l~~~~~~~~  214 (591)
T 1z6t_A          136 IQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQNLCTRLDQDESFSQ  214 (591)
T ss_dssp             HHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHHHHHHHHHHCSSCCSCS
T ss_pred             HHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHHHHHHHHHhcccccccc
Confidence            44444433456899999999999999999999997666 78895 7999999775 3333443332   23321     0


Q ss_pred             -C--c-------------------------------cccCCCCCCCeEEEEEcCCHHHHhhcCcCccccc----------
Q 035574           74 -S--M-------------------------------FKILPDNQNGSRVLITLTQIKMVTSFQLEDRENI----------  109 (156)
Q Consensus        74 -~--~-------------------------------~~~l~~~~~gsrIivTTR~~~Va~~~~~~~~~~~----------  109 (156)
                       .  .                               ..++   .+||+||||||+..++..++....+..          
T Consensus       215 ~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l---~~~~~ilvTsR~~~~~~~~~~~~~~v~~l~~L~~~ea  291 (591)
T 1z6t_A          215 RLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF---DSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKG  291 (591)
T ss_dssp             SCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT---CSSCEEEEEESCGGGGTTCCSCEEEEECCSSCCHHHH
T ss_pred             CCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh---cCCCeEEEECCCcHHHHhcCCCceEeecCCCCCHHHH
Confidence             0  0                               1122   468999999999998876431110000          


Q ss_pred             -----------cccccCChhhHhhhcCChHHHHHHHhCC
Q 035574          110 -----------RLDLVPTGGPLRATYQGWPFLILYHGSI  137 (156)
Q Consensus       110 -----------~l~~~~~~~~i~~~~~g~pl~~~~~gs~  137 (156)
                                 .....+....|.++|+|||||+..+|+.
T Consensus       292 ~~L~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~a~~  330 (591)
T 1z6t_A          292 LEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGAL  330 (591)
T ss_dssp             HHHHHHHHTSCGGGSCTHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcccccHHHHHHHHHhCCCcHHHHHHHHH
Confidence                       0011233467899999999999988874

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=97.70  E-value=5.6e-05  Score=60.90  Aligned_cols=56  Identities=13%  Similarity=0.072  Sum_probs=37.8

Q ss_pred             cEEEEE--EcCCCccHHHHHHHHhcccccc---ccCce-EEEEEcCCCCCHHHHHHHHHHHh
Q 035574           15 LSVVAI--LDSIGLDKTAFTAEAYNSSYMK---HYFDY-LAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        15 ~~vi~I--~G~gGvGKTtLa~~vy~~~~v~---~~F~~-~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      ...+-|  +|++|+|||||++.+++...-.   ..|+. .+|+...+..+...++..++.++
T Consensus        50 ~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l  111 (412)
T 1w5s_A           50 DVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQT  111 (412)
T ss_dssp             CEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHH
T ss_pred             CCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHHHHHHHHHHHh
Confidence            445556  9999999999999999842211   01333 57777666667777776666655

>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=97.62  E-value=6.9e-05  Score=59.91  Aligned_cols=56  Identities=18%  Similarity=0.094  Sum_probs=37.8

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcccccccc--------CceEEEEEcCCCC-CHHHHHHHHHHHh
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHY--------FDYLAWIPAPYHY-DPDQILDIVAVIL   70 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~--------F~~~~wv~vs~~~-~~~~l~~~il~~l   70 (156)
                      ...+.+-|+|.+|+|||+||+.+++.  ....        ....+|+..+... +...++..++..+
T Consensus        43 ~~~~~vll~G~~G~GKT~la~~l~~~--~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~~l  107 (384)
T 2qby_B           43 EVKFSNLFLGLTGTGKTFVSKYIFNE--IEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKL  107 (384)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHHH--HHHHHHHSSSSTTCEEEEEEHHHHCSCHHHHHHHHHHHH
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHH--HHHHhhhhcCCCCceEEEEECccCCCCHHHHHHHHHHHh
Confidence            34568999999999999999999883  3211        2236777765544 5555555555544

>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=97.59  E-value=0.0004  Score=50.40  Aligned_cols=49  Identities=12%  Similarity=0.049  Sum_probs=30.3

Q ss_pred             EEEEEcCCCccHHHHHHHHhccccccccCc-eEEEEEcCCCCCHHHHHHHH
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSSYMKHYFD-YLAWIPAPYHYDPDQILDIV   66 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~-~~~wv~vs~~~~~~~l~~~i   66 (156)
                      .+-|+|.+|+|||+||+.+++... ...+. ....+..+.......+...+
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGIDVVRHKI   89 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHH-GGGGGGGEEEEETTCTTCHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHh-ccccccceEEeccccccChHHHHHHH
Confidence            388999999999999999987321 11222 23444555555554444333

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.57  E-value=0.0001  Score=58.61  Aligned_cols=55  Identities=15%  Similarity=0.097  Sum_probs=37.0

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcccccccc-----Cc-eEEEEEcCCCCCHHHHHHHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHY-----FD-YLAWIPAPYHYDPDQILDIVAVI   69 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~-----F~-~~~wv~vs~~~~~~~l~~~il~~   69 (156)
                      ...+.+-|+|.+|+||||||+.+++.  ....     .+ ..+|+......+...++..++.+
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~~--~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~  102 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLRR--LEARASSLGVLVKPIYVNARHRETPYRVASAIAEA  102 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHHH--HHHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHHH
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHH--HHHHHhccCCCeEEEEEECCcCCCHHHHHHHHHHH
Confidence            44567899999999999999999883  3221     12 35677766655555555544443

>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=97.55  E-value=0.00021  Score=56.07  Aligned_cols=61  Identities=10%  Similarity=0.045  Sum_probs=39.7

Q ss_pred             CHHHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCC-----CCHHHHHHHHHH
Q 035574            1 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYH-----YDPDQILDIVAV   68 (156)
Q Consensus         1 r~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~-----~~~~~l~~~il~   68 (156)
                      |++.++.|.+ -.. +++.|+|+.|+|||+|++++.+.  ...   ..+|+.....     .+...+...+.+
T Consensus        18 R~~el~~L~~-l~~-~~v~i~G~~G~GKT~L~~~~~~~--~~~---~~~~~~~~~~~~~~~~~~~~~~~~l~~   83 (357)
T 2fna_A           18 REKEIEKLKG-LRA-PITLVLGLRRTGKSSIIKIGINE--LNL---PYIYLDLRKFEERNYISYKDFLLELQK   83 (357)
T ss_dssp             CHHHHHHHHH-TCS-SEEEEEESTTSSHHHHHHHHHHH--HTC---CEEEEEGGGGTTCSCCCHHHHHHHHHH
T ss_pred             hHHHHHHHHH-hcC-CcEEEECCCCCCHHHHHHHHHHh--cCC---CEEEEEchhhccccCCCHHHHHHHHHH
Confidence            4555566654 333 69999999999999999999884  322   2578876532     344444444433

>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=97.49  E-value=0.00042  Score=55.22  Aligned_cols=54  Identities=17%  Similarity=0.136  Sum_probs=38.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccC-ceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYF-DYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F-~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      .+.+.|+|.+|+|||||++.+++  ...... ...+|+..+...+...+...++..+
T Consensus        44 ~~~~li~G~~G~GKTtl~~~l~~--~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l   98 (389)
T 1fnn_A           44 YPRATLLGRPGTGKTVTLRKLWE--LYKDKTTARFVYINGFIYRNFTAIIGEIARSL   98 (389)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH--HHTTSCCCEEEEEETTTCCSHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHhhhcCeeEEEEeCccCCCHHHHHHHHHHHh
Confidence            34889999999999999999988  333321 2356777667666666666666554

>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=97.41  E-value=6.1e-05  Score=59.82  Aligned_cols=40  Identities=18%  Similarity=0.132  Sum_probs=29.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccC---ceEEEEEcC
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF---DYLAWIPAP   54 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F---~~~~wv~vs   54 (156)
                      .....+.|+|.+|+|||||++.+++  .....+   ...+|+...
T Consensus        43 ~~~~~vli~G~~G~GKTtl~~~l~~--~~~~~~~~~~~~~~i~~~   85 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAVVKFVLS--KLHKKFLGKFKHVYINTR   85 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHHHHHHHH--HHHHHTCSSCEEEEEEHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHH--HHHHHhcCCceEEEEECC
Confidence            4456889999999999999999988  443332   235666643

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.25  E-value=0.00011  Score=57.52  Aligned_cols=32  Identities=13%  Similarity=0.089  Sum_probs=26.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcC
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAP   54 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs   54 (156)
                      +++.|+|+.|+|||||++++++..      + .+|+.+.
T Consensus        32 ~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~   63 (350)
T 2qen_A           32 PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCR   63 (350)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHH
T ss_pred             CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEee
Confidence            689999999999999999998732      2 5677654

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.12  E-value=0.00068  Score=49.56  Aligned_cols=36  Identities=17%  Similarity=0.022  Sum_probs=26.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPA   53 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~v   53 (156)
                      ..+-|+|.+|+|||+||+.+++  .........+|+..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~--~~~~~~~~~~~~~~   90 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIAN--ELAKRNVSSLIVYV   90 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH--HHHTTTCCEEEEEH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEEh
Confidence            6788999999999999999998  33333334556654

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.99  E-value=0.00059  Score=50.53  Aligned_cols=26  Identities=15%  Similarity=0.165  Sum_probs=22.7

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....+++|+|..|.|||||++.+..
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34568999999999999999998866

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.94  E-value=0.00093  Score=47.28  Aligned_cols=24  Identities=17%  Similarity=0.170  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+.+-|+|.+|+|||+||+.+++.
T Consensus        43 ~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           43 KNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            455789999999999999999873

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=96.91  E-value=0.0024  Score=51.03  Aligned_cols=59  Identities=12%  Similarity=0.054  Sum_probs=39.8

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccc------cCceEEEEEcCCCCCHHHHHHHHHHHhC
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKH------YFDYLAWIPAPYHYDPDQILDIVAVILL   71 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~------~F~~~~wv~vs~~~~~~~l~~~il~~l~   71 (156)
                      ......+-|+|.+|+|||++++.+.++..-..      .| ..+.+......+...+...|++++.
T Consensus        42 ~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~-~~v~INc~~~~t~~~~~~~I~~~L~  106 (318)
T 3te6_A           42 SSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIF-DYIHIDALELAGMDALYEKIWFAIS  106 (318)
T ss_dssp             TTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCE-EEEEEETTCCC--HHHHHHHHHHHS
T ss_pred             CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCce-EEEEEeccccCCHHHHHHHHHHHhc
Confidence            34566788999999999999999988432111      12 2456665666677777777777774

>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=96.88  E-value=0.00059  Score=47.95  Aligned_cols=20  Identities=25%  Similarity=0.280  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCccHHHHHHHH
Q 035574           16 SVVAILDSIGLDKTAFTAEA   35 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~v   35 (156)
                      .+|.|.|++|+||||+|+.+
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            37899999999999999999

>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=96.81  E-value=0.0007  Score=47.81  Aligned_cols=22  Identities=9%  Similarity=0.027  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|.|+.|+||||+++.+..
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999876

>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=96.79  E-value=0.001  Score=48.66  Aligned_cols=23  Identities=13%  Similarity=0.104  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+-|+|.+|+||||||+.+++.
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~~   68 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAKG   68 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47889999999999999999873

>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=96.76  E-value=0.00078  Score=48.11  Aligned_cols=22  Identities=5%  Similarity=0.034  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|-+.|++|+||||+|+.+.+
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4788999999999999999977

>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=96.72  E-value=0.002  Score=47.56  Aligned_cols=24  Identities=8%  Similarity=0.158  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+.+-|+|.+|+||||||+.+++
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Confidence            456788999999999999999977

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.70  E-value=0.0022  Score=47.15  Aligned_cols=35  Identities=14%  Similarity=0.013  Sum_probs=26.7

Q ss_pred             HHHHHHhcC-CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            3 ELLDLLIEG-PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         3 ~l~~~L~~~-~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++.+.+... .....+++|.|..|.|||||++.+..
T Consensus         9 ~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            9 FLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             HHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            344555442 34568999999999999999999876

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.70  E-value=0.0015  Score=46.26  Aligned_cols=23  Identities=22%  Similarity=0.138  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-|+|.+|+|||+||+.+++
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~   65 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAI   65 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHH
Confidence            45567999999999999999987

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.69  E-value=0.0011  Score=47.15  Aligned_cols=22  Identities=14%  Similarity=0.285  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999976

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.69  E-value=0.0013  Score=47.43  Aligned_cols=25  Identities=12%  Similarity=0.096  Sum_probs=22.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-.++.|+|+.|.|||||++.+...
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            3468999999999999999999873

>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=96.65  E-value=0.0022  Score=50.46  Aligned_cols=26  Identities=15%  Similarity=0.115  Sum_probs=22.7

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....+|+|+|..|+||||||+.+..
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999998765

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.64  E-value=0.0012  Score=47.28  Aligned_cols=22  Identities=14%  Similarity=0.179  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.|.|+.|+||||+++.+..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999977

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.64  E-value=0.0011  Score=48.57  Aligned_cols=24  Identities=13%  Similarity=0.151  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....|.|+|+.|+||||+++.+..
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH
Confidence            356899999999999999999976

>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=96.57  E-value=0.0011  Score=47.76  Aligned_cols=24  Identities=17%  Similarity=0.223  Sum_probs=21.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -..+.++|..|+|||||++.+++.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            468899999999999999999883

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.49  E-value=0.0012  Score=46.88  Aligned_cols=22  Identities=9%  Similarity=0.231  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|+|+.|.|||||++.+..
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999977

>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=96.49  E-value=0.002  Score=46.40  Aligned_cols=23  Identities=9%  Similarity=0.118  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|+.|+||||+++.+..
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            46889999999999999999876

>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=96.48  E-value=0.0076  Score=44.07  Aligned_cols=46  Identities=9%  Similarity=0.130  Sum_probs=33.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQIL   63 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~   63 (156)
                      ..-.++.|+|.+|.|||||+..+.. .    .-...+|+.....++...+.
T Consensus        18 ~~G~~~~i~G~~GsGKTtl~~~l~~-~----~~~~v~~i~~~~~~~~~~~~   63 (220)
T 2cvh_A           18 APGVLTQVYGPYASGKTTLALQTGL-L----SGKKVAYVDTEGGFSPERLV   63 (220)
T ss_dssp             CTTSEEEEECSTTSSHHHHHHHHHH-H----HCSEEEEEESSCCCCHHHHH
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHH-H----cCCcEEEEECCCCCCHHHHH
Confidence            4456899999999999999999876 1    12357777776655665544

>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=96.45  E-value=0.0027  Score=45.25  Aligned_cols=24  Identities=17%  Similarity=0.279  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.|+|+.|.||||+++.+..
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            357899999999999999999865

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.44  E-value=0.0015  Score=46.89  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|.++|+.|+||||+|+.+..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999999976

>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=96.44  E-value=0.0018  Score=46.40  Aligned_cols=22  Identities=23%  Similarity=0.261  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.|.|+.|+||||+++.+..
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            4789999999999999999876

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.43  E-value=0.0018  Score=46.90  Aligned_cols=21  Identities=29%  Similarity=0.507  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.|.|+.|+||||+++.+..
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            588999999999999999977

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.40  E-value=0.0018  Score=46.77  Aligned_cols=23  Identities=9%  Similarity=0.221  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -+++.|+|..|+|||||++.+..
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            36899999999999999999876

>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=96.39  E-value=0.0024  Score=46.78  Aligned_cols=24  Identities=13%  Similarity=0.130  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|.|+|+.|.|||||++.+..
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999877

>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=96.39  E-value=0.0025  Score=46.22  Aligned_cols=25  Identities=20%  Similarity=0.264  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+|.|.|+.|.||||+++.+..
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999999866

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.38  E-value=0.0027  Score=46.35  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=22.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+|.|.|+.|+||||+++.+..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999999876

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.37  E-value=0.0015  Score=47.84  Aligned_cols=23  Identities=9%  Similarity=0.159  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|..|.||||+|+.+..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999876

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.37  E-value=0.002  Score=45.66  Aligned_cols=25  Identities=12%  Similarity=0.234  Sum_probs=20.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+..|.|.|+.|+||||+++.+..
T Consensus         5 ~~~~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            5 HHMQHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             ---CEEEEESCTTSSHHHHHHHHHH
T ss_pred             cccceEEEECCCCCCHHHHHHHHHH
Confidence            3567899999999999999999876

>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=96.32  E-value=0.0022  Score=46.88  Aligned_cols=22  Identities=14%  Similarity=0.214  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|.|+.|+||||+++.+..
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            4689999999999999999865

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.31  E-value=0.0026  Score=45.63  Aligned_cols=23  Identities=26%  Similarity=0.176  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|+.|+||||+|+.+..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999998866

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.30  E-value=0.0025  Score=45.93  Aligned_cols=23  Identities=9%  Similarity=0.154  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|+.|+||||+++.+..
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            46899999999999999999876

>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=96.30  E-value=0.0028  Score=45.77  Aligned_cols=22  Identities=14%  Similarity=0.151  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++.|+|..|.|||||++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4789999999999999999975

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.30  E-value=0.0023  Score=46.95  Aligned_cols=23  Identities=17%  Similarity=0.208  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++.|+|+.|.|||||++.+..
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999876

>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=96.28  E-value=0.003  Score=46.37  Aligned_cols=25  Identities=12%  Similarity=0.158  Sum_probs=22.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+|.|+|..|.||||+++.+..
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~   43 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQK   43 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999976

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.27  E-value=0.0029  Score=45.42  Aligned_cols=23  Identities=30%  Similarity=0.595  Sum_probs=19.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.++.|+|..|.|||||++.++.
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CEEEEEECCCCCCHHHHHHHHcc
Confidence            46899999999999999997553

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.26  E-value=0.0027  Score=46.15  Aligned_cols=23  Identities=17%  Similarity=0.193  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~   29 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVK   29 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHHh
Confidence            35899999999999999999876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.25  E-value=0.0029  Score=46.02  Aligned_cols=23  Identities=9%  Similarity=0.208  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++.|+|..|.|||||++.+..
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~   28 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFE   28 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999876

>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=96.25  E-value=0.0022  Score=46.02  Aligned_cols=23  Identities=22%  Similarity=0.306  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|.|+|+.|+||||+++.+..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            45688999999999999999875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.25  E-value=0.0031  Score=46.29  Aligned_cols=24  Identities=17%  Similarity=0.144  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+++|+|..|.|||||++.+..
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999876

>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=96.24  E-value=0.0029  Score=48.49  Aligned_cols=23  Identities=13%  Similarity=0.329  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|+|++|+||||+|+.+..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999999876

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.24  E-value=0.002  Score=46.03  Aligned_cols=22  Identities=9%  Similarity=0.214  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.|.|++|.||||+|+.+..
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3589999999999999999876

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.24  E-value=0.003  Score=45.59  Aligned_cols=24  Identities=21%  Similarity=0.109  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|.++|+.|.||||+++.+..
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            457899999999999999999877

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.23  E-value=0.003  Score=45.99  Aligned_cols=22  Identities=14%  Similarity=0.065  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.|.|+.|+||||+++.+..
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            5789999999999999999977

>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=96.23  E-value=0.016  Score=42.99  Aligned_cols=50  Identities=10%  Similarity=0.100  Sum_probs=34.5

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccc----cCceEEEEEcCCCCCHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKH----YFDYLAWIPAPYHYDPDQI   62 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~----~F~~~~wv~vs~~~~~~~l   62 (156)
                      ..-.++.|+|.+|.|||||+..+........    .-...+|+.....++..++
T Consensus        22 ~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~   75 (243)
T 1n0w_A           22 ETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL   75 (243)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             cCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHH
Confidence            3456899999999999999999876321211    1245788877666555544

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.22  E-value=0.003  Score=48.44  Aligned_cols=22  Identities=14%  Similarity=0.042  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++.|+|+.|+||||||+.+..
T Consensus         2 ~li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            5789999999999999999865

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=96.21  E-value=0.003  Score=50.23  Aligned_cols=23  Identities=22%  Similarity=0.291  Sum_probs=19.0

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEA   35 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~v   35 (156)
                      .+.+||+|.|-|||||||.+-.+
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNL   68 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNL   68 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHH
Confidence            45789999999999999966654

>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=96.18  E-value=0.0033  Score=44.96  Aligned_cols=23  Identities=26%  Similarity=0.205  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|+.|+||||+++.+..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999876

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.18  E-value=0.0034  Score=45.00  Aligned_cols=22  Identities=18%  Similarity=0.166  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.+.|+.|+||||+++.+.+
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999876

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.17  E-value=0.0026  Score=46.80  Aligned_cols=24  Identities=8%  Similarity=0.272  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|.|+|+.|+|||||++.+..
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHH
Confidence            356889999999999999999876

>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=96.15  E-value=0.0059  Score=49.02  Aligned_cols=33  Identities=18%  Similarity=0.077  Sum_probs=25.1

Q ss_pred             HHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            5 LDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         5 ~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +..+........+|.|+|.+|+|||||+..+..
T Consensus        69 ~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           69 LLRLLPDSGNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             HHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHhHhhcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            333333345678999999999999999988754

>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=96.15  E-value=0.0031  Score=46.66  Aligned_cols=22  Identities=18%  Similarity=0.206  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|+|..|.||||+++.+..
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            4799999999999999998754

>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=96.15  E-value=0.0025  Score=45.13  Aligned_cols=22  Identities=14%  Similarity=0.125  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.|.|+.|+||||+|+.+..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999876

>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=96.15  E-value=0.0037  Score=45.72  Aligned_cols=22  Identities=23%  Similarity=0.282  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|+|.|+.|.||||+++.+..
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            4789999999999999999865

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.14  E-value=0.0026  Score=44.35  Aligned_cols=22  Identities=9%  Similarity=-0.058  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -+-|+|..|+|||++|+.+++.
T Consensus        26 ~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           26 AVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHh
Confidence            3679999999999999999884

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.12  E-value=0.0033  Score=45.40  Aligned_cols=23  Identities=13%  Similarity=0.164  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|+.|+||||+|+.+..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999876

>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=96.12  E-value=0.0037  Score=45.22  Aligned_cols=24  Identities=17%  Similarity=0.083  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....|.|+|+.|+||||+++.+.+
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~   32 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAA   32 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998876

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.12  E-value=0.0034  Score=45.01  Aligned_cols=21  Identities=24%  Similarity=0.275  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|.|.|+.|+||||+++.+.+
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            588999999999999999977

>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=96.11  E-value=0.006  Score=45.92  Aligned_cols=23  Identities=17%  Similarity=0.124  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+-++|.+|+|||+||+.+++
T Consensus        39 ~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           39 PKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45577999999999999999987

>1sxj_B Activator 1 37 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=96.10  E-value=0.0088  Score=46.19  Aligned_cols=20  Identities=20%  Similarity=0.099  Sum_probs=19.0

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      +-++|.+|+|||++|+.+++
T Consensus        45 ~ll~G~~G~GKt~la~~l~~   64 (323)
T 1sxj_B           45 MIISGMPGIGKTTSVHCLAH   64 (323)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHH
Confidence            88999999999999999987

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.09  E-value=0.0037  Score=44.06  Aligned_cols=21  Identities=5%  Similarity=0.004  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.|.|+.|+||||+|+.+.+
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            578999999999999999876

>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=96.06  E-value=0.0047  Score=48.45  Aligned_cols=24  Identities=29%  Similarity=0.289  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+-|+|.+|+||||||+.+++
T Consensus        36 ~~~~lll~G~~GtGKT~la~~i~~   59 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLLQAAGN   59 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHH
Confidence            456788999999999999999988

>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=96.04  E-value=0.0039  Score=47.16  Aligned_cols=23  Identities=22%  Similarity=0.159  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++.|+|..|.|||||++.+..
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~   49 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQ   49 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999983

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.04  E-value=0.0041  Score=45.96  Aligned_cols=23  Identities=9%  Similarity=0.219  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++.|+|..|+|||||++.+..
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~   30 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFK   30 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHHh
Confidence            46899999999999999999977

>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=96.03  E-value=0.018  Score=42.24  Aligned_cols=48  Identities=13%  Similarity=0.274  Sum_probs=31.5

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccc----cCceEEEEEcCCCCCHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKH----YFDYLAWIPAPYHYDPD   60 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~----~F~~~~wv~vs~~~~~~   60 (156)
                      ..-.++.|+|..|.|||||++.+........    .-...+|+.-...+...
T Consensus        23 ~~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~   74 (231)
T 4a74_A           23 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPE   74 (231)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHH
Confidence            3457999999999999999999976211111    12346777655444443

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.03  E-value=0.0024  Score=45.64  Aligned_cols=23  Identities=17%  Similarity=0.173  Sum_probs=16.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|+.|+||||+|+.+..
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            45789999999999999999876

>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=96.03  E-value=0.0039  Score=45.49  Aligned_cols=23  Identities=17%  Similarity=0.098  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|.|.|+.|+||||+|+.+..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999999876

>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=96.00  E-value=0.0038  Score=44.78  Aligned_cols=21  Identities=10%  Similarity=0.090  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|.|.|++|+||||+|+.+..
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            588999999999999999866

>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=95.98  E-value=0.0042  Score=46.03  Aligned_cols=23  Identities=9%  Similarity=0.071  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|.+.|+.|+||||+++.+..
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            35789999999999999999876

>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=95.98  E-value=0.0022  Score=46.99  Aligned_cols=21  Identities=19%  Similarity=0.215  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|.|.|..|+||||+++.+..
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            689999999999999999865

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.97  E-value=0.027  Score=44.44  Aligned_cols=53  Identities=15%  Similarity=0.127  Sum_probs=37.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVI   69 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~   69 (156)
                      ..-.++-|.|.+|+||||||.++..+.....  ...+|++..  .+..++...++..
T Consensus        66 ~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           66 KRRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHH
Confidence            4457889999999999999999876432222  457777654  5667777776654

>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=95.97  E-value=0.0046  Score=45.17  Aligned_cols=23  Identities=4%  Similarity=-0.022  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|.|.|+.|+||||+++.+.+
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            35799999999999999999977

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=95.94  E-value=0.0082  Score=47.59  Aligned_cols=33  Identities=24%  Similarity=0.258  Sum_probs=24.9

Q ss_pred             HHHhcCCCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574            6 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus         6 ~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.+..+....+.+-++|.+|+|||+||+.+.+.
T Consensus        61 ~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           61 EMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             HHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            333333333467889999999999999999873

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.93  E-value=0.0046  Score=45.16  Aligned_cols=23  Identities=4%  Similarity=-0.171  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|..|+||||+++.+..
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            46899999999999999999977

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.91  E-value=0.0045  Score=46.16  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|.|.|+.|+||||+++.+..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999999876

>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=95.90  E-value=0.0047  Score=44.96  Aligned_cols=24  Identities=13%  Similarity=0.080  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+.++.|.|..|+|||||+..+..
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999877

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.89  E-value=0.0071  Score=45.89  Aligned_cols=25  Identities=12%  Similarity=-0.005  Sum_probs=21.9

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....|.|.|.+|+||||+|+.+.+
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3567899999999999999999865

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=95.88  E-value=0.0037  Score=44.17  Aligned_cols=25  Identities=8%  Similarity=0.044  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-..+.|+|..|.|||||++.++..
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3467899999999999999999873

