Citrus Sinensis ID: 038685

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-----
Protein Sequence
MDINFRLFSERLRRLVEGEEGTLPDAAKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEARNSSSTAGSKKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKSVMPRSMGSEIMDKDYELKITTDTTRPDLHV
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHccccccccccccEEEEccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccEEccccHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHccHHHHHcccEEEEEEccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MDINFRLFSERLRRLVegeegtlpdaaKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSlggeeefdFSELQGILKEMKDFVHESEKVIYIFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEarnssstagskkrniVGLEDEMKELLDLLIVGEPSLSVVAIVGssgfdktdfageaynSNYMKNYFYCRAWVGCEYYLHKVLDNIIksvmprsmgseimdkdyelkittdttrpdlhv
Flexible Loop (DISEMBL)
MDINFRLFSERLRRlvegeegtlpdaakeqFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIearnssstagskkrniVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKSvmprsmgseimdkdyelkittdttrpdlhv
Low Complexity Region (SEG)
MDINFRLFSerlrrlvegeegTLPDAAKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEARNSSSTAGSKKRNIVGledemkelldllIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKSVMPRSMGSEIMDKDYELKITTDTTRPDLHV
Disordered region (IsUnstruct)
****************************EQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEA*************IVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKSVM****************************
Disordered Region (DISOPRED)
MDINFRLFSERLRRLVEGEEGTLPDAAKEQFQNLYTEIEIVTSLLSNYENDMFQILFQ**GG**EFDFSELQGILKEMKDFVHESEKVIYIFM********************LGLQSQIIDIKQQL********************************RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIK**********************DTTRPDLH*
Disordered Region (DISEMBL)
MDINFRLFSERLRRLVEGEEGTLPDAAKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEAR*********KRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKSVMPRSMGSEIMDKDYELKITTDTTRPDLHV
Disordered Region (DISPRO)
MDINFRLFSERLRRLVEGEEGTLPDAAKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNT*************************RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKSVMPRSM*SEIMDKDYELKITTDTTRP*L**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDINFRLFSERLRRLVEGEEGTLPDAAKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEARNSSSTAGSKKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKSVMPRSMGSEIMDKDYELKITTDTTRPDLHV
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	265	2.2.26 [Sep-21-2011]
Q9STE7	847	Putative disease resistan	yes	no	0.283	0.088	0.430	1e-05
Q9M667	835	Disease resistance protei	no	no	0.743	0.235	0.267	4e-05
Q9LQ54	870	Probable disease resistan	no	no	0.630	0.191	0.243	5e-05
Q9XIF0	906	Putative disease resistan	no	no	0.618	0.181	0.253	0.0001
Q9STE5	847	Putative disease resistan	no	no	0.803	0.251	0.243	0.0004
P0C8S1	906	Probable disease resistan	no	no	0.713	0.208	0.247	0.0008

>sp|Q9STE7|R13L3_ARATH Putative disease resistance RPP13-like protein 3 OS=Arabidopsis thaliana GN=RPP13L3 PE=3 SV=1

 Score = 50.4 bits (119), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/79 (43%), Positives = 45/79 (56%), Gaps = 4/79 (5%)

Query: 162 IVGLEDEMKELL-DLLIVGEPSLS-VVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAW- 218
           +VGLED++K LL  LL   E   S +++I G  G  KT  A + YNS  +K  F CRAW 
Sbjct: 162 VVGLEDDVKILLVKLLSDNEKDKSYIISIFGMGGLGKTALARKLYNSGDVKRRFDCRAWT 221

Query: 219 -VGCEYYLHKVLDNIIKSV 236
            V  EY    +L  II+S+
Sbjct: 222 YVSQEYKTRDILIRIIRSL 240

Potential disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9M667|RPP13_ARATH Disease resistance protein RPP13 OS=Arabidopsis thaliana GN=RPP13 PE=2 SV=2

 Score = 48.9 bits (115), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 65/243 (26%), Positives = 107/243 (44%), Gaps = 46/243 (18%)

Query: 19  EEGTLPDAAKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEM 78
           EE ++  A KE  + L TE+  +   L + E             E E + S+     K +
Sbjct: 19  EEASMFMAVKEDLEELKTELTCIHGYLKDVE-----------AREREDEVSKEWS--KLV 65

Query: 79  KDFVHESEKVIYIFMIS-----------RITQQISGS-SSKDLFDALLGLQSQIIDIKQQ 126
            DF ++ E V+  + +            R+T +I     +  + D +  L+ +I+DI ++
Sbjct: 66  LDFAYDVEDVLDTYHLKLEERSQRRGLRRLTNKIGRKMDAYSIVDDIRILKRRILDITRK 125

Query: 127 LQQF------RP----NTIGLWVELKSYFIEARNSSSTAGSKKRNIVGLEDEMKELLD-L 175
            + +       P    NT  L V       + R + S    ++  +VGLED+ K LL+ L
Sbjct: 126 RETYGIGGLKEPQGGGNTSSLRVR------QLRRARSV--DQEEVVVGLEDDAKILLEKL 177

Query: 176 LIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAW--VGCEYYLHKVLDNII 233
           L   E +  +++I G  G  KT  A + YNS  +K  F  RAW  V  EY    +L  II
Sbjct: 178 LDYEEKNRFIISIFGMGGLGKTALARKLYNSRDVKERFEYRAWTYVSQEYKTGDILMRII 237

Query: 234 KSV 236
           +S+
Sbjct: 238 RSL 240

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. In contrast to other resistance proteins, it works independently of ESD1 and NSD1 proteins and does not require the accumulation of salicylic acid, suggesting the existence of an independent signaling pathway. The specificity to avirulence proteins differs in the different cultivars.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ54|DRL12_ARATH Probable disease resistance protein At1g59620 OS=Arabidopsis thaliana GN=At1g59620 PE=2 SV=3

 Score = 48.5 bits (114), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 45/185 (24%), Positives = 88/185 (47%), Gaps = 18/185 (9%)

Query: 75  LKEMKDFVHESEKVIYIFMISRITQQISGSSSK-DLFDALLGLQSQI-IDIKQQLQQFRP 132
           +KE+K+ V+++E +I  F+  +   +  G   +   F  +L  + +I ID++   ++   
Sbjct: 62  VKEVKEIVYDTEDIIETFLRKKQLGRTRGMKKRIKEFACVLPDRRKIAIDMEGLSKRIAK 121

Query: 133 NTIGLWVELKSYFIEARNSSSTAGSKKRNI-VGLEDEMKELLDLLIVGEPSLSVVAIVGS 191
                         + RN   T  +   ++ VGLE+ +K+L+  L+  E S  VV+I G 
Sbjct: 122 K-------------DKRNMRQTFSNNNESVLVGLEENVKKLVGHLVEVEDSSQVVSITGM 168

Query: 192 SGFDKTDFAGEAYNSNYMKNYFYCRAWVGC--EYYLHKVLDNIIKSVMPRSMGSEIMDKD 249
            G  KT  A + +N   +K++F   AWV    ++    V   I++ V P  +  E+ + +
Sbjct: 169 GGIGKTTLARQVFNHETVKSHFAQLAWVCVSQQFTRKYVWQTILRKVGPEYIKLEMTEDE 228

Query: 250 YELKI 254
            + K+
Sbjct: 229 LQEKL 233

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9XIF0|DRL13_ARATH Putative disease resistance protein At1g59780 OS=Arabidopsis thaliana GN=At1g59780 PE=2 SV=1

 Score = 47.4 bits (111), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 53/209 (25%), Positives = 98/209 (46%), Gaps = 45/209 (21%)

Query: 72  QGILKEMKDFVHESEKVIYIFMIS----------------RITQQISGSSSKDLFDAL-- 113
           +  L+E+K+  +++E +I IF++                  I  QI+ S SK +   +  
Sbjct: 64  RNCLEEIKEITYDAEDIIEIFLLKGSVNMRSLACFPGGRREIALQIT-SISKRISKVIQV 122

Query: 114 ---LGLQSQI---IDIKQQLQQFRPNTIGLWVELKSYFIEARNSSSTAGSKKRNIVGLED 167
              LG++S I   +D   QL++ R        EL+  F         +   + N+VGLE 
Sbjct: 123 MQNLGIKSDIMDGVDSHAQLERKR--------ELRHTF---------SSESESNLVGLEK 165

Query: 168 EMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGC--EYYL 225
            +++L++ L VG  S   V+I G  G  KT  A + ++ + +K++F   AWV    E+  
Sbjct: 166 NVEKLVEEL-VGNDSSHGVSITGLGGLGKTTLARQIFDHDKVKSHFDGLAWVCVSQEFTR 224

Query: 226 HKVLDNIIKSVMPRSMGSEIMDKDYELKI 254
             V   I+ ++ P+   S++ + D + K+
Sbjct: 225 KDVWKTILGNLSPKYKDSDLPEDDIQKKL 253

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STE5|R13L2_ARATH Putative disease resistance RPP13-like protein 2 OS=Arabidopsis thaliana GN=RPP13L2 PE=3 SV=1

 Score = 45.4 bits (106), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 58/238 (24%), Positives = 106/238 (44%), Gaps = 25/238 (10%)

Query: 19  EEGTLPDAAKEQFQNLYTEIEIVTSLLSNYE----NDMFQILFQSLGGEEEFDFSELQGI 74
           EE  +    K+  + L TE+  +   L N E     D     +  L  +  +D  ++   
Sbjct: 19  EEAPMLIGVKDDLEELKTELTCIQVYLKNVEVCDKEDEVSKEWTKLVLDIAYDVEDV--- 75

Query: 75  LKEMKDFVHESEKVIYIFMISRITQQISGSS-SKDLFDALLGLQSQIIDIKQQLQQFRPN 133
              +  +  + EK ++   + R+T  IS    + ++ D +  L+ + +D+ ++L+ +   
Sbjct: 76  ---LDTYFLKLEKRLHRLGLMRLTNIISDKKDAYNILDDIKTLKRRTLDVTRKLEMY--- 129

Query: 134 TIGLWVELK-----SYFIEARNSSSTAGSKKRNIVGLEDEMKELLDLLIV--GEPSLSVV 186
            IG + E +     S   E R + S    ++  +VGL D+ K LL  L+   G+  + ++
Sbjct: 130 GIGNFNEHRVVASTSRVREVRRARS--DDQEERVVGLTDDAKVLLTKLLDDDGDNKIYMI 187

Query: 187 AIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAW--VGCEYYLHKVLDNIIKSVMPRSMG 242
           +I G  G  KT  A + +NS+ +K  F  R W  V  E     +L  II S+   S G
Sbjct: 188 SIFGMEGLGKTSLARKLFNSSDVKESFEYRVWTNVSGECNTRDILMRIISSLEETSEG 245

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8S1|RP8L2_ARATH Probable disease resistance RPP8-like protein 2 OS=Arabidopsis thaliana GN=RPP8L2 PE=1 SV=1

 Score = 44.7 bits (104), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 53/214 (24%), Positives = 103/214 (48%), Gaps = 25/214 (11%)

Query: 42  TSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFMISR--ITQ 99
           T  + N+  D+  I++ +    E F  +EL+G  K +K  V    + +  F++ R     
Sbjct: 55  TERVRNFLEDVKDIVYDADDIIESFLLNELRGKEKGIKKQV----RTLACFLVDRRKFAS 110

Query: 100 QISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNTIGLW---VELKSYFIEARNSSSTAG 156
            I G + K + + ++G+QS  I   Q +      ++ L     E++  F  +RNS S   
Sbjct: 111 DIEGIT-KRISEVIVGMQSLGI---QHIADGGGRSLSLQERQREIRQTF--SRNSES--- 161

Query: 157 SKKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCR 216
               ++VGL+  ++EL+D L+  + S+ VV++ G  G  KT  A + ++ + ++ +F   
Sbjct: 162 ----DLVGLDQSVEELVDHLVEND-SVQVVSVSGMGGIGKTTLARQVFHHDIVRRHFDGF 216

Query: 217 AWVGC--EYYLHKVLDNIIKSVMPRSMGSEIMDK 248
           +WV    ++    V   I++ + P   G   MD+
Sbjct: 217 SWVCVSQQFTRKDVWQRILQDLRPYDEGIIQMDE 250