>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=95.88  E-value=0.006  Score=43.65  Aligned_cols=23  Identities=17%  Similarity=0.044  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+|.+.|+.|.||||+++.+..
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            46789999999999999999876

>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=95.88  E-value=0.0053  Score=44.69  Aligned_cols=22  Identities=18%  Similarity=0.265  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+.|+|..|.|||||++.+...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988653

>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=95.88  E-value=0.0056  Score=46.51  Aligned_cols=25  Identities=8%  Similarity=0.110  Sum_probs=21.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+|+|.|..|.||||+|+.+..
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999999998866

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.88  E-value=0.0039  Score=45.86  Aligned_cols=22  Identities=14%  Similarity=0.271  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.+.|+|..|.|||||++.+..
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            5789999999999999998865

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.87  E-value=0.0048  Score=48.19  Aligned_cols=26  Identities=12%  Similarity=0.111  Sum_probs=21.8

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...+.+-++|.+|+|||+||+.+++.
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            33467788999999999999999883

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.85  E-value=0.0064  Score=44.82  Aligned_cols=26  Identities=15%  Similarity=0.275  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .....|.|+|.+|+|||||+..+...
T Consensus        36 ~~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           36 HGVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            35788999999999999999988764

>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=95.82  E-value=0.0065  Score=48.20  Aligned_cols=26  Identities=8%  Similarity=0.092  Sum_probs=22.7

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....+++|+|..|.|||||++.+..
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHh
Confidence            34567999999999999999998876

>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=95.82  E-value=0.004  Score=45.97  Aligned_cols=22  Identities=14%  Similarity=0.268  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|.|+|..|+|||||++.+..
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~   23 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999876

>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=95.81  E-value=0.0055  Score=45.14  Aligned_cols=23  Identities=13%  Similarity=0.057  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999865

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.81  E-value=0.0097  Score=46.46  Aligned_cols=25  Identities=12%  Similarity=0.187  Sum_probs=21.9

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+|-+.|++|+||||+|+.+..
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457889999999999999999976

>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=95.78  E-value=0.0058  Score=44.33  Aligned_cols=22  Identities=9%  Similarity=-0.017  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.|.|+.|+||||+++.+.+
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~   26 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIME   26 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            5789999999999999999987

>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=95.78  E-value=0.0071  Score=44.59  Aligned_cols=23  Identities=9%  Similarity=-0.025  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|+.|.||||+++.+..
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            46899999999999999999876

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.78  E-value=0.0071  Score=45.77  Aligned_cols=24  Identities=4%  Similarity=0.102  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+++|.|..|.|||||++.+..
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998865

>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=95.77  E-value=0.0072  Score=47.00  Aligned_cols=24  Identities=17%  Similarity=0.200  Sum_probs=21.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHh
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      ....+|.|.|+.|+||||+|+.+.
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            346789999999999999999886

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.76  E-value=0.01  Score=47.21  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=20.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+++.|+|.+|+||||++..+..
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~  127 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMAN  127 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999888755

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.76  E-value=0.006  Score=46.58  Aligned_cols=22  Identities=14%  Similarity=0.154  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHh
Q 035574           15 LSVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      ..+|+|+|+.|.||||+++.+.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999887

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.74  E-value=0.009  Score=45.50  Aligned_cols=25  Identities=16%  Similarity=0.076  Sum_probs=21.9

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+|.++|.+|.||||+|+.+..
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999876

>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=95.72  E-value=0.0079  Score=44.40  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|+.|.||||+++.+..
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            36899999999999999999854

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.70  E-value=0.0054  Score=45.49  Aligned_cols=23  Identities=13%  Similarity=-0.142  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|.|.|+.|+||||+++.+..
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999999876

>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=95.67  E-value=0.011  Score=47.36  Aligned_cols=24  Identities=25%  Similarity=0.176  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.++|..|+||||+++.+..
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999998876

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=95.67  E-value=0.056  Score=43.13  Aligned_cols=52  Identities=12%  Similarity=0.221  Sum_probs=38.0

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccc----cCceEEEEEcCCCCCHHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKH----YFDYLAWIPAPYHYDPDQILD   64 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~----~F~~~~wv~vs~~~~~~~l~~   64 (156)
                      ..-.++-|.|.+|+||||||.++........    .=...+|++....++..++..
T Consensus       120 ~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~  175 (343)
T 1v5w_A          120 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD  175 (343)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH
Confidence            4457899999999999999999877422211    123588998888888776654

>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=95.66  E-value=0.011  Score=45.79  Aligned_cols=22  Identities=14%  Similarity=0.083  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+-++|.+|+||||+|+.+++.
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            3889999999999999999873

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.66  E-value=0.0069  Score=44.51  Aligned_cols=21  Identities=10%  Similarity=0.150  Sum_probs=18.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.|.|+.|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            377899999999999999866

>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=95.65  E-value=0.0077  Score=44.44  Aligned_cols=25  Identities=20%  Similarity=0.251  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+|+|.|+.|.||||+++.+..
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999998866

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.65  E-value=0.0081  Score=44.09  Aligned_cols=26  Identities=23%  Similarity=0.321  Sum_probs=22.5

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....++.|+|.+|+|||||+..+...
T Consensus        28 ~~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           28 SGTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             HTCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHH
Confidence            35789999999999999999988763

>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=95.64  E-value=0.014  Score=44.63  Aligned_cols=27  Identities=26%  Similarity=0.156  Sum_probs=22.9

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .....-+-++|.+|+|||+||+.+++.
T Consensus        61 ~~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           61 RTPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             SCSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            345677889999999999999999883

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=95.64  E-value=0.035  Score=43.82  Aligned_cols=56  Identities=13%  Similarity=0.122  Sum_probs=38.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcccccccc----CceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHY----FDYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~----F~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      .-.++-|+|.+|+||||||.++..+......    =...+|++....++..++... ++.+
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~-~~~~  165 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENM-AKAL  165 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHH-HHHT
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHH-HHHh
Confidence            3468899999999999999998763221111    135789988888877766543 3443

>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=95.64  E-value=0.0081  Score=47.51  Aligned_cols=24  Identities=25%  Similarity=0.202  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.|+|..|+|||||++.+..
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            457999999999999999998875

>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=95.63  E-value=0.0073  Score=43.85  Aligned_cols=21  Identities=14%  Similarity=0.132  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|+|.|..|.||||+++.+..
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            799999999999999998865

>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=95.61  E-value=0.0062  Score=50.40  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-|+|.+|+||||||+.+++
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~  152 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGN  152 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            66789999999999999999988

>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=95.61  E-value=0.0059  Score=48.49  Aligned_cols=24  Identities=25%  Similarity=0.257  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...+.++|.+|+||||||+.+.+.
T Consensus        51 ~~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           51 LDHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CCCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            466899999999999999999873

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=95.59  E-value=0.042  Score=43.12  Aligned_cols=53  Identities=15%  Similarity=0.187  Sum_probs=38.4

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccc---------cC-----ceEEEEEcCCCCCHHHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKH---------YF-----DYLAWIPAPYHYDPDQILDI   65 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~---------~F-----~~~~wv~vs~~~~~~~l~~~   65 (156)
                      ..-.++-|.|.+|+|||+||.++..+.....         ..     ...+|++....++..++.+.
T Consensus        96 ~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~  162 (322)
T 2i1q_A           96 ESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQM  162 (322)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHHH
Confidence            3457899999999999999999876322211         11     35889998888888776643

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.59  E-value=0.0059  Score=45.61  Aligned_cols=23  Identities=17%  Similarity=0.265  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46789999999999999998865

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.57  E-value=0.0077  Score=44.32  Aligned_cols=21  Identities=10%  Similarity=0.075  Sum_probs=18.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.|.|++|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378899999999999999866

>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=95.56  E-value=0.012  Score=41.98  Aligned_cols=33  Identities=18%  Similarity=0.132  Sum_probs=25.0

Q ss_pred             HHHhcCCCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574            6 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus         6 ~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+...+.....|.++|.+|+|||||...+.++
T Consensus         7 ~~~~~~~~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A            7 RKLKSAPDQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             HHCSSCCSSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             HHHhccCCCceEEEEECCCCCCHHHHHHHHhcC
Confidence            333333345667899999999999999998764

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.56  E-value=0.0099  Score=46.67  Aligned_cols=25  Identities=20%  Similarity=0.175  Sum_probs=21.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....+-|+|.+|+|||+||+.+.+
T Consensus        53 ~~~~~vll~G~~GtGKT~la~~ia~   77 (338)
T 3pfi_A           53 ECLDHILFSGPAGLGKTTLANIISY   77 (338)
T ss_dssp             SCCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEECcCCCCHHHHHHHHHH
Confidence            3445678999999999999999977

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.53  E-value=0.015  Score=47.24  Aligned_cols=26  Identities=19%  Similarity=0.206  Sum_probs=21.9

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ......|.++|+.|.||||+++.+..
T Consensus        21 ~g~~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A           21 DNYRVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             TCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCCeeEEEEECCCCCcHHHHHHHHHH
Confidence            34456789999999999999998876

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=95.52  E-value=0.0075  Score=46.19  Aligned_cols=24  Identities=13%  Similarity=0.105  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+-+-|+|.+|+|||+||+.+++
T Consensus        50 ~~~~~ll~G~~GtGKT~la~~la~   73 (285)
T 3h4m_A           50 PPKGILLYGPPGTGKTLLAKAVAT   73 (285)
T ss_dssp             CCSEEEEESSSSSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHH
Confidence            345688999999999999999988

>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=95.50  E-value=0.0074  Score=45.60  Aligned_cols=21  Identities=19%  Similarity=0.297  Sum_probs=19.4

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.|+|..|+|||||++.++..
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            889999999999999999873

>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=95.48  E-value=0.013  Score=45.97  Aligned_cols=21  Identities=14%  Similarity=0.088  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +-++|.+|+||||+|+.+.+.
T Consensus        61 ~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999873

>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=95.48  E-value=0.048  Score=42.08  Aligned_cols=53  Identities=8%  Similarity=0.043  Sum_probs=33.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCc-eEEEEEcCCCCCHHHHHHHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFD-YLAWIPAPYHYDPDQILDIVAVI   69 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~-~~~wv~vs~~~~~~~l~~~il~~   69 (156)
                      ..-.++.|.|.+|+|||||++.+....  ...-. .+.|+...  .+..++.+.+...
T Consensus        33 ~~G~~~~i~G~~G~GKTTl~~~ia~~~--~~~~G~~v~~~~~e--~~~~~~~~r~~~~   86 (296)
T 1cr0_A           33 RGGEVIMVTSGSGMGKSTFVRQQALQW--GTAMGKKVGLAMLE--ESVEETAEDLIGL   86 (296)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHHHH--HHTSCCCEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHH--HHHcCCeEEEEeCc--CCHHHHHHHHHHH
Confidence            344689999999999999999987732  22212 35565543  3445555554443

>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=95.47  E-value=0.012  Score=44.28  Aligned_cols=24  Identities=25%  Similarity=0.279  Sum_probs=20.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.+.|.||+||||++..+..
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~   36 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGR   36 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHH
Confidence            456778899999999999999874

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.47  E-value=0.0074  Score=44.74  Aligned_cols=22  Identities=9%  Similarity=0.018  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.+.|+.|+||||+|+.+..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999876

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.46  E-value=0.006  Score=44.28  Aligned_cols=23  Identities=13%  Similarity=0.182  Sum_probs=19.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++.|+|..|.|||||++.+..
T Consensus         2 ~~~v~IvG~SGsGKSTL~~~L~~   24 (171)
T 2f1r_A            2 SLILSIVGTSDSGKTTLITRMMP   24 (171)
T ss_dssp             -CEEEEEESCHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999998865

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=95.46  E-value=0.01  Score=45.79  Aligned_cols=23  Identities=22%  Similarity=0.239  Sum_probs=19.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++|+|.|-||+||||+|..+..
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~   24 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVA   24 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHH
Confidence            57888999999999998887654

>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=95.46  E-value=0.011  Score=42.30  Aligned_cols=25  Identities=20%  Similarity=0.259  Sum_probs=21.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-.+++++|..|.|||||++.+..
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g   55 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQ   55 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH
Confidence            4457899999999999999998866

>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=95.45  E-value=0.013  Score=40.99  Aligned_cols=23  Identities=9%  Similarity=0.137  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+.++|.+|+|||||...+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999998763

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=95.45  E-value=0.008  Score=45.51  Aligned_cols=23  Identities=17%  Similarity=0.160  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +-+-++|.+|+||||||+.+.+.
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            34779999999999999999873

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=95.44  E-value=0.01  Score=45.10  Aligned_cols=22  Identities=27%  Similarity=0.265  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|+|.|-||+||||+|..+..
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~   23 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTS   23 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHHH
Confidence            6788899999999998887654

>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=95.44  E-value=0.0086  Score=44.60  Aligned_cols=24  Identities=4%  Similarity=0.227  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+++.|+|..|+|||||++.+..
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHh
Confidence            457899999999999999999876

>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=95.43  E-value=0.0095  Score=46.07  Aligned_cols=22  Identities=14%  Similarity=0.285  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999876

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.42  E-value=0.017  Score=47.96  Aligned_cols=24  Identities=21%  Similarity=0.112  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++|.++|.+|+||||++..+..
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~  122 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGK  122 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999888764

>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=95.42  E-value=0.011  Score=46.56  Aligned_cols=25  Identities=12%  Similarity=0.130  Sum_probs=22.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+++|.|..|.|||||++.+..
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4457999999999999999999876

>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=95.39  E-value=0.0087  Score=44.15  Aligned_cols=21  Identities=10%  Similarity=-0.032  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.|.|+.|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378999999999999999876

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.39  E-value=0.012  Score=46.52  Aligned_cols=24  Identities=21%  Similarity=0.171  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.++|..|+||||+++.+..
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            347999999999999999998876

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=95.39  E-value=0.0026  Score=44.30  Aligned_cols=22  Identities=9%  Similarity=-0.059  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -+-|+|..|+|||++|+.+++.
T Consensus        29 ~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           29 PVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             CEEEEEETTCCHHHHHGGGCCT
T ss_pred             cEEEECCCCccHHHHHHHHHHh
Confidence            3668999999999999999874

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.36  E-value=0.0073  Score=46.48  Aligned_cols=23  Identities=13%  Similarity=0.057  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -..|.|+|+.|.||||+++.+..
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999876

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.36  E-value=0.013  Score=40.27  Aligned_cols=23  Identities=13%  Similarity=0.182  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-|.++|.+|+|||||...+.+.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45789999999999999998764

>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=95.35  E-value=0.01  Score=44.70  Aligned_cols=24  Identities=13%  Similarity=0.156  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.++.|+|..|+|||||.+.+..
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g   38 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLK   38 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            457899999999999999999876

>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=95.35  E-value=0.01  Score=46.69  Aligned_cols=24  Identities=21%  Similarity=0.224  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.++|.+|+||||++..+..
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~  127 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAA  127 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998865

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.34  E-value=0.01  Score=45.91  Aligned_cols=25  Identities=16%  Similarity=0.104  Sum_probs=20.8

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....+-++|.+|+|||+||+.+.+
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            3445688999999999999997766

>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=95.34  E-value=0.0092  Score=46.62  Aligned_cols=24  Identities=21%  Similarity=0.117  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+.+-++|.+|+|||+||+.+++
T Consensus        48 ~~~~vLL~Gp~GtGKT~la~ala~   71 (301)
T 3cf0_A           48 PSKGVLFYGPPGCGKTLLAKAIAN   71 (301)
T ss_dssp             CCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCcCHHHHHHHHHH
Confidence            346788999999999999999988

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.34  E-value=0.014  Score=46.63  Aligned_cols=26  Identities=15%  Similarity=0.230  Sum_probs=22.3

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....+++|.|..|.|||||++.+..
T Consensus        89 ~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           89 PKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34567999999999999999998855

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=95.32  E-value=0.011  Score=44.26  Aligned_cols=23  Identities=13%  Similarity=0.040  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|.+.|+.|+||||+|+.+.+
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999977

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.30  E-value=0.011  Score=44.17  Aligned_cols=21  Identities=14%  Similarity=0.067  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.|.|+.|+||||+++.+..
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            478999999999999999876

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.29  E-value=0.0092  Score=43.91  Aligned_cols=21  Identities=24%  Similarity=0.264  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++.|+|..|+|||||++.+..
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            589999999999999998876

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.29  E-value=0.023  Score=44.78  Aligned_cols=24  Identities=13%  Similarity=0.201  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...+-++|..|+|||+||..+++.
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            467889999999999999999883

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.28  E-value=0.0066  Score=45.34  Aligned_cols=21  Identities=14%  Similarity=0.251  Sum_probs=15.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHh
Q 035574           16 SVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      .+++|+|..|.|||||++.+.
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CEEEEECSCC----CHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            689999999999999999998

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=95.28  E-value=0.0096  Score=46.14  Aligned_cols=20  Identities=25%  Similarity=0.257  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.++|.+|.|||||++.+..
T Consensus        47 vlL~Gp~GtGKTtLakala~   66 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVAN   66 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            89999999999999999987

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=95.25  E-value=0.01  Score=45.74  Aligned_cols=23  Identities=13%  Similarity=0.111  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+.+-++|.+|+|||+||+.+++
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHH
Confidence            45778999999999999999988

>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=95.25  E-value=0.012  Score=42.57  Aligned_cols=24  Identities=17%  Similarity=0.272  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-.+.|+|..|+|||||.+.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            457899999999999999998764

>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=95.23  E-value=0.011  Score=42.27  Aligned_cols=22  Identities=18%  Similarity=0.299  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.|+|.+|+|||||...+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998773

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.23  E-value=0.012  Score=44.88  Aligned_cols=22  Identities=18%  Similarity=0.256  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+++|+|..|.|||||.+.+..
T Consensus        25 e~~~liG~nGsGKSTLl~~l~G   46 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            7899999999999999999876

>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=95.22  E-value=0.018  Score=43.66  Aligned_cols=23  Identities=17%  Similarity=0.128  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+-|+|..|+|||+||+.+++.
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCEEEECCCCCcHHHHHHHHHHh
Confidence            45678999999999999999883

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=95.20  E-value=0.012  Score=42.80  Aligned_cols=23  Identities=17%  Similarity=0.205  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++.|+|..|+|||||++.+..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHH
Confidence            57899999999999999998876

>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=95.20  E-value=0.039  Score=44.27  Aligned_cols=49  Identities=12%  Similarity=0.255  Sum_probs=32.4

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccC---ce-EEEEEcCCCCCHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF---DY-LAWIPAPYHYDPDQ   61 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F---~~-~~wv~vs~~~~~~~   61 (156)
                      ..-.++.|+|..|.|||||+.++..........   .. .+|+.....+...+
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~  181 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER  181 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHH
Confidence            345799999999999999999987632112111   22 47887655554433

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.20  E-value=0.011  Score=45.53  Aligned_cols=21  Identities=19%  Similarity=0.297  Sum_probs=19.3

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.|+|..|+|||||++.+...
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            889999999999999999873

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.19  E-value=0.012  Score=43.09  Aligned_cols=24  Identities=25%  Similarity=0.210  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.++.|.|..|.|||||++.+..
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH
Confidence            346889999999999999999875

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.17  E-value=0.015  Score=43.79  Aligned_cols=25  Identities=16%  Similarity=0.189  Sum_probs=22.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++|-|.|.+|+||+|.|+.+.+
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            5678999999999999999999877

>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=95.15  E-value=0.015  Score=39.75  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.3

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|.+|+|||||...+..+
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.15  E-value=0.012  Score=44.24  Aligned_cols=23  Identities=17%  Similarity=0.062  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35789999999999999999876

>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=95.15  E-value=0.012  Score=46.24  Aligned_cols=23  Identities=13%  Similarity=0.128  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+-++|.+|+|||+||+.+++
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            45678999999999999999988

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.14  E-value=0.023  Score=39.72  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....|.++|..|+|||||...+.++
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567899999999999999998764

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=95.13  E-value=0.013  Score=44.52  Aligned_cols=23  Identities=17%  Similarity=0.096  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            46889999999999999999876

>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=95.12  E-value=0.016  Score=45.92  Aligned_cols=24  Identities=17%  Similarity=0.130  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.|+|.+|+||||++..+..
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~  126 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAK  126 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHH
Confidence            457999999999999999998866

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=95.11  E-value=0.025  Score=45.51  Aligned_cols=45  Identities=22%  Similarity=0.186  Sum_probs=31.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDP   59 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~   59 (156)
                      ..-+++.|.|.+|+||||||.++....  ...=...+|++....++.
T Consensus        59 ~~G~iv~I~G~pGsGKTtLal~la~~~--~~~g~~vlyi~~E~~~~~  103 (349)
T 2zr9_A           59 PRGRVIEIYGPESSGKTTVALHAVANA--QAAGGIAAFIDAEHALDP  103 (349)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH--HhCCCeEEEEECCCCcCH
Confidence            345789999999999999999987522  211124677777665553

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.09  E-value=0.014  Score=43.72  Aligned_cols=25  Identities=12%  Similarity=0.011  Sum_probs=21.4

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+|+|.|+.|.||||+++.+..
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4456899999999999999998765

>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=95.09  E-value=0.0078  Score=46.79  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-|+|.+|+|||+||+.+++
T Consensus        38 ~~~vll~G~~GtGKT~la~~i~~   60 (324)
T 1hqc_A           38 LEHLLLFGPPGLGKTTLAHVIAH   60 (324)
T ss_dssp             CCCCEEECCTTCCCHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999987

>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=95.08  E-value=0.013  Score=42.44  Aligned_cols=24  Identities=17%  Similarity=0.272  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...+.|+|..|+|||||.+.+...
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            356799999999999999998774

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.08  E-value=0.015  Score=41.17  Aligned_cols=24  Identities=8%  Similarity=0.102  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...|.++|..|+|||||...+...
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            357899999999999999999874

>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=95.08  E-value=0.015  Score=40.56  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.|+|.+|+|||||...+.+.
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCccHHHHHHHHhcC
Confidence            45789999999999999998764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=95.04  E-value=0.017  Score=48.07  Aligned_cols=23  Identities=17%  Similarity=0.195  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-++|.+|+||||||+.+.+
T Consensus        50 ~~~vLL~GppGtGKTtlAr~ia~   72 (447)
T 3pvs_A           50 LHSMILWGPPGTGKTTLAEVIAR   72 (447)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCcHHHHHHHHHH
Confidence            36788999999999999999988

>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=95.04  E-value=0.039  Score=41.51  Aligned_cols=25  Identities=20%  Similarity=0.274  Sum_probs=22.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....|.|.|..|+||||+++.+.+.
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4568999999999999999999883

>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=95.04  E-value=0.013  Score=43.97  Aligned_cols=25  Identities=32%  Similarity=0.256  Sum_probs=22.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-.+|+|.|..|.|||||++.+..
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHh
Confidence            3457999999999999999999877

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=95.03  E-value=0.015  Score=44.85  Aligned_cols=23  Identities=17%  Similarity=0.271  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-++|.+|+|||++|+.++.
T Consensus        47 ~~~~ll~G~~GtGKt~la~~la~   69 (311)
T 4fcw_A           47 IGSFLFLGPTGVGKTELAKTLAA   69 (311)
T ss_dssp             SEEEEEESCSSSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCcCHHHHHHHHHH
Confidence            45789999999999999999987

>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=95.02  E-value=0.015  Score=47.73  Aligned_cols=24  Identities=25%  Similarity=0.263  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|-++|++|.||||+|+.+..
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999977

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.02  E-value=0.017  Score=43.44  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|.|.|..|+||||+++.+.+
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~   24 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            35789999999999999999987

>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=95.01  E-value=0.02  Score=39.70  Aligned_cols=23  Identities=17%  Similarity=0.127  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|.+|+|||||...+..+
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999998764

>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=94.99  E-value=0.028  Score=44.81  Aligned_cols=26  Identities=12%  Similarity=0.031  Sum_probs=22.3

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....+++|+|.+|+|||||+..+..
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            45578999999999999999998854

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.99  E-value=0.018  Score=46.73  Aligned_cols=24  Identities=21%  Similarity=0.171  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.++|..|+||||+++.+..
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHh
Confidence            357999999999999999998876

>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=94.98  E-value=0.015  Score=44.22  Aligned_cols=23  Identities=17%  Similarity=0.348  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G   53 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLA   53 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35889999999999999999977

>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=94.98  E-value=0.019  Score=39.48  Aligned_cols=24  Identities=25%  Similarity=0.282  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .-|.++|.+|+|||||...+.+..
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            457899999999999999987643

>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=94.98  E-value=0.015  Score=41.34  Aligned_cols=24  Identities=17%  Similarity=0.285  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      --|.++|.+|+|||||+..+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            357889999999999999987643

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.97  E-value=0.014  Score=44.96  Aligned_cols=23  Identities=26%  Similarity=0.258  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46889999999999999999865

>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=94.95  E-value=0.016  Score=44.04  Aligned_cols=23  Identities=17%  Similarity=0.109  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999865

>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=94.95  E-value=0.019  Score=39.54  Aligned_cols=22  Identities=27%  Similarity=0.376  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|..|+|||||...+.++
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999998764

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=94.94  E-value=0.03  Score=44.68  Aligned_cols=26  Identities=15%  Similarity=0.066  Sum_probs=22.4

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -....+++|+|..|+|||||.+.+..
T Consensus        52 ~~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           52 TGRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34568999999999999999999864

>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=94.94  E-value=0.015  Score=44.64  Aligned_cols=23  Identities=17%  Similarity=0.141  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35889999999999999999876

>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=94.93  E-value=0.015  Score=44.14  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35789999999999999999876

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=94.92  E-value=0.024  Score=47.06  Aligned_cols=24  Identities=13%  Similarity=0.097  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+++.++|.+|+||||++..+..
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~  119 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAY  119 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999888764

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=94.92  E-value=0.081  Score=42.49  Aligned_cols=54  Identities=17%  Similarity=-0.006  Sum_probs=37.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      ..-.++-|.|.+|+||||||..+..+...  +=..++|++.  +.+..++...++...
T Consensus        44 ~~G~LiiIaG~pG~GKTt~al~ia~~~a~--~g~~Vl~fSl--Ems~~ql~~Rlls~~   97 (338)
T 4a1f_A           44 NKGSLVIIGARPSMGKTSLMMNMVLSALN--DDRGVAVFSL--EMSAEQLALRALSDL   97 (338)
T ss_dssp             CTTCEEEEEECTTSCHHHHHHHHHHHHHH--TTCEEEEEES--SSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEeC--CCCHHHHHHHHHHHh
Confidence            44578899999999999999998774322  1124566654  566778877776653

>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=94.91  E-value=0.017  Score=44.22  Aligned_cols=23  Identities=17%  Similarity=0.125  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35789999999999999999987

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.90  E-value=0.017  Score=46.61  Aligned_cols=22  Identities=18%  Similarity=0.261  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|.|..|+||||||..+..
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            5899999999999999998876

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=94.90  E-value=0.026  Score=43.37  Aligned_cols=21  Identities=19%  Similarity=0.056  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-++|.+|+|||++|+.+.+
T Consensus        40 ~~ll~G~~G~GKt~la~~l~~   60 (319)
T 2chq_A           40 HLLFSGPPGTGKTATAIALAR   60 (319)
T ss_dssp             CEEEESSSSSSHHHHHHHHHH
T ss_pred             eEEEECcCCcCHHHHHHHHHH
Confidence            378999999999999999887