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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	265
125535227	1133	hypothetical protein OsI_36949 [Oryza sa	0.652	0.152	0.305	1e-08
115486673	1135	Os11g0687000 [Oryza sativa Japonica Grou	0.652	0.152	0.305	2e-08
125578012	1133	hypothetical protein OsJ_34772 [Oryza sa	0.652	0.152	0.305	2e-08
147800242	801	hypothetical protein VITISV_002459 [Viti	0.743	0.245	0.284	6e-08
302594409	842	EDNR2GH4 protein [Solanum x edinense]	0.347	0.109	0.393	2e-07
356496703	910	PREDICTED: disease resistance RPP8-like	0.301	0.087	0.390	3e-07
147860533	331	hypothetical protein VITISV_034529 [Viti	0.713	0.570	0.277	3e-07
255566508	985	conserved hypothetical protein [Ricinus	0.539	0.145	0.257	4e-07
297745212	706	unnamed protein product [Vitis vinifera]	0.675	0.253	0.277	4e-07
297744815	407	unnamed protein product [Vitis vinifera]	0.686	0.447	0.266	4e-07

>gi|125535227|gb|EAY81775.1| hypothetical protein OsI_36949 [Oryza sativa Indica Group]

 Score = 66.2 bits (160), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 61/200 (30%), Positives = 99/200 (49%), Gaps = 27/200 (13%)

Query: 76  KEMKDFVHESEKVIYIFMISRIT--QQISGSSSKDLFDA----LLGLQS------QIIDI 123
           KEM D  H+ E  +  F I  +T  QQ + +    L D     L  +QS      +I  +
Sbjct: 71  KEMLDLAHDIEDYVDRF-IHHLTCRQQCASAGRNSLLDRVAHELKKVQSRSSFANEIQKL 129

Query: 124 KQQLQQFRPNTIGLWVELKSYFIEARNSSSTAGSKKR---NIVGLEDEMKELLDLL--IV 178
           K++L+Q   + I      K+  +    SSS +   +R   N VG+E+ ++ELL LL  + 
Sbjct: 130 KRRLRQVHQDVI------KNNPLAGGQSSSPSPQDRRIADNPVGIEEPVEELLSLLDEVE 183

Query: 179 GEPS-LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWV--GCEYYLHKVLDNIIKS 235
           GEP  + V++IVG  G  KT  A   Y+S  +K  F+ RAWV  G        +  I+++
Sbjct: 184 GEPERMRVISIVGFGGLGKTTLAKAVYDSPRVKEKFHLRAWVPAGASPETSSGMRGILRA 243

Query: 236 VMPRSMGSEIMDKDYELKIT 255
           V+ + + +  MD D +L+ +
Sbjct: 244 VIQKILPNVAMDVDGQLETS 263

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115486673|ref|NP_001068480.1| Os11g0687000 [Oryza sativa Japonica Group] gi|108864660|gb|ABA95363.2| NB-ARC domain containing protein [Oryza sativa Japonica Group] gi|113645702|dbj|BAF28843.1| Os11g0687000 [Oryza sativa Japonica Group]

 Score = 65.5 bits (158), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 61/200 (30%), Positives = 98/200 (49%), Gaps = 27/200 (13%)

Query: 76  KEMKDFVHESEKVIYIFMISRIT--QQISGSSSKDLFDA----LLGLQS------QIIDI 123
           KEM D  H+ E  +  F I  +T  QQ + +    L D     L  +QS      +I  +
Sbjct: 71  KEMLDLAHDIEDYVDRF-IHHLTCRQQCASAGRNSLLDRVAHELKKVQSRSSFANEIQKL 129

Query: 124 KQQLQQFRPNTIGLWVELKSYFIEARNSSSTAGSKKR---NIVGLEDEMKELLDLL--IV 178
           K+ L+Q   + I      K+  +    SSS +   +R   N VG+E+ ++ELL LL  + 
Sbjct: 130 KRPLRQVHQDVI------KNNPLAGGQSSSPSPQDRRIADNPVGIEEPVEELLSLLDEVE 183

Query: 179 GEPS-LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWV--GCEYYLHKVLDNIIKS 235
           GEP  + V++IVG  G  KT  A   Y+S  +K  F+ RAWV  G        +  I+++
Sbjct: 184 GEPERMRVISIVGFGGLGKTTLAKAVYDSPRVKEKFHLRAWVPAGASPETSSGMRGILRA 243

Query: 236 VMPRSMGSEIMDKDYELKIT 255
           V+ + + +  MD D +L+ +
Sbjct: 244 VIQKILPNVAMDVDGQLETS 263

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125578012|gb|EAZ19234.1| hypothetical protein OsJ_34772 [Oryza sativa Japonica Group]

 Score = 65.5 bits (158), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 61/200 (30%), Positives = 98/200 (49%), Gaps = 27/200 (13%)

Query: 76  KEMKDFVHESEKVIYIFMISRIT--QQISGSSSKDLFDA----LLGLQS------QIIDI 123
           KEM D  H+ E  +  F I  +T  QQ + +    L D     L  +QS      +I  +
Sbjct: 71  KEMLDLAHDIEDYVDRF-IHHLTCRQQCASAGRNSLLDRVAHELKKVQSRSSFANEIQKL 129

Query: 124 KQQLQQFRPNTIGLWVELKSYFIEARNSSSTAGSKKR---NIVGLEDEMKELLDLL--IV 178
           K+ L+Q   + I      K+  +    SSS +   +R   N VG+E+ ++ELL LL  + 
Sbjct: 130 KRPLRQVHQDVI------KNNPLAGGQSSSPSPQDRRIADNPVGIEEPVEELLSLLDEVE 183

Query: 179 GEPS-LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWV--GCEYYLHKVLDNIIKS 235
           GEP  + V++IVG  G  KT  A   Y+S  +K  F+ RAWV  G        +  I+++
Sbjct: 184 GEPERMRVISIVGFGGLGKTTLAKAVYDSPRVKEKFHLRAWVPAGASPETSSGMRGILRA 243

Query: 236 VMPRSMGSEIMDKDYELKIT 255
           V+ + + +  MD D +L+ +
Sbjct: 244 VIQKILPNVAMDVDGQLETS 263

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147800242|emb|CAN77656.1| hypothetical protein VITISV_002459 [Vitis vinifera]

 Score = 63.9 bits (154), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 62/218 (28%), Positives = 104/218 (47%), Gaps = 21/218 (9%)

Query: 34  LYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFM 93
           L + +E    LLSN E +  ++  +    +  +D   ++  + +++D  +++E VI  FM
Sbjct: 23  LLSRVEEQVKLLSN-ELEWMRLFLKDADAKRRYD-PRIKLWVSQIRDVTYDAEDVIDRFM 80

Query: 94  ISRITQQISGSSSKDLFDALL---GLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEARN 150
                QQ  GS     F  L     L+S+I +I  ++++   N     VE     + A +
Sbjct: 81  FEMNHQQ-QGSLKCLKFLKLRFVHKLESRIREINIKIEKIMANKSRYGVET----LPAAS 135

Query: 151 SSSTAGSKKR---------NIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAG 201
           SS+    +K          N+VG+ +  K +  +L+ GE   +VV+IVG  G  KT  A 
Sbjct: 136 SSNEVVPQKEKRVPIVEEVNVVGIREGAKSVKQMLLNGERRRAVVSIVGMGGLGKTTLAK 195

Query: 202 EAYNSNYMKNYFYCRAW--VGCEYYLHKVLDNIIKSVM 237
           + YN N ++ YF C AW  V  EY + ++L  I   VM
Sbjct: 196 KVYNDNDVQQYFDCHAWIYVSQEYTIRELLLGIADYVM 233

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302594409|gb|ADL59394.1| EDNR2GH4 protein [Solanum x edinense]

 Score = 62.0 bits (149), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 37/94 (39%), Positives = 53/94 (56%), Gaps = 2/94 (2%)

Query: 149 RNSSSTAGSKKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNY 208
           R ++S    +    VGL+D +++LL  L+  EP  SV++I G  G  KT  A + YNS+ 
Sbjct: 146 RRTTSYVDDQDYIFVGLQDVVQKLLAQLLKAEPRRSVLSIHGMGGLGKTTLARKLYNSSA 205

Query: 209 MKNYFYCRAWVGC--EYYLHKVLDNIIKSVMPRS 240
           + N F  RAW+    EY    +L NIIKSV  R+
Sbjct: 206 ILNSFPTRAWICVSQEYNTMDLLRNIIKSVQGRT 239

Source: Solanum x edinense

Species: Solanum x edinense

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356496703|ref|XP_003517205.1| PREDICTED: disease resistance RPP8-like protein 3-like [Glycine max]

 Score = 61.6 bits (148), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 32/82 (39%), Positives = 47/82 (57%), Gaps = 2/82 (2%)

Query: 157 SKKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCR 216
           S++  ++ LED+M+ L   L+  EP+  VV+IVG  G  KT  A + YN   + N+F C+
Sbjct: 156 SEEEYVIELEDDMRLLFTQLLAVEPTPHVVSIVGMGGLGKTTLAKKLYNHTRITNHFECK 215

Query: 217 AW--VGCEYYLHKVLDNIIKSV 236
           AW  V  EY    VL  I++ V
Sbjct: 216 AWVYVSKEYRRRDVLQGILRDV 237

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147860533|emb|CAN81877.1| hypothetical protein VITISV_034529 [Vitis vinifera]

 Score = 61.6 bits (148), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 58/209 (27%), Positives = 101/209 (48%), Gaps = 20/209 (9%)

Query: 34  LYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFM 93
           L + +E    LLSN E +  ++  +    +  +D   ++  + +++D  +++E VI  FM
Sbjct: 23  LLSRVEEQVKLLSN-ELEWMRLFLKDADAKRRYD-PRIKLWVSQIRDVTYDAEDVIDRFM 80

Query: 94  ISRITQQISGSSSKDLFDALL---GLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEARN 150
              +  Q  GS     F  L     L+S+I +I  ++++   N     VE     + A +
Sbjct: 81  FE-MNHQQQGSLKCLKFLKLRFVHKLESRIREINIKIEKIMANKSRYGVET----LPAAS 135

Query: 151 SSSTAGSKKR--------NIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGE 202
           SS+ A   K         N+VG++++ K +   L+ GE   +VV+IVG  G  KT  A +
Sbjct: 136 SSNEAVPHKEKRAPIVEVNVVGIQEDAKSVKQNLLNGEMRRAVVSIVGMGGLGKTTLAKK 195

Query: 203 AYNSNYMKNYFYCRAW--VGCEYYLHKVL 229
            YN N ++  F C AW  V  EY + ++L
Sbjct: 196 VYNDNDVRQCFDCHAWIYVSQEYTIRELL 224

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255566508|ref|XP_002524239.1| conserved hypothetical protein [Ricinus communis] gi|223536516|gb|EEF38163.1| conserved hypothetical protein [Ricinus communis]

 Score = 61.6 bits (148), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 41/159 (25%), Positives = 77/159 (48%), Gaps = 16/159 (10%)

Query: 77  EMKDFVHESEKVIYIFMISRITQQISGSSS-KDLFDALLGLQSQIIDIKQQLQQFRPNTI 135
           E++   +++E VI  F++   T +  G+S     F +++     I +I+ Q++  R    
Sbjct: 64  EIRGVAYDAEDVIETFILEAATGRGEGASGIMKRFTSIIKKVPHIHEIRNQIESIRTKIC 123

Query: 136 GLWVELKSY---FIEARNSSSTAGSKKR------------NIVGLEDEMKELLDLLIVGE 180
            +   L++Y   F+  R  SS+A   ++            +++  +  +++L   L++ E
Sbjct: 124 DISSSLQTYDIKFVAKREWSSSASEMQQRLRRSYPHDEDEHVISFDAVIRDLKAQLMIEE 183

Query: 181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWV 219
             L VV+IVG  G  KT  A + YN N +K +F C AW 
Sbjct: 184 ERLRVVSIVGIGGLGKTTLAKKVYNDNRVKQHFDCYAWA 222

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745212|emb|CBI40292.3| unnamed protein product [Vitis vinifera]

 Score = 61.6 bits (148), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 55/198 (27%), Positives = 95/198 (47%), Gaps = 19/198 (9%)

Query: 34  LYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFM 93
           L + +E    LLSN E +  ++  +    +  +D   ++  + +++D  +++E VI  FM
Sbjct: 23  LLSRVEEQVKLLSN-ELEWMRLFLKDADAKRRYD-PRIKLWVSQIRDVTYDAEDVIDRFM 80

Query: 94  ISRITQQISGSSSKDLFDALL---GLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEARN 150
                QQ  GS     F  L     L+S+I +I  ++++   N     VE     + A +
Sbjct: 81  FEMNHQQ-QGSLKCLKFLKLRFVHKLESRIREINIKIEKIMANKSRYGVET----LPAAS 135

Query: 151 SSSTAGSKKR---------NIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAG 201
           SS+    +K          N+VG+ +  K +  +L+ GE   +VV+IVG  G  KT  A 
Sbjct: 136 SSNEVVPQKEKRVPIVEEVNVVGIREGAKSVKQMLLNGERRRAVVSIVGMGGLGKTTLAK 195

Query: 202 EAYNSNYMKNYFYCRAWV 219
           + YN N ++ YF C AW+
Sbjct: 196 KVYNDNDVQQYFDCHAWI 213

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744815|emb|CBI38083.3| unnamed protein product [Vitis vinifera]

 Score = 61.2 bits (147), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 53/199 (26%), Positives = 95/199 (47%), Gaps = 17/199 (8%)

Query: 34  LYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFM 93
           L + +E    LLS+ E +  ++  +    +  +D   ++  + +++D  +++E VI  FM
Sbjct: 23  LLSRVEEQVKLLSS-ELEWMRLFLKDADAKRRYD-PRIKLWVSQIRDVTYDAEDVIDRFM 80

Query: 94  ISRITQQISGSSSKDLFDALL---GLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEARN 150
              +  Q  GS     F  L     L+S+I +I  ++++   N     VE       A +
Sbjct: 81  FE-MNHQQQGSLKCLKFLKLRFVPKLESRIREINTKIEKIMANKSRYGVE---TLPAASS 136

Query: 151 SSSTAGSKKR--------NIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGE 202
           S+     K+R        N+VG++++ K +   L+ GE   +VV+IVG  G  KT  A +
Sbjct: 137 SNEVVPHKERRAPIVEEVNVVGIQEDAKSVKQNLLNGEMRRAVVSIVGMGGLGKTTLAKK 196

Query: 203 AYNSNYMKNYFYCRAWVGC 221
            YN N ++  F C AW+ C
Sbjct: 197 VYNDNDVRQCFDCHAWIYC 215

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

No hits with e-value below 0.001 by BLAST

---

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!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

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	265
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	9e-04

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

 Score = 39.6 bits (93), Expect = 9e-04
 Identities = 20/54 (37%), Positives = 30/54 (55%)

Query: 166 EDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWV 219
           ED ++ L++ L+    +L VV IVG  G  KT  A + YN + +  +F   AWV
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWV 55

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	265
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.93
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.55
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.07
cd01128	249	rho_factor Transcription termination factor rho is	98.44
PRK09376	416	rho transcription termination factor Rho; Provisio	98.44
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.43
PTZ00202	550	tuzin; Provisional	98.38
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.3
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.23
TIGR00767	415	rho transcription termination factor Rho. Members	98.05
PRK08118	167	topology modulation protein; Reviewed	98.03
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.87
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.84
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.8
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.72
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.66
PRK07261	171	topology modulation protein; Provisional	97.63
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.62
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.55
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.51
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.5
PRK06696	223	uridine kinase; Validated	97.49
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.43
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.4
PRK07667	193	uridine kinase; Provisional	97.4
PRK13342	413	recombination factor protein RarA; Reviewed	97.32
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	97.26
PF05729	166	NACHT: NACHT domain	97.25
PRK15455	644	PrkA family serine protein kinase; Provisional	97.24
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.2
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.19
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.18
PRK05480	209	uridine/cytidine kinase; Provisional	97.17
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.14
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.14
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.12
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.11
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.11
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	97.11
PRK08233	182	hypothetical protein; Provisional	97.1
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.1
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.07
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.05
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.04
KOG2028	554	consensus ATPase related to the helicase subunit o	97.01
PRK12402	337	replication factor C small subunit 2; Reviewed	97.0
PRK04195	482	replication factor C large subunit; Provisional	96.98
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	96.97
CHL00095	821	clpC Clp protease ATP binding subunit	96.92
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.92
PRK06762	166	hypothetical protein; Provisional	96.91
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.89
PTZ00301	210	uridine kinase; Provisional	96.89
PRK05541	176	adenylylsulfate kinase; Provisional	96.88
PHA02544	316	44 clamp loader, small subunit; Provisional	96.87
PRK06547	172	hypothetical protein; Provisional	96.87
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.87
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.86
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	96.86
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.85
COG2256	436	MGS1 ATPase related to the helicase subunit of the	96.85
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.84
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.83
PRK03992	389	proteasome-activating nucleotidase; Provisional	96.81
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.81
PRK04040	188	adenylate kinase; Provisional	96.8
PRK13341	725	recombination factor protein RarA/unknown domain f	96.79
smart00382	148	AAA ATPases associated with a variety of cellular	96.78
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.74
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.74
PF00004	132	AAA: ATPase family associated with various cellula	96.73
PRK03839	180	putative kinase; Provisional	96.72
PRK10865	857	protein disaggregation chaperone; Provisional	96.72
PF13173	128	AAA_14: AAA domain	96.71
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.7
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	96.69
PLN03025	319	replication factor C subunit; Provisional	96.68
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.67
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.62
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.62
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.61
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.61
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.6
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.6
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.6
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.56
PRK05564	313	DNA polymerase III subunit delta'; Validated	96.56
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.56
PRK14738	206	gmk guanylate kinase; Provisional	96.55
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.55
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.54
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.54
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.53
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.52
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.52
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.51
CHL00181	287	cbbX CbbX; Provisional	96.49
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.49
PRK05439	311	pantothenate kinase; Provisional	96.49
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.48
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.48
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	96.48
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.47
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.46
PRK00131	175	aroK shikimate kinase; Reviewed	96.46
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.45
PRK00625	173	shikimate kinase; Provisional	96.45
PHA00729	226	NTP-binding motif containing protein	96.45
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.44
PRK00889	175	adenylylsulfate kinase; Provisional	96.43
PRK00300	205	gmk guanylate kinase; Provisional	96.43
PLN02318	656	phosphoribulokinase/uridine kinase	96.41
PRK06217	183	hypothetical protein; Validated	96.4
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.38
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	96.36
PRK03846	198	adenylylsulfate kinase; Provisional	96.35
PRK13695	174	putative NTPase; Provisional	96.34
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.32
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.31
PRK13765	637	ATP-dependent protease Lon; Provisional	96.31
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.31
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	96.3
PRK13975	196	thymidylate kinase; Provisional	96.29
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.29
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	96.28
PRK13949	169	shikimate kinase; Provisional	96.28
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.28
PRK06893	229	DNA replication initiation factor; Validated	96.27
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.26
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.26
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.24
PRK13947	171	shikimate kinase; Provisional	96.24
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.23
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.23
COG1100	219	GTPase SAR1 and related small G proteins [General	96.23
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.22
PRK04841	903	transcriptional regulator MalT; Provisional	96.22
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	96.22
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	96.21
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.21
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	96.19
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.18
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.18
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.17
PRK14530	215	adenylate kinase; Provisional	96.16
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.15
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	96.15
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.14
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.13
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.13
PRK08727	233	hypothetical protein; Validated	96.1
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.1
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.1
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.1
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.08
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.08
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.06
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.05
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.05
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.05
TIGR01287	275	nifH nitrogenase iron protein. This model describe	96.05
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.04
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.04
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	96.04
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.04
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.04
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	96.04
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.04
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	96.03
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	96.02
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	96.01
PRK08084	235	DNA replication initiation factor; Provisional	96.01
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.01
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	96.01
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	96.01
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.0
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	96.0
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.99
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.99
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.98
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	95.98
PLN02796	347	D-glycerate 3-kinase	95.98
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	95.97
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.97
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	95.97
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	95.96
PLN02348	395	phosphoribulokinase	95.96
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	95.96
PRK09087	226	hypothetical protein; Validated	95.94
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.94
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	95.94
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	95.93
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	95.93
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.93
PRK04182	180	cytidylate kinase; Provisional	95.93
PRK14527	191	adenylate kinase; Provisional	95.93
PRK10536	262	hypothetical protein; Provisional	95.93
PRK06620	214	hypothetical protein; Validated	95.93
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.93
cd03116	159	MobB Molybdenum is an essential trace element in t	95.92
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	95.92
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	95.91
PRK05057	172	aroK shikimate kinase I; Reviewed	95.91
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	95.91
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	95.9
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	95.9
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	95.9
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.89
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.89
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	95.89
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.89
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	95.89
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	95.88
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.88
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	95.87
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	95.86
PRK13232	273	nifH nitrogenase reductase; Reviewed	95.86
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	95.86
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	95.85
cd02117	212	NifH_like This family contains the NifH (iron prot	95.84
PRK08356	195	hypothetical protein; Provisional	95.84
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	95.84
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	95.83
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.83
PRK06761	282	hypothetical protein; Provisional	95.83
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	95.83
PRK09825	176	idnK D-gluconate kinase; Provisional	95.83
cd03269	210	ABC_putative_ATPase This subfamily is involved in	95.82
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	95.82
PRK05642	234	DNA replication initiation factor; Validated	95.82
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	95.81
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	95.81
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	95.81
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	95.8
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	95.79
PRK13230	279	nitrogenase reductase-like protein; Reviewed	95.79
PRK14737	186	gmk guanylate kinase; Provisional	95.78
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	95.78
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	95.77
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	95.77
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	95.77
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	95.76
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	95.76
PRK13531	498	regulatory ATPase RavA; Provisional	95.76
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	95.76
PF07726	131	AAA_3: ATPase family associated with various cellu	95.75
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	95.75
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.74
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	95.74
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	95.74
PLN02200	234	adenylate kinase family protein	95.73
PRK10416	318	signal recognition particle-docking protein FtsY;	95.73
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	95.72
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	95.72
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.72
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	95.72
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	95.72
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	95.72
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	95.72
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	95.72
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	95.71
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	95.71
PRK08099	399	bifunctional DNA-binding transcriptional repressor	95.71
cd02040	270	NifH NifH gene encodes component II (iron protein)	95.71
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	95.71
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.7
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	95.69
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	95.69
PRK01184	184	hypothetical protein; Provisional	95.68
PRK13236	296	nitrogenase reductase; Reviewed	95.68
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	95.68
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	95.67
PRK12608	380	transcription termination factor Rho; Provisional	95.66
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	95.65
cd03114	148	ArgK-like The function of this protein family is u	95.65
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	95.64
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	95.64
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	95.64
PRK13768	253	GTPase; Provisional	95.64
PRK13233	275	nifH nitrogenase reductase; Reviewed	95.64
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	95.63
PRK13946	184	shikimate kinase; Provisional	95.62
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	95.62
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.62
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	95.62
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	95.61
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	95.61
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	95.61
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	95.61
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	95.61
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	95.6
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	95.6
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	95.6
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.6
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	95.6
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	95.59
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	95.59
PRK12377	248	putative replication protein; Provisional	95.59
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	95.58
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	95.58
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	95.57
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	95.57
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	95.56
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.56
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	95.56
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	95.55
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	95.55
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	95.54
PRK06835	329	DNA replication protein DnaC; Validated	95.54
PRK00698	205	tmk thymidylate kinase; Validated	95.54
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	95.54
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	95.53
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	95.52
PRK03731	171	aroL shikimate kinase II; Reviewed	95.52
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.52
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	95.52
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.52
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	95.51
PRK13235	274	nifH nitrogenase reductase; Reviewed	95.51
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.5
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.5
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	95.49
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.49
cd03115	173	SRP The signal recognition particle (SRP) mediates	95.49
PRK10908	222	cell division protein FtsE; Provisional	95.49
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.49
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	95.49
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	95.49
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	95.49
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	95.48
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.48
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	95.48
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	95.48
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	95.47
PRK13231	264	nitrogenase reductase-like protein; Reviewed	95.47
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	95.47
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	95.47
PRK15453	290	phosphoribulokinase; Provisional	95.46
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	95.46
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	95.46
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	95.45
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	95.45
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	95.45
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	95.44
PLN03046	460	D-glycerate 3-kinase; Provisional	95.44
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	95.43
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	95.43
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.42
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	95.42
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	95.42
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	95.42
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	95.41
cd03246	173	ABCC_Protease_Secretion This family represents the	95.41
PRK14532	188	adenylate kinase; Provisional	95.41
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	95.4
PRK13948	182	shikimate kinase; Provisional	95.4
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	95.4
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	95.39
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	95.39
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	95.39
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	95.39
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.38
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	95.38
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	95.38
) 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	95.38
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	95.37
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	95.37
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	95.36
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.36
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	95.36
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	95.35
COG3899	849	Predicted ATPase [General function prediction only	95.35
TIGR00101	199	ureG urease accessory protein UreG. This model rep	95.35
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	95.35
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	95.35
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	95.34
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	95.34
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	95.34
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.34
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.34
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	95.33
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	95.33
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	95.33
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	95.33
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	95.32
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.32
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.32
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	95.32
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	95.32
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	95.32
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	95.32
PRK02496	184	adk adenylate kinase; Provisional	95.32
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	95.32
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	95.31
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	95.31
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	95.31
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	95.3
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	95.3
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	95.3
cd03215	182	ABC_Carb_Monos_II This family represents domain II	95.29
PTZ00088	229	adenylate kinase 1; Provisional	95.29
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	95.28
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	95.28
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	95.28
smart00178	184	SAR Sar1p-like members of the Ras-family of small	95.28
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	95.27
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	95.27
PRK07429	327	phosphoribulokinase; Provisional	95.26
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	95.26
PRK14974	336	cell division protein FtsY; Provisional	95.25
PRK00089	292	era GTPase Era; Reviewed	95.24
PRK14531	183	adenylate kinase; Provisional	95.24
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	95.23
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.23
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	95.23
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	95.23
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	95.23
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	95.23
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	95.23
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	95.23
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	95.22
PHA02530	300	pseT polynucleotide kinase; Provisional	95.22
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	95.22
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	95.22
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	95.21
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	95.21
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	95.21
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	95.2
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	95.2
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	95.2
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	95.2
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	95.2
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	95.2
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	95.19
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	95.19
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	95.18
cd02032	267	Bchl_like This family of proteins contains bchL an	95.18
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	95.18
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	95.18
PRK10865	857	protein disaggregation chaperone; Provisional	95.18
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	95.18
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	95.17
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	95.17
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	95.17
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	95.17
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.16
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	95.16
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	95.16
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	95.15
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	95.15
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	95.15
PRK07940	394	DNA polymerase III subunit delta'; Validated	95.15
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.15
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	95.14
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.14
CHL00176	638	ftsH cell division protein; Validated	95.14
cd03234	226	ABCG_White The White subfamily represents ABC tran	95.14
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.14
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	95.14
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	95.14
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	95.13
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	95.13
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	95.13
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	95.13
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	95.13
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	95.13
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	95.13
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	95.13
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	95.12
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	95.12
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	95.12
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	95.12
PRK09183	259	transposase/IS protein; Provisional	95.12
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	95.11
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	95.11
KOG3308	225	consensus Uncharacterized protein of the uridine k	95.11
PRK11608	326	pspF phage shock protein operon transcriptional ac	95.11
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	95.11
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	95.1
PRK14730	195	coaE dephospho-CoA kinase; Provisional	95.09
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	95.09
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	95.08
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	95.08
COG0410	237	LivF ABC-type branched-chain amino acid transport	95.08
COG3638	258	ABC-type phosphate/phosphonate transport system, A	95.08
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	95.08
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	95.07
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	95.07
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	95.07
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	95.07
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	95.06
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	95.06
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	95.06
PHA02575	227	1 deoxynucleoside monophosphate kinase; Provisiona	95.06
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.05
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.05
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	95.05
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	95.05
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	95.05