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.90  E-value=0.023  Score=39.21  Aligned_cols=22  Identities=18%  Similarity=0.288  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|.+|+|||||...+.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999998764

>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=94.88  E-value=0.013  Score=46.99  Aligned_cols=23  Identities=13%  Similarity=0.052  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+-++|.+|+|||+||+.+++
T Consensus       117 ~~~vLl~GppGtGKT~la~aia~  139 (357)
T 3d8b_A          117 PKGILLFGPPGTGKTLIGKCIAS  139 (357)
T ss_dssp             CSEEEEESSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999999987

>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=94.87  E-value=0.022  Score=39.22  Aligned_cols=24  Identities=4%  Similarity=0.090  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|.+|+|||||...+.++
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            345789999999999999998764

>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=94.87  E-value=0.027  Score=45.89  Aligned_cols=26  Identities=15%  Similarity=0.058  Sum_probs=22.5

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -...+.+.|+|..|.|||||++.+..
T Consensus       166 i~~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          166 IPKKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHh
Confidence            34457899999999999999999876

>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=94.87  E-value=0.016  Score=43.80  Aligned_cols=23  Identities=22%  Similarity=0.221  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~G   56 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMG   56 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35789999999999999999977

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.86  E-value=0.026  Score=41.85  Aligned_cols=49  Identities=16%  Similarity=0.133  Sum_probs=31.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHH
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIV   66 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~i   66 (156)
                      .-.++.|.|.+|+|||||+.++....  ...=...+|++...  ...++.+.+
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~--~~~~~~v~~~~~e~--~~~~~~~~~   70 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNG--LKMGEPGIYVALEE--HPVQVRQNM   70 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHH--HHTTCCEEEEESSS--CHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEEccC--CHHHHHHHH
Confidence            34688999999999999988876522  11112466766443  345554443

>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=94.86  E-value=0.046  Score=44.23  Aligned_cols=45  Identities=22%  Similarity=0.234  Sum_probs=31.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDP   59 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~   59 (156)
                      ..-+++.|.|.+|+|||||+.++....  ...=...+|+.....++.
T Consensus        59 ~~G~i~~I~GppGsGKSTLal~la~~~--~~~gg~VlyId~E~s~~~  103 (356)
T 3hr8_A           59 PRGRIVEIFGQESSGKTTLALHAIAEA--QKMGGVAAFIDAEHALDP  103 (356)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEecccccch
Confidence            345799999999999999999987632  211123567776655554

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=94.83  E-value=0.03  Score=45.21  Aligned_cols=44  Identities=23%  Similarity=0.195  Sum_probs=31.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCH
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDP   59 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~   59 (156)
                      .-+++-|.|.+|+||||||.++....  ...=...+|++....++.
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~--~~~g~~vlyid~E~s~~~  105 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDP  105 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEeCCCCccH
Confidence            45688999999999999999887632  211124778887666654

>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=94.83  E-value=0.016  Score=45.11  Aligned_cols=23  Identities=26%  Similarity=0.267  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            35789999999999999999865

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=94.83  E-value=0.031  Score=46.28  Aligned_cols=34  Identities=18%  Similarity=0.168  Sum_probs=24.9

Q ss_pred             HHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574            5 LDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus         5 ~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ++++..+....+-+-++|.+|+|||+||+.+.+.
T Consensus        53 ~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~   86 (456)
T 2c9o_A           53 VELIKSKKMAGRAVLLAGPPGTGKTALALAIAQE   86 (456)
T ss_dssp             HHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHH
Confidence            3444444333455778999999999999999883

>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=94.82  E-value=0.022  Score=44.96  Aligned_cols=23  Identities=13%  Similarity=0.104  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+-++|..|+||||+|+.+.+.
T Consensus        39 ~~~ll~G~~G~GKT~la~~la~~   61 (373)
T 1jr3_A           39 HAYLFSGTRGVGKTSIARLLAKG   61 (373)
T ss_dssp             SEEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46789999999999999998763

>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=94.81  E-value=0.016  Score=44.53  Aligned_cols=23  Identities=17%  Similarity=0.140  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.++.|+|.+|.|||||+.++..
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46889999999999999998875

>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=94.81  E-value=0.018  Score=39.76  Aligned_cols=24  Identities=21%  Similarity=0.260  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      --|.++|..|+|||||...+.++.
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            357889999999999999987643

>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=94.80  E-value=0.017  Score=39.97  Aligned_cols=21  Identities=24%  Similarity=0.238  Sum_probs=18.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -|.++|.+|+|||||...+.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999999865

>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=94.80  E-value=0.019  Score=39.64  Aligned_cols=23  Identities=9%  Similarity=0.202  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.++|..|+|||||...+.++.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47889999999999999887643

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=94.80  E-value=0.021  Score=44.77  Aligned_cols=24  Identities=17%  Similarity=0.054  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.++|.+|+||||++..+..
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~  120 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLAL  120 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998765

>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=94.80  E-value=0.018  Score=44.51  Aligned_cols=24  Identities=25%  Similarity=0.232  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.++.-
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358899999999999999999873

>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=94.80  E-value=0.018  Score=43.96  Aligned_cols=23  Identities=22%  Similarity=0.177  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|..|.||||+++.+..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998864

>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=94.79  E-value=0.017  Score=44.69  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            36789999999999999999876

>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=94.79  E-value=0.019  Score=45.84  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-++|.+|+|||++|+.+++
T Consensus        51 ~~~vll~GppGtGKT~la~~ia~   73 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAETLAR   73 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999999987

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=94.79  E-value=0.039  Score=42.17  Aligned_cols=32  Identities=9%  Similarity=0.138  Sum_probs=24.4

Q ss_pred             HhcCCCCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574            8 LIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus         8 L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +.......-.|.++|..|+|||||...+.+..
T Consensus        32 ~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           32 LKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             HHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HhhcCCCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            33334445678899999999999999988754

>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=94.77  E-value=0.018  Score=44.05  Aligned_cols=22  Identities=23%  Similarity=0.306  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+++|+|..|.|||||.+.+..
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~G   57 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQR   57 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5789999999999999999866

>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=94.77  E-value=0.023  Score=39.00  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|..|+|||||...+.++
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999888754

>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=94.77  E-value=0.018  Score=44.63  Aligned_cols=23  Identities=22%  Similarity=0.200  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHc
Confidence            46889999999999999999876

>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=94.76  E-value=0.019  Score=39.74  Aligned_cols=21  Identities=14%  Similarity=0.240  Sum_probs=18.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -|.++|.+|+|||||...+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999998854

>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=94.76  E-value=0.093  Score=43.01  Aligned_cols=50  Identities=8%  Similarity=0.059  Sum_probs=33.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccc----cCceEEEEEcCCCCCHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKH----YFDYLAWIPAPYHYDPDQI   62 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~----~F~~~~wv~vs~~~~~~~l   62 (156)
                      ..-.++.|+|.+|+|||||+..+.-.-....    .-...+|+.....++...+
T Consensus       176 ~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl  229 (400)
T 3lda_A          176 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL  229 (400)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH
Confidence            3457899999999999999997653111111    1234788877666665544

>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=94.75  E-value=0.018  Score=40.86  Aligned_cols=23  Identities=13%  Similarity=-0.146  Sum_probs=19.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .--|.++|.+|+|||||.+.+.+
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~   36 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYS   36 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            34578999999999999987765

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.75  E-value=0.013  Score=43.75  Aligned_cols=22  Identities=23%  Similarity=0.155  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+++|+|..|.|||||.+.+..
T Consensus        23 e~~~liG~nGsGKSTLl~~l~G   44 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAV   44 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5789999999999999998875

>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=94.73  E-value=0.025  Score=44.53  Aligned_cols=20  Identities=10%  Similarity=0.097  Sum_probs=18.3

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      +-++|..|+||||+++.+..
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            88999999999999998766

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.73  E-value=0.019  Score=40.93  Aligned_cols=25  Identities=12%  Similarity=0.021  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....|.++|.+|+|||||...+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3457899999999999999998774

>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=94.73  E-value=0.031  Score=47.03  Aligned_cols=24  Identities=13%  Similarity=0.159  Sum_probs=21.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+.+-++|.+|+||||||+.+++.
T Consensus        77 ~~~lLL~GppGtGKTtla~~la~~  100 (516)
T 1sxj_A           77 FRAAMLYGPPGIGKTTAAHLVAQE  100 (516)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            468899999999999999999883

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.72  E-value=0.019  Score=44.59  Aligned_cols=23  Identities=26%  Similarity=0.218  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~G   67 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQN   67 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35789999999999999999876

>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=94.72  E-value=0.023  Score=40.37  Aligned_cols=24  Identities=13%  Similarity=0.054  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|.+|+|||||...+.++
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999998764

>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=94.71  E-value=0.019  Score=44.28  Aligned_cols=23  Identities=13%  Similarity=0.083  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            35889999999999999999876

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.71  E-value=0.019  Score=44.26  Aligned_cols=23  Identities=17%  Similarity=0.271  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~G   68 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYR   68 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35889999999999999999866

>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=94.71  E-value=0.026  Score=40.19  Aligned_cols=26  Identities=19%  Similarity=0.280  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .....|.++|..|+|||||...+.+.
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34567899999999999999998764

>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=94.70  E-value=0.02  Score=40.57  Aligned_cols=23  Identities=13%  Similarity=0.043  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..|.|+|.+|+|||||...+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45789999999999999999764

>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=94.69  E-value=0.023  Score=39.92  Aligned_cols=24  Identities=21%  Similarity=0.234  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..-|.++|..|+|||||...+.++
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            456789999999999999998754

>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=94.69  E-value=0.02  Score=40.00  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...-|.++|..|+|||||...+..+
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999988764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=94.68  E-value=0.028  Score=39.80  Aligned_cols=26  Identities=15%  Similarity=0.227  Sum_probs=22.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ....|.++|..|+|||||...+....
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCc
Confidence            34578899999999999999987753

>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=94.68  E-value=0.024  Score=39.95  Aligned_cols=24  Identities=17%  Similarity=0.315  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|..|+|||||...+.+.
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999998864

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.68  E-value=0.019  Score=44.31  Aligned_cols=23  Identities=9%  Similarity=0.070  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.++.
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45889999999999999999866

>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=94.67  E-value=0.01  Score=45.05  Aligned_cols=21  Identities=19%  Similarity=0.245  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +-++|.+|+|||+||+.+++.
T Consensus        47 vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           47 VLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CCCBCSSCSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            568999999999999999873

>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=94.67  E-value=0.024  Score=39.94  Aligned_cols=23  Identities=17%  Similarity=0.335  Sum_probs=19.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.++|..|+|||||...+.++.
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999987643

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=94.66  E-value=0.028  Score=39.21  Aligned_cols=27  Identities=15%  Similarity=0.263  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ...--|.|+|..|+|||||...+.++.
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~~   33 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADNT   33 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSCC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCC
Confidence            344567899999999999999987643

>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=94.65  E-value=0.021  Score=39.32  Aligned_cols=23  Identities=9%  Similarity=0.146  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|..|+|||||...+..+
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35788999999999999998753

>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=94.65  E-value=0.037  Score=43.64  Aligned_cols=20  Identities=15%  Similarity=0.101  Sum_probs=18.7

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      +-++|..|+||||+|+.+..
T Consensus        49 ~ll~Gp~G~GKTtla~~la~   68 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAR   68 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999877

>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=94.64  E-value=0.016  Score=43.49  Aligned_cols=22  Identities=23%  Similarity=0.274  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+++|+|..|.|||||.+.++.
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~G   57 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTIST   57 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4789999999999999999977

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.64  E-value=0.014  Score=44.55  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=21.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .....|.|.|..|+||||+++.+.+
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGG
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999877

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.64  E-value=0.023  Score=39.68  Aligned_cols=23  Identities=17%  Similarity=0.095  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|.+|+|||||...+.++
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            45789999999999999988764

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=94.63  E-value=0.056  Score=39.76  Aligned_cols=20  Identities=10%  Similarity=-0.040  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |+|-|.-|+||||.++.+++
T Consensus         3 I~~EG~DGsGKsTq~~~L~~   22 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQ   22 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78889999999999999988

>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=94.62  E-value=0.022  Score=39.72  Aligned_cols=26  Identities=12%  Similarity=0.217  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ...-|.|+|..|+|||||...+.+..
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCC
Confidence            34568899999999999999987644

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=94.62  E-value=0.035  Score=46.96  Aligned_cols=24  Identities=17%  Similarity=0.158  Sum_probs=20.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++|.|+|.+|+||||++..+..
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~  123 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAY  123 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999988863

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=94.61  E-value=0.024  Score=47.98  Aligned_cols=24  Identities=17%  Similarity=0.158  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.|+|..|+|||||++.+..
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHH
Confidence            457999999999999999999876

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.61  E-value=0.037  Score=39.29  Aligned_cols=26  Identities=12%  Similarity=0.208  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ..--|.|+|..|+|||||...+.++.
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            34568999999999999999987643

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=94.60  E-value=0.015  Score=48.25  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++|.|+|.+|+||||++..+..
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~  121 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLAR  121 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46999999999999999888765

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=94.60  E-value=0.022  Score=41.17  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=18.8

Q ss_pred             cEEEEEE-cCCCccHHHHHHHHhc
Q 035574           15 LSVVAIL-DSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~-G~gGvGKTtLa~~vy~   37 (156)
                      +++|+|+ +-||+||||+|..+..
T Consensus         1 M~vi~v~s~kgG~GKTt~a~~la~   24 (206)
T 4dzz_A            1 MKVISFLNPKGGSGKTTAVINIAT   24 (206)
T ss_dssp             CEEEEECCSSTTSSHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHH
Confidence            3688888 6689999999888755

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.59  E-value=0.022  Score=45.55  Aligned_cols=22  Identities=9%  Similarity=0.188  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|+|..|+||||||+.+..
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            5789999999999999999876

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=94.59  E-value=0.027  Score=44.28  Aligned_cols=23  Identities=17%  Similarity=0.153  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++.++|.+|+||||++..+..
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~  120 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAY  120 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            57999999999999999988765

>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=94.58  E-value=0.022  Score=40.22  Aligned_cols=23  Identities=4%  Similarity=0.073  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.++|.+|+|||||...+.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKK   25 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcC
Confidence            47899999999999999987753

>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=94.58  E-value=0.021  Score=43.81  Aligned_cols=22  Identities=14%  Similarity=0.280  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+++|+|..|.|||||.+.+..
T Consensus        27 e~~~liG~NGsGKSTLlk~l~G   48 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAG   48 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5789999999999999999876

>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=94.58  E-value=0.022  Score=39.30  Aligned_cols=23  Identities=9%  Similarity=0.235  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|..|+|||||...+..+
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            45789999999999999998754

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=94.58  E-value=0.021  Score=45.11  Aligned_cols=23  Identities=9%  Similarity=0.131  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+-++|.+|+|||+||+.+++
T Consensus        45 ~~~iLL~GppGtGKT~la~ala~   67 (322)
T 1xwi_A           45 WRGILLFGPPGTGKSYLAKAVAT   67 (322)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CceEEEECCCCccHHHHHHHHHH
Confidence            46678999999999999999988

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.56  E-value=0.021  Score=44.54  Aligned_cols=23  Identities=13%  Similarity=-0.061  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~G   69 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNA   69 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35789999999999999999876

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.56  E-value=0.021  Score=43.80  Aligned_cols=22  Identities=18%  Similarity=0.300  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+++|+|..|.|||||.+.+..
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G   53 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLG   53 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5789999999999999999976

>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=94.54  E-value=0.02  Score=43.96  Aligned_cols=22  Identities=14%  Similarity=0.274  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-+-++|.+|+|||++|+.+.+
T Consensus        51 ~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999987

>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=94.54  E-value=0.038  Score=38.53  Aligned_cols=26  Identities=19%  Similarity=0.305  Sum_probs=21.8

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....-|.++|..|+|||||...+.+.
T Consensus         7 ~~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            7 SETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             SCEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            34557899999999999999998765

>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=94.53  E-value=0.027  Score=39.47  Aligned_cols=25  Identities=28%  Similarity=0.324  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ..-|.++|..|+|||||...+.++.
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCC
Confidence            3467899999999999999987643

>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=94.53  E-value=0.023  Score=39.65  Aligned_cols=24  Identities=21%  Similarity=0.264  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            346789999999999999998754

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.51  E-value=0.024  Score=45.71  Aligned_cols=22  Identities=9%  Similarity=0.323  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|+|+.|+|||||+..+..
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~   62 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAA   62 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999987

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.49  E-value=0.023  Score=44.06  Aligned_cols=21  Identities=14%  Similarity=0.412  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++|+|..|.|||||.+.++.
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g   24 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFK   24 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998875

>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=94.48  E-value=0.029  Score=39.42  Aligned_cols=23  Identities=9%  Similarity=0.055  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|.+|+|||||...+.++
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35788999999999999988754

>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=94.47  E-value=0.024  Score=40.60  Aligned_cols=24  Identities=29%  Similarity=0.285  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|.+|+|||||...+.++
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhC
Confidence            345789999999999999888664

>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=94.47  E-value=0.04  Score=43.66  Aligned_cols=25  Identities=8%  Similarity=0.138  Sum_probs=21.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-.+++|+|..|.|||||++.+..
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhh
Confidence            3457899999999999999998753

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.46  E-value=0.082  Score=39.43  Aligned_cols=23  Identities=13%  Similarity=-0.035  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -..|.+.|..|.||||+++.+.+
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~   28 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAE   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHH
Confidence            35789999999999999999987

>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=94.46  E-value=0.025  Score=39.16  Aligned_cols=24  Identities=21%  Similarity=0.043  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..-|.++|..|+|||||...+..+
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999998653

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=94.45  E-value=0.034  Score=41.27  Aligned_cols=30  Identities=20%  Similarity=0.329  Sum_probs=23.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCce
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDY   47 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~   47 (156)
                      .-|+|-|.-|+||||+++.+.+  +....++.
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~--~L~~~~~v   32 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYH--RLVKDYDV   32 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH--HHTTTSCE
T ss_pred             CEEEEECCCCCcHHHHHHHHHH--HHHCCCCE
Confidence            4688999999999999999988  44444554

>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=94.44  E-value=0.029  Score=40.89  Aligned_cols=27  Identities=15%  Similarity=0.065  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .....|.++|.+|+|||||...+....
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345678899999999999999987643

>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=94.44  E-value=0.025  Score=39.92  Aligned_cols=24  Identities=13%  Similarity=0.206  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|..|+|||||...+.++
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            456789999999999999998764

>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=94.44  E-value=0.024  Score=39.04  Aligned_cols=21  Identities=10%  Similarity=-0.015  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||...+.++
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            689999999999999998653

>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=94.42  E-value=0.02  Score=40.17  Aligned_cols=23  Identities=9%  Similarity=0.111  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|.+|+|||||...+.++
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999998764

>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=94.42  E-value=0.025  Score=40.50  Aligned_cols=24  Identities=17%  Similarity=0.178  Sum_probs=19.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.|+|.+|+|||||...+.++
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999877654

>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=94.41  E-value=0.026  Score=39.34  Aligned_cols=23  Identities=13%  Similarity=0.131  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.|+|..|+|||||...+..+
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45788999999999999998753

>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=94.40  E-value=0.03  Score=40.16  Aligned_cols=26  Identities=27%  Similarity=0.309  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ...-|.|+|..|+|||||...+..+.
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCC
Confidence            34567899999999999999987543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=94.39  E-value=0.029  Score=43.27  Aligned_cols=24  Identities=13%  Similarity=0.288  Sum_probs=20.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.++.|+|..|.|||||.+.+..
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHH
Confidence            456899999999999999988755

>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=94.39  E-value=0.025  Score=40.61  Aligned_cols=23  Identities=17%  Similarity=0.046  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..|.++|.+|+|||||...+.++
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            46789999999999999998763

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=94.38  E-value=0.14  Score=42.19  Aligned_cols=60  Identities=17%  Similarity=0.010  Sum_probs=39.2

Q ss_pred             HhcCCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574            8 LIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus         8 L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      ++.+-..-.++-|.|.+|+||||||.++..+...... ...+|++..  .+..++...++...
T Consensus       193 ~lgGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g-~~vl~~slE--~~~~~l~~R~~~~~  252 (444)
T 2q6t_A          193 LIGTLGPGSLNIIAARPAMGKTAFALTIAQNAALKEG-VGVGIYSLE--MPAAQLTLRMMCSE  252 (444)
T ss_dssp             HHCCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTC-CCEEEEESS--SCHHHHHHHHHHHH
T ss_pred             hcCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCC-CeEEEEECC--CCHHHHHHHHHHHH
Confidence            3333344578899999999999999998774322111 246666553  55677777776543

>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=94.38  E-value=0.034  Score=39.17  Aligned_cols=24  Identities=21%  Similarity=0.189  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.|+|..|+|||||...+.+.
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999998764

>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=94.36  E-value=0.034  Score=38.91  Aligned_cols=23  Identities=13%  Similarity=0.323  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|.+|+|||||...+..+
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999998764

>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=94.32  E-value=0.028  Score=39.43  Aligned_cols=23  Identities=9%  Similarity=0.007  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|.+|+|||||...+..+
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35789999999999999998764

>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=94.31  E-value=0.027  Score=40.14  Aligned_cols=24  Identities=17%  Similarity=0.252  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.|+|..|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            456789999999999999988764

>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=94.30  E-value=0.036  Score=38.74  Aligned_cols=25  Identities=16%  Similarity=0.210  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .--|.++|..|+|||||...+.+..
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            3467899999999999999987643

>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=94.30  E-value=0.024  Score=44.75  Aligned_cols=25  Identities=20%  Similarity=0.308  Sum_probs=22.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+.++.|.|+.|.|||||.+.+...
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhh
Confidence            4678999999999999999999853

>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=94.29  E-value=0.021  Score=41.37  Aligned_cols=24  Identities=13%  Similarity=0.022  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...|.++|.+|+|||||...+.++
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999998753

>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=94.28  E-value=0.032  Score=40.48  Aligned_cols=25  Identities=12%  Similarity=0.042  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ...|.++|.+|+|||||...+.++.
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4567899999999999999987643

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=94.27  E-value=0.061  Score=40.95  Aligned_cols=28  Identities=14%  Similarity=0.143  Sum_probs=22.9

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ......|.++|..|+|||||...+....
T Consensus        33 ~~~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           33 DMNSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             TCCEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3345678999999999999999987654

>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=94.27  E-value=0.023  Score=46.87  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+++|+|..|+|||||.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            456899999999999999999977

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=94.26  E-value=0.028  Score=39.77  Aligned_cols=24  Identities=8%  Similarity=0.088  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.|+|..|+|||||...+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999999875

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=94.25  E-value=0.05  Score=44.10  Aligned_cols=44  Identities=18%  Similarity=0.128  Sum_probs=30.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCH
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDP   59 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~   59 (156)
                      .-+++-|.|.+|+||||||.++....  ...=...+|+.....++.
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~--~~~g~~vlyi~~E~s~~~  116 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQA--QKAGGTCAFIDAEHALDP  116 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHH--HHCCCeEEEEECCCChhH
Confidence            34688889999999999999886632  211134778877665543

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=94.25  E-value=0.031  Score=39.79  Aligned_cols=22  Identities=18%  Similarity=0.181  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+..|+|..|.|||||+..++-
T Consensus        27 g~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            3789999999999999998854

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=94.25  E-value=0.034  Score=39.60  Aligned_cols=27  Identities=11%  Similarity=-0.022  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .....|.|+|..|+|||||...+.++.
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            445678999999999999999987643

>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=94.25  E-value=0.021  Score=45.81  Aligned_cols=23  Identities=13%  Similarity=0.150  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +-+-++|.+|+|||+||+.+++.
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            44778999999999999999883

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.25  E-value=0.013  Score=45.96  Aligned_cols=24  Identities=8%  Similarity=0.171  Sum_probs=18.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|+|.|..|.||||+|+.+.+
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999998866

>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=94.24  E-value=0.024  Score=45.41  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-++|.+|+|||++|+.+.+
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~   94 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAK   94 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHH
Confidence            34578999999999999999987

>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=94.24  E-value=0.029  Score=40.41  Aligned_cols=23  Identities=4%  Similarity=0.108  Sum_probs=19.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .--|.++|.+|+|||||.+.+.+
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~   42 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFH   42 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45678999999999999997766

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=94.21  E-value=0.031  Score=44.89  Aligned_cols=50  Identities=12%  Similarity=-0.004  Sum_probs=32.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEc--CCC-----CCHHHHHHHHHHHh
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPA--PYH-----YDPDQILDIVAVIL   70 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~v--s~~-----~~~~~l~~~il~~l   70 (156)
                      +++-|+|.+|+|||+||.++...   . . ....|++.  .+.     .+.+.+++.+.+.+
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~---~-G-~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l  180 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEA---L-G-GKDKYATVRFGEPLSGYNTDFNVFVDDIARAM  180 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHH---H-H-TTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHh---C-C-CCEEEEEecchhhhhhhhcCHHHHHHHHHHHH
Confidence            56679999999999999999773   1 1 12345554  221     35666666555554

>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=94.21  E-value=0.041  Score=40.65  Aligned_cols=26  Identities=8%  Similarity=0.156  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .....|.++|.+|+|||||...+.+.
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34567899999999999999998775

>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=94.21  E-value=0.031  Score=40.16  Aligned_cols=25  Identities=20%  Similarity=0.263  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .--|.|+|.+|+|||||...+.+..
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567899999999999999987643

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=94.19  E-value=0.16  Score=42.37  Aligned_cols=58  Identities=7%  Similarity=-0.032  Sum_probs=38.2

Q ss_pred             cCCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           10 EGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        10 ~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      .+-..-.++-|.|.+|+||||||.++..+...... ...+|++.  +.+..++...++...
T Consensus       237 gGl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g-~~vl~~s~--E~s~~~l~~r~~~~~  294 (503)
T 1q57_A          237 LGARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMG-KKVGLAML--EESVEETAEDLIGLH  294 (503)
T ss_dssp             CCCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSC-CCEEEEES--SSCHHHHHHHHHHHH
T ss_pred             cccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcC-CcEEEEec--cCCHHHHHHHHHHHH
Confidence            33344568889999999999999998773322211 24677665  345677777765543

>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=94.18  E-value=0.018  Score=41.68  Aligned_cols=25  Identities=16%  Similarity=-0.029  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....+.|+|..|+|||||.+.+...
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3467999999999999999988764

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=94.18  E-value=0.029  Score=43.41  Aligned_cols=22  Identities=27%  Similarity=0.237  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+++|+|..|.|||||.+.+..
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~G   52 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISG   52 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            4789999999999999999976

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.18  E-value=0.035  Score=44.51  Aligned_cols=25  Identities=16%  Similarity=0.056  Sum_probs=22.0

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+++|+|.+|+|||||...+..
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHH
Confidence            3467999999999999999998875

>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=94.17  E-value=0.03  Score=40.11  Aligned_cols=25  Identities=16%  Similarity=0.240  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .--|.|+|..|+|||||...+.++.
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3467899999999999999987643

>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=94.16  E-value=0.037  Score=38.84  Aligned_cols=26  Identities=19%  Similarity=0.049  Sum_probs=21.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....-|.++|..|+|||||...+..+
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcC
Confidence            34567889999999999999998753