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.93  E-value=9.5e-25  Score=216.46  Aligned_cols=224  Identities=18%  Similarity=0.214  Sum_probs=167.9

Q ss_pred             CcchHHHHHHHHHHhhccccCCchhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccCCCCCCChHHHHHHHHHHHH
Q 038685            1 MDINFRLFSERLRRLVEGEEGTLPDAAKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKD   80 (265)
Q Consensus         1 ~~~~v~~~~~kl~~~l~~~e~~~~~~~~~~~~~L~~~l~~l~~~l~~ae~~~~~~~~~~~~~~~~~~~~~v~~Wl~~lr~   80 (265)
                      |++.++..++|+.+++. +++..+.+.+.++..|++.|..++++++++++         +   +... ..+..|...+++
T Consensus         1 ~~~~~s~~~~~~~~~l~-~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a---------~---~~~~-~~~~~~~e~~~~   66 (889)
T KOG4658|consen    1 MGACVSFGVEKLDQLLN-RESECLDGKDNYILELKENLKALQSALEDLDA---------K---RDDL-ERRVNWEEDVGD   66 (889)
T ss_pred             CCeEEEEehhhHHHHHH-HHHHHHhchHHHHHHHHHHHHHHHHHHHHHHh---------h---cchH-HHHHHHHHHHHH
Confidence            67788888999999999 99999999999999999999999999999999         7   7777 889999999999


Q ss_pred             HHHhhHHHHHHHHHhhhhhccCCCcc-------c-cchhhhhhHHHHHHHHHHHHHhHhhcccccchhhhhccccCCCC-
Q 038685           81 FVHESEKVIYIFMISRITQQISGSSS-------K-DLFDALLGLQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEARNS-  151 (265)
Q Consensus        81 ~~~~~eDild~~~~~~~~~~~~~~~~-------~-~~~~~~~~i~~~i~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~-  151 (265)
                      +.|+++|+++.+.......+..+..+       + +...+.++.+..+..+..++..+.+..+.+.............. 
T Consensus        67 ~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~  146 (889)
T KOG4658|consen   67 LVYLAEDIIWLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDP  146 (889)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccc
Confidence            99999999999988776543222211       1 22234444444444444444444333333310000000000000 


Q ss_pred             ---C-CCCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhccc-ccccCCeeEEEe--CCCC
Q 038685          152 ---S-STAGSKKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNY-MKNYFYCRAWVG--CEYY  224 (265)
Q Consensus       152 ---~-~s~~~~~~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~-v~~~F~~~~wV~--~~~~  224 (265)
                         . ..+.....+ ||.+..++++++.|+.++.  .+|||+||||+||||||+.|||+.. ++.+|+.+|||+  ++|+
T Consensus       147 ~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~~--~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~  223 (889)
T KOG4658|consen  147 REKVETRPIQSESD-VGLETMLEKLWNRLMEDDV--GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFT  223 (889)
T ss_pred             hhhcccCCCCcccc-ccHHHHHHHHHHHhccCCC--CEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEccccc
Confidence               1 111223334 9999999999999998774  9999999999999999999999988 999999999999  9999


Q ss_pred             HHHHHHHHHHHhCCCCC
Q 038685          225 LHKVLDNIIKSVMPRSM  241 (265)
Q Consensus       225 ~~~l~~~Il~~l~~~~~  241 (265)
                      ..+++++|++.++....
T Consensus       224 ~~~iq~~Il~~l~~~~~  240 (889)
T KOG4658|consen  224 TRKIQQTILERLGLLDE  240 (889)
T ss_pred             HHhHHHHHHHHhccCCc
Confidence            99999999999987443

>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=99.55  E-value=3.1e-14  Score=125.24  Aligned_cols=96  Identities=25%  Similarity=0.316  Sum_probs=76.6

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCCCHHHHHHHHHHHhCCCCCC
Q 038685          165 LEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEYYLHKVLDNIIKSVMPRSMG  242 (265)
Q Consensus       165 ~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~~~~~l~~~Il~~l~~~~~~  242 (265)
                      ||.++++|.++|....++.++|+|+||||+||||||+.+|++..++.+|+.++||.  +..+...+++.|++++......
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            68899999999998667899999999999999999999999878999999999999  7788899999999999987543


Q ss_pred             C-ccCChHHhHHHHHHhhc
Q 038685          243 S-EIMDKDYELKITTDTTR  260 (265)
Q Consensus       243 ~-~~~~~~~~~~~~~d~lr  260 (265)
                      . ...+.+.....+.+.|+
T Consensus        81 ~~~~~~~~~~~~~l~~~L~   99 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLK   99 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHC
T ss_pred             cccccccccccccchhhhc
Confidence            3 23333334444444443

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=99.07  E-value=3.6e-10  Score=117.09  Aligned_cols=61  Identities=26%  Similarity=0.468  Sum_probs=53.8

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          158 KKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      ..+++||++..++++..+|.-+.+..++|+||||||+||||||+.+|+  .+..+|+..+|+.
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~  242 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFID  242 (1153)
T ss_pred             ccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEee
Confidence            446899999999999999865666799999999999999999999999  5778999988874

syringae 6; Provisional

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

Probab=98.44  E-value=3.6e-07  Score=79.15  Aligned_cols=53  Identities=13%  Similarity=-0.120  Sum_probs=45.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe----CCCCHHHHHHHHHHHh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG----CEYYLHKVLDNIIKSV  236 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~----~~~~~~~l~~~Il~~l  236 (265)
                      -..++|+|.+|+|||||++.+|++.... +|++++||+    +.+++.++++.|...+
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~   72 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEV   72 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEE
Confidence            4678999999999999999999976554 999999998    4489999999994443

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=98.44  E-value=2.1e-07  Score=84.68  Aligned_cols=51  Identities=16%  Similarity=-0.108  Sum_probs=43.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCC--CHHHHHHHHHH
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEY--YLHKVLDNIIK  234 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~--~~~~l~~~Il~  234 (265)
                      -.-.+|+|++|+||||||+.||++...+ ||++++||.  .++  .+.+++++|+.
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg  223 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKG  223 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcC
Confidence            4567899999999999999999986555 999999998  666  78889988874

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.43  E-value=2.3e-06  Score=78.80  Aligned_cols=81  Identities=15%  Similarity=0.124  Sum_probs=60.0

Q ss_pred             CCCcccccHHHHHHHHHHHhcC--CCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCCCHHHHHHHHH
Q 038685          158 KKRNIVGLEDEMKELLDLLIVG--EPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEYYLHKVLDNII  233 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~~--~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~~~~~l~~~Il  233 (265)
                      .++.++||+++.++|...|...  ......+-|+|++|+||||+++.++++.......-..++|.  ...+...++..|+
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            4568999999999999998442  22344567999999999999999999643322123345555  4456788999999


Q ss_pred             HHhCC
Q 038685          234 KSVMP  238 (265)
Q Consensus       234 ~~l~~  238 (265)
                      +++..
T Consensus       108 ~~l~~  112 (394)
T PRK00411        108 RQLFG  112 (394)
T ss_pred             HHhcC
Confidence            99976

>PTZ00202 tuzin; Provisional

Probab=98.38  E-value=1.1e-05  Score=74.40  Aligned_cols=98  Identities=16%  Similarity=0.097  Sum_probs=70.5

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHhcCC-CCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHH
Q 038685          154 TAGSKKRNIVGLEDEMKELLDLLIVGE-PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNI  232 (265)
Q Consensus       154 s~~~~~~~~vG~e~~~~~l~~~L~~~~-~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~I  232 (265)
                      +.+.+..+++||+.+...|...|...+ ....++.|.|++|+|||||++.+.....      ..+++....+..++++.|
T Consensus       256 ~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~------~~qL~vNprg~eElLr~L  329 (550)
T PTZ00202        256 SAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG------MPAVFVDVRGTEDTLRSV  329 (550)
T ss_pred             CCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC------ceEEEECCCCHHHHHHHH
Confidence            344566899999999999999886533 2356999999999999999999997432      224444223889999999


Q ss_pred             HHHhCCCCCCCccCChHHhHHHHHHhhcc
Q 038685          233 IKSVMPRSMGSEIMDKDYELKITTDTTRP  261 (265)
Q Consensus       233 l~~l~~~~~~~~~~~~~~~~~~~~d~lr~  261 (265)
                      +.+|+....    ......+..+.+.+.+
T Consensus       330 L~ALGV~p~----~~k~dLLrqIqeaLl~  354 (550)
T PTZ00202        330 VKALGVPNV----EACGDLLDFISEACRR  354 (550)
T ss_pred             HHHcCCCCc----ccHHHHHHHHHHHHHH
Confidence            999997321    2233455666666543

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.30  E-value=6.7e-06  Score=74.90  Aligned_cols=80  Identities=20%  Similarity=0.115  Sum_probs=58.5

Q ss_pred             CCCcccccHHHHHHHHHHHhcC--CCCeEEEEEEcCCCCChhHHHHHHhhccccc-ccC---CeeEEEe--CCCCHHHHH
Q 038685          158 KKRNIVGLEDEMKELLDLLIVG--EPSLSVVAIVGSSGFDKTDFAGEAYNSNYMK-NYF---YCRAWVG--CEYYLHKVL  229 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~~--~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~-~~F---~~~~wV~--~~~~~~~l~  229 (265)
                      .++.++||+.+.++|..+|...  ......+-|+|++|+||||+++.++++..-. ...   -..+||.  ...+...++
T Consensus        13 ~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~   92 (365)
T TIGR02928        13 VPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVL   92 (365)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHH
Confidence            4468999999999999998641  2334568899999999999999999853211 111   1345666  444678899


Q ss_pred             HHHHHHhC
Q 038685          230 DNIIKSVM  237 (265)
Q Consensus       230 ~~Il~~l~  237 (265)
                      ..|++++.
T Consensus        93 ~~i~~~l~  100 (365)
T TIGR02928        93 VELANQLR  100 (365)
T ss_pred             HHHHHHHh
Confidence            99999995

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=98.23  E-value=3e-06  Score=69.21  Aligned_cols=50  Identities=28%  Similarity=0.321  Sum_probs=33.9

Q ss_pred             cccccHHHHHHHHHHHh-cCCCCeEEEEEEcCCCCChhHHHHHHhhccccc
Q 038685          161 NIVGLEDEMKELLDLLI-VGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMK  210 (265)
Q Consensus       161 ~~vG~e~~~~~l~~~L~-~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~  210 (265)
                      .++||+++.+++...|. ......+.+-|+|.+|+|||||++.++......
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            47999999999999994 223457899999999999999999999864443

>TIGR00767 rho transcription termination factor Rho

Probab=98.05  E-value=6.6e-06  Score=75.36  Aligned_cols=55  Identities=13%  Similarity=-0.104  Sum_probs=45.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe----CCCCHHHHHHHHHHHhCC
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG----CEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~----~~~~~~~l~~~Il~~l~~  238 (265)
                      -..++|+|.+|+|||||++.|++.... +||++.+||.    +..++.++++.|+..+-.
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vva  226 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGEVVA  226 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhceEEE
Confidence            467899999999999999999997444 3899999998    448999999999665543

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

>PRK08118 topology modulation protein; Reviewed

Probab=98.03  E-value=7.1e-06  Score=66.83  Aligned_cols=36  Identities=17%  Similarity=0.259  Sum_probs=30.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhhccccc-ccCCeeEEEe
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSNYMK-NYFYCRAWVG  220 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~~v~-~~F~~~~wV~  220 (265)
                      .|.|+|++|+||||||+.+++...+. -+||..+|-.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~   39 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKP   39 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhccc
Confidence            58899999999999999999976665 5788888654

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

Probab=97.87  E-value=0.00011  Score=63.86  Aligned_cols=72  Identities=14%  Similarity=0.081  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHhcC-CCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCHHHHHHHHHHHhCCCC
Q 038685          167 DEMKELLDLLIVG-EPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYLHKVLDNIIKSVMPRS  240 (265)
Q Consensus       167 ~~~~~l~~~L~~~-~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~~~l~~~Il~~l~~~~  240 (265)
                      .....+...|... .....++.|+|++|+|||||++.+++..... .+ +.+|+. ...+..+++..|...++...
T Consensus        26 ~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~-~~-~~~~~~~~~~~~~~~l~~i~~~lG~~~   99 (269)
T TIGR03015        26 KGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLDQE-RV-VAAKLVNTRVDAEDLLRMVAADFGLET   99 (269)
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcCCC-Ce-EEeeeeCCCCCHHHHHHHHHHHcCCCC
Confidence            3334455544322 2235688999999999999999999964422 11 334555 66788899999999887653

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.

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=97.84  E-value=1.5e-05  Score=67.08  Aligned_cols=44  Identities=30%  Similarity=0.390  Sum_probs=36.2

Q ss_pred             ccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          162 IVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       162 ~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ++||+.+.+.|.+++..+.  ...+.|+|+.|+|||+|++.+.+..
T Consensus         1 F~gR~~el~~l~~~l~~~~--~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGP--SQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhhc--CcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            5899999999999987654  6778899999999999999999953

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

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

Probab=97.80  E-value=5.7e-05  Score=58.17  Aligned_cols=60  Identities=12%  Similarity=0.070  Sum_probs=41.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhccccc---ccCCeeEEEe--CCCCHHHHHHHHHHHhCCCCCC
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMK---NYFYCRAWVG--CEYYLHKVLDNIIKSVMPRSMG  242 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~---~~F~~~~wV~--~~~~~~~l~~~Il~~l~~~~~~  242 (265)
                      -+++.|+|.+|+||||+++.+.+...-.   ..-...+|+.  ...+...+...|++++......
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~   68 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS   68 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc
Confidence            4678999999999999999999852110   0023456888  4448999999999999987654

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

Probab=97.72  E-value=7.5e-05  Score=69.50  Aligned_cols=66  Identities=15%  Similarity=0.095  Sum_probs=52.9

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCCCHHHHH
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEYYLHKVL  229 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~~~~~l~  229 (265)
                      .++++.++..+.+...|...    +.|.++|++|+||||+|+.+.+......+|+.+.||+  +.++..+++
T Consensus       175 ~d~~i~e~~le~l~~~L~~~----~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI  242 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK----KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFI  242 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC----CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHh
Confidence            46888899999999988753    4667899999999999999998765556788888988  666665554

>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=97.66  E-value=7.7e-05  Score=57.53  Aligned_cols=54  Identities=20%  Similarity=0.213  Sum_probs=38.5

Q ss_pred             cccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          163 VGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       163 vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      +|++.....+...+...  ....+-|+|.+|+|||||++.+++...  ..-...+++.
T Consensus         1 ~~~~~~~~~i~~~~~~~--~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~   54 (151)
T cd00009           1 VGQEEAIEALREALELP--PPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLN   54 (151)
T ss_pred             CchHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEe
Confidence            36777777887777553  356788999999999999999999532  1123345555

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.

>PRK07261 topology modulation protein; Provisional

Probab=97.63  E-value=0.00012  Score=59.70  Aligned_cols=52  Identities=17%  Similarity=0.110  Sum_probs=34.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhhccccc-ccCCeeEEEe--CCCCHHHHHHHHHHHh
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSNYMK-NYFYCRAWVG--CEYYLHKVLDNIIKSV  236 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~~v~-~~F~~~~wV~--~~~~~~~l~~~Il~~l  236 (265)
                      .|.|+|++|+||||||+.+.....+. -+.|...|-.  ...+..++...+..-+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~   56 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFL   56 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHH
Confidence            48999999999999999998753322 2566666765  4444555555444433

>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=97.62  E-value=4.3e-05  Score=58.20  Aligned_cols=22  Identities=32%  Similarity=0.439  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ||.|.|++|+||||+|+.+.+.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999885

...

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.55  E-value=7.6e-05  Score=66.34  Aligned_cols=48  Identities=21%  Similarity=0.295  Sum_probs=39.2

Q ss_pred             CcccccHHHHHHHHHHHhcC---CCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIVG---EPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~---~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .+++|++..++.|..++...   ......+-++|++|+||||||+.+.+..
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~   54 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM   54 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999998888532   2335567799999999999999999853

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.

>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=97.51  E-value=0.00018  Score=61.03  Aligned_cols=53  Identities=23%  Similarity=0.253  Sum_probs=35.7

Q ss_pred             CCcccccHHHHHHHHHHHhc---CCCCeEEEEEEcCCCCChhHHHHHHhhcccccccC
Q 038685          159 KRNIVGLEDEMKELLDLLIV---GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYF  213 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~~---~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F  213 (265)
                      -+++||-+.-++.+.-++..   ..+.+.-+-.||++|+||||||+.|-+.  ....|
T Consensus        23 L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e--~~~~~   78 (233)
T PF05496_consen   23 LDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANE--LGVNF   78 (233)
T ss_dssp             CCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHH--CT--E
T ss_pred             HHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhc--cCCCe
Confidence            37899998888877655542   2345777889999999999999999995  44444

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.

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.50  E-value=0.00012  Score=66.40  Aligned_cols=59  Identities=14%  Similarity=0.299  Sum_probs=47.9

Q ss_pred             CcccccHHHHHHHHHHHhcC----CCCeEEEEEEcCCCCChhHHHHHHhhcccc-----cccCCeeEE
Q 038685          160 RNIVGLEDEMKELLDLLIVG----EPSLSVVAIVGSSGFDKTDFAGEAYNSNYM-----KNYFYCRAW  218 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~----~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v-----~~~F~~~~w  218 (265)
                      .+++|.++.++++++++...    ....+++.++|++|+||||||+.+.+.-..     .+.|...-|
T Consensus        51 ~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       51 HDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             hhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            48999999999999999642    335689999999999999999999885432     236777777

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

>PRK06696 uridine kinase; Validated

Probab=97.49  E-value=0.00018  Score=61.27  Aligned_cols=42  Identities=29%  Similarity=0.273  Sum_probs=34.5

Q ss_pred             cHHHHHHHHHHHhc-CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          165 LEDEMKELLDLLIV-GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       165 ~e~~~~~l~~~L~~-~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.+-.++|.+.+.. ......+|+|.|.+|+||||||+.+.+.
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~   45 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEE   45 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            55667788887764 3456889999999999999999999884

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

Probab=97.43  E-value=0.00052  Score=62.11  Aligned_cols=75  Identities=21%  Similarity=0.274  Sum_probs=63.2

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCC-eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCCCHHHHHHHHHH
Q 038685          158 KKRNIVGLEDEMKELLDLLIVGEPS-LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEYYLHKVLDNIIK  234 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~~~~~-~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~~~~~l~~~Il~  234 (265)
                      .++.+.+|+.....|..++...+.. ++.|-|+|..|.|||.+++.+++..+.     ..+|++  ..|+...++..|+.
T Consensus         4 l~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~-----~~vw~n~~ecft~~~lle~IL~   78 (438)
T KOG2543|consen    4 LEPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNL-----ENVWLNCVECFTYAILLEKILN   78 (438)
T ss_pred             cccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCC-----cceeeehHHhccHHHHHHHHHH
Confidence            3467889999999999988766543 455689999999999999999997533     359999  88999999999999


Q ss_pred             HhC
Q 038685          235 SVM  237 (265)
Q Consensus       235 ~l~  237 (265)
                      +++
T Consensus        79 ~~~   81 (438)
T KOG2543|consen   79 KSQ   81 (438)
T ss_pred             Hhc
Confidence            996

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.40  E-value=0.00018  Score=64.79  Aligned_cols=48  Identities=23%  Similarity=0.285  Sum_probs=39.5

Q ss_pred             CcccccHHHHHHHHHHHhc---CCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIV---GEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~---~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .+++|++..++.+..++..   .......+-++|++|+||||||+.+.+..
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l   75 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM   75 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh
Confidence            6799999999999887753   23345677899999999999999999853

>PRK07667 uridine kinase; Provisional

Probab=97.40  E-value=0.00024  Score=59.16  Aligned_cols=38  Identities=21%  Similarity=0.282  Sum_probs=31.4

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.+.+.|....+...+|+|-|.+|+||||||+.+...
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~   40 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKEN   40 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45667777665566789999999999999999999884

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.32  E-value=0.00034  Score=65.12  Aligned_cols=45  Identities=27%  Similarity=0.364  Sum_probs=34.6

Q ss_pred             CcccccHHHHHH---HHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKE---LLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~---l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++||.+.....   |..++..+.  ...+-++|++|+||||||+.+.+.
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~--~~~ilL~GppGtGKTtLA~~ia~~   59 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGR--LSSMILWGPPGTGKTTLARIIAGA   59 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence            568887776555   666665443  556778999999999999999884

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=97.26  E-value=0.0011  Score=58.49  Aligned_cols=104  Identities=17%  Similarity=0.115  Sum_probs=81.4

Q ss_pred             HHHHHHHHHHhhccccCCchhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccCCCCCCChHHHHHHHHHHHHHHHh
Q 038685            5 FRLFSERLRRLVEGEEGTLPDAAKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHE   84 (265)
Q Consensus         5 v~~~~~kl~~~l~~~e~~~~~~~~~~~~~L~~~l~~l~~~l~~ae~~~~~~~~~~~~~~~~~~~~~v~~Wl~~lr~~~~~   84 (265)
                      |..++++|..... ...+.+.-++.+++-++.+++.+++||+..-.         .+  ...- ...+.+..++.+.+|+
T Consensus       298 VdFlL~NLkdfq~-rysdSlaflKnQiqvIQ~elesLqpFLk~V~e---------e~--~nkh-~~~ed~a~~ii~kAye  364 (402)
T PF12061_consen  298 VDFLLKNLKDFQG-RYSDSLAFLKNQIQVIQTELESLQPFLKHVVE---------EP--HNKH-DTNEDCATQIIRKAYE  364 (402)
T ss_pred             HHHHHhhHHHHhc-cccchHHHHHHHHHHHHHHHHHhhHHHHHHHh---------cc--chhh-hhhhhHHHHHHHHHhh
Confidence            5678889999888 88888999999999999999999999999854         21  3333 4589999999999999