>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=94.16  E-value=0.036  Score=39.75  Aligned_cols=24  Identities=21%  Similarity=0.282  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|.+|+|||||...+.++
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999998764

>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=94.15  E-value=0.039  Score=39.63  Aligned_cols=26  Identities=31%  Similarity=0.346  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ...-|.|+|.+|+|||||...+..+.
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            34568999999999999999987643

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.14  E-value=0.025  Score=41.55  Aligned_cols=22  Identities=9%  Similarity=0.080  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|.|+.|.||||+++.+..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999988754

>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=94.13  E-value=0.031  Score=39.50  Aligned_cols=26  Identities=12%  Similarity=-0.005  Sum_probs=22.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ...-|.++|.+|+|||||...+.++.
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678999999999999999987654

>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=94.13  E-value=0.041  Score=39.24  Aligned_cols=24  Identities=13%  Similarity=0.008  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.|+|..|+|||||...+.+.
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcC
Confidence            345789999999999999998764

>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=94.13  E-value=0.032  Score=44.72  Aligned_cols=23  Identities=22%  Similarity=0.189  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++|+|..|.|||||++.+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~g  192 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAA  192 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHH
Confidence            46889999999999999998865

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=94.12  E-value=0.036  Score=39.93  Aligned_cols=25  Identities=20%  Similarity=0.185  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ..-|.|+|.+|+|||||...+.+..
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCC
Confidence            4567899999999999999987643

>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=94.12  E-value=0.024  Score=41.06  Aligned_cols=23  Identities=13%  Similarity=0.199  Sum_probs=19.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHh
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      ..-.|.++|.+|+|||||...+.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            34578999999999999999984

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=94.12  E-value=0.032  Score=40.05  Aligned_cols=24  Identities=8%  Similarity=0.037  Sum_probs=20.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|..|+|||||...+.++
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999988764

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=94.11  E-value=0.032  Score=41.52  Aligned_cols=21  Identities=14%  Similarity=0.185  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|-+.|.+|+||+|.|+.+..
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999877

>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=94.07  E-value=0.033  Score=39.46  Aligned_cols=23  Identities=13%  Similarity=0.235  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|..|+|||||...+.++
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46788999999999999998764

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=94.06  E-value=0.13  Score=41.36  Aligned_cols=42  Identities=10%  Similarity=0.138  Sum_probs=30.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhccccccccC--ceEEEEEcCCCCCHH
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSSYMKHYF--DYLAWIPAPYHYDPD   60 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~~v~~~F--~~~~wv~vs~~~~~~   60 (156)
                      ++-|.|.+|+|||||+.++...  ....+  ...+|+...+.++..
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~--~~~~g~g~~vlyId~E~s~~~~   73 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSS--YMRQYPDAVCLFYDSEFGITPA   73 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH--HHHHCTTCEEEEEESSCCCCHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH--HHhcCCCceEEEEeccchhhHH
Confidence            6889999999999998887663  22221  347888877776653

>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=94.05  E-value=0.026  Score=44.70  Aligned_cols=23  Identities=13%  Similarity=0.213  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        80 Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCchHHHHHHHHHc
Confidence            35789999999999999999865

>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=94.04  E-value=0.043  Score=39.16  Aligned_cols=24  Identities=8%  Similarity=0.081  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      --|.++|..|+|||||...+.+..
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            457899999999999999987753

>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=94.03  E-value=0.038  Score=40.36  Aligned_cols=24  Identities=13%  Similarity=0.054  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|.+|+|||||...+.++
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999998764

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=94.03  E-value=0.025  Score=44.37  Aligned_cols=23  Identities=17%  Similarity=0.118  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+-|+|.+|+|||++|+.+++.
T Consensus        26 ~~vLi~Ge~GtGKt~lAr~i~~~   48 (304)
T 1ojl_A           26 ATVLIHGDSGTGKELVARALHAC   48 (304)
T ss_dssp             SCEEEESCTTSCHHHHHHHHHHH
T ss_pred             CcEEEECCCCchHHHHHHHHHHh
Confidence            34669999999999999999873

>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=94.02  E-value=0.034  Score=39.55  Aligned_cols=25  Identities=16%  Similarity=0.230  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .--|.|+|..|+|||||...+.++.
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            4568899999999999999987643

>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=94.01  E-value=0.043  Score=39.04  Aligned_cols=24  Identities=13%  Similarity=0.151  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|.+|+|||||...+..+
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            346799999999999999998763

>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=94.01  E-value=0.034  Score=39.56  Aligned_cols=24  Identities=13%  Similarity=0.194  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..-|.++|..|+|||||...+..+
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            456889999999999999998754

>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=93.97  E-value=0.035  Score=39.62  Aligned_cols=24  Identities=17%  Similarity=0.243  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.|+|..|+|||||...+.+.
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            345788999999999999998764

>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=93.95  E-value=0.038  Score=39.26  Aligned_cols=25  Identities=20%  Similarity=0.001  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..--|.++|..|+|||||...+.+.
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3466899999999999999998753

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=93.94  E-value=0.047  Score=41.17  Aligned_cols=23  Identities=9%  Similarity=0.078  Sum_probs=19.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+-++|.+|.||||+|..+.+
T Consensus        58 kn~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           58 KNCLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999998877765

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=93.93  E-value=0.048  Score=43.88  Aligned_cols=26  Identities=19%  Similarity=0.153  Sum_probs=21.5

Q ss_pred             CCCcEEEEEEc-CCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILD-SIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G-~gGvGKTtLa~~vy~   37 (156)
                      ....++|+|++ -||+||||+|..+..
T Consensus       140 ~~~~kvIav~s~KGGvGKTT~a~nLA~  166 (373)
T 3fkq_A          140 NDKSSVVIFTSPCGGVGTSTVAAACAI  166 (373)
T ss_dssp             TTSCEEEEEECSSTTSSHHHHHHHHHH
T ss_pred             CCCceEEEEECCCCCChHHHHHHHHHH
Confidence            35679999995 899999999887765

>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=93.93  E-value=0.034  Score=43.64  Aligned_cols=23  Identities=22%  Similarity=0.221  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~G   86 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMG   86 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            35889999999999999999977

>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=93.91  E-value=0.036  Score=39.89  Aligned_cols=25  Identities=8%  Similarity=0.200  Sum_probs=20.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...-|.|+|..|+|||||...+..+
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhC
Confidence            3467899999999999999998754

>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=93.91  E-value=0.036  Score=40.03  Aligned_cols=24  Identities=17%  Similarity=0.235  Sum_probs=20.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.|+|..|+|||||...+.++
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999988754

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=93.90  E-value=0.05  Score=38.60  Aligned_cols=26  Identities=15%  Similarity=-0.042  Sum_probs=21.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...--|.++|..|+|||||...+..+
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~   45 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLG   45 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcC
Confidence            34456899999999999999998653

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=93.90  E-value=0.033  Score=41.28  Aligned_cols=20  Identities=25%  Similarity=0.298  Sum_probs=17.0

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|.|-||+||||+|..+..
T Consensus         3 I~vs~kGGvGKTt~a~~LA~   22 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIK   22 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHH
T ss_pred             EEEecCCCCCHHHHHHHHHH
Confidence            66789999999999887755

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=93.89  E-value=0.11  Score=42.98  Aligned_cols=52  Identities=13%  Similarity=0.156  Sum_probs=34.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVA   67 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il   67 (156)
                      ..-.++.|.|.+|+|||||+.++..+...... ..++|++..  .+..++...++
T Consensus       201 ~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g-~~Vl~~s~E--~s~~~l~~r~~  252 (454)
T 2r6a_A          201 QRSDLIIVAARPSVGKTAFALNIAQNVATKTN-ENVAIFSLE--MSAQQLVMRML  252 (454)
T ss_dssp             CTTCEEEEECCTTSCHHHHHHHHHHHHHHHSS-CCEEEEESS--SCHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHHhCC-CcEEEEECC--CCHHHHHHHHH
Confidence            34568999999999999999998774322111 246666543  34566666654

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=93.88  E-value=0.033  Score=39.94  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      --|.|+|..|+|||||...+.++.
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~~   50 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDDT   50 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC--
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999987643

>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=93.87  E-value=0.034  Score=39.95  Aligned_cols=24  Identities=8%  Similarity=-0.082  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.|+|.+|+|||||...+..+
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhC
Confidence            456899999999999999998653

>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=93.87  E-value=0.035  Score=39.60  Aligned_cols=23  Identities=17%  Similarity=0.195  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.|+|..|+|||||...+.++
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhcC
Confidence            45789999999999999998764

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=93.86  E-value=0.041  Score=46.59  Aligned_cols=24  Identities=13%  Similarity=0.115  Sum_probs=20.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|-++|++|.||||+|+.+..
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~   57 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTR   57 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346889999999999999999865

>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=93.86  E-value=0.039  Score=44.14  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|..|+||||||..+..
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~   25 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAK   25 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCcCCHHHHHHHHHH
Confidence            35789999999999999999876

>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=93.86  E-value=0.038  Score=39.87  Aligned_cols=23  Identities=13%  Similarity=0.189  Sum_probs=19.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .--|.|+|.+|+|||||...+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34588999999999999988763

>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=93.83  E-value=0.048  Score=39.74  Aligned_cols=24  Identities=17%  Similarity=0.306  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..-|.|+|..|+|||||...+.+.
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999988653

>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=93.80  E-value=0.044  Score=39.79  Aligned_cols=24  Identities=8%  Similarity=0.036  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|..|+|||||...+.++
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            345789999999999999888754

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=93.79  E-value=0.041  Score=45.79  Aligned_cols=21  Identities=19%  Similarity=0.226  Sum_probs=18.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -+-++|.+|+|||+||+.+..
T Consensus       203 ~~LL~G~pG~GKT~la~~la~  223 (468)
T 3pxg_A          203 NPVLIGEPGVGKTAIAEGLAQ  223 (468)
T ss_dssp             EEEEESCTTTTTHHHHHHHHH
T ss_pred             CeEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999887

>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=93.78  E-value=0.051  Score=39.15  Aligned_cols=24  Identities=8%  Similarity=0.264  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..-|.|+|.+|+|||||...+..+
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999998754

>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=93.78  E-value=0.039  Score=40.39  Aligned_cols=23  Identities=17%  Similarity=0.143  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|.+|+|||||...+.++
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC-
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            46789999999999999998764

>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=93.78  E-value=0.044  Score=42.88  Aligned_cols=25  Identities=12%  Similarity=0.195  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....++|+|.+|+|||||...+...
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            3468999999999999999998764

>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=93.77  E-value=0.039  Score=39.78  Aligned_cols=24  Identities=13%  Similarity=0.238  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..-|.|+|.+|+|||||...+.++
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999998764

>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=93.77  E-value=0.048  Score=42.77  Aligned_cols=27  Identities=15%  Similarity=0.245  Sum_probs=23.4

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.....|+|+|.+|+|||||...+...
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            345678999999999999999998764

>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=93.76  E-value=0.059  Score=40.21  Aligned_cols=26  Identities=12%  Similarity=0.138  Sum_probs=22.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ....|.++|..|+|||||...+....
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCC
Confidence            34678999999999999999988754

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=93.74  E-value=0.045  Score=45.60  Aligned_cols=24  Identities=17%  Similarity=0.200  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|.++|.+|+||||++..+..
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~  122 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLAR  122 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHH
Confidence            468999999999999999887765

>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=93.72  E-value=0.037  Score=39.14  Aligned_cols=24  Identities=17%  Similarity=-0.036  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|..|+|||||...+.+.
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999998764

>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=93.72  E-value=0.032  Score=43.77  Aligned_cols=20  Identities=15%  Similarity=0.380  Sum_probs=18.1

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|+|..|+|||||.+.++.
T Consensus        21 I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           21 LMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEETTSSHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            48999999999999999775

>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=93.71  E-value=0.043  Score=43.78  Aligned_cols=24  Identities=17%  Similarity=0.174  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|.|.|..|+||||||..+..
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCccCHHHHHHHHHH
Confidence            356889999999999999999876

>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=93.70  E-value=0.041  Score=39.93  Aligned_cols=23  Identities=9%  Similarity=0.027  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-|.++|..|+|||||...+..+
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            46789999999999999998764

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=93.68  E-value=0.049  Score=39.43  Aligned_cols=24  Identities=8%  Similarity=-0.015  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|.+|+|||||...+.++
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999988754

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=93.68  E-value=0.07  Score=41.55  Aligned_cols=34  Identities=9%  Similarity=0.060  Sum_probs=25.6

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            4 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         4 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +..||........-+-++|.+|.|||.+|..+.+
T Consensus        93 l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~  126 (267)
T 1u0j_A           93 FLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHh
Confidence            3444444334456799999999999999999876

>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=93.65  E-value=0.05  Score=38.74  Aligned_cols=23  Identities=13%  Similarity=0.089  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|..|+|||||...+.++
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46788999999999999998764

>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=93.65  E-value=0.042  Score=44.68  Aligned_cols=23  Identities=9%  Similarity=0.117  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        54 Gei~~IiGpnGaGKSTLlr~i~G   76 (366)
T 3tui_C           54 GQIYGVIGASGAGKSTLIRCVNL   76 (366)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHhc
Confidence            46789999999999999999866

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=93.62  E-value=0.4  Score=37.61  Aligned_cols=54  Identities=11%  Similarity=-0.092  Sum_probs=32.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc-ccc-ccCceEEEEEcCC-CCCHHHHHHHHHHHh
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS-YMK-HYFDYLAWIPAPY-HYDPDQILDIVAVIL   70 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~-~v~-~~F~~~~wv~vs~-~~~~~~l~~~il~~l   70 (156)
                      ....-++|..|.||||+|+.+.+.. ... .+.+ ..++..+. ....++ .+++++.+
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d-~~~l~~~~~~~~id~-ir~li~~~   74 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDD-IRTIKDFL   74 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHH-HHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCC-EEEEcCCcCCCCHHH-HHHHHHHH
Confidence            6678889999999999999987631 111 2333 34454433 344443 34455555

>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=93.59  E-value=0.044  Score=39.54  Aligned_cols=23  Identities=13%  Similarity=0.040  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-|.++|..|+|||||...+.++
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998764

>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=93.59  E-value=0.034  Score=39.61  Aligned_cols=25  Identities=20%  Similarity=-0.019  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .--|.++|..|+|||||...+.+..
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3467899999999999999987654

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.58  E-value=0.038  Score=47.21  Aligned_cols=23  Identities=13%  Similarity=-0.013  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.++.|+|+.|.|||||++.+..
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~  391 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAA  391 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCChHHHHHHHHHH
Confidence            46899999999999999999987

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=93.58  E-value=0.04  Score=40.21  Aligned_cols=27  Identities=15%  Similarity=0.042  Sum_probs=22.9

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .....|.|+|..|+|||||...+....
T Consensus        27 ~~~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           27 TVQPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             CCSCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            345678999999999999999998764

>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=93.57  E-value=0.058  Score=39.55  Aligned_cols=24  Identities=13%  Similarity=0.148  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      --|.|+|.+|+|||||...+.++.
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            457899999999999999987643

>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=93.56  E-value=0.045  Score=39.64  Aligned_cols=24  Identities=13%  Similarity=0.156  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.|+|..|+|||||...+.++
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhC
Confidence            456789999999999999998654

>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=93.55  E-value=0.048  Score=39.63  Aligned_cols=24  Identities=25%  Similarity=0.290  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.|+|..|+|||||...+.+.
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            346789999999999999998764

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=93.53  E-value=0.046  Score=40.32  Aligned_cols=22  Identities=14%  Similarity=0.128  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|+|.|+.|.||||+++.+..
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~   28 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAE   28 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHH
Confidence            5899999999999999998755

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=93.53  E-value=0.12  Score=42.73  Aligned_cols=56  Identities=16%  Similarity=0.106  Sum_probs=36.1

Q ss_pred             cCCCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHH
Q 035574           10 EGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVI   69 (156)
Q Consensus        10 ~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~   69 (156)
                      .+-..-.++-|.|.+|+||||||.++..+.... . ...+|++..  .+..++...++..
T Consensus       192 gGl~~G~liiIaG~pG~GKTtlal~ia~~~a~~-g-~~vl~fSlE--ms~~ql~~R~~~~  247 (444)
T 3bgw_A          192 YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDN-D-DVVNLHSLE--MGKKENIKRLIVT  247 (444)
T ss_dssp             SSBCSSCEEEEEECSSSSHHHHHHHHHHHHHHT-T-CEEEEECSS--SCTTHHHHHHHHH
T ss_pred             CCCCCCcEEEEEeCCCCChHHHHHHHHHHHHHc-C-CEEEEEECC--CCHHHHHHHHHHH
Confidence            333445788999999999999999987743222 1 246666543  4455566655544

>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=93.51  E-value=0.057  Score=41.29  Aligned_cols=24  Identities=21%  Similarity=0.213  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...|.++|.+|+|||||...+...
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            456899999999999999998764

>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=93.50  E-value=0.05  Score=45.20  Aligned_cols=23  Identities=9%  Similarity=0.094  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|-++|+.|.||||+++.+..
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~   61 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTR   61 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999999876

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=93.49  E-value=0.059  Score=39.96  Aligned_cols=24  Identities=13%  Similarity=0.021  Sum_probs=19.3

Q ss_pred             CcEEEEEEc-CCCccHHHHHHHHhc
Q 035574           14 QLSVVAILD-SIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G-~gGvGKTtLa~~vy~   37 (156)
                      ..++|+|++ -||+||||+|..+..
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~   27 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAF   27 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHH
Confidence            467899985 589999999887755

>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=93.48  E-value=0.036  Score=47.06  Aligned_cols=24  Identities=13%  Similarity=0.250  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+.++|.+|+||||||+.+..
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~  130 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAK  130 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            456889999999999999999987

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.47  E-value=0.079  Score=40.08  Aligned_cols=23  Identities=13%  Similarity=-0.033  Sum_probs=17.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -..|.|.|..|+||||+++.+.+
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~   47 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCD   47 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999999987

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=93.47  E-value=0.054  Score=44.85  Aligned_cols=24  Identities=17%  Similarity=0.054  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++.++|.+|+||||++..+..
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~  120 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLAL  120 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999888765

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=93.46  E-value=0.035  Score=43.45  Aligned_cols=21  Identities=19%  Similarity=0.088  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -+-++|.+|+|||+||+.+.+
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            477899999999999999876

>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=93.44  E-value=0.048  Score=44.20  Aligned_cols=23  Identities=17%  Similarity=0.150  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            46789999999999999999876

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.42  E-value=0.035  Score=46.04  Aligned_cols=24  Identities=21%  Similarity=0.149  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+=+=++|.+|.|||+||+.+.+
T Consensus       205 ~prGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          205 PPRGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            345577899999999999999988

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=93.40  E-value=0.039  Score=44.47  Aligned_cols=23  Identities=13%  Similarity=0.105  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+-|+|.+|+|||+||+.+.+
T Consensus       148 ~~~vLL~GppGtGKT~la~aia~  170 (389)
T 3vfd_A          148 ARGLLLFGPPGNGKTMLAKAVAA  170 (389)
T ss_dssp             CSEEEEESSTTSCHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999999987

>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=93.39  E-value=0.027  Score=39.69  Aligned_cols=24  Identities=17%  Similarity=0.187  Sum_probs=10.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..-|.|+|..|+|||||...+.++
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEECCCCC------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999887654

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.38  E-value=0.05  Score=43.98  Aligned_cols=23  Identities=22%  Similarity=0.167  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35789999999999999999875

>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=93.37  E-value=0.048  Score=45.03  Aligned_cols=24  Identities=8%  Similarity=0.129  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+-+-++|.+|+|||+||+.+++.
T Consensus       167 ~~~vLL~GppGtGKT~lA~aia~~  190 (444)
T 2zan_A          167 WRGILLFGPPGTGKSYLAKAVATE  190 (444)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            467889999999999999999883

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=93.36  E-value=0.1  Score=39.92  Aligned_cols=26  Identities=12%  Similarity=0.193  Sum_probs=22.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ....|.|+|.+|+|||||...+....
T Consensus        25 ~~~~i~vvG~~~~GKSSLln~l~g~~   50 (299)
T 2aka_B           25 DLPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHHCCC
Confidence            45679999999999999999998754

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.32  E-value=0.037  Score=46.00  Aligned_cols=25  Identities=12%  Similarity=0.046  Sum_probs=21.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+=+=++|.+|.|||.||+.+.+
T Consensus       213 ~~prGvLLyGPPGTGKTllAkAiA~  237 (434)
T 4b4t_M          213 RAPKGALMYGPPGTGKTLLARACAA  237 (434)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCCCeeEEECcCCCCHHHHHHHHHH
Confidence            3456678899999999999999988

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=93.31  E-value=0.13  Score=39.08  Aligned_cols=23  Identities=13%  Similarity=0.066  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|.|.|..|+||||+++.+.+
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~   49 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVE   49 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999987

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=93.30  E-value=0.44  Score=37.47  Aligned_cols=23  Identities=13%  Similarity=0.072  Sum_probs=19.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-++|..|+|||++|+.+..
T Consensus        24 ~~a~L~~G~~G~GKt~~a~~la~   46 (334)
T 1a5t_A           24 HHALLIQALPGMGDDALIYALSR   46 (334)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceeEEEECCCCchHHHHHHHHHH
Confidence            45678999999999999998765

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.26  E-value=0.05  Score=41.47  Aligned_cols=22  Identities=14%  Similarity=0.048  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.++|.|++|+||||+|+.+.+
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHH
Confidence            3579999999999999998866

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.22  E-value=0.15  Score=38.05  Aligned_cols=22  Identities=18%  Similarity=0.089  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|.+.|..|.||||+++.+.+
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~   25 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVE   25 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999987

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=93.22  E-value=0.036  Score=46.84  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-+-++|.+|+|||+||+.+.+.
T Consensus        42 ~~VLL~GpPGtGKT~LAraLa~~   64 (500)
T 3nbx_X           42 ESVFLLGPPGIAKSLIARRLKFA   64 (500)
T ss_dssp             CEEEEECCSSSSHHHHHHHGGGG
T ss_pred             CeeEeecCchHHHHHHHHHHHHH
Confidence            35778999999999999999873

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=93.21  E-value=0.044  Score=46.04  Aligned_cols=23  Identities=17%  Similarity=0.138  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+-|+|.+|+|||+||+.+.+
T Consensus       238 ~~~vLL~GppGtGKT~lAraia~  260 (489)
T 3hu3_A          238 PRGILLYGPPGTGKTLIARAVAN  260 (489)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEECcCCCCHHHHHHHHHH
Confidence            45578999999999999999987

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=93.20  E-value=0.11  Score=41.52  Aligned_cols=26  Identities=15%  Similarity=0.073  Sum_probs=18.7

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+++-+-|-||+||||+|..+..
T Consensus        23 ~~~~~i~v~sgKGGvGKTTvA~~LA~   48 (349)
T 3ug7_A           23 KDGTKYIMFGGKGGVGKTTMSAATGV   48 (349)
T ss_dssp             SCSCEEEEEECSSSTTHHHHHHHHHH
T ss_pred             cCCCEEEEEeCCCCccHHHHHHHHHH
Confidence            33445555669999999998877644

>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=93.19  E-value=0.056  Score=43.76  Aligned_cols=23  Identities=26%  Similarity=0.133  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHC
Confidence            46789999999999999999876

>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=93.19  E-value=0.056  Score=40.10  Aligned_cols=23  Identities=13%  Similarity=0.189  Sum_probs=19.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-|.|+|-+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            34589999999999999998864

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=93.18  E-value=0.059  Score=40.84  Aligned_cols=25  Identities=12%  Similarity=0.082  Sum_probs=20.0

Q ss_pred             CCcEEEEEE-cCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAIL-DSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~-G~gGvGKTtLa~~vy~   37 (156)
                      ...++|+|+ +-||+||||+|..+..
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~   50 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILAT   50 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHH
Confidence            457889886 5689999999888766

>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=93.17  E-value=0.056  Score=43.90  Aligned_cols=23  Identities=17%  Similarity=0.075  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAG   51 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCcHHHHHHHHHHc
Confidence            35789999999999999999876

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.15  E-value=0.057  Score=43.77  Aligned_cols=23  Identities=17%  Similarity=0.163  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAG   51 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            46889999999999999999876

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=93.12  E-value=0.048  Score=46.06  Aligned_cols=20  Identities=20%  Similarity=0.308  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      +-++|.+|+||||||+.+..
T Consensus        67 vLL~GppGtGKTtLaraIa~   86 (499)
T 2dhr_A           67 VLLVGPPGVGKTHLARAVAG   86 (499)
T ss_dssp             EEEECSSSSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999987

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.10  E-value=0.042  Score=45.72  Aligned_cols=25  Identities=16%  Similarity=0.096  Sum_probs=21.5

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+=+=++|.+|.|||+||+.+.+
T Consensus       213 ~~prGvLL~GPPGtGKTllAkAiA~  237 (437)
T 4b4t_L          213 KPPKGVLLYGPPGTGKTLLAKAVAA  237 (437)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHH
Confidence            3356677899999999999999988

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.10  E-value=0.076  Score=40.13  Aligned_cols=24  Identities=13%  Similarity=-0.057  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....|.+.|..|+||||+++.+.+
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~   43 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAE   43 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999987

>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=93.09  E-value=0.045  Score=45.98  Aligned_cols=21  Identities=14%  Similarity=0.181  Sum_probs=19.3

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -+-++|.+|.|||+||+.+.+
T Consensus        51 gvLL~GppGtGKT~Laraia~   71 (476)
T 2ce7_A           51 GILLVGPPGTGKTLLARAVAG   71 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            367999999999999999988

>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=93.08  E-value=0.051  Score=43.81  Aligned_cols=23  Identities=26%  Similarity=0.192  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaG   48 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAG   48 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCccHHHHHHHHHc
Confidence            35889999999999999999876

>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=93.07  E-value=0.059  Score=44.03  Aligned_cols=23  Identities=13%  Similarity=0.102  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHc
Confidence            46889999999999999999876

>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=93.05  E-value=0.075  Score=40.08  Aligned_cols=26  Identities=12%  Similarity=0.112  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ....|.|+|.+|+|||||...+....
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~~   46 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRKQ   46 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCC
Confidence            34678999999999999999986543

>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=93.04  E-value=0.059  Score=42.24  Aligned_cols=21  Identities=10%  Similarity=0.196  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHh
Q 035574           16 SVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      .++.++|..|+|||||.+.+.
T Consensus       166 ~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          166 FICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            578999999999999999997

>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=93.02  E-value=0.06  Score=43.77  Aligned_cols=23  Identities=17%  Similarity=0.091  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            46889999999999999999875

>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=93.00  E-value=0.099  Score=40.41  Aligned_cols=24  Identities=13%  Similarity=0.159  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...|.++|.+|+|||||...+...
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCC
Confidence            356899999999999999999874

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=92.98  E-value=0.065  Score=39.49  Aligned_cols=21  Identities=14%  Similarity=0.162  Sum_probs=17.3

Q ss_pred             EEEEE-cCCCccHHHHHHHHhc
Q 035574           17 VVAIL-DSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~-G~gGvGKTtLa~~vy~   37 (156)
                      +|+|+ +-||+||||+|..+..
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~   23 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSA   23 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHH
Confidence            56776 6799999999988866

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=92.98  E-value=0.059  Score=43.30  Aligned_cols=24  Identities=17%  Similarity=0.246  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+...
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            467899999999999999998774