Q ss_pred             hHHHHHHHHHhhhhhccCCCccccchhhhhhHHHHHHHHHHHHH
Q 038685           85 SEKVIYIFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQ  128 (265)
Q Consensus        85 ~eDild~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~i~~~l~  128 (265)
                      +|.++|-|..+..   +.|    +...+...+...|+-++++++
T Consensus       365 vEYVVDaCi~k~~---P~W----cl~~WL~dIieei~~ik~~i~  401 (402)
T PF12061_consen  365 VEYVVDACISKSV---PHW----CLERWLLDIIEEITCIKAKIQ  401 (402)
T ss_pred             eeeeeehhhcCCC---cHH----HHHHHHHHHHHHHHHHHHHhc
Confidence            9999998854432   113    223566777788887777765

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>PF05729 NACHT: NACHT domain

Probab=97.25  E-value=0.00029  Score=56.10  Aligned_cols=37  Identities=16%  Similarity=0.135  Sum_probs=28.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhccccccc----CCeeEEEe
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSNYMKNY----FYCRAWVG  220 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~~v~~~----F~~~~wV~  220 (265)
                      +++-|+|.+|+||||+++.+..+-.-...    |...+|++
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~   41 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFS   41 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEe
Confidence            47889999999999999999986433332    45666776

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.24  E-value=0.00043  Score=66.24  Aligned_cols=45  Identities=16%  Similarity=0.321  Sum_probs=39.6

Q ss_pred             cccccHHHHHHHHHHHhc----CCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          161 NIVGLEDEMKELLDLLIV----GEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       161 ~~vG~e~~~~~l~~~L~~----~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +++|.++.++.+++.|..    .+..-+++.++|++|+||||||+.|.+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~  125 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKS  125 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHH
Confidence            689999999999999932    344568999999999999999999998

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

Probab=97.20  E-value=0.0043  Score=56.83  Aligned_cols=77  Identities=19%  Similarity=0.184  Sum_probs=57.8

Q ss_pred             CCcccccHHHHHHHHHHHhc---CCCCeEEEEEEcCCCCChhHHHHHHhhcccccc-cCCeeEEEe--CCCCHHHHHHHH
Q 038685          159 KRNIVGLEDEMKELLDLLIV---GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKN-YFYCRAWVG--CEYYLHKVLDNI  232 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~~---~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~-~F~~~~wV~--~~~~~~~l~~~I  232 (265)
                      ++.+.+|+.+..++...|..   +. ...-+-|+|..|.|||+.++.|.+..+... ..+ .+.|.  ...++..++..|
T Consensus        16 P~~l~~Re~ei~~l~~~l~~~~~~~-~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i   93 (366)
T COG1474          16 PEELPHREEEINQLASFLAPALRGE-RPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKI   93 (366)
T ss_pred             cccccccHHHHHHHHHHHHHHhcCC-CCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHH
Confidence            34599999999999988853   22 222288999999999999999999532221 122 56776  556789999999


Q ss_pred             HHHhC
Q 038685          233 IKSVM  237 (265)
Q Consensus       233 l~~l~  237 (265)
                      +++++
T Consensus        94 ~~~~~   98 (366)
T COG1474          94 LNKLG   98 (366)
T ss_pred             HHHcC
Confidence            99997

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

Probab=97.19  E-value=0.00028  Score=58.71  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ||+|.|.+|+||||||+.+...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~   22 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQI   22 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999884

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 ....

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.18  E-value=0.0091  Score=58.42  Aligned_cols=59  Identities=24%  Similarity=0.188  Sum_probs=44.1

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCC---eeEEEe
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFY---CRAWVG  220 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~---~~~wV~  220 (265)
                      ++++|.+..+..+...+...  ....+.|+|.+|+||||||+.+++.......+.   ...||.
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~--~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~  215 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASP--FPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVE  215 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEE
Confidence            57899999999888777533  356789999999999999999998654444432   234555

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.17  E-value=0.00034  Score=58.73  Aligned_cols=25  Identities=32%  Similarity=0.488  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +..+|+|.|.+|+|||||++.+...
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999999985

>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=97.14  E-value=0.00031  Score=53.55  Aligned_cols=21  Identities=33%  Similarity=0.392  Sum_probs=19.7

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|.|..|+||||+|+.+...
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            789999999999999999886

...

>TIGR00235 udk uridine kinase

Probab=97.14  E-value=0.00041  Score=58.31  Aligned_cols=26  Identities=35%  Similarity=0.495  Sum_probs=23.2

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.-.+|+|+|.+|+|||||++.+...
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            35689999999999999999999874

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

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

Probab=97.12  E-value=0.00062  Score=66.01  Aligned_cols=54  Identities=22%  Similarity=0.366  Sum_probs=43.3

Q ss_pred             CCCcccccHHHHHHHHHHHhc----CCCCeEEEEEEcCCCCChhHHHHHHhhcccccccC
Q 038685          158 KKRNIVGLEDEMKELLDLLIV----GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYF  213 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~----~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F  213 (265)
                      -+.+=+|.++.++.+++.|-.    ..-+-.+++.||++|||||.|++.|-+  .....|
T Consensus       321 Ld~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~--al~Rkf  378 (782)
T COG0466         321 LDKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAK--ALGRKF  378 (782)
T ss_pred             hcccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHH--HhCCCE
Confidence            445678999999999999843    233457999999999999999999998  344444

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.11  E-value=0.0021  Score=64.23  Aligned_cols=83  Identities=14%  Similarity=0.062  Sum_probs=59.6

Q ss_pred             CCCcccccHHHHHHHHHHHhc---CCCCeEEEEEEcCCCCChhHHHHHHhhcccc---cccCC--eeEEEe--CCCCHHH
Q 038685          158 KKRNIVGLEDEMKELLDLLIV---GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYM---KNYFY--CRAWVG--CEYYLHK  227 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~---~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v---~~~F~--~~~wV~--~~~~~~~  227 (265)
                      .++.++|||++.++|...|..   +.....++-|+|++|.|||++++.|.+...-   +..+.  ..++|.  .-.+...
T Consensus       753 VPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        753 VPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHH
Confidence            456799999999999998854   3333467889999999999999999875321   11222  245555  3356788


Q ss_pred             HHHHHHHHhCCCC
Q 038685          228 VLDNIIKSVMPRS  240 (265)
Q Consensus       228 l~~~Il~~l~~~~  240 (265)
                      +...|.++|....
T Consensus       833 IYqvI~qqL~g~~  845 (1164)
T PTZ00112        833 AYQVLYKQLFNKK  845 (1164)
T ss_pred             HHHHHHHHHcCCC
Confidence            8999999885543

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.11  E-value=0.00088  Score=57.22  Aligned_cols=27  Identities=22%  Similarity=0.241  Sum_probs=24.0

Q ss_pred             CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          180 EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       180 ~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .....+|+|.|..|.|||||++.+..-
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~   56 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEAL   56 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999999999988874

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=97.11  E-value=0.0013  Score=55.53  Aligned_cols=26  Identities=31%  Similarity=0.414  Sum_probs=23.6

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++.-+|||.|.+|+||||+|+.+++.
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~   31 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQ   31 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHH
Confidence            35689999999999999999999984

>PRK08233 hypothetical protein; Provisional

Probab=97.10  E-value=0.00043  Score=56.41  Aligned_cols=24  Identities=21%  Similarity=0.266  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|+|.|.+|+||||||+.+...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            479999999999999999999875

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.10  E-value=0.00068  Score=59.10  Aligned_cols=46  Identities=20%  Similarity=0.289  Sum_probs=33.8

Q ss_pred             CcccccHHHHHHHHHHH---hc-------C---CCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLL---IV-------G---EPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L---~~-------~---~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+++|.+..++.+.+..   ..       +   .+...-+-++|++|+||||+|+.+.+
T Consensus         6 ~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~   64 (261)
T TIGR02881         6 SRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGK   64 (261)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHH
Confidence            36899888887775442   11       1   23456677999999999999999976

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.07  E-value=0.00054  Score=55.00  Aligned_cols=25  Identities=20%  Similarity=0.185  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ..-|.|.||+|+|||||++.|-+..
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHH
Confidence            4568999999999999999999853

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.05  E-value=0.00068  Score=61.98  Aligned_cols=49  Identities=22%  Similarity=0.308  Sum_probs=38.8

Q ss_pred             CCCcccccHHHHHHHHHHHhcC--C---------CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          158 KKRNIVGLEDEMKELLDLLIVG--E---------PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~~--~---------~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+++.|++..+++|.+.+...  .         ...+-+.++|++|+||||||+.+.+.
T Consensus       120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~  179 (364)
T TIGR01242       120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE  179 (364)
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            3467999999999998877421  1         12455889999999999999999984

Many proteins may score above the trusted cutoff because an internal

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

Probab=97.04  E-value=0.013  Score=57.09  Aligned_cols=48  Identities=25%  Similarity=0.428  Sum_probs=41.8

Q ss_pred             CCCcccccHHHHHHHHHHHhc----CCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          158 KKRNIVGLEDEMKELLDLLIV----GEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~----~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -+.+=+|+++.++.++++|-.    ++-+-++++.+|++|||||.+++.|-.
T Consensus       409 LdeDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~  460 (906)
T KOG2004|consen  409 LDEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIAR  460 (906)
T ss_pred             hcccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHH
Confidence            456789999999999999843    455678999999999999999999987

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

Probab=97.01  E-value=0.0013  Score=59.48  Aligned_cols=27  Identities=19%  Similarity=0.241  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhccc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNY  208 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~  208 (265)
                      .+.-+-.||++|+||||||+.|-+..+
T Consensus       161 ~ipSmIlWGppG~GKTtlArlia~tsk  187 (554)
T KOG2028|consen  161 RIPSMILWGPPGTGKTTLARLIASTSK  187 (554)
T ss_pred             CCCceEEecCCCCchHHHHHHHHhhcC
Confidence            466666999999999999999999533

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.00  E-value=0.0009  Score=60.06  Aligned_cols=45  Identities=18%  Similarity=0.239  Sum_probs=37.4

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.|..++..+.  ...+-++|++|+||||+|+.+.+.
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~GtGKT~la~~~~~~   59 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPN--LPHLLVQGPPGSGKTAAVRALARE   59 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999988886543  445679999999999999998774

>PRK04195 replication factor C large subunit; Provisional

Probab=96.98  E-value=0.00085  Score=63.73  Aligned_cols=47  Identities=21%  Similarity=0.273  Sum_probs=39.7

Q ss_pred             CcccccHHHHHHHHHHHhcCC--CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGE--PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~--~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..+..|.+|+..-.  ...+.+-|+|++|+||||+|+.+.++
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~e   62 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALAND   62 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            579999999999999986421  22678889999999999999999885

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=96.97  E-value=0.0067  Score=48.26  Aligned_cols=108  Identities=12%  Similarity=0.175  Sum_probs=83.9

Q ss_pred             cchHHHHHHHHHHhhccccCCchhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccCCCCCCChHHHHHHHHHHHHH
Q 038685            2 DINFRLFSERLRRLVEGEEGTLPDAAKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDF   81 (265)
Q Consensus         2 ~~~v~~~~~kl~~~l~~~e~~~~~~~~~~~~~L~~~l~~l~~~l~~ae~~~~~~~~~~~~~~~~~~~~~v~~Wl~~lr~~   81 (265)
                      ++|++.+++.|...+. ...+....++.-++.|.+.++.+...+.+.+.         ..  ...+ ..-+.=++++.+.
T Consensus         8 gaalG~~~~eLlk~v~-~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~---------~~--~eld-~~~~ee~e~L~~~   74 (147)
T PF05659_consen    8 GAALGAVFGELLKAVI-DASKKSLSFKSILKRLESTLESIIPIIKEIDK---------LN--VELD-RPRQEEIERLKEL   74 (147)
T ss_pred             HHHHHHHHHHHHHHHH-HHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHH---------Hh--hhcC-CchhHHHHHHHHH
Confidence            4677788888888888 77788888999999999999999999999998         42  3333 3336678899999


Q ss_pred             HHhhHHHHHHHHHhhhhhccCCCccccchhhhhhHHHHHHHHHHHHHhHhh
Q 038685           82 VHESEKVIYIFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRP  132 (265)
Q Consensus        82 ~~~~eDild~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~i~~~l~~l~~  132 (265)
                      ..++++++..|..          +++++++..++..++|+++.+.+.....
T Consensus        75 L~~g~~LV~k~sk----------~~r~n~~kk~~y~~Ki~~le~~l~~f~~  115 (147)
T PF05659_consen   75 LEKGKELVEKCSK----------VRRWNLYKKPRYARKIEELEESLRRFIQ  115 (147)
T ss_pred             HHHHHHHHHHhcc----------ccHHHHHhhHhHHHHHHHHHHHHHHHhc
Confidence            9999999998832          1123455567788899888888877654

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.92  E-value=0.00097  Score=67.34  Aligned_cols=45  Identities=20%  Similarity=0.333  Sum_probs=37.5

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++||+.+.+.+++.|..... .++ -++|.+|+|||++|+.+...
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~-~n~-lL~G~pGvGKTal~~~la~~  223 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTK-NNP-ILIGEPGVGKTAIAEGLAQR  223 (821)
T ss_pred             CCCCCcHHHHHHHHHHHccccc-CCe-EEECCCCCCHHHHHHHHHHH
Confidence            5799999999999999976532 233 49999999999999998774

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.92  E-value=0.0019  Score=54.59  Aligned_cols=40  Identities=18%  Similarity=0.141  Sum_probs=30.6

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          165 LEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       165 ~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -+.....+..++..  .....|-|+|..|+||||||+.+++.
T Consensus        22 ~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKT~la~~~~~~   61 (226)
T TIGR03420        22 NAELLAALRQLAAG--KGDRFLYLWGESGSGKSHLLQAACAA   61 (226)
T ss_pred             cHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            45566666666543  23567889999999999999999985

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.

>PRK06762 hypothetical protein; Provisional

Probab=96.91  E-value=0.00077  Score=54.33  Aligned_cols=24  Identities=29%  Similarity=0.382  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|+|++|+||||+|+.+.+.
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999874

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.89  E-value=0.0029  Score=52.99  Aligned_cols=50  Identities=12%  Similarity=0.026  Sum_probs=37.6

Q ss_pred             CCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCHHHHHH
Q 038685          179 GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYLHKVLD  230 (265)
Q Consensus       179 ~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~~~l~~  230 (265)
                      +=+.-.++-|+|.+|+|||+|+..+..+  .......++|++ ..++...+.+
T Consensus         8 Gi~~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~~~~~rl~~   58 (209)
T TIGR02237         8 GVERGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEGLSPERFKQ   58 (209)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCCCCHHHHHH
Confidence            3355789999999999999999998774  223457889999 5566665544

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

>PTZ00301 uridine kinase; Provisional

Probab=96.89  E-value=0.00085  Score=56.70  Aligned_cols=23  Identities=26%  Similarity=0.449  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..+|||.|.+|+||||||+.|.+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            47999999999999999998865

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.88  E-value=0.001  Score=54.20  Aligned_cols=37  Identities=24%  Similarity=0.288  Sum_probs=28.7

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      ...+|.++|+.|+||||+|+.+++.  ....|...+++.
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~--l~~~~~~~~~~~   42 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYER--LKLKYSNVIYLD   42 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHH--HHHcCCcEEEEe
Confidence            4569999999999999999999984  444555555553

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.87  E-value=0.0015  Score=58.36  Aligned_cols=46  Identities=15%  Similarity=0.125  Sum_probs=39.4

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+...+.+..++..+. -..++-++|.+|+||||||+.+++.
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~-~~~~lll~G~~G~GKT~la~~l~~~   66 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGR-IPNMLLHSPSPGTGKTTVAKALCNE   66 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCC-CCeEEEeeCcCCCCHHHHHHHHHHH
Confidence            689999999999999987543 3567778999999999999999884

>PRK06547 hypothetical protein; Provisional

Probab=96.87  E-value=0.0016  Score=53.22  Aligned_cols=26  Identities=35%  Similarity=0.365  Sum_probs=23.5

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....+|+|.|..|+||||||+.+.+.
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45889999999999999999999875

>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=96.87  E-value=0.00081  Score=46.28  Aligned_cols=22  Identities=32%  Similarity=0.466  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|+|.|..|+||||+++.+-+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999885

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.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.86  E-value=0.00068  Score=56.41  Aligned_cols=22  Identities=36%  Similarity=0.524  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|+|.|..|+|||||++.+..-
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999774

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.

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

Probab=96.86  E-value=0.0012  Score=57.58  Aligned_cols=47  Identities=23%  Similarity=0.326  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHHhcC---CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG---EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~---~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|-+.-+++|-=.+...   ...+--+-++|++|.||||||..|-+.
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~E   75 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANE   75 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHH
Confidence            68999999888887777542   356888999999999999999999995

>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=96.85  E-value=0.00089  Score=52.27  Aligned_cols=22  Identities=18%  Similarity=0.362  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ||-++|++|+||||+|+.+...
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6789999999999999999864

...

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

Probab=96.85  E-value=0.0012  Score=60.16  Aligned_cols=30  Identities=23%  Similarity=0.256  Sum_probs=23.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCC
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFY  214 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~  214 (265)
                      +.-.=.||++|+||||||+.|-..  ...+|.
T Consensus        48 l~SmIl~GPPG~GKTTlA~liA~~--~~~~f~   77 (436)
T COG2256          48 LHSMILWGPPGTGKTTLARLIAGT--TNAAFE   77 (436)
T ss_pred             CceeEEECCCCCCHHHHHHHHHHh--hCCceE
Confidence            444458999999999999999883  444554

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.84  E-value=0.0015  Score=58.02  Aligned_cols=45  Identities=22%  Similarity=0.247  Sum_probs=38.2

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..++.+..++..+.  ...+-++|.+|+||||+++.+.+.
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~--~~~~ll~G~~G~GKt~~~~~l~~~   61 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKN--MPHLLFAGPPGTGKTTAALALARE   61 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999886543  445789999999999999999885

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.83  E-value=0.0013  Score=66.44  Aligned_cols=45  Identities=20%  Similarity=0.392  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|++.+...++..|....  ..-+-++|.+|+||||||+.+...
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~--~~n~lLvG~pGvGKTal~~~La~~  231 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRR--QNNPILTGEAGVGKTAVVEGLALR  231 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCC--cCceeEECCCCCCHHHHHHHHHHH
Confidence            689999999999999887654  223349999999999999999875

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=96.81  E-value=0.0015  Score=60.36  Aligned_cols=49  Identities=22%  Similarity=0.280  Sum_probs=38.6

Q ss_pred             CCCcccccHHHHHHHHHHHhcC-----------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          158 KKRNIVGLEDEMKELLDLLIVG-----------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~~-----------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+++.|++..+++|.+.+...           -...+-|-++|++|+|||+||+.+.+.
T Consensus       129 ~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~  188 (389)
T PRK03992        129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE  188 (389)
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHH
Confidence            3357899999999998876321           123556889999999999999999984

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.81  E-value=0.00099  Score=54.56  Aligned_cols=25  Identities=20%  Similarity=0.279  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +..+|.|+|++|+||||+++.+...
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~   26 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEK   26 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3679999999999999999999853

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.

>PRK04040 adenylate kinase; Provisional

Probab=96.80  E-value=0.001  Score=55.15  Aligned_cols=24  Identities=29%  Similarity=0.491  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|+|++|+||||+++.+...
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~   25 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEK   25 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH
Confidence            368999999999999999999874

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

Probab=96.79  E-value=0.0016  Score=64.69  Aligned_cols=45  Identities=20%  Similarity=0.269  Sum_probs=33.1

Q ss_pred             CcccccHHHHH---HHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMK---ELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~---~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+....   .|...+..+  .+.-+-++|++|+||||||+.+.+.
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~--~~~slLL~GPpGtGKTTLA~aIA~~   75 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKAD--RVGSLILYGPPGVGKTTLARIIANH   75 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHH
Confidence            56888777664   344444433  3555679999999999999999984

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.78  E-value=0.001  Score=50.47  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+.|+|.+|+||||+++.+...
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~   25 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARE   25 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhc
Confidence            57889999999999999999985

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.

>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=96.74  E-value=0.0009  Score=56.94  Aligned_cols=22  Identities=23%  Similarity=0.244  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|||.|..|+||||||+.+...
T Consensus         1 IigI~G~sGSGKTTla~~L~~~   22 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQAL   22 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHH
Confidence            5899999999999999999874

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

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=96.74  E-value=0.0018  Score=64.58  Aligned_cols=77  Identities=17%  Similarity=0.271  Sum_probs=52.1

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc---cccccC-CeeEEEe--------CCC--CH
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN---YMKNYF-YCRAWVG--------CEY--YL  225 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~---~v~~~F-~~~~wV~--------~~~--~~  225 (265)
                      ++++||+.+...+++.|.... ..+ +-++|.+|+|||+||+.+....   .+-..+ ++++|..        ..+  ..
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~-~~n-~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~  259 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRK-KNN-PLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDF  259 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCC-CCc-eEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchH
Confidence            579999999999999887653 223 3589999999999999998853   122222 5666653        111  23


Q ss_pred             HHHHHHHHHHhCC
Q 038685          226 HKVLDNIIKSVMP  238 (265)
Q Consensus       226 ~~l~~~Il~~l~~  238 (265)
                      +.-++.+++.+..
T Consensus       260 e~~l~~i~~~~~~  272 (731)
T TIGR02639       260 EERLKAVVSEIEK  272 (731)
T ss_pred             HHHHHHHHHHHhc
Confidence            4566677766543

>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=96.73  E-value=0.0012  Score=50.51  Aligned_cols=47  Identities=13%  Similarity=0.022  Sum_probs=30.9

Q ss_pred             EEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe----C-C--CCHHHHHHHHHHHhC
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG----C-E--YYLHKVLDNIIKSVM  237 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~----~-~--~~~~~l~~~Il~~l~  237 (265)
                      |-|+|.+|+||||||+.+.++-  ..   ..+.+.    . .  .....-+..++++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l--~~---~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~   54 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL--GF---PFIEIDGSELISSYAGDSEQKIRDFFKKAK   54 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT--TS---EEEEEETTHHHTSSTTHHHHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhhc--cc---cccccccccccccccccccccccccccccc
Confidence            5689999999999999999963  21   124444    1 1  234555666666653

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 ....

>PRK03839 putative kinase; Provisional

Probab=96.72  E-value=0.0012  Score=54.03  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.|+|++|+||||+++.+.+.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999885

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.72  E-value=0.0019  Score=65.50  Aligned_cols=45  Identities=16%  Similarity=0.327  Sum_probs=37.5

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++||+.+...+++.|....  -.-+-++|.+|+||||||+.+-..
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~--~~n~lL~G~pGvGKT~l~~~la~~  222 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQR  222 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCC--cCceEEECCCCCCHHHHHHHHHHH
Confidence            579999999999999997654  223348999999999999998875

>PF13173 AAA_14: AAA domain

Probab=96.71  E-value=0.0013  Score=50.81  Aligned_cols=35  Identities=11%  Similarity=0.138  Sum_probs=27.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      -+++.|.|+.|+|||||++.++.+..   .....++++
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~   36 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYIN   36 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeec
Confidence            46889999999999999999998533   335566776

>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=96.70  E-value=0.0079  Score=48.97  Aligned_cols=71  Identities=18%  Similarity=0.105  Sum_probs=44.1

Q ss_pred             ccccHHHHHHHHHHHhcCC-CCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCHHHHHHHHHHH
Q 038685          162 IVGLEDEMKELLDLLIVGE-PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYLHKVLDNIIKS  235 (265)
Q Consensus       162 ~vG~e~~~~~l~~~L~~~~-~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~~~l~~~Il~~  235 (265)
                      ++|....+.++++.+..-. ....| -|+|..|+||+.+|+.|++.  ....-...+-|+ ..++.+.+-..++-.
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pV-lI~GE~GtGK~~lA~~IH~~--s~r~~~pfi~vnc~~~~~~~~e~~LFG~   73 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPV-LITGETGTGKELLARAIHNN--SPRKNGPFISVNCAALPEELLESELFGH   73 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-E-EEECSTTSSHHHHHHHHHHC--STTTTS-EEEEETTTS-HHHHHHHHHEB
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCE-EEEcCCCCcHHHHHHHHHHh--hhcccCCeEEEehhhhhcchhhhhhhcc
Confidence            4788888888888876432 23444 49999999999999999993  222223334444 666666555555543

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 ....