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.98  E-value=0.045  Score=45.13  Aligned_cols=23  Identities=17%  Similarity=0.130  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+=+=++|.+|.|||.||+.+.+
T Consensus       182 prGvLL~GPPGTGKTllAkAiA~  204 (405)
T 4b4t_J          182 PKGVILYGPPGTGKTLLARAVAH  204 (405)
T ss_dssp             CCCEEEESCSSSSHHHHHHHHHH
T ss_pred             CCceEEeCCCCCCHHHHHHHHHH
Confidence            45567899999999999999988

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=92.97  E-value=0.063  Score=44.29  Aligned_cols=22  Identities=18%  Similarity=0.383  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|.|.|..|+||||||..+..
T Consensus         3 ~~i~i~GptgsGKttla~~La~   24 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQ   24 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHH
Confidence            5789999999999999998865

>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=92.96  E-value=0.065  Score=43.33  Aligned_cols=24  Identities=13%  Similarity=0.288  Sum_probs=20.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.++.|+|..|.|||||++.+..
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            356899999999999999888754

>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=92.96  E-value=0.066  Score=39.90  Aligned_cols=22  Identities=14%  Similarity=0.179  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.|+|-+|+|||+|...+.++
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            4788999999999999987654

>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=92.94  E-value=0.044  Score=44.22  Aligned_cols=23  Identities=26%  Similarity=0.196  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            46889999999999999999875

>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=92.89  E-value=0.079  Score=41.54  Aligned_cols=25  Identities=16%  Similarity=0.175  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....|.|+|.+|+|||||...+...
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3467899999999999999998764

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=92.89  E-value=0.077  Score=39.70  Aligned_cols=22  Identities=18%  Similarity=0.265  Sum_probs=17.4

Q ss_pred             EEEEEEc-CCCccHHHHHHHHhc
Q 035574           16 SVVAILD-SIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G-~gGvGKTtLa~~vy~   37 (156)
                      ++|+|++ -||+||||+|..+..
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~   25 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIAT   25 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHH
Confidence            6788874 588999998887654

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=92.88  E-value=0.053  Score=43.64  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -..+.|+|..|.|||||++.+..
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~  197 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQ  197 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35789999999999999999876

>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=92.84  E-value=0.069  Score=40.81  Aligned_cols=23  Identities=13%  Similarity=0.133  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.|.++|.+|+|||||...+...
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            46899999999999999998764

>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=92.83  E-value=0.032  Score=43.67  Aligned_cols=20  Identities=15%  Similarity=0.162  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      +-++|.+|+|||+||+.+.+
T Consensus        48 vLl~G~~GtGKT~la~~la~   67 (350)
T 1g8p_A           48 VLVFGDRGTGKSTAVRALAA   67 (350)
T ss_dssp             EEEECCGGGCTTHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHH
Confidence            77899999999999999987

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=92.82  E-value=0.067  Score=39.27  Aligned_cols=24  Identities=13%  Similarity=0.275  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.|+|..|+|||||...+.+.
T Consensus        13 ~~ki~v~G~~~vGKSsli~~l~~~   36 (223)
T 3cpj_B           13 LFKIVLIGDSGVGKSNLLSRFTKN   36 (223)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHHC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            456789999999999999998764

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=92.81  E-value=0.062  Score=41.18  Aligned_cols=22  Identities=14%  Similarity=0.368  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.|+|.+|+|||||...++..
T Consensus        10 ~I~vvG~~g~GKSTLin~L~~~   31 (274)
T 3t5d_A           10 TLMVVGESGLGKSTLINSLFLT   31 (274)
T ss_dssp             EEEEEECTTSSHHHHHHHHSSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999987653

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=92.80  E-value=0.084  Score=42.64  Aligned_cols=26  Identities=23%  Similarity=0.094  Sum_probs=20.8

Q ss_pred             CCCcEEEEEE-cCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAIL-DSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~-G~gGvGKTtLa~~vy~   37 (156)
                      ....++|+|+ |-||+||||+|..+..
T Consensus       105 ~~~~~vIav~s~KGGvGKTT~a~nLA~  131 (398)
T 3ez2_A          105 YSEAYVIFISNLKGGVSKTVSTVSLAH  131 (398)
T ss_dssp             CCSCEEEEECCSSSSSSHHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCccHHHHHHHHHH
Confidence            4567899998 7799999998777654

>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=92.80  E-value=0.069  Score=43.27  Aligned_cols=23  Identities=9%  Similarity=0.164  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .++.|+|..|+|||||.+.+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CEEEEECCCCccHHHHHHHHhcc
Confidence            47899999999999999999874

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=92.76  E-value=0.077  Score=45.50  Aligned_cols=23  Identities=9%  Similarity=-0.060  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.|.|+.|.||||+|+.+..
T Consensus       396 ~~~I~l~GlsGSGKSTiA~~La~  418 (573)
T 1m8p_A          396 GFTIFLTGYMNSGKDAIARALQV  418 (573)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEeecCCCCCHHHHHHHHHH
Confidence            46899999999999999999877

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=92.74  E-value=0.069  Score=46.40  Aligned_cols=24  Identities=17%  Similarity=0.064  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|.+.|+.|+||||+|+.+.+
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~   74 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEE   74 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH
Confidence            457899999999999999998866

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=92.74  E-value=0.052  Score=41.81  Aligned_cols=23  Identities=17%  Similarity=0.224  Sum_probs=18.3

Q ss_pred             cEEEEEEc---CCCccHHHHHHHHhc
Q 035574           15 LSVVAILD---SIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G---~gGvGKTtLa~~vy~   37 (156)
                      .++|.|++   -||+||||+|..+..
T Consensus        34 ~~~i~v~~~s~KGGvGKTT~a~nLA~   59 (298)
T 2oze_A           34 NEAIVILNNYFKGGVGKSKLSTMFAY   59 (298)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHH
T ss_pred             CcEEEEEeccCCCCchHHHHHHHHHH
Confidence            45777776   899999998887654

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=92.65  E-value=0.075  Score=39.27  Aligned_cols=51  Identities=16%  Similarity=0.167  Sum_probs=31.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHH
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVA   67 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il   67 (156)
                      .-.++-|.|.+|+|||+||.++..+. ....-...++++..  .+..++.+.+.
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~-~~~~~~~v~~~s~E--~~~~~~~~~~~   79 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKG-AEEYGEPGVFVTLE--ERARDLRREMA   79 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHH-HHHHCCCEEEEESS--SCHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-HHhcCCCceeeccc--CCHHHHHHHHH
Confidence            34688899999999999998865421 11222335555543  34556655543

>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=92.65  E-value=0.084  Score=40.32  Aligned_cols=24  Identities=17%  Similarity=0.176  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ...|.++|-+|+|||||...+...
T Consensus         5 ~~kI~lvG~~nvGKTsL~n~l~g~   28 (258)
T 3a1s_A            5 MVKVALAGCPNVGKTSLFNALTGT   28 (258)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCC
Confidence            356889999999999999998764

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=92.63  E-value=0.085  Score=42.41  Aligned_cols=25  Identities=16%  Similarity=0.109  Sum_probs=20.4

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+++-+.|.||+||||+|..+..
T Consensus        16 ~~~~i~~~~gkGGvGKTt~a~~lA~   40 (348)
T 3io3_A           16 DSLKWIFVGGKGGVGKTTTSSSVAV   40 (348)
T ss_dssp             TTCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHH
Confidence            3467888899999999998877654

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=92.62  E-value=0.11  Score=45.38  Aligned_cols=23  Identities=17%  Similarity=0.105  Sum_probs=19.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-+-++|.+|+|||++|+.+.+
T Consensus       207 ~~~vlL~G~~GtGKT~la~~la~  229 (758)
T 1r6b_X          207 KNNPLLVGESGVGKTAIAEGLAW  229 (758)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEcCCCCCHHHHHHHHHH
Confidence            34467899999999999999877

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=92.58  E-value=0.075  Score=40.48  Aligned_cols=21  Identities=24%  Similarity=0.113  Sum_probs=17.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|-+.|.||+||||+|..+..
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~   28 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAH   28 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            366789999999999887766

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=92.58  E-value=0.19  Score=39.53  Aligned_cols=26  Identities=23%  Similarity=0.130  Sum_probs=18.8

Q ss_pred             CCC-cEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQ-LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~-~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+ ..++-.-|-||+||||+|..+..
T Consensus        10 ~~gm~~i~v~sgKGGvGKTTvA~~LA~   36 (324)
T 3zq6_A           10 NKGKTTFVFIGGKGGVGKTTISAATAL   36 (324)
T ss_dssp             BTTBCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCchHHHHHHHHHH
Confidence            344 34555569999999999887755

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=92.57  E-value=0.059  Score=40.74  Aligned_cols=24  Identities=17%  Similarity=0.201  Sum_probs=19.2

Q ss_pred             CcEEEEEE-cCCCccHHHHHHHHhc
Q 035574           14 QLSVVAIL-DSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~-G~gGvGKTtLa~~vy~   37 (156)
                      ..++|+|+ +-||+||||+|..+..
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~   29 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAA   29 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHH
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHH
Confidence            46789998 6789999998877654

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=92.55  E-value=0.092  Score=38.46  Aligned_cols=22  Identities=9%  Similarity=0.057  Sum_probs=17.4

Q ss_pred             EEEEEEcC-CCccHHHHHHHHhc
Q 035574           16 SVVAILDS-IGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~-gGvGKTtLa~~vy~   37 (156)
                      ++|.|.+. ||+||||++..+..
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa~   24 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALLQ   24 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            57888875 89999998776654

>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=92.54  E-value=0.077  Score=43.42  Aligned_cols=23  Identities=17%  Similarity=0.197  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhC
Confidence            45789999999999999999875

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=92.45  E-value=0.11  Score=38.77  Aligned_cols=25  Identities=12%  Similarity=-0.061  Sum_probs=21.5

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+|.|.||.|.||+|.|..+.+
T Consensus         9 ~~~~II~itGk~~SGKd~va~~l~~   33 (202)
T 3ch4_B            9 APRLVLLFSGKRKSGKDFVTEALQS   33 (202)
T ss_dssp             CCSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCChHHHHHHHHH
Confidence            3457999999999999999988755

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=92.45  E-value=0.11  Score=40.47  Aligned_cols=23  Identities=17%  Similarity=0.127  Sum_probs=19.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..++-+.|.+|+|||++|+.+.+
T Consensus        48 ~~~~L~~G~~G~GKT~la~~la~   70 (324)
T 3u61_B           48 PHIILHSPSPGTGKTTVAKALCH   70 (324)
T ss_dssp             CSEEEECSSTTSSHHHHHHHHHH
T ss_pred             CeEEEeeCcCCCCHHHHHHHHHH
Confidence            35667778899999999999987

>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=92.45  E-value=0.081  Score=39.66  Aligned_cols=23  Identities=22%  Similarity=0.094  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -+.+.|.|..|+||||||..+..
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~   56 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQ   56 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            35678999999999999999876

>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=92.40  E-value=0.15  Score=44.01  Aligned_cols=36  Identities=19%  Similarity=0.165  Sum_probs=28.9

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574            4 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus         4 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .++.|..-.....+|+|+|.+++|||||...+....
T Consensus        27 al~~L~~i~~~~~~VaivG~pnvGKStLiN~L~g~~   62 (592)
T 1f5n_A           27 ALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKK   62 (592)
T ss_dssp             HHHHHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             HHHHHHhccCCCcEEEEECCCCCCHHHHHHhHcCCC
Confidence            445555556677899999999999999999998753

>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=92.37  E-value=0.064  Score=44.47  Aligned_cols=21  Identities=19%  Similarity=0.453  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ++|+|..|+|||||.+.++.-
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            899999999999999998763

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=92.35  E-value=0.063  Score=44.82  Aligned_cols=23  Identities=17%  Similarity=0.127  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.++.|+|..|.|||||++.+..
T Consensus       138 Ge~v~IvGpnGsGKSTLlr~L~G  160 (460)
T 2npi_A          138 GPRVVIVGGSQTGKTSLSRTLCS  160 (460)
T ss_dssp             CCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45789999999999999998866

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=92.35  E-value=0.082  Score=44.95  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.+++|+|..|.|||||.+.+..
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~G   47 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAG   47 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            457899999999999999999876

>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=92.35  E-value=0.084  Score=41.27  Aligned_cols=23  Identities=9%  Similarity=0.180  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .++.++|..|+|||||.+.+...
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             CeEEEECCCCCcHHHHHHHhccc
Confidence            57899999999999999999763

>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=92.34  E-value=0.081  Score=42.71  Aligned_cols=26  Identities=12%  Similarity=0.149  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +..++.|+|.+|+|||||...+....
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~  203 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLT  203 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCC
Confidence            45679999999999999999987743

>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=92.33  E-value=0.058  Score=42.95  Aligned_cols=22  Identities=18%  Similarity=0.261  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+.|+|..|.|||||++.+..
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g  193 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIME  193 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4789999999999999999876

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=92.33  E-value=0.081  Score=44.91  Aligned_cols=23  Identities=26%  Similarity=0.394  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+++|+|..|.|||||++.++.-
T Consensus       313 e~~~i~G~NGsGKSTLlk~l~Gl  335 (538)
T 1yqt_A          313 EVIGIVGPNGIGKTTFVKMLAGV  335 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999874

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=92.32  E-value=0.072  Score=44.39  Aligned_cols=23  Identities=13%  Similarity=0.229  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+-++|.+|+||||+|+.+..
T Consensus        50 ~~~iLl~GppGtGKT~lar~lA~   72 (444)
T 1g41_A           50 PKNILMIGPTGVGKTEIARRLAK   72 (444)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEcCCCCCHHHHHHHHHH
Confidence            34578999999999999999987

>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=92.31  E-value=0.091  Score=42.37  Aligned_cols=22  Identities=18%  Similarity=0.250  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++.|+|..|.|||||.+.+..
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4899999999999999988754

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=92.30  E-value=0.078  Score=45.11  Aligned_cols=23  Identities=26%  Similarity=0.450  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+++|+|..|.|||||++.++.-
T Consensus       295 ei~~i~G~nGsGKSTLl~~l~Gl  317 (538)
T 3ozx_A          295 EIIGILGPNGIGKTTFARILVGE  317 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999873

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=92.25  E-value=0.088  Score=46.20  Aligned_cols=20  Identities=20%  Similarity=0.273  Sum_probs=18.3

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      +-++|.+|+|||++|+.+.+
T Consensus       204 vLL~G~pGtGKT~la~~la~  223 (758)
T 3pxi_A          204 PVLIGEPGVGKTAIAEGLAQ  223 (758)
T ss_dssp             EEEESCTTTTTHHHHHHHHH
T ss_pred             eEEECCCCCCHHHHHHHHHH
Confidence            56999999999999999877

>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=92.24  E-value=0.076  Score=43.83  Aligned_cols=21  Identities=14%  Similarity=0.385  Sum_probs=19.0

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.|+|..|+|||||.+.++..
T Consensus        34 I~lvG~sGaGKSTLln~L~g~   54 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLT   54 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            599999999999999998764

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=92.22  E-value=0.15  Score=43.62  Aligned_cols=22  Identities=14%  Similarity=0.175  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+.|+|..|+||||||+.+..
T Consensus        61 ~~vll~Gp~GtGKTtlar~ia~   82 (604)
T 3k1j_A           61 RHVLLIGEPGTGKSMLGQAMAE   82 (604)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHhc
Confidence            4789999999999999999988

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.20  E-value=0.055  Score=45.40  Aligned_cols=25  Identities=16%  Similarity=0.105  Sum_probs=21.4

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+=|=++|.+|.|||.||+.+.+
T Consensus       241 ~pprGILLyGPPGTGKTlLAkAiA~  265 (467)
T 4b4t_H          241 DPPKGILLYGPPGTGKTLCARAVAN  265 (467)
T ss_dssp             CCCSEEEECSCTTSSHHHHHHHHHH
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHh
Confidence            3456677899999999999999988

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=92.19  E-value=0.086  Score=44.76  Aligned_cols=23  Identities=22%  Similarity=0.108  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        47 Ge~~~LvG~NGaGKSTLlk~l~G   69 (538)
T 1yqt_A           47 GMVVGIVGPNGTGKSTAVKILAG   69 (538)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            36899999999999999999876

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=92.14  E-value=0.095  Score=41.84  Aligned_cols=26  Identities=12%  Similarity=0.176  Sum_probs=22.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .....+.++|.+|+|||||...+...
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~  190 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTA  190 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45678999999999999999998764

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=92.10  E-value=0.17  Score=41.70  Aligned_cols=21  Identities=24%  Similarity=0.167  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-|.|.+|.|||+++..+..
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~   67 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIE   67 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            889999999999999998876

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=92.08  E-value=0.24  Score=39.49  Aligned_cols=24  Identities=17%  Similarity=0.074  Sum_probs=19.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+++-+-|-||+||||+|..+..
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~   38 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAI   38 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHH
Confidence            356777789999999999888765

>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=92.07  E-value=0.048  Score=43.24  Aligned_cols=22  Identities=9%  Similarity=0.148  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++.|+|..|+|||||.+.+..
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g  195 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISP  195 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHhcc
Confidence            5889999999999999999976

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=92.06  E-value=0.035  Score=39.79  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=4.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.|+|..|+|||||...+..+
T Consensus        21 ~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           21 CKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEC-----------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            36788999999999999987765

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=92.03  E-value=0.099  Score=39.22  Aligned_cols=23  Identities=17%  Similarity=0.006  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -..|.+.|..|+||||+++.+.+
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~   27 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYK   27 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999999988

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=92.01  E-value=0.077  Score=47.33  Aligned_cols=21  Identities=19%  Similarity=0.216  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -+-++|.+|+|||+||+.+.+
T Consensus       193 ~vlL~G~pG~GKT~la~~la~  213 (854)
T 1qvr_A          193 NPVLIGEPGVGKTAIVEGLAQ  213 (854)
T ss_dssp             CCEEEECTTSCHHHHHHHHHH
T ss_pred             ceEEEcCCCCCHHHHHHHHHH
Confidence            467899999999999999887

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.97  E-value=0.073  Score=44.29  Aligned_cols=24  Identities=21%  Similarity=0.170  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+=+=++|.+|.|||.||+.+.+
T Consensus       215 ~prGvLLyGPPGTGKTlLAkAiA~  238 (437)
T 4b4t_I          215 PPKGVILYGAPGTGKTLLAKAVAN  238 (437)
T ss_dssp             CCSEEEEESSTTTTHHHHHHHHHH
T ss_pred             CCCCCceECCCCchHHHHHHHHHH
Confidence            346678899999999999999988

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=91.93  E-value=0.069  Score=42.86  Aligned_cols=23  Identities=13%  Similarity=0.385  Sum_probs=18.9

Q ss_pred             cEEEEEE-cCCCccHHHHHHHHhc
Q 035574           15 LSVVAIL-DSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~-G~gGvGKTtLa~~vy~   37 (156)
                      +++|+|+ +-||+||||+|..+..
T Consensus         1 MkvIav~s~KGGvGKTT~a~nLA~   24 (361)
T 3pg5_A            1 MRTISFFNNKGGVGKTTLSTNVAH   24 (361)
T ss_dssp             CEEEEBCCSSCCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCcHHHHHHHHHH
Confidence            3678887 6799999999888765

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=91.86  E-value=0.16  Score=42.11  Aligned_cols=25  Identities=8%  Similarity=0.116  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-..++|+|..|.|||||.+.+...
T Consensus       156 ~Gq~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          156 RGQRMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3467899999999999999998763

>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=91.81  E-value=0.13  Score=42.07  Aligned_cols=24  Identities=17%  Similarity=0.109  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -..++|+|.+|+|||||.+.+...
T Consensus        20 g~~vgiVG~pnaGKSTL~n~Ltg~   43 (392)
T 1ni3_A           20 NLKTGIVGMPNVGKSTFFRAITKS   43 (392)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            457899999999999999999874

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=91.78  E-value=0.3  Score=36.30  Aligned_cols=20  Identities=35%  Similarity=0.321  Sum_probs=16.6

Q ss_pred             EEEEEEcCCCccHHHHHHHH
Q 035574           16 SVVAILDSIGLDKTAFTAEA   35 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~v   35 (156)
                      +.+.++|..|.||||+....
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~   96 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQF   96 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHH
Confidence            57899999999999866544

>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=91.75  E-value=0.14  Score=35.82  Aligned_cols=23  Identities=13%  Similarity=0.138  Sum_probs=19.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+..|+|..|.|||||...++-
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            35778999999999999888753

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=91.74  E-value=0.11  Score=37.68  Aligned_cols=22  Identities=14%  Similarity=-0.008  Sum_probs=17.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++-++|..|.||||++..+..
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~   25 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVE   25 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4677999999999999865543

>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=91.73  E-value=0.1  Score=45.01  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||.+.+..-
T Consensus       382 Gei~~i~G~NGsGKSTLlk~l~Gl  405 (607)
T 3bk7_A          382 GEVIGIVGPNGIGKTTFVKMLAGV  405 (607)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357899999999999999999873

>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=91.68  E-value=0.042  Score=40.01  Aligned_cols=23  Identities=13%  Similarity=0.322  Sum_probs=19.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .--|.|+|..|+|||||...+.+
T Consensus        11 ~~ki~vvG~~~~GKSsli~~l~~   33 (218)
T 4djt_A           11 TYKICLIGDGGVGKTTYINRVLD   33 (218)
T ss_dssp             EEEEEEECCTTSSHHHHHCBCTT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            34578999999999999998774

>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=91.67  E-value=0.083  Score=42.48  Aligned_cols=22  Identities=14%  Similarity=0.368  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.|+|..|+|||||...++..
T Consensus        39 ~I~vvG~~g~GKSTLln~L~~~   60 (361)
T 2qag_A           39 TLMVVGESGLGKSTLINSLFLT   60 (361)
T ss_dssp             CEEECCCTTSCHHHHHHHHTTC
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            3689999999999999998763

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=91.63  E-value=0.11  Score=44.95  Aligned_cols=23  Identities=13%  Similarity=0.234  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+++|+|..|.|||||++.+..-
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl  401 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGA  401 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCcHHHHHHHHhcC
Confidence            57899999999999999999763

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=91.63  E-value=0.12  Score=39.28  Aligned_cols=22  Identities=27%  Similarity=0.271  Sum_probs=17.4

Q ss_pred             cEEEEEE-cCCCccHHHHHHHHh
Q 035574           15 LSVVAIL-DSIGLDKTAFTAEAY   36 (156)
Q Consensus        15 ~~vi~I~-G~gGvGKTtLa~~vy   36 (156)
                      .++|.|. +-||+||||+|..+.
T Consensus        18 ~~vI~v~s~kGGvGKTT~a~nLA   40 (262)
T 2ph1_A           18 KSRIAVMSGKGGVGKSTVTALLA   40 (262)
T ss_dssp             SCEEEEECSSSCTTHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCCHHHHHHHHH
Confidence            5688887 668999999877664

>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=91.61  E-value=0.11  Score=43.69  Aligned_cols=22  Identities=18%  Similarity=0.108  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+++|+|..|.|||||.+.+..
T Consensus        30 e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhc
Confidence            7899999999999999998875

>1p6x_A Thymidine kinase; P-loop, LID, transferase; HET: THM; 2.00A {Equid herpesvirus 4} SCOP: c.37.1.1 PDB: 1p72_A* 1p73_A* 1p75_A*

Probab=91.59  E-value=0.13  Score=41.21  Aligned_cols=23  Identities=9%  Similarity=0.073  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...|+|-|.-|+||||+++.+.+
T Consensus         7 ~~fI~~EG~dGaGKTT~~~~La~   29 (334)
T 1p6x_A            7 IVRIYLDGVYGIGKSTTGRVMAS   29 (334)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999999988

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=91.48  E-value=0.12  Score=39.88  Aligned_cols=22  Identities=14%  Similarity=0.222  Sum_probs=17.8

Q ss_pred             EEEEEE-cCCCccHHHHHHHHhc
Q 035574           16 SVVAIL-DSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~-G~gGvGKTtLa~~vy~   37 (156)
                      ++|+|+ +-||+||||+|..+..
T Consensus         5 kvI~v~s~KGGvGKTT~a~nLA~   27 (286)
T 2xj4_A            5 RVIVVGNEKGGAGKSTIAVHLVT   27 (286)
T ss_dssp             EEEEECCSSSCTTHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCCHHHHHHHHHH
Confidence            578887 5689999999887754

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=91.45  E-value=0.14  Score=39.13  Aligned_cols=22  Identities=5%  Similarity=-0.068  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|+|.|+.|.||||+|+.+..
T Consensus         2 ~~i~ltG~~~sGK~tv~~~l~~   23 (241)
T 1dek_A            2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998855

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=91.45  E-value=0.14  Score=38.57  Aligned_cols=23  Identities=9%  Similarity=0.030  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|+|-|+.|.||||+|+.+..
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~   36 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAE   36 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHH
Confidence            46899999999999999998765

>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=91.44  E-value=0.18  Score=41.33  Aligned_cols=26  Identities=19%  Similarity=0.201  Sum_probs=22.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ....+.|+|.+|+|||||...+....
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~  204 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKE  204 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCc
Confidence            34578999999999999999997753

>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=90.76  E-value=0.036  Score=40.02  Aligned_cols=24  Identities=8%  Similarity=0.036  Sum_probs=19.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .--|.++|.+|+|||||...+.++
T Consensus        30 ~~ki~v~G~~~~GKSsli~~l~~~   53 (204)
T 3th5_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
Confidence            345788999999999999877653

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=91.42  E-value=0.11  Score=44.12  Aligned_cols=24  Identities=8%  Similarity=0.131  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|-+.|+.|.||||+|+.+..
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~  417 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLS  417 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHH
T ss_pred             cceEEEecccCCCCHHHHHHHHHH
Confidence            346888999999999999999988

>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=91.40  E-value=0.13  Score=39.79  Aligned_cols=27  Identities=11%  Similarity=0.171  Sum_probs=22.9

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      .....|.|+|..|+|||||...+....
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~~   48 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGRD   48 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSC
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCCC
Confidence            456789999999999999999987643

---

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	156
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-04

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

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]

 Score = 38.3 bits (88), Expect = 2e-04
 Identities = 11/87 (12%), Positives = 28/87 (32%), Gaps = 3/87 (3%)

Query: 1   MEELLDLLIEGPTQ-LSVVAILDSIGLDKTAFTAEAYNSSYM--KHYFDYLAWIPAPYHY 57
           ++ ++  L E        + +    G  K+   ++A + S       +D + W+      
Sbjct: 29  VDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTA 88

Query: 58  DPDQILDIVAVILLPFSMFKILPDNQN 84
                     ++L+  S   +L     
Sbjct: 89  PKSTFDLFTDILLMLKSEDDLLNFPSV 115

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	156
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.92
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.81
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.52
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.51
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.45
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.4
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.39
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.35
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.34
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.32
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.25
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.22
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.17
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.14
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.12
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.11
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.08
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.07
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.04
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.01
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.98
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.97
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.96
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.95
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.94
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.94
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.87
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.84
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.84
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.83
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.82
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.78
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.76
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.66
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.65
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.64
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.63
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.55
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.49
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.48
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.42
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.38
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.36
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.33
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.31
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.3
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.28
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.22
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.19
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.19
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.19
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.17
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.16
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.12
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.12
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.11
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.09
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.05
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.03
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.02
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.02
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.01
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.0
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.98
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.96
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.91
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.87
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.85
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.83
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.83
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.82
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.79
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.78
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.77
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.75
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.73
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.67
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.61
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.5
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.49
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	95.47
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.46
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.43
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.42
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.39
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.39
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.35
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.32
d1okkd2	207	GTPase domain of the signal recognition particle r	95.31
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	95.31
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.3
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.3
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.24
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.23
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.23
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.21
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.21
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.17
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.16
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.15
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.14
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.14
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.11
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.11
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.08
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.07
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.06
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.99
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.98
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.97
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.97
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	94.96
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.94
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.94
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.92
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.92
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.92
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.92
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	94.91
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.9
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.88
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.87
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.85
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	94.85
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.84
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.83
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.81
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	94.8
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.78
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.78
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.77
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.77
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	94.72
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.71
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.7
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.7
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.69
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.69
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.68
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.68
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	94.68
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.63
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	94.61
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.59
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.59
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	94.57
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.54
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.53
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.52
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.49
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	94.49
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.48
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	94.48
d1j8yf2	211	GTPase domain of the signal sequence recognition p	94.47
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	94.42
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.42
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.41
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.4
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.37
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.36
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.34
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.33
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.31
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.3
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	94.26
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.23
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	94.22
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.21
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.15
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.12
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	94.12
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.03
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	93.99
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.98
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.97
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	93.97
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.96
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	93.91
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.9
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	93.87
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	93.87
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.82
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.77
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	93.72
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	93.64
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	93.63
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	93.58
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.58
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.44
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.43
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.33
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	93.28
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	93.24
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.22
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	93.22
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.14
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	93.09
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	93.0
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	92.9
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	92.87
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.65
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.6
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	92.55
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	92.52
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	92.48
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	92.47
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	92.32
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.0
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	91.99
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	91.88
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	91.69
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	91.58
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	91.3
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	91.18
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	90.89
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	90.68
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.57
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	90.53
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.39
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	90.12
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	90.07
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	89.89
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	89.89
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	89.84
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	89.67
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	89.34
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	89.13
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	88.92
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	88.65
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	88.58
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	88.47
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	88.43
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	88.43
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	87.75
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	87.21
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	86.86
d1tuea_	205	Replication protein E1 helicase domain {Human papi	86.85
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	86.09
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	85.84
d1xpua3	289	Transcription termination factor Rho, ATPase domai	84.68
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	84.35
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	82.66
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	81.82
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	81.32

>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=99.92  E-value=4.1e-26  Score=178.69  Aligned_cols=143  Identities=12%  Similarity=0.108  Sum_probs=103.2

Q ss_pred             HHHHHHHhc-CCCCcEEEEEEcCCCccHHHHHHHHhcccc--ccccCceEEEEEcCCCCCHHHHHHHHHHHh---CCCC-
Q 035574            2 EELLDLLIE-GPTQLSVVAILDSIGLDKTAFTAEAYNSSY--MKHYFDYLAWIPAPYHYDPDQILDIVAVIL---LPFS-   74 (156)
Q Consensus         2 ~~l~~~L~~-~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~--v~~~F~~~~wv~vs~~~~~~~l~~~il~~l---~~~~-   74 (156)
                      ++++++|.+ .+.+.++|+|+||||+||||||+++|++..  ...+|++++|+++++.++...+...+...+   .... 
T Consensus        30 ~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~~~~~~~~~~  109 (277)
T d2a5yb3          30 DRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDL  109 (277)
T ss_dssp             HHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCC
T ss_pred             HHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHHHHHhcchhh
Confidence            567777765 456789999999999999999999998644  677899999999999999887766664433   1100 


Q ss_pred             ------c---------------------------------cccCCCCCCCeEEEEEcCCHHHHhhcCcCccccccccccC
Q 035574           75 ------M---------------------------------FKILPDNQNGSRVLITLTQIKMVTSFQLEDRENIRLDLVP  115 (156)
Q Consensus        75 ------~---------------------------------~~~l~~~~~gsrIivTTR~~~Va~~~~~~~~~~~~l~~~~  115 (156)
                            .                                 ..++  ...|||||||||+..||..+.... ..++++.++
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~--~~~~srilvTTR~~~v~~~~~~~~-~~~~l~~L~  186 (277)
T d2a5yb3         110 LNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWA--QELRLRCLVTTRDVEISNAASQTC-EFIEVTSLE  186 (277)
T ss_dssp             TTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHH--HHTTCEEEEEESBGGGGGGCCSCE-EEEECCCCC
T ss_pred             cCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhh--cccCceEEEEeehHHHHHhcCCCC-ceEECCCCC
Confidence                  0                                 0011  135899999999999998765321 122222222


Q ss_pred             -----------------------ChhhHhhhcCChHHHHHHHhCCCCccchhhhh
Q 035574          116 -----------------------TGGPLRATYQGWPFLILYHGSISLEENIEEVF  147 (156)
Q Consensus       116 -----------------------~~~~i~~~~~g~pl~~~~~gs~~~~~~~~~~~  147 (156)
                                             .+++|+++|+|+|||++++|+....+..++|.
T Consensus       187 ~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~  241 (277)
T d2a5yb3         187 IDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMA  241 (277)
T ss_dssp             HHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHH
T ss_pred             HHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHH
Confidence                                   24679999999999999999987555554443

>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=97.81  E-value=4.6e-05  Score=55.69  Aligned_cols=59  Identities=15%  Similarity=0.094  Sum_probs=41.7

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhccccccccCce-EEEEEcCCCCCHHHHHHHHHHHhC
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDY-LAWIPAPYHYDPDQILDIVAVILL   71 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~-~~wv~vs~~~~~~~l~~~il~~l~   71 (156)
                      .....+.+-|+|.+|+|||++|+.+++  .....+.. .+|+..........+...+.....
T Consensus        39 ~~~~~~~lll~GppGtGKT~l~~~l~~--~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (276)
T d1fnna2          39 PGHHYPRATLLGRPGTGKTVTLRKLWE--LYKDKTTARFVYINGFIYRNFTAIIGEIARSLN   98 (276)
T ss_dssp             TTSSCCEEEEECCTTSSHHHHHHHHHH--HHTTSCCCEEEEEETTTCCSHHHHHHHHHHHTT
T ss_pred             CCCCCCceEEECCCCCCHHHHHHHHHH--HHhcccCCcEEEecchhhhhhhhhhhhhHHhhh
Confidence            344567888999999999999999998  44443333 456666666666666666666553

>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=97.52  E-value=5.6e-05  Score=55.23  Aligned_cols=35  Identities=14%  Similarity=0.077  Sum_probs=28.8

Q ss_pred             CHHHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            1 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         1 r~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      |++.++.|.+..  .+.+.|+|.+|+|||+|++++.+
T Consensus        17 R~~el~~l~~~~--~~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          17 REKEIEKLKGLR--APITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             CHHHHHHHHHTC--SSEEEEEESTTSSHHHHHHHHHH
T ss_pred             hHHHHHHHHhcc--CCEEEEEcCCCCcHHHHHHHHHH
Confidence            567777776643  46788999999999999999987

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.51  E-value=2.4e-05  Score=53.87  Aligned_cols=23  Identities=22%  Similarity=0.189  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+.|.|.|..|+||||||+.+.+
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999999977

>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=97.45  E-value=2.2e-05  Score=52.96  Aligned_cols=22  Identities=9%  Similarity=0.231  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.|-+.|++|+||||+|+.+..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4688889999999999999988

>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=97.40  E-value=2.9e-05  Score=53.38  Aligned_cols=36  Identities=8%  Similarity=-0.045  Sum_probs=26.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccccc-cCceEEEE
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKH-YFDYLAWI   51 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~-~F~~~~wv   51 (156)
                      .-.+|-++|++|+||||+|+.+..  +... .++...++
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~--~L~~~~~~~~~~~   41 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQV--TLNQQGGRSVSLL   41 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH--HHHHHCSSCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH--HHhhcCCCchhhh
Confidence            346888999999999999999987  5443 34444444

>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=97.39  E-value=7.8e-05  Score=50.73  Aligned_cols=22  Identities=14%  Similarity=0.151  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|.|.|++|+||||+|+.+..
T Consensus         3 klI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999876

>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=97.35  E-value=0.00017  Score=50.31  Aligned_cols=27  Identities=15%  Similarity=0.016  Sum_probs=23.7

Q ss_pred             CCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           11 GPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        11 ~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +..+.-+|+|.|..|.||||||+.+.+
T Consensus        18 ~~~~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          18 KTAGRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            355677899999999999999999976

>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=97.34  E-value=5.1e-05  Score=51.88  Aligned_cols=23  Identities=17%  Similarity=0.205  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|+.|+|..|+|||||++++..
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            35899999999999999999976

>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=97.32  E-value=6.5e-05  Score=50.72  Aligned_cols=22  Identities=14%  Similarity=0.285  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|-|+|++|+||||||+.+..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999998865

>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=97.25  E-value=6.7e-05  Score=52.50  Aligned_cols=35  Identities=14%  Similarity=-0.075  Sum_probs=25.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEE
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWI   51 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv   51 (156)
                      -.+|-++|++|+||||+|+.+..  +....+....++
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~--~l~~~~~~~~~~   53 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEE--YLVCHGIPCYTL   53 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHH--HHHHTTCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH--HHHhcCCCccch
Confidence            46788999999999999999977  444434333343

>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=97.22  E-value=8.4e-05  Score=51.39  Aligned_cols=23  Identities=13%  Similarity=0.086  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++++|+|..|+|||||+.++..
T Consensus         1 Mkii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           1 MNVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHH
Confidence            47899999999999999999877

>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=97.17  E-value=9.4e-05  Score=50.52  Aligned_cols=21  Identities=19%  Similarity=0.265  Sum_probs=18.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.|.|++|+||||+|+.+.+
T Consensus         6 ~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            366999999999999999876

>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=97.14  E-value=9.4e-05  Score=51.19  Aligned_cols=20  Identities=10%  Similarity=0.122  Sum_probs=17.8

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.++||+|+||||+++.+++
T Consensus         4 IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            44679999999999999987

>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=97.12  E-value=0.00013  Score=49.88  Aligned_cols=23  Identities=4%  Similarity=0.014  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++|.|.|.+|+||||+|+.+.+
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999987

>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=97.11  E-value=0.00012  Score=50.32  Aligned_cols=22  Identities=23%  Similarity=0.261  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|.|.|+.|+||||+++.+..
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999876

>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=97.08  E-value=0.00016  Score=51.14  Aligned_cols=23  Identities=9%  Similarity=0.094  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|.++|.+|+||||||+++..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            35788999999999999999986

>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=97.07  E-value=0.00011  Score=50.30  Aligned_cols=23  Identities=22%  Similarity=0.224  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.|.|.|.+|+|||||++++...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHH
Confidence            45889999999999999998763

>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=97.04  E-value=0.00028  Score=48.62  Aligned_cols=23  Identities=13%  Similarity=0.212  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++|.|.|+.|+||||+++.+..
T Consensus         1 mkiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46889999999999999999976

>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=97.01  E-value=0.00029  Score=48.14  Aligned_cols=24  Identities=13%  Similarity=0.129  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-++|.|.|++|+||||+|+.+..
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999977

>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=96.98  E-value=0.00027  Score=48.25  Aligned_cols=25  Identities=16%  Similarity=0.264  Sum_probs=22.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+++.|.|.+|+||||+|+.+..
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3468889999999999999999877

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.97  E-value=0.00029  Score=49.61  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=22.4

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+|.|+|++|+||||+|+.+.+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999999987

>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=96.96  E-value=0.00016  Score=49.99  Aligned_cols=20  Identities=10%  Similarity=0.270  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.++||+|+||||+++.+..
T Consensus         3 I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67889999999999999988

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.95  E-value=0.00028  Score=48.22  Aligned_cols=23  Identities=17%  Similarity=0.065  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.|.|.|++|+||||+|+.+.+
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHH
Confidence            34578899999999999999977

>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=96.94  E-value=0.00031  Score=49.58  Aligned_cols=26  Identities=27%  Similarity=0.364  Sum_probs=23.6

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++...+|.|.|.+|+||||+|+.+++
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999999999977

>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=96.94  E-value=0.00045  Score=50.49  Aligned_cols=25  Identities=12%  Similarity=0.187  Sum_probs=22.0

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+.|-++|.+|+||||||+.+++
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~   54 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFE   54 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4456788999999999999999988

>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=96.87  E-value=0.00066  Score=49.51  Aligned_cols=54  Identities=15%  Similarity=0.121  Sum_probs=32.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhccccc---cccC-ceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSSYM---KHYF-DYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~~v---~~~F-~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      ++-++|.+|+|||++++.++++-.-   .... ....++..................+
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQT  105 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchhhHHHHHhhhc
Confidence            4556799999999999999883210   0111 2255566555555555554444443

>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=96.84  E-value=0.00019  Score=49.86  Aligned_cols=21  Identities=14%  Similarity=0.127  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|-++|++|+||||+|+.+.+
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            466889999999999999987

>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=96.84  E-value=0.0015  Score=47.40  Aligned_cols=43  Identities=9%  Similarity=0.024  Sum_probs=29.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHH
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQ   61 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~   61 (156)
                      ..+.+-++|.+|+||||+|+.++++  ..  + ...++..+...+...
T Consensus        51 ~~~~lll~GPpG~GKTt~a~~la~~--~~--~-~~~~~~~~~~~~~~~   93 (253)
T d1sxja2          51 VFRAAMLYGPPGIGKTTAAHLVAQE--LG--Y-DILEQNASDVRSKTL   93 (253)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHH--TT--C-EEEEECTTSCCCHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH--HH--h-hhhccccccchhhHH
Confidence            3467889999999999999999883  22  1 244555555555443

>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=96.83  E-value=0.00098  Score=47.83  Aligned_cols=33  Identities=18%  Similarity=0.183  Sum_probs=23.5

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            3 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         3 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.+|+..+.  ..-+=++|.+|+||||+|+.+.+
T Consensus        25 ~L~~~i~~~~--~~~lLl~Gp~G~GKttl~~~la~   57 (227)
T d1sxjc2          25 TVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALAR   57 (227)
T ss_dssp             HHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHH
T ss_pred             HHHHHHHcCC--CCeEEEECCCCCChhHHHHHHHH
Confidence            4455554443  22245899999999999999887

>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=96.82  E-value=0.00035  Score=51.75  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++.|+|+|-||+||||+|-.+..
T Consensus         1 mr~Iai~gKGGvGKTT~a~nLA~   23 (269)
T d1cp2a_           1 MRQVAIYGKGGIGKSTTTQNLTS   23 (269)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCcCCHHHHHHHHHH
Confidence            47899999999999999887755

>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=96.78  E-value=0.00042  Score=48.56  Aligned_cols=25  Identities=24%  Similarity=0.254  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +...+|-++|++|+||||+|+.+..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999999865

>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=96.76  E-value=0.0022  Score=45.91  Aligned_cols=61  Identities=13%  Similarity=0.049  Sum_probs=34.8

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccccccccC-ce-EEEEEcCCCCCHHHHHHHH
Q 035574            2 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF-DY-LAWIPAPYHYDPDQILDIV   66 (156)
Q Consensus         2 ~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F-~~-~~wv~vs~~~~~~~l~~~i   66 (156)
                      +.|.+|+.++..  .-+=++|.+|+||||+|+.+.+  .+...+ .. ..-+..+..-....+...+
T Consensus        25 ~~L~~~~~~~~~--~~~ll~Gp~G~GKTt~a~~la~--~l~~~~~~~~~~~~n~~~~~~~~~i~~~~   87 (224)
T d1sxjb2          25 DRLQQIAKDGNM--PHMIISGMPGIGKTTSVHCLAH--ELLGRSYADGVLELNASDDRGIDVVRNQI   87 (224)
T ss_dssp             HHHHHHHHSCCC--CCEEEECSTTSSHHHHHHHHHH--HHHGGGHHHHEEEECTTSCCSHHHHHTHH
T ss_pred             HHHHHHHHcCCC--CeEEEECCCCCCchhhHHHHHH--HHhccccccccccccccccCCceehhhHH
Confidence            345566655432  2255899999999999998876  332211 11 3334445555554444333

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.66  E-value=0.00059  Score=47.82  Aligned_cols=24  Identities=17%  Similarity=0.196  Sum_probs=20.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++++| |.|++|+||||+|+.+.+
T Consensus         2 ~~~rii-l~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAV-LLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEE-EECCTTSSHHHHHHHHHH
T ss_pred             CccEEE-EECCCCCCHHHHHHHHHH
Confidence            356776 789999999999999977

>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=96.65  E-value=0.00064  Score=49.32  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=19.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-+=++|.+|+||||+|+.+++
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            44455899999999999999987

>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=96.64  E-value=0.00044  Score=50.28  Aligned_cols=21  Identities=14%  Similarity=0.128  Sum_probs=18.4

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +-++|.+|+||||+|+.+++.
T Consensus        36 lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          36 LLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             EEEECSTTSSHHHHHHTHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            559999999999999988763

>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=96.63  E-value=0.00049  Score=47.27  Aligned_cols=20  Identities=20%  Similarity=0.323  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|+|..|+|||||++.+..
T Consensus         3 i~I~G~~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHh
Confidence            78999999999999999876

>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=96.55  E-value=0.0015  Score=50.51  Aligned_cols=34  Identities=18%  Similarity=0.144  Sum_probs=26.9

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            4 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         4 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++.+........+|+|.|.+|+|||||...+..
T Consensus        43 ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          43 LLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             HHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             HHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHH
Confidence            4444444556789999999999999999988765

>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=96.49  E-value=0.00055  Score=49.59  Aligned_cols=22  Identities=23%  Similarity=0.217  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-+=++|.+|+||||+|+.+.+
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHh
Confidence            3456899999999999999987

>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=96.48  E-value=0.0014  Score=50.62  Aligned_cols=34  Identities=18%  Similarity=0.182  Sum_probs=26.4

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            4 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         4 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +++.+........+|+|.|.+|+|||||..++..
T Consensus        40 ~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          40 LIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             HHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHH
Confidence            3444444556789999999999999999887764

>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=96.42  E-value=0.00086  Score=47.80  Aligned_cols=23  Identities=9%  Similarity=0.111  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-+|+|.|..|.||||+|+.+.+
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            45899999999999999998866

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.38  E-value=0.00088  Score=46.21  Aligned_cols=20  Identities=10%  Similarity=0.137  Sum_probs=18.4

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|.|++|+||||+|+.+..
T Consensus         3 I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            66999999999999999977

>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=96.36  E-value=0.0011  Score=49.64  Aligned_cols=23  Identities=22%  Similarity=0.239  Sum_probs=19.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++.|.|.|-||+||||+|.++..
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~   24 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVA   24 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHH
Confidence            57888999999999998777644

>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=96.33  E-value=0.0017  Score=46.73  Aligned_cols=33  Identities=15%  Similarity=0.180  Sum_probs=24.3

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            3 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         3 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+..|+..+.  ..-+-++|.+|+||||+|+.+.+
T Consensus        35 ~l~~~i~~~~--~~~lll~Gp~G~GKTtla~~iak   67 (231)
T d1iqpa2          35 RLKHYVKTGS--MPHLLFAGPPGVGKTTAALALAR   67 (231)
T ss_dssp             HHHHHHHHTC--CCEEEEESCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHcCC--CCeEEEECCCCCcHHHHHHHHHH
Confidence            4555554443  33466999999999999999877

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.31  E-value=0.0013  Score=45.82  Aligned_cols=22  Identities=14%  Similarity=0.252  Sum_probs=18.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++++ |.|++|+||||+|+.+.+
T Consensus         3 mrIv-l~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           3 IRMV-LIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHH
T ss_pred             eEEE-EECCCCCCHHHHHHHHHH
Confidence            4544 779999999999999977

>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=96.30  E-value=0.0011  Score=46.91  Aligned_cols=22  Identities=18%  Similarity=0.206  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .||+|-|++|+||+|+|+.+.+
T Consensus         4 piI~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999987

>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=96.28  E-value=0.0013  Score=45.96  Aligned_cols=22  Identities=27%  Similarity=0.219  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -+|.|.|.+|+||||+|+.+++
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            4789999999999999999987

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.22  E-value=0.0012  Score=45.82  Aligned_cols=20  Identities=20%  Similarity=0.200  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|.|++|+||||+|+.+++
T Consensus         3 I~i~G~pGsGKsT~a~~La~   22 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAE   22 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67889999999999999987

>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=96.19  E-value=0.0017  Score=45.36  Aligned_cols=23  Identities=22%  Similarity=0.273  Sum_probs=19.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHh
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      ..-+|+|.|..|+||||+|+.+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            35689999999999999998773

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.19  E-value=0.0013  Score=45.76  Aligned_cols=20  Identities=10%  Similarity=0.160  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|.|++|+||||+|+.+++
T Consensus         3 I~i~G~pGSGKsT~a~~La~   22 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVE   22 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            66899999999999999987

>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=96.19  E-value=0.0018  Score=46.67  Aligned_cols=25  Identities=8%  Similarity=-0.003  Sum_probs=22.0

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+|-+.|++|.||||||+.+..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999999876

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.17  E-value=0.0013  Score=46.50  Aligned_cols=21  Identities=19%  Similarity=0.230  Sum_probs=18.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -|.|.|++|+||||+|+.+..
T Consensus         8 rIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            456789999999999999987

>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=96.16  E-value=0.0023  Score=45.80  Aligned_cols=33  Identities=18%  Similarity=0.088  Sum_probs=23.5

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            3 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         3 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.+|+....  ..-+-++|.+|+||||+|+.+++
T Consensus        23 ~l~~~i~~~~--~~~lll~Gp~G~GKTtl~~~i~~   55 (237)
T d1sxjd2          23 VLKKTLKSAN--LPHMLFYGPPGTGKTSTILALTK   55 (237)
T ss_dssp             HHHHHTTCTT--CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHcCC--CCeEEEECCCCCChHHHHHHHHH
Confidence            3445554332  23366999999999999999887

>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=96.12  E-value=0.002  Score=47.44  Aligned_cols=26  Identities=15%  Similarity=0.252  Sum_probs=21.1

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+.++|.+.|-||+||||++-.+..
T Consensus        17 ~~~~~iii~sGKGGVGKTT~a~nLA~   42 (279)
T d1ihua2          17 RNEHGLIMLMGKGGVGKTTMAAAIAV   42 (279)
T ss_dssp             TTSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999997666544

>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=96.12  E-value=0.0027  Score=45.84  Aligned_cols=39  Identities=23%  Similarity=0.148  Sum_probs=28.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPA   53 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~v   53 (156)
                      .....+-|||..|+|||.|++.+++  +........++++.
T Consensus        34 ~~~n~l~l~G~~G~GKTHLl~A~~~--~~~~~~~~~~~~~~   72 (213)
T d1l8qa2          34 SLYNPIFIYGSVGTGKTHLLQAAGN--EAKKRGYRVIYSSA   72 (213)
T ss_dssp             TSCSSEEEECSSSSSHHHHHHHHHH--HHHHTTCCEEEEEH
T ss_pred             CCCCcEEEECCCCCcHHHHHHHHHH--HhccCccceEEech
Confidence            3345578999999999999999999  44444445666643

>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=96.11  E-value=0.0016  Score=45.55  Aligned_cols=25  Identities=32%  Similarity=0.256  Sum_probs=21.8

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...-+|+|-|.-|+||||+++.+..
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            4456899999999999999999876

>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=96.09  E-value=0.0027  Score=43.11  Aligned_cols=34  Identities=15%  Similarity=0.008  Sum_probs=24.9

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574            4 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus         4 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +++.+.-.....+ |.++|.+|+|||||...+..+
T Consensus         3 ~~~~~~~~~k~~k-I~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_           3 VLQFLGLYKKTGK-LVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             HHHHHTCTTCCEE-EEEEEETTSSHHHHHHHHSCC
T ss_pred             hHHhccccCCCCE-EEEECCCCCCHHHHHHHHhCC
Confidence            4555544444455 669999999999999988654

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.05  E-value=0.0015  Score=45.64  Aligned_cols=21  Identities=14%  Similarity=-0.086  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.|.|++|.||||+|+.+.+
T Consensus         5 ~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            366999999999999999877

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.03  E-value=0.0014  Score=46.09  Aligned_cols=22  Identities=14%  Similarity=0.268  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|.|+|..|+|||||++.+.+
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~   23 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999977

>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=96.02  E-value=0.0019  Score=45.38  Aligned_cols=24  Identities=8%  Similarity=0.147  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+|.|.|++|.||||+|+.+.+
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999977

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.02  E-value=0.0012  Score=46.60  Aligned_cols=21  Identities=14%  Similarity=0.287  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.|+|..|+|||||++.+..
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999876

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.01  E-value=0.057  Score=40.15  Aligned_cols=84  Identities=15%  Similarity=0.096  Sum_probs=50.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc---cccccc-CceEEEE-Ec-------CCCCCHHHHHHHHHHHhCCCCc---------
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS---SYMKHY-FDYLAWI-PA-------PYHYDPDQILDIVAVILLPFSM---------   75 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~---~~v~~~-F~~~~wv-~v-------s~~~~~~~l~~~il~~l~~~~~---------   75 (156)
                      -+-++|.+|+|||+|+..+...   ..+... .+..+|. .+       +..-..++-++.++..+.....         
T Consensus        41 n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih  120 (268)
T d1r6bx2          41 NPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIH  120 (268)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTT
T ss_pred             CcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHHHHHHHHHHhhccCCceEEecchH
Confidence            3459999999999988877652   122222 2334554 22       2234567777888887743221         


Q ss_pred             -------------------cccCCCCCCCeEEEEEcCCHHHHhhcC
Q 035574           76 -------------------FKILPDNQNGSRVLITLTQIKMVTSFQ  102 (156)
Q Consensus        76 -------------------~~~l~~~~~gsrIivTTR~~~Va~~~~  102 (156)
                                         +.++..  ..-++|.+|..+...+.+.
T Consensus       121 ~l~~~g~~~g~~~d~a~~Lkp~L~r--g~i~vIgatT~eey~~~~e  164 (268)
T d1r6bx2         121 TIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGSTTYQEFSNIFE  164 (268)
T ss_dssp             TTTTSCCSSSCHHHHHHHHSSCSSS--CCCEEEEEECHHHHHCCCC
T ss_pred             HHhcCCCCCCccccHHHHhhHHHhC--CCCeEEEeCCHHHHHHHHh
Confidence                               223332  2458999999988887654

>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=96.00  E-value=0.0038  Score=44.80  Aligned_cols=42  Identities=10%  Similarity=-0.062  Sum_probs=32.6

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCC
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPY   55 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~   55 (156)
                      -..-.++-|.|.+|+|||+|+.++..  ....+....+|++...
T Consensus        23 i~~gsl~li~G~pGsGKT~l~~qia~--~~~~~~~~~~~is~e~   64 (242)
T d1tf7a2          23 FFKDSIILATGATGTGKTLLVSRFVE--NACANKERAILFAYEE   64 (242)
T ss_dssp             EESSCEEEEEECTTSSHHHHHHHHHH--HHHTTTCCEEEEESSS
T ss_pred             CcCCeEEEEEeCCCCCHHHHHHHHHH--HHHHhccccceeeccC
Confidence            34567889999999999999999887  3445566678887644

>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=95.98  E-value=0.0023  Score=45.67  Aligned_cols=37  Identities=16%  Similarity=0.121  Sum_probs=25.8

Q ss_pred             cEEEEEE-cCCCccHHHHHHHHhccccccccCceEEEEEc
Q 035574           15 LSVVAIL-DSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPA   53 (156)
Q Consensus        15 ~~vi~I~-G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~v   53 (156)
                      ++||+|+ |-||+||||+|..+..  ...+.=..++.|..
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~--~la~~g~~VlliD~   38 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGV--ALAQLGHDVTIVDA   38 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHH--HHHHTTCCEEEEEC
T ss_pred             CEEEEEECCCCCChHHHHHHHHHH--HHHhCCCCEEEEeC
Confidence            4799998 8899999999988766  33332233556644

>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=95.96  E-value=0.002  Score=45.74  Aligned_cols=21  Identities=14%  Similarity=0.047  Sum_probs=19.3

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +|+|-|.+|+||||+|+.+..
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999977

>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=95.91  E-value=0.0045  Score=45.59  Aligned_cols=23  Identities=13%  Similarity=0.086  Sum_probs=19.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++|-+.|-||+||||+|..+..
T Consensus         8 p~~i~~sGKGGVGKTTvaa~lA~   30 (296)
T d1ihua1           8 PPYLFFTGKGGVGKTSISCATAI   30 (296)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCcChHHHHHHHHHH
Confidence            67888899999999997776654

>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=95.87  E-value=0.0023  Score=45.76  Aligned_cols=21  Identities=29%  Similarity=0.377  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ||.|.|..|.|||||...+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~   22 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGR   22 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            789999999999999998865

>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=95.85  E-value=0.0025  Score=42.67  Aligned_cols=22  Identities=23%  Similarity=0.143  Sum_probs=19.6

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.|+|.+|+|||||...+.++.
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6799999999999999987754

>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=95.83  E-value=0.0028  Score=45.61  Aligned_cols=24  Identities=17%  Similarity=0.180  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.+.|+|-|+-|+||||+++.+.+
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            357899999999999999999977

>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=95.83  E-value=0.011  Score=41.76  Aligned_cols=55  Identities=11%  Similarity=0.131  Sum_probs=36.7

Q ss_pred             HHhcC-CCCcEEEEEEcCCCccHHHHHHHHhccccccccC----ceEEEEEcCCCCCHHH
Q 035574            7 LLIEG-PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYF----DYLAWIPAPYHYDPDQ   61 (156)
Q Consensus         7 ~L~~~-~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F----~~~~wv~vs~~~~~~~   61 (156)
                      .++.+ -..-+++-|.|.+|+|||||+.++..+......+    ...+|+.....++...
T Consensus        25 ~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   84 (251)
T d1szpa2          25 TLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVR   84 (251)
T ss_dssp             HHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGG
T ss_pred             hhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHH
Confidence            34443 3456789999999999999999886643322222    3577887776666443

>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=95.82  E-value=0.0023  Score=44.14  Aligned_cols=20  Identities=10%  Similarity=-0.001  Sum_probs=18.2

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.|.|++|.||||+|+.+.+
T Consensus         3 I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999977

>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=95.79  E-value=0.0025  Score=44.67  Aligned_cols=22  Identities=9%  Similarity=0.264  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.|.|+|..|+|||||++.+..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999999886

>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=95.78  E-value=0.0043  Score=42.36  Aligned_cols=33  Identities=18%  Similarity=0.132  Sum_probs=23.6

Q ss_pred             HHHhcCCCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574            6 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus         6 ~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+......---|.++|.+|+|||||...+..+
T Consensus         7 ~k~~~~~~~~~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_           7 RKLKSAPDQEVRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             HHCSSCCSSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             HHhhCCCCCEEEEEEECCCCCCHHHHHHHHhcC
Confidence            333333333345779999999999999998664

>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=95.77  E-value=0.0027  Score=44.12  Aligned_cols=22  Identities=14%  Similarity=0.126  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ++|.|+|..|+|||||++.+.+
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~   24 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRE   24 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5788999999999999999876

>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=95.75  E-value=0.0025  Score=42.39  Aligned_cols=22  Identities=9%  Similarity=-0.011  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|.+|+|||||...+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5699999999999999987654

>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=95.73  E-value=0.0028  Score=43.75  Aligned_cols=32  Identities=25%  Similarity=0.185  Sum_probs=23.0

Q ss_pred             HHHhcCCCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574            6 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus         6 ~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.|.......++ .++|.+|+|||||...+..+
T Consensus         9 ~~l~~~~k~~KI-~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_           9 DKLWGSNKELRI-LILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             GGGTTCSSCEEE-EEEEETTSSHHHHHHHTCCS
T ss_pred             HHHhCCCceEEE-EEECCCCCCHHHHHHHHhcC
Confidence            333334455554 59999999999999987553

>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=95.67  E-value=0.0021  Score=46.05  Aligned_cols=23  Identities=17%  Similarity=0.258  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+.|+|-|+-|+||||+++.+.+
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999999877

>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=95.61  E-value=0.0043  Score=43.28  Aligned_cols=27  Identities=19%  Similarity=0.263  Sum_probs=22.8

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..++..|.|+|.+|+|||||...+.+.
T Consensus        20 ~~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          20 EGGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            345667999999999999999999763

>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=95.50  E-value=0.0043  Score=45.72  Aligned_cols=24  Identities=25%  Similarity=0.151  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+-|=++|.+|+|||++|+.+++
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhh
Confidence            456677899999999999999988

>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=95.49  E-value=0.003  Score=47.98  Aligned_cols=23  Identities=13%  Similarity=0.229  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+-++|.+|+|||.||+.+.+
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHhh
Confidence            35566899999999999999987

>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=95.47  E-value=0.0055  Score=41.75  Aligned_cols=26  Identities=12%  Similarity=0.207  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+..|.|+|.+++|||||...+.+.
T Consensus         3 ~~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           3 SYCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccccEEEEECCCCCCHHHHHHHHhCC
Confidence            34567899999999999999999863

>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=95.46  E-value=0.022  Score=41.06  Aligned_cols=56  Identities=11%  Similarity=0.022  Sum_probs=33.8

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCH--HHHHHHHHHHh
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDP--DQILDIVAVIL   70 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~--~~l~~~il~~l   70 (156)
                      .....||.++|..|+||||-+.++..  +.+ .....+.+.-...+..  .+-++...+.+
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~--~~~-~~g~kV~lit~Dt~R~gA~eQL~~~a~~l   63 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLAR--QFE-QQGKSVMLAAGDTFRAAAVEQLQVWGQRN   63 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHH--HHH-TTTCCEEEECCCTTCHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH--HHH-HCCCcEEEEecccccccchhhhhhhhhhc
Confidence            34578999999999999996666655  232 1223444544455554  33344444444

>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=95.43  E-value=0.033  Score=39.52  Aligned_cols=51  Identities=14%  Similarity=0.277  Sum_probs=35.4

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhcccccc----ccCceEEEEEcCCCCCHHHHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMK----HYFDYLAWIPAPYHYDPDQIL   63 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~----~~F~~~~wv~vs~~~~~~~l~   63 (156)
                      ..-+++-|.|.+|+||||++.++..+-...    ......+|+......+...+.
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIR   88 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHH
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHHH
Confidence            456799999999999999999886532211    123457888777777765443

>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=95.42  E-value=0.0052  Score=41.65  Aligned_cols=21  Identities=5%  Similarity=0.177  Sum_probs=18.1

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||+..+.++
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999887654

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.39  E-value=0.0052  Score=43.68  Aligned_cols=22  Identities=27%  Similarity=0.318  Sum_probs=19.2

Q ss_pred             EEEEEE-cCCCccHHHHHHHHhc
Q 035574           16 SVVAIL-DSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~-G~gGvGKTtLa~~vy~   37 (156)
                      ++|+|+ +-||+||||+|..+..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~   25 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSV   25 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHH
Confidence            689999 6699999999988866

>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=95.39  E-value=0.0046  Score=43.34  Aligned_cols=21  Identities=19%  Similarity=0.215  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|+|-|.-|+||||+++.+.+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999876

>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=95.35  E-value=0.0056  Score=41.33  Aligned_cols=21  Identities=14%  Similarity=0.248  Sum_probs=18.7

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||+..+.++
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=95.32  E-value=0.0062  Score=46.57  Aligned_cols=26  Identities=12%  Similarity=0.123  Sum_probs=22.7

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....-+|+|.|..|+||||+|+.+..
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            35568999999999999999998865

>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=95.31  E-value=0.022  Score=40.93  Aligned_cols=57  Identities=14%  Similarity=0.022  Sum_probs=34.4

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcC-CCCCHHHHHHHHHHHhC
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAP-YHYDPDQILDIVAVILL   71 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs-~~~~~~~l~~~il~~l~   71 (156)
                      ...+++.++|..|+||||.+.++....+ +.. ..+..++.. ......+-++...+.+.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~-~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~   61 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ-NLG-KKVMFCAGDTFRAAGGTQLSEWGKRLS   61 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH-TTT-CCEEEECCCCSSTTHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC-CcEEEEEeccccccchhhHhhcccccC
Confidence            3467999999999999997666655222 122 236666543 23444455555555553

>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=95.31  E-value=0.0096  Score=42.61  Aligned_cols=21  Identities=19%  Similarity=0.216  Sum_probs=17.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -+-++|.+|+|||+++..+..
T Consensus        45 n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEecCCcccHHHHHHHHH
Confidence            356999999999998777665

>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=95.30  E-value=0.045  Score=38.63  Aligned_cols=50  Identities=10%  Similarity=0.127  Sum_probs=35.6

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhcccc----ccccCceEEEEEcCCCCCHHH
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSY----MKHYFDYLAWIPAPYHYDPDQ   61 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~----v~~~F~~~~wv~vs~~~~~~~   61 (156)
                      -..-+++-|+|.+|.|||++|.++..+..    ....+....|+.....++...
T Consensus        34 ip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (258)
T d1v5wa_          34 IESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDR   87 (258)
T ss_dssp             BCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHH
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHH
Confidence            35568999999999999999998865321    123455678887776666543

>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=95.30  E-value=0.0088  Score=43.08  Aligned_cols=25  Identities=16%  Similarity=0.053  Sum_probs=20.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+.+|+-++|..|+||||.+.++..
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~   32 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLAL   32 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999996666554

>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=95.24  E-value=0.0068  Score=41.22  Aligned_cols=21  Identities=19%  Similarity=0.333  Sum_probs=18.2

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||...+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568999999999999887664

>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=95.23  E-value=0.0043  Score=44.43  Aligned_cols=23  Identities=22%  Similarity=0.199  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.++.
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~g   49 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTIST   49 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            35789999999999999999976

>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=95.23  E-value=0.0065  Score=41.02  Aligned_cols=21  Identities=14%  Similarity=0.215  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||+|+..+.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988654

>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=95.21  E-value=0.0065  Score=41.26  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|-+|+|||||...+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5689999999999999987643

>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=95.21  E-value=0.0057  Score=43.52  Aligned_cols=19  Identities=26%  Similarity=0.403  Sum_probs=17.7

Q ss_pred             EEEEEcCCCccHHHHHHHH
Q 035574           17 VVAILDSIGLDKTAFTAEA   35 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~v   35 (156)
                      +|+|.|+.|.||||.++.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999866

>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=95.17  E-value=0.024  Score=39.78  Aligned_cols=57  Identities=14%  Similarity=0.097  Sum_probs=35.9

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccc--------------cCceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKH--------------YFDYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~--------------~F~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      ..-.++-|.|.+|+|||+++.++..+.....              ......|++.....+... ...+...+
T Consensus        32 ~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~~-~~~~~~~~  102 (258)
T d2i1qa2          32 ESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPER-IMQMAEHA  102 (258)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHH-HHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHHH-HHHHHhhc
Confidence            3457899999999999999999875432221              112366787766655443 33444443

>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=95.16  E-value=0.0066  Score=41.33  Aligned_cols=21  Identities=14%  Similarity=0.194  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .|.|+|..|+|||||...+..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999875

>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=95.15  E-value=0.0056  Score=43.82  Aligned_cols=22  Identities=5%  Similarity=0.043  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..|+|.|+-|+||||+++.+.+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999999988

>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=95.14  E-value=0.0072  Score=40.98  Aligned_cols=22  Identities=14%  Similarity=0.280  Sum_probs=18.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|-+|+|||+|+..+.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999887653

>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=95.14  E-value=0.0066  Score=41.54  Aligned_cols=22  Identities=14%  Similarity=0.247  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|.+|+|||||+..+.++
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3678999999999999987664

>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=95.11  E-value=0.0083  Score=41.15  Aligned_cols=25  Identities=16%  Similarity=0.175  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ....|.++|..|+|||||...+.+.
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3457999999999999999998864

>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=95.11  E-value=0.013  Score=42.31  Aligned_cols=33  Identities=18%  Similarity=0.088  Sum_probs=22.5

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            4 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         4 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.+++..+. -...+=++|..|+||||+|+.+.+
T Consensus        24 L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          24 LANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             HHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHH
Confidence            344443332 234456899999999999998754

>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=95.08  E-value=0.0075  Score=41.10  Aligned_cols=22  Identities=14%  Similarity=0.315  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4778999999999999988764

>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=95.07  E-value=0.0065  Score=40.99  Aligned_cols=21  Identities=14%  Similarity=0.071  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||...+.++
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            569999999999999998664

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=95.06  E-value=0.0097  Score=43.09  Aligned_cols=57  Identities=14%  Similarity=0.032  Sum_probs=33.2

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCC-CCCHHHHHHHHHHHh
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPY-HYDPDQILDIVAVIL   70 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~-~~~~~~l~~~il~~l   70 (156)
                      .....||.++|..|+||||-+.++...  ...+=..+..++... .....+-++...+.+
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~--~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l   65 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKM--FVDEGKSVVLAAADTFRAAAIEQLKIWGERV   65 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHH--HHHTTCCEEEEEECTTCHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH--HHHCCCceEEEeecccccchhHHHHHHhhhc
Confidence            456789999999999999965555542  222213355555422 222333445555544

>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=94.99  E-value=0.0073  Score=44.58  Aligned_cols=23  Identities=17%  Similarity=0.075  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.++.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~g   51 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAG   51 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45889999999999999999876

>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=94.98  E-value=0.0072  Score=41.17  Aligned_cols=22  Identities=18%  Similarity=0.265  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999987654

>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=94.97  E-value=0.0069  Score=44.73  Aligned_cols=23  Identities=9%  Similarity=0.117  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.++.
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHcC
Confidence            46889999999999999999876

>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=94.97  E-value=0.0084  Score=40.81  Aligned_cols=21  Identities=33%  Similarity=0.425  Sum_probs=18.4

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||...+.++
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            679999999999999987653

>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=94.96  E-value=0.0068  Score=44.97  Aligned_cols=23  Identities=17%  Similarity=0.170  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -..++|+|..|.|||||++.+..
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45899999999999999999854

>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=94.94  E-value=0.0077  Score=44.38  Aligned_cols=24  Identities=17%  Similarity=0.102  Sum_probs=20.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-..++|+|..|.|||||++.+..
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999854

>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=94.94  E-value=0.0073  Score=44.30  Aligned_cols=23  Identities=17%  Similarity=0.096  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCcchhhHhccC
Confidence            46889999999999999998866

>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=94.92  E-value=0.0071  Score=45.03  Aligned_cols=23  Identities=26%  Similarity=0.258  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            46899999999999999999976

>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=94.92  E-value=0.016  Score=43.77  Aligned_cols=26  Identities=15%  Similarity=0.115  Sum_probs=22.2

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....-+|+|-|..|+|||||+..+..
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~~   49 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIYN   49 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHHH
Confidence            34567999999999999999998765

>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=94.92  E-value=0.0083  Score=40.61  Aligned_cols=21  Identities=10%  Similarity=0.306  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||...+.++
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=94.92  E-value=0.009  Score=40.68  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|-+|+|||+|...+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5789999999999999887643

>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=94.91  E-value=0.0074  Score=44.50  Aligned_cols=23  Identities=22%  Similarity=0.229  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -..++|+|..|.|||||++.+..
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35789999999999999999866

>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=94.90  E-value=0.0091  Score=40.42  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|-+|+|||+|...+.++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999988764

>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=94.88  E-value=0.0093  Score=40.44  Aligned_cols=22  Identities=18%  Similarity=0.175  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|-+|+|||+|+..+.++
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999987654

>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=94.87  E-value=0.0093  Score=40.60  Aligned_cols=22  Identities=23%  Similarity=0.330  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|.+|+|||+|...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3788999999999999987664

>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=94.85  E-value=0.0095  Score=40.50  Aligned_cols=22  Identities=9%  Similarity=0.194  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|..|+|||||+..+.++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999987654

>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=94.85  E-value=0.0078  Score=44.59  Aligned_cols=23  Identities=26%  Similarity=0.219  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -..++|+|..|.|||||++.+..
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            46889999999999999999865

>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=94.84  E-value=0.0098  Score=40.32  Aligned_cols=22  Identities=27%  Similarity=0.374  Sum_probs=18.7

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|-.|+|||+|...+.++.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6789999999999999876543

>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=94.83  E-value=0.0086  Score=40.77  Aligned_cols=21  Identities=24%  Similarity=0.249  Sum_probs=18.3

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|..|+|||+|+..+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999987653

>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=94.81  E-value=0.0097  Score=40.55  Aligned_cols=22  Identities=9%  Similarity=0.206  Sum_probs=18.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|.+|+|||||+..+..+
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987643

>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=94.80  E-value=0.0058  Score=41.98  Aligned_cols=20  Identities=15%  Similarity=0.169  Sum_probs=18.5

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |+|+|.+++|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999865

>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=94.78  E-value=0.0091  Score=41.17  Aligned_cols=22  Identities=23%  Similarity=0.283  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.|+|-+|+|||||+..+.++
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3678999999999999988764

>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=94.78  E-value=0.0089  Score=43.87  Aligned_cols=23  Identities=13%  Similarity=0.102  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            46899999999999999999865

>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=94.77  E-value=0.011  Score=45.94  Aligned_cols=28  Identities=14%  Similarity=0.026  Sum_probs=24.1

Q ss_pred             cCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           10 EGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        10 ~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+.+..+.+-++|.+|+|||++|+.+.+
T Consensus       149 ~~~~~~~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         149 YNIPKKRYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             hCCCCcCeEEEECCCCCCHHHHHHHHHH
Confidence            3555667899999999999999999987

>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=94.77  E-value=0.0087  Score=45.05  Aligned_cols=23  Identities=26%  Similarity=0.208  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||++.+..
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~G   84 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILG   84 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhC
Confidence            46789999999999999999976

>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=94.72  E-value=0.0093  Score=43.97  Aligned_cols=23  Identities=17%  Similarity=0.091  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            46889999999999999999865

>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=94.71  E-value=0.011  Score=40.02  Aligned_cols=21  Identities=19%  Similarity=0.385  Sum_probs=18.7

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|-+|+|||||...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            688999999999999988764

>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=94.70  E-value=0.011  Score=40.46  Aligned_cols=23  Identities=22%  Similarity=0.317  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      --|.++|-+|+|||+|...+.++
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34679999999999999987664

>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=94.70  E-value=0.03  Score=39.89  Aligned_cols=27  Identities=15%  Similarity=0.019  Sum_probs=22.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKH   43 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~   43 (156)
                      -..|+|-|+-|+||||+++.+.+  +.+.
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~--~L~~   29 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYK--KLQP   29 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH--HTTT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHH--HHHh
Confidence            35789999999999999999987  4443

>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=94.69  E-value=0.0097  Score=39.15  Aligned_cols=22  Identities=18%  Similarity=0.042  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999988764

>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=94.69  E-value=0.011  Score=41.30  Aligned_cols=23  Identities=9%  Similarity=0.252  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.|+|.+|+|||||...+.++.
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            36799999999999999887643

>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=94.68  E-value=0.024  Score=39.79  Aligned_cols=22  Identities=18%  Similarity=0.089  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +-|+|-|.-|+||||+++.+.+
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999877

>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=94.68  E-value=0.01  Score=40.21  Aligned_cols=24  Identities=17%  Similarity=0.028  Sum_probs=19.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      ..+ |.++|.+|+|||||...+..+
T Consensus        15 ~~k-I~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          15 EHK-VIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             CEE-EEEEESTTSSHHHHHHHHHTT
T ss_pred             eEE-EEEECCCCCCHHHHHHHHhcC
Confidence            345 569999999999999988664

>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=94.68  E-value=0.0091  Score=40.77  Aligned_cols=22  Identities=5%  Similarity=0.075  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999863

>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=94.63  E-value=0.015  Score=39.32  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-|.|+|-.|+|||||...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45788999999999999987654

>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=94.61  E-value=0.019  Score=42.16  Aligned_cols=23  Identities=17%  Similarity=0.189  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+=++|.+|.|||+||+.+.+
T Consensus        42 ~~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          42 PKGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEecCCCCChhHHHHHHHH
Confidence            45578999999999999999987

>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=94.59  E-value=0.012  Score=39.88  Aligned_cols=21  Identities=10%  Similarity=0.240  Sum_probs=18.0

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|..|+|||+|...+.++
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999987654

>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=94.59  E-value=0.0098  Score=42.51  Aligned_cols=22  Identities=9%  Similarity=0.196  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .++.|+|..|+|||||.+.+..
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~   24 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLK   24 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4678999999999999999876

>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=94.57  E-value=0.017  Score=42.75  Aligned_cols=23  Identities=17%  Similarity=0.124  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+-+-++|.+|+|||+||+.+.+
T Consensus        45 ~~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          45 PKGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEeeCCCCCCccHHHHHHHH
Confidence            45567999999999999999987

>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=94.54  E-value=0.014  Score=39.61  Aligned_cols=22  Identities=18%  Similarity=0.282  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.|+|-+|+|||+|+..+.++
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987554

>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=94.53  E-value=0.011  Score=41.82  Aligned_cols=20  Identities=25%  Similarity=0.305  Sum_probs=18.2

Q ss_pred             EEEEEEcCCCccHHHHHHHH
Q 035574           16 SVVAILDSIGLDKTAFTAEA   35 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~v   35 (156)
                      -+|+|.|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999876

>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=94.52  E-value=0.012  Score=40.25  Aligned_cols=22  Identities=14%  Similarity=0.279  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|..|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987654

>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=94.49  E-value=0.06  Score=36.40  Aligned_cols=57  Identities=14%  Similarity=0.181  Sum_probs=34.6

Q ss_pred             HHHhcCC-CCcEEEEEEcCCCccHHHHHHHHhccccccc----cCceEEEEEcCCCCCHHHH
Q 035574            6 DLLIEGP-TQLSVVAILDSIGLDKTAFTAEAYNSSYMKH----YFDYLAWIPAPYHYDPDQI   62 (156)
Q Consensus         6 ~~L~~~~-~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~----~F~~~~wv~vs~~~~~~~l   62 (156)
                      +.++.+. ..-+++-|.|.+|+|||+||.++..+.....    .+....++..........+
T Consensus        13 D~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   74 (242)
T d1n0wa_          13 DKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL   74 (242)
T ss_dssp             HHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             HHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHH
Confidence            3444432 4457899999999999999998865322221    1223455555555554443

>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=94.49  E-value=0.013  Score=40.56  Aligned_cols=23  Identities=13%  Similarity=0.135  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.|+|-.|+|||+|...+.++.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            36789999999999999876643

>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=94.48  E-value=0.017  Score=39.64  Aligned_cols=22  Identities=9%  Similarity=0.084  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.|+|-+|+|||+|...+.++
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4688999999999999887664

>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=94.48  E-value=0.013  Score=39.80  Aligned_cols=23  Identities=26%  Similarity=0.291  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-|.++|-+|+|||||...+.++
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45779999999999999987654

>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=94.47  E-value=0.013  Score=42.27  Aligned_cols=58  Identities=12%  Similarity=0.009  Sum_probs=29.1

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCC-CCCHHHHHHHHHHHhC
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPY-HYDPDQILDIVAVILL   71 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~   71 (156)
                      +....||.++|..|+||||.+.++....+ +... -+..|+... .....+-++...+.+.
T Consensus         9 ~k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~-kV~lit~Dt~R~ga~eQL~~~a~~l~   67 (211)
T d1j8yf2           9 DKIPYVIMLVGVQGTGKATTAGKLAYFYK-KKGF-KVGLVGADVYRPAALEQLQQLGQQIG   67 (211)
T ss_dssp             SSSSEEEEEECSCCC----HHHHHHHHHH-HTTC-CEEEEECCCSSHHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCC-ceEEEEeeccccchhHHHHHhccccC
Confidence            45679999999999999996555544222 2222 255555422 2222333444455443

>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=94.42  E-value=0.011  Score=43.35  Aligned_cols=24  Identities=13%  Similarity=0.104  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-.+++|+|..|.|||||.+.+..
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G   50 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIIST   50 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999999876

>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=94.42  E-value=0.012  Score=43.36  Aligned_cols=22  Identities=18%  Similarity=0.256  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+++|+|..|.|||||.+.+..
T Consensus        25 e~~~liGpnGaGKSTll~~i~G   46 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCChHHHHHHHHHc
Confidence            4778999999999999999876

>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=94.41  E-value=0.013  Score=40.72  Aligned_cols=22  Identities=14%  Similarity=0.068  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .|.|+|.+|+|||||...+.++
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6799999999999999998764

>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=94.40  E-value=0.026  Score=41.42  Aligned_cols=36  Identities=14%  Similarity=0.170  Sum_probs=26.5

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574            4 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus         4 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +.+.+.+.....--|.++|..|+|||||...++...
T Consensus        21 ~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          21 LLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            444454444444557799999999999999998753

>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=94.37  E-value=0.013  Score=41.11  Aligned_cols=23  Identities=13%  Similarity=0.066  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +-|.|+|.+|+|||||...+..+
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            35889999999999999988764

>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=94.36  E-value=0.063  Score=38.96  Aligned_cols=53  Identities=8%  Similarity=-0.013  Sum_probs=34.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHHh
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVIL   70 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l   70 (156)
                      -.++.|.|.+|+|||+++.++..+.-....+. +++++.  +.+..++...++...
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~-v~~~s~--E~~~~~~~~r~~~~~   87 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQWGTAMGKK-VGLAML--EESVEETAEDLIGLH   87 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHTSCCC-EEEEES--SSCHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhhhhhcccc-eeEeee--ccchhhHHhHHHHHh
Confidence            35788899999999999988865322233333 444443  355666666666544

>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=94.34  E-value=0.016  Score=39.61  Aligned_cols=21  Identities=10%  Similarity=0.026  Sum_probs=17.9

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|-+|+|||+|...+..+
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            578999999999999987543

>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=94.33  E-value=0.016  Score=39.57  Aligned_cols=21  Identities=14%  Similarity=0.317  Sum_probs=18.3

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||...+.++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999987653

>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=94.31  E-value=0.012  Score=43.14  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35889999999999999999876

>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=94.30  E-value=0.012  Score=43.18  Aligned_cols=23  Identities=26%  Similarity=0.192  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45899999999999999999876

>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=94.26  E-value=0.013  Score=43.39  Aligned_cols=24  Identities=17%  Similarity=0.097  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -.+++|+|..|.|||||++.+..-
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCC
Confidence            358899999999999999999773

>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=94.23  E-value=0.02  Score=39.08  Aligned_cols=22  Identities=14%  Similarity=0.070  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.|+|-.|+|||+|...+.++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678999999999999887664

>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=94.22  E-value=0.0086  Score=41.20  Aligned_cols=21  Identities=10%  Similarity=0.112  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -|+|+|.+++|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999855

>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=94.21  E-value=0.015  Score=41.62  Aligned_cols=23  Identities=4%  Similarity=-0.025  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +.+|+|.|..|.||||+|+.+.+
T Consensus         1 M~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           1 MKLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999865

>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=94.15  E-value=0.017  Score=39.29  Aligned_cols=23  Identities=17%  Similarity=0.349  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      -|.++|-.|+|||||...+.++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            35688999999999999887643

>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=94.12  E-value=0.02  Score=38.59  Aligned_cols=21  Identities=14%  Similarity=0.105  Sum_probs=18.0

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+|+|||||...+..+
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            568999999999999987654

>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=94.12  E-value=0.017  Score=39.62  Aligned_cols=21  Identities=33%  Similarity=0.447  Sum_probs=18.4

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|..|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            569999999999999987754

>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=94.03  E-value=0.015  Score=40.09  Aligned_cols=19  Identities=16%  Similarity=0.221  Sum_probs=16.8

Q ss_pred             EEEEEcCCCccHHHHHHHH
Q 035574           17 VVAILDSIGLDKTAFTAEA   35 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~v   35 (156)
                      -|-++|.+|+|||||...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3578999999999999987

>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=93.99  E-value=0.017  Score=38.52  Aligned_cols=20  Identities=15%  Similarity=0.104  Sum_probs=17.9

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |.++|.+++|||||...+..
T Consensus         4 I~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            57999999999999998864

>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=93.98  E-value=0.018  Score=39.19  Aligned_cols=22  Identities=18%  Similarity=0.270  Sum_probs=18.4

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|-+|+|||||+..+.++
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4779999999999999776553

>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=93.97  E-value=0.019  Score=39.46  Aligned_cols=21  Identities=14%  Similarity=0.120  Sum_probs=18.2

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|..|+|||+|+..+.++
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999987664

>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=93.97  E-value=0.012  Score=39.82  Aligned_cols=25  Identities=16%  Similarity=-0.032  Sum_probs=21.4

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+...|+++|.+++|||||...+..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            4456799999999999999998755

>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=93.96  E-value=0.017  Score=39.44  Aligned_cols=21  Identities=14%  Similarity=0.237  Sum_probs=18.3

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -|.++|-+|+|||+|+..+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            467999999999999998754

>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=93.91  E-value=0.02  Score=39.65  Aligned_cols=22  Identities=9%  Similarity=0.111  Sum_probs=18.2

Q ss_pred             EEEEcCCCccHHHHHHHHhccc
Q 035574           18 VAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      |.++|-.|+|||+|...+.++.
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5688999999999998876543

>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=93.90  E-value=0.012  Score=40.14  Aligned_cols=34  Identities=12%  Similarity=0.120  Sum_probs=24.0

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574            4 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus         4 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +.+.+.. ...++ |.++|.+|+|||||...+.++.
T Consensus         3 ~~~~~~~-~k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_           3 VLSKIFG-NKEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             HHHHHHT-TCCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             hhhhhhC-CCeEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            3444442 33466 5589999999999999987644

>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=93.87  E-value=0.019  Score=43.60  Aligned_cols=25  Identities=16%  Similarity=0.215  Sum_probs=21.5

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....++-.+|..|+|||.||+.+..
T Consensus        50 ~p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          50 KPVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             SCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCcchhHHHHHHHHh
Confidence            3456788999999999999999876

>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=93.87  E-value=0.01  Score=40.57  Aligned_cols=21  Identities=19%  Similarity=0.341  Sum_probs=17.1

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|..|+|||+|...+.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999987554

>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=93.82  E-value=0.018  Score=39.31  Aligned_cols=22  Identities=23%  Similarity=0.265  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|+|+|-.|+|||||...+.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            3789999999999999888763

>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=93.77  E-value=0.016  Score=39.68  Aligned_cols=21  Identities=14%  Similarity=0.123  Sum_probs=18.0

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |-++|-+|+|||+|...+..+
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            578999999999999987553

>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=93.72  E-value=0.014  Score=43.11  Aligned_cols=23  Identities=26%  Similarity=0.196  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            46899999999999999999865

>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=93.64  E-value=0.009  Score=45.25  Aligned_cols=24  Identities=8%  Similarity=0.171  Sum_probs=17.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +..+|+|.|..|.||||+++.+.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHH
Confidence            345899999999999999987655

>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=93.63  E-value=0.041  Score=41.03  Aligned_cols=36  Identities=22%  Similarity=0.197  Sum_probs=29.8

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhcc
Q 035574            3 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus         3 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +.++.|..-+..+.||+|+|.-+.||++|...++..
T Consensus        20 e~l~~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          20 EALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHHHHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHHHHHcCCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            345666665667999999999999999999999873

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.58  E-value=0.021  Score=41.99  Aligned_cols=24  Identities=17%  Similarity=0.130  Sum_probs=20.9

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+-+=++|.+|+|||+||+.+.+
T Consensus        37 ~~~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          37 PPRGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceeEEecCCCCCchHHHHHHHH
Confidence            345677999999999999999988

>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=93.58  E-value=0.021  Score=39.28  Aligned_cols=22  Identities=9%  Similarity=0.147  Sum_probs=18.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|-.|+|||||...+.++
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4688999999999999987654

>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=93.44  E-value=0.017  Score=42.12  Aligned_cols=23  Identities=13%  Similarity=0.205  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -.+++|+|..|.|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            46889999999999999998876

>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=93.43  E-value=0.012  Score=43.68  Aligned_cols=23  Identities=17%  Similarity=0.055  Sum_probs=20.0

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -..++|+|..|.|||||++.+..
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHh
Confidence            45789999999999999998754

>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=93.33  E-value=0.05  Score=41.71  Aligned_cols=24  Identities=8%  Similarity=0.086  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhcc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      +-.|.|-|.-|+||||+++.+.+.
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHH
Confidence            345677899999999999999883

>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=93.28  E-value=0.021  Score=42.13  Aligned_cols=24  Identities=21%  Similarity=0.117  Sum_probs=20.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+-|=++|.+|.|||+||+.+++
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~   63 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIAN   63 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcchhHHHHHHH
Confidence            345567999999999999999988

>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=93.24  E-value=0.064  Score=39.66  Aligned_cols=46  Identities=22%  Similarity=0.176  Sum_probs=34.1

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHH
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPD   60 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~   60 (156)
                      ..-+++-|+|.+|+|||||+-++.....-..  ...+|+.-...++..
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~~q~~g--~~~vyidtE~~~~~~   97 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI   97 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHHcCC--CEEEEEccccccCHH
Confidence            3457889999999999999998877432222  347888887777764

>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=93.22  E-value=0.025  Score=40.64  Aligned_cols=25  Identities=20%  Similarity=0.308  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhcc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .+.|.-|.|.-|.|||||.+++..+
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            3567788999999999999998764

>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=93.22  E-value=0.3  Score=34.08  Aligned_cols=56  Identities=13%  Similarity=-0.109  Sum_probs=34.2

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccccc--cccCceEEEEEc-CCCCCHHHHHHHHHHHhC
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSSYM--KHYFDYLAWIPA-PYHYDPDQILDIVAVILL   71 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~~v--~~~F~~~~wv~v-s~~~~~~~l~~~il~~l~   71 (156)
                      ....+-++|.+|.|||++|..+.+....  ..|-| ..++.- +.....+++ +++.+.+.
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~I-R~i~~~~~   72 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLN   72 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHH-HHHHHHHh
Confidence            4678889999999999999988763211  12223 444432 223345554 44666554

>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=93.14  E-value=0.032  Score=38.64  Aligned_cols=22  Identities=9%  Similarity=0.009  Sum_probs=17.5

Q ss_pred             EEEEEEcCC-CccHHHHHHHHhc
Q 035574           16 SVVAILDSI-GLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~g-GvGKTtLa~~vy~   37 (156)
                      +.+-|.|-| |+||||++-.+..
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~   24 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQ   24 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHH
Confidence            456789998 9999997776655

>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=93.09  E-value=0.034  Score=42.56  Aligned_cols=51  Identities=16%  Similarity=0.048  Sum_probs=30.8

Q ss_pred             EEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCC-----CHHHHHHHHHHHh
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHY-----DPDQILDIVAVIL   70 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~-----~~~~l~~~il~~l   70 (156)
                      ++-++|.+|+|||.||+.+..  ++...+.. +-+..++-.     +.+.-+++++++.
T Consensus       125 ~~l~~G~pG~GKT~la~ala~--~~~~~~~~-~~~~~~~~~~~~~G~~e~~~~~~f~~a  180 (321)
T d1w44a_         125 MVIVTGKGNSGKTPLVHALGE--ALGGKDKY-ATVRFGEPLSGYNTDFNVFVDDIARAM  180 (321)
T ss_dssp             EEEEECSSSSCHHHHHHHHHH--HHHTTSCC-EEEEBSCSSTTCBCCHHHHHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH--HhcCCCCe-EEEEhhHhhhcccchHHHHHHHHHHHH
Confidence            444589999999999999988  54433322 123444433     3344455665543

>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=93.00  E-value=0.016  Score=39.53  Aligned_cols=22  Identities=14%  Similarity=0.185  Sum_probs=8.6

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|.++|-+|+|||||...+..+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999876553

>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=92.90  E-value=0.054  Score=38.25  Aligned_cols=23  Identities=13%  Similarity=0.072  Sum_probs=19.3

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...+-++|..|+||||+|+.+..
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            44578899999999999997655

>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=92.87  E-value=0.085  Score=39.18  Aligned_cols=48  Identities=23%  Similarity=0.194  Sum_probs=36.1

Q ss_pred             CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHH
Q 035574           12 PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQ   61 (156)
Q Consensus        12 ~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~   61 (156)
                      -+.-+++-|.|..|+||||||-+++....-..  ...+|+.....++.+.
T Consensus        57 ~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g--~~~vyIDtE~~~~~e~  104 (269)
T d1mo6a1          57 LPRGRVIEIYGPESSGKTTVALHAVANAQAAG--GVAAFIDAEHALDPDY  104 (269)
T ss_dssp             BCSSSEEEEECSSSSSHHHHHHHHHHHHHHTT--CEEEEEESSCCCCHHH
T ss_pred             cccceeEEEecCCCcHHHHHHHHHHHHHhcCC--CEEEEEECCccCCHHH
Confidence            35568899999999999999988776433222  3578998888887754

>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=92.65  E-value=0.033  Score=38.84  Aligned_cols=25  Identities=16%  Similarity=0.106  Sum_probs=20.6

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..-.++-|.|.+|+|||+||.++..
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            4567889999999999999977543

>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=92.60  E-value=0.034  Score=40.32  Aligned_cols=22  Identities=18%  Similarity=0.212  Sum_probs=18.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+.-|+|.+|+|||||+.++.-
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            4667899999999999887755

>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=92.55  E-value=0.034  Score=39.61  Aligned_cols=22  Identities=9%  Similarity=0.024  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-|-++|.+|+|||||...+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4568999999999999998754

>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=92.52  E-value=0.089  Score=36.09  Aligned_cols=27  Identities=19%  Similarity=0.223  Sum_probs=22.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ..-.+|.+.|-=|.||||+++.+....
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhc
Confidence            345689999999999999999987643

>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=92.48  E-value=0.066  Score=41.81  Aligned_cols=67  Identities=10%  Similarity=0.074  Sum_probs=34.3

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhcc---ccccc-cCceEEEE-EcCC-------CCCHHHHHHHHHHHh
Q 035574            3 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS---SYMKH-YFDYLAWI-PAPY-------HYDPDQILDIVAVIL   70 (156)
Q Consensus         3 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~~---~~v~~-~F~~~~wv-~vs~-------~~~~~~l~~~il~~l   70 (156)
                      ++++.|.....  .-+-++|.+|||||+|+..+...   ..+.. -.+.++|. .++.       .-..++-++.++..+
T Consensus        33 ~~~~~L~r~~k--~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~e~r~~~i~~~~  110 (387)
T d1qvra2          33 RVIQILLRRTK--NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAVIQEV  110 (387)
T ss_dssp             HHHHHHHCSSC--CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCC--CCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhHHHHHHHHHHHh
Confidence            44555543321  12367899999999977654431   12222 23445554 3322       124455566677666


Q ss_pred             C
Q 035574           71 L   71 (156)
Q Consensus        71 ~   71 (156)
                      .
T Consensus       111 ~  111 (387)
T d1qvra2         111 V  111 (387)
T ss_dssp             H
T ss_pred             c
Confidence            3

>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=92.47  E-value=0.01  Score=39.62  Aligned_cols=21  Identities=14%  Similarity=0.260  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |.++|.+++|||||...+...
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998753

>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=92.32  E-value=0.33  Score=36.05  Aligned_cols=77  Identities=12%  Similarity=0.057  Sum_probs=47.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCC-CHHHHHHHHHHHhCCCCccccCCCCCCCeEEEEEcCC
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHY-DPDQILDIVAVILLPFSMFKILPDNQNGSRVLITLTQ   94 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~~~~~~l~~~~~gsrIivTTR~   94 (156)
                      .-+.|.|-.|+|||+|+..+..+.. +.+=+..+++-+++.. ...++.+++.+.-..     ...+....+-+++.|-+
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~~-~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~-----~~~~~~~~tvvv~~~s~  142 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNVA-KAHGGYSVFAGVGERTREGNDLYHEMIESGVI-----NLKDATSKVALVYGQMN  142 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHT-TTCSSEEEEEEESCCHHHHHHHHHHHHHHTSS-----CSSSSCCCEEEEEECTT
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHHH-hhCCCeEEEEEeccChHHHHHHHHHHHhcCcc-----ccccccceEEEEEECCC
Confidence            3479999999999999999877421 2233567788887754 455666666553210     01122335666666666


Q ss_pred             HHHH
Q 035574           95 IKMV   98 (156)
Q Consensus        95 ~~Va   98 (156)
                      +..+
T Consensus       143 ~~~~  146 (276)
T d2jdid3         143 EPPG  146 (276)
T ss_dssp             SCHH
T ss_pred             CCHH
Confidence            6643

>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=91.99  E-value=0.047  Score=39.69  Aligned_cols=24  Identities=8%  Similarity=0.144  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhccc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      +...++|..|+|||||...+..+.
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CeEEEECCCCCCHHHHHHhhcchh
Confidence            456789999999999999997643

>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=91.88  E-value=0.045  Score=41.46  Aligned_cols=24  Identities=17%  Similarity=0.257  Sum_probs=20.5

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ...++-.+|..|+|||.||+.+.+
T Consensus        52 p~~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          52 PIGSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             CSEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             CceEEEEECCCcchHHHHHHHHHH
Confidence            355888999999999999998766

>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=91.69  E-value=0.045  Score=41.96  Aligned_cols=23  Identities=30%  Similarity=0.146  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhc
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +..|+|-|.-|+||||+++.+.+
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC
T ss_pred             ceEEEEECCcCCCHHHHHHHHHH
Confidence            44588899999999999999976

>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=91.58  E-value=0.056  Score=40.36  Aligned_cols=25  Identities=24%  Similarity=0.227  Sum_probs=21.7

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhc
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+.|=|+|+|-+|.|||||+..+..
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHH
Confidence            3567899999999999999998854

>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=91.30  E-value=0.049  Score=39.76  Aligned_cols=22  Identities=18%  Similarity=0.098  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -|-|.|..|+|||++|+.++..
T Consensus        25 pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2          25 PVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCcCHHHHHHHHHHh
Confidence            3688899999999999999763

>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=91.18  E-value=0.16  Score=37.55  Aligned_cols=54  Identities=22%  Similarity=0.197  Sum_probs=36.9

Q ss_pred             HHHHhc-C-CCCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHH
Q 035574            5 LDLLIE-G-PTQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPD   60 (156)
Q Consensus         5 ~~~L~~-~-~~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~   60 (156)
                      ++.++. + -+.-+++-|.|.+|.|||+||-++.....-..  ...+|+.....++.+
T Consensus        45 lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~  100 (268)
T d1xp8a1          45 LDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV  100 (268)
T ss_dssp             HHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH
T ss_pred             HHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH
Confidence            344553 3 24457999999999999999988876432222  237888877777764

>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=90.89  E-value=0.077  Score=39.34  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.7

Q ss_pred             cEEEEEEcCCCccHHHHHHHHh
Q 035574           15 LSVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      .|-|+|+|-.|.|||||+..+.
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll   23 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALL   23 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Confidence            4778999999999999999874

>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=90.68  E-value=0.074  Score=39.17  Aligned_cols=22  Identities=9%  Similarity=0.092  Sum_probs=19.0

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .++|+|++.+|||||-..+-+.
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            4799999999999998887653

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=90.57  E-value=0.081  Score=40.46  Aligned_cols=22  Identities=18%  Similarity=0.223  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .|+|-|.-|+||||+++.+.+.
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4678899999999999999873

>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=90.53  E-value=0.076  Score=36.25  Aligned_cols=21  Identities=19%  Similarity=0.218  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      -|+|+|-...|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            489999999999999998864

>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=90.12  E-value=0.094  Score=37.36  Aligned_cols=22  Identities=18%  Similarity=0.324  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .+|+|+|-...|||||+..+..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~   27 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRG   27 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHh
Confidence            3599999999999999998754

>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=90.07  E-value=0.044  Score=41.29  Aligned_cols=19  Identities=16%  Similarity=0.176  Sum_probs=17.1

Q ss_pred             EEEEcCCCccHHHHHHHHh
Q 035574           18 VAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy   36 (156)
                      +=+.|-+|+||||||+.+.
T Consensus        31 vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_          31 VLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             EEEECCGGGCTTHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHH
Confidence            5789999999999999875

>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=89.89  E-value=0.11  Score=40.17  Aligned_cols=24  Identities=17%  Similarity=0.195  Sum_probs=20.1

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ....+=.+|..|+|||.||+.+..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            455677889999999999998865

>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=89.89  E-value=0.091  Score=40.46  Aligned_cols=54  Identities=15%  Similarity=0.073  Sum_probs=33.2

Q ss_pred             cEEEEEEcCCCccHHHHHHHHhccc-cccccCceEEEEEcCCCCCHHHHHHHHHH
Q 035574           15 LSVVAILDSIGLDKTAFTAEAYNSS-YMKHYFDYLAWIPAPYHYDPDQILDIVAV   68 (156)
Q Consensus        15 ~~vi~I~G~gGvGKTtLa~~vy~~~-~v~~~F~~~~wv~vs~~~~~~~l~~~il~   68 (156)
                      -++.-|.|.+|.||||++..+...- +....-..++.++.+..-....+.+.+..
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~~~  217 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLGK  217 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHTH
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHHHH
Confidence            4688889999999999876544311 11111234677777666555555555433

>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=89.84  E-value=0.033  Score=37.47  Aligned_cols=21  Identities=19%  Similarity=0.159  Sum_probs=16.9

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +..|+|..|.||||+..+++-
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~   46 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVT   46 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            345689999999999888753

>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=89.67  E-value=0.087  Score=41.81  Aligned_cols=21  Identities=14%  Similarity=0.286  Sum_probs=18.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhc
Q 035574           17 VVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      =|=++|..|+|||.||+.+..
T Consensus        51 NILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            367899999999999999977

>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=89.34  E-value=0.13  Score=38.22  Aligned_cols=22  Identities=18%  Similarity=0.196  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHhcc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      -++|+|.+.+|||||-..+-+.
T Consensus        12 kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4899999999999999998764

>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=89.13  E-value=0.051  Score=39.64  Aligned_cols=23  Identities=9%  Similarity=0.112  Sum_probs=18.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhccc
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ...++|..|+|||||...+..+.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             eEEEECCCCccHHHHHHhhccHh
Confidence            44589999999999999997643

>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=88.92  E-value=0.12  Score=39.19  Aligned_cols=20  Identities=20%  Similarity=0.321  Sum_probs=18.3

Q ss_pred             EEEEcCCCccHHHHHHHHhc
Q 035574           18 VAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~   37 (156)
                      |-|.|..|.||||+.+.+..
T Consensus       169 ili~G~tgSGKTT~l~al~~  188 (323)
T d1g6oa_         169 VIVCGGTGSGKTTYIKSIME  188 (323)
T ss_dssp             EEEEESTTSSHHHHHHHHGG
T ss_pred             EEEEeeccccchHHHHHHhh
Confidence            78899999999999998876

>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=88.65  E-value=0.13  Score=38.34  Aligned_cols=21  Identities=14%  Similarity=0.257  Sum_probs=18.4

Q ss_pred             EEEEcCCCccHHHHHHHHhcc
Q 035574           18 VAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy~~   38 (156)
                      |+|+|.+-+|||||-..+-+.
T Consensus         3 v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EeEECCCCCCHHHHHHHHHCC
Confidence            799999999999999998553

>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=88.58  E-value=0.26  Score=36.25  Aligned_cols=33  Identities=9%  Similarity=0.042  Sum_probs=25.6

Q ss_pred             HHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            5 LDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         5 ~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      ..+|....+.-..+-++|.|+.|||+++..+..
T Consensus        94 ~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_          94 LGWATKKFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHH
Confidence            344544556678899999999999999987754

>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=88.47  E-value=0.15  Score=35.58  Aligned_cols=22  Identities=18%  Similarity=0.228  Sum_probs=18.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-+-|.|..|+||||||..+..
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            3456789999999999988765

>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=88.43  E-value=0.14  Score=35.57  Aligned_cols=22  Identities=23%  Similarity=0.164  Sum_probs=18.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +-+-|.|.+|+||||||..+..
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHH
Confidence            3467789999999999998765

>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=88.43  E-value=0.15  Score=39.01  Aligned_cols=30  Identities=13%  Similarity=0.265  Sum_probs=24.9

Q ss_pred             HHhcCCCCcEEEEEEcCCCccHHHHHHHHh
Q 035574            7 LLIEGPTQLSVVAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus         7 ~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy   36 (156)
                      .|.+.....|=|+|+|-.+.|||||+..+.
T Consensus         9 ~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2           9 SLMDKVTNVRNMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             HHHHCGGGEEEEEEECCGGGTHHHHHHHHH
T ss_pred             HHhcCcccCcEEEEEeCCCCcHHHHHHHHH
Confidence            344556678889999999999999998874

>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=87.75  E-value=0.18  Score=36.95  Aligned_cols=26  Identities=8%  Similarity=0.072  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCccHHHHHHHHhccc
Q 035574           14 QLSVVAILDSIGLDKTAFTAEAYNSS   39 (156)
Q Consensus        14 ~~~vi~I~G~gGvGKTtLa~~vy~~~   39 (156)
                      ..-.+.|+|++-+||+||+..+....
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEEecCccchhhhhhhhhccc
Confidence            34558999999999999999998743

>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=87.21  E-value=0.18  Score=34.74  Aligned_cols=22  Identities=23%  Similarity=0.203  Sum_probs=18.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      .-+-|.|..|+||||||-.+..
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~   37 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIK   37 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHH
Confidence            3456889999999999988765

>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=86.86  E-value=0.19  Score=35.26  Aligned_cols=19  Identities=26%  Similarity=0.309  Sum_probs=17.3

Q ss_pred             EEEEcCCCccHHHHHHHHh
Q 035574           18 VAILDSIGLDKTAFTAEAY   36 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~~vy   36 (156)
                      |+|+|-.+.|||||+.++.
T Consensus         6 i~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHH
Confidence            7889999999999998874

>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=86.85  E-value=0.28  Score=34.92  Aligned_cols=33  Identities=15%  Similarity=0.235  Sum_probs=25.0

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCccHHHHHHHHhc
Q 035574            4 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus         4 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      +..+| .+.+..+.+.++|.++.|||++|..+..
T Consensus        43 l~~~l-~~~PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          43 LKSFL-KGTPKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             HHHHH-HTCTTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHH-cCCCCceEEEEECCCCccHHHHHHHHHH
Confidence            33444 4556678999999999999999886644

>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=85.84  E-value=0.44  Score=30.44  Aligned_cols=53  Identities=13%  Similarity=0.080  Sum_probs=34.2

Q ss_pred             CCcEEEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCCCHHHHHHHHHHHhC
Q 035574           13 TQLSVVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHYDPDQILDIVAVILL   71 (156)
Q Consensus        13 ~~~~vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~   71 (156)
                      .+.++.-|++..|.|||+++-..+.+      ...++.+.+....-..+..+.+.+.+.
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~~------~~~~vli~~P~~~l~~q~~~~~~~~~~   58 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYAA------QGYKVLVLNPSVAATLGFGAYMSKAHG   58 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHHT------TTCCEEEEESCHHHHHHHHHHHHHHHS
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHHH------cCCcEEEEcChHHHHHHHHHHHHHHhh
Confidence            34577788999999999988766542      233566666555555555555554443

>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=84.68  E-value=0.3  Score=36.56  Aligned_cols=23  Identities=17%  Similarity=0.018  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHhcc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYNS   38 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~~   38 (156)
                      .-+.|.|-.|+|||+|+..+..+
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            45799999999999999988774

>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=84.35  E-value=0.27  Score=38.11  Aligned_cols=22  Identities=23%  Similarity=0.256  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHhc
Q 035574           16 SVVAILDSIGLDKTAFTAEAYN   37 (156)
Q Consensus        16 ~vi~I~G~gGvGKTtLa~~vy~   37 (156)
                      --|+|+|.+|+|||||...+..
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            3479999999999999999874

>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=82.66  E-value=0.24  Score=35.80  Aligned_cols=16  Identities=25%  Similarity=0.264  Sum_probs=13.0

Q ss_pred             EEEEEcCCCccHHHHH
Q 035574           17 VVAILDSIGLDKTAFT   32 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa   32 (156)
                      .+-|.|.+|.||||.+
T Consensus        16 ~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEEECCCTTSCHHHHH
T ss_pred             CEEEEeeCCccHHHHH
Confidence            3568899999999853

>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=81.82  E-value=0.38  Score=35.09  Aligned_cols=16  Identities=25%  Similarity=0.331  Sum_probs=12.9

Q ss_pred             EEEEcCCCccHHHHHH
Q 035574           18 VAILDSIGLDKTAFTA   33 (156)
Q Consensus        18 i~I~G~gGvGKTtLa~   33 (156)
                      +-|.|.+|.||||.+-
T Consensus        27 ~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             EEEEECTTSCHHHHHH
T ss_pred             EEEEecCCccHHHHHH
Confidence            5678999999998543

>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=81.32  E-value=0.73  Score=34.00  Aligned_cols=39  Identities=10%  Similarity=-0.009  Sum_probs=27.5

Q ss_pred             EEEEEcCCCccHHHHHHHHhccccccccCceEEEEEcCCCC
Q 035574           17 VVAILDSIGLDKTAFTAEAYNSSYMKHYFDYLAWIPAPYHY   57 (156)
Q Consensus        17 vi~I~G~gGvGKTtLa~~vy~~~~v~~~F~~~~wv~vs~~~   57 (156)
                      -+.|.|-.|+|||+|+.....+  ...+-+..+++-+.+..
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~--~~~~~~v~V~~~iGer~  107 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILN--QQGQNVICVYVAIGQKA  107 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHT--CCTTTCEEEEEEESCCH
T ss_pred             eEeeccCCCCChHHHHHHHHhh--hcccCceeeeeeecchh
Confidence            4688999999999999875442  23344567777776654