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.69  E-value=0.0021  Score=61.35  Aligned_cols=49  Identities=24%  Similarity=0.165  Sum_probs=39.4

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYM  209 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v  209 (265)
                      ++++|-+..++.|..++..+. -...+-++|++|+||||+|+.+.+....
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c   62 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAVNC   62 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            578999888888888876543 3456789999999999999999886443

>PLN03025 replication factor C subunit; Provisional

Probab=96.68  E-value=0.0023  Score=57.49  Aligned_cols=45  Identities=24%  Similarity=0.283  Sum_probs=35.4

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|-++.+..|..++..+.  ..-+-++|++|+||||+|+.+.+.
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~G~GKTtla~~la~~   57 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGN--MPNLILSGPPGTGKTTSILALAHE   57 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence            578898888888877765443  334568999999999999998874

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

Probab=96.67  E-value=0.0012  Score=54.85  Aligned_cols=22  Identities=27%  Similarity=0.253  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999985

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.

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

Probab=96.62  E-value=0.0053  Score=53.44  Aligned_cols=63  Identities=14%  Similarity=0.119  Sum_probs=41.9

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEE-------e--CCCCHHHH--HHHHHHHhCCCCCCC
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWV-------G--CEYYLHKV--LDNIIKSVMPRSMGS  243 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV-------~--~~~~~~~l--~~~Il~~l~~~~~~~  243 (265)
                      .+...|-++||+|+||||.+|.++.+..-++.=..++=.       .  .+.++.+.  .+.++++-+.+.++.
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGg   90 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGG   90 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcc
Confidence            456788899999999999999999974433221112211       1  44555554  567888888776654

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.62  E-value=0.006  Score=59.57  Aligned_cols=74  Identities=11%  Similarity=0.054  Sum_probs=54.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccc-cCCeeEEEe-CCCCHHHHHHHHHHHhC
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKN-YFYCRAWVG-CEYYLHKVLDNIIKSVM  237 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~-~F~~~~wV~-~~~~~~~l~~~Il~~l~  237 (265)
                      ++++|.++.+..+...+..+.   .++ ++|++|+|||||++.+.+.  +-. .|...+++. ...+..++++.+..+++
T Consensus        18 ~~viG~~~a~~~l~~a~~~~~---~~l-l~G~pG~GKT~la~~la~~--l~~~~~~~~~~~~n~~~~~~~~~~~v~~~~g   91 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQKR---NVL-LIGEPGVGKSMLAKAMAEL--LPDEELEDILVYPNPEDPNMPRIVEVPAGEG   91 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcCC---CEE-EECCCCCCHHHHHHHHHHH--cCchhheeEEEEeCCCCCchHHHHHHHHhhc
Confidence            578898888777766665432   444 8999999999999999984  333 455566666 66677888988888887


Q ss_pred             CC
Q 038685          238 PR  239 (265)
Q Consensus       238 ~~  239 (265)
                      .+
T Consensus        92 ~~   93 (608)
T TIGR00764        92 RE   93 (608)
T ss_pred             hH
Confidence            53

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.61  E-value=0.006  Score=51.91  Aligned_cols=52  Identities=13%  Similarity=0.121  Sum_probs=36.9

Q ss_pred             CCCCeEEEEEEcCCCCChhHHHHHHhhccccccc----CCeeEEEe--CCCCHHHHHH
Q 038685          179 GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNY----FYCRAWVG--CEYYLHKVLD  230 (265)
Q Consensus       179 ~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~----F~~~~wV~--~~~~~~~l~~  230 (265)
                      +=+.-.++.|+|.+|+|||||+..+.-.......    ...++|++  ..++..++.+
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~   72 (235)
T cd01123          15 GIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQ   72 (235)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHH
Confidence            3355789999999999999999999753222221    36789999  5566655443

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 .

>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=96.61  E-value=0.0014  Score=51.36  Aligned_cols=22  Identities=27%  Similarity=0.342  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ||.|+|.+|+||||+|+.+-..
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~   22 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKK   22 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998874

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.60  E-value=0.003  Score=50.79  Aligned_cols=43  Identities=21%  Similarity=0.158  Sum_probs=33.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHHHHHhCC
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~Il~~l~~  238 (265)
                      +|.|-|.+|+||||+|+.+-++--.+           -.+.-.++++|+++.+.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~-----------~vsaG~iFR~~A~e~gm   44 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK-----------LVSAGTIFREMARERGM   44 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc-----------eeeccHHHHHHHHHcCC
Confidence            78999999999999999999863322           24556778888877765

>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=96.60  E-value=0.0014  Score=53.88  Aligned_cols=22  Identities=50%  Similarity=0.616  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|+|.|..|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999985

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

>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=96.60  E-value=0.0018  Score=48.81  Aligned_cols=24  Identities=21%  Similarity=0.469  Sum_probs=20.2

Q ss_pred             EEEEcCCCCChhHHHHHHhhcccc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSNYM  209 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~~v  209 (265)
                      |.|+|..|+|||||.+.+.+.+..
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~~   25 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEFP   25 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS--
T ss_pred             EEEECcCCCCHHHHHHHHhcCCCc
Confidence            689999999999999999986543

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.

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

Probab=96.56  E-value=0.0019  Score=52.74  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|+|+.|+|||||++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999998764

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.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=96.56  E-value=0.011  Score=52.94  Aligned_cols=77  Identities=21%  Similarity=0.222  Sum_probs=55.6

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc----cccccCCeeEEEe---CCCCHHHHHHHH
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN----YMKNYFYCRAWVG---CEYYLHKVLDNI  232 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~----~v~~~F~~~~wV~---~~~~~~~l~~~I  232 (265)
                      .+++|-+..++.+..++..+. -...+-++|+.|+||||||+.+...-    ....|+|...|..   +......| +++
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~-~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~i-r~~   81 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNR-FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDI-RNI   81 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHH-HHH
Confidence            478899888999999886543 34567899999999999999888742    2346788877765   55566664 445


Q ss_pred             HHHhCC
Q 038685          233 IKSVMP  238 (265)
Q Consensus       233 l~~l~~  238 (265)
                      .+.+..
T Consensus        82 ~~~~~~   87 (313)
T PRK05564         82 IEEVNK   87 (313)
T ss_pred             HHHHhc
Confidence            565543

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.56  E-value=0.0018  Score=52.77  Aligned_cols=23  Identities=22%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++|.|+|+.|+|||||++.+...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            47899999999999999999983

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.

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.55  E-value=0.0021  Score=54.03  Aligned_cols=32  Identities=22%  Similarity=0.228  Sum_probs=26.2

Q ss_pred             HHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          175 LLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       175 ~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+.......+.|.|+|++|+|||||++.+.+.
T Consensus         5 ~~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          5 WLFNKPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             cccCCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            44445557889999999999999999999764

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

Probab=96.55  E-value=0.002  Score=50.86  Aligned_cols=36  Identities=19%  Similarity=0.187  Sum_probs=25.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      ++|+|+|..|+|||||++.+.+.. .+..+...+..+
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l-~~~g~~v~~ik~   36 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINEL-KRRGYRVAVIKH   36 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH-HHTT--EEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH-hHcCCceEEEEE
Confidence            489999999999999999999963 223445454555

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.54  E-value=0.002  Score=52.67  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+++|+|..|+|||||++.+...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHH
Confidence            4679999999999999999999974

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.54  E-value=0.0043  Score=52.70  Aligned_cols=25  Identities=8%  Similarity=0.125  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....+-|+|..|+|||+||+.+++.
T Consensus        41 ~~~~~~l~G~~G~GKT~La~ai~~~   65 (227)
T PRK08903         41 ADRFFYLWGEAGSGRSHLLQALVAD   65 (227)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3456789999999999999999985

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.53  E-value=0.0021  Score=56.97  Aligned_cols=25  Identities=20%  Similarity=0.153  Sum_probs=21.9

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +...+|||.|..|+||||||+.+-.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~   84 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQA   84 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999987754

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.

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

Probab=96.52  E-value=0.0031  Score=55.26  Aligned_cols=51  Identities=14%  Similarity=0.080  Sum_probs=37.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe----CCCCHHHHHHHHHHH
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG----CEYYLHKVLDNIIKS  235 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~----~~~~~~~l~~~Il~~  235 (265)
                      -.-++|.|..|+|||||++.+++.  ++.+|...+++.    +.....++.+.+.+.
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~~--i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~  123 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELINN--IAKAHGGYSVFAGVGERTREGNDLYHEMKES  123 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHHhc
Confidence            467899999999999999999995  555565444444    445567777777653

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.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.52  E-value=0.002  Score=53.99  Aligned_cols=26  Identities=23%  Similarity=0.160  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhccc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNY  208 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~  208 (265)
                      ..+|+|-||-|+||||||+.+-++-.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            57899999999999999999988643

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.51  E-value=0.005  Score=48.15  Aligned_cols=40  Identities=18%  Similarity=0.091  Sum_probs=28.5

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          168 EMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       168 ~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      +..++-..|...=..-.+|.+.|.-|+|||||++.+....
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3444444443321234689999999999999999999854

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.

>CHL00181 cbbX CbbX; Provisional

Probab=96.49  E-value=0.0045  Score=54.80  Aligned_cols=47  Identities=21%  Similarity=0.307  Sum_probs=33.2

Q ss_pred             CcccccHHHHHHHHHHH---hc-------C---CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLL---IV-------G---EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L---~~-------~---~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..+++|.++.   ..       +   ......|-++|.+|+||||+|+.+...
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~   82 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADI   82 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            46899888888665543   11       1   112334778999999999999999663

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.49  E-value=0.0038  Score=54.19  Aligned_cols=24  Identities=17%  Similarity=0.217  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .-.+++|+|+.|+|||||.+.++.
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            357899999999999999999998

>PRK05439 pantothenate kinase; Provisional

Probab=96.49  E-value=0.0046  Score=55.29  Aligned_cols=25  Identities=20%  Similarity=0.142  Sum_probs=22.9

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ...-+|||.|.+|+||||||+.+..
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~  108 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQA  108 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999999877

>TIGR00763 lon ATP-dependent protease La

Probab=96.48  E-value=0.028  Score=56.54  Aligned_cols=47  Identities=23%  Similarity=0.427  Sum_probs=38.3

Q ss_pred             CcccccHHHHHHHHHHHhc----CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV----GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~----~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..++.+.+++..    +.....++.++|++|+||||||+.+.+.
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~  370 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKA  370 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            4688999999999887642    2333458999999999999999999985

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.48  E-value=0.0048  Score=56.48  Aligned_cols=46  Identities=24%  Similarity=0.312  Sum_probs=38.2

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|-+..++.+.+.+..+. -...+-++|+.|+||||||+.+.+.
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~   61 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKS   61 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHH
Confidence            589999999999888886543 3456789999999999999999874

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.48  E-value=0.004  Score=58.90  Aligned_cols=46  Identities=22%  Similarity=0.222  Sum_probs=36.5

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+.....|...+..+. -...+-++|++|+||||+|+.+.+.
T Consensus        14 ~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~   59 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKS   59 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            679999888777777765543 2355779999999999999999774

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

Probab=96.47  E-value=0.002  Score=52.27  Aligned_cols=20  Identities=30%  Similarity=0.434  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 038685          185 VVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy  204 (265)
                      .|+|.|.+|+||||+++.+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999987

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.46  E-value=0.0043  Score=60.05  Aligned_cols=46  Identities=22%  Similarity=0.260  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..+..|.+.+..+. -...+-++|+.|+||||+|+.+-+.
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~   61 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKA   61 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHH
Confidence            589999999999988886543 2356779999999999999998764

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.46  E-value=0.0025  Score=51.35  Aligned_cols=24  Identities=13%  Similarity=0.131  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|.++|++|+||||+|+.+...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~   27 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKR   27 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHH
Confidence            458899999999999999999885

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.45  E-value=0.0036  Score=63.54  Aligned_cols=45  Identities=16%  Similarity=0.339  Sum_probs=37.1

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++||+.+...++..|.....  .-+-++|.+|+|||+||+.+...
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~--~n~lL~G~pGvGKT~l~~~la~~  217 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTK--NNPVLIGEPGVGKTAIVEGLAQR  217 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCC--CceEEEcCCCCCHHHHHHHHHHH
Confidence            5799999999999999976542  22337999999999999998775

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PRK00625 shikimate kinase; Provisional

Probab=96.45  E-value=0.0021  Score=52.58  Aligned_cols=22  Identities=18%  Similarity=0.203  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|-++||+|+||||+++.+-+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~   23 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKF   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999999764

>PHA00729 NTP-binding motif containing protein

Probab=96.45  E-value=0.0047  Score=52.60  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|.|.|.+|+||||||..|-+.
T Consensus        17 f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         17 FVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHH
Confidence            557889999999999999999874

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.44  E-value=0.002  Score=52.65  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ||.|+|++|+||||+|+.+...
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~   22 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVEN   22 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999774

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.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.43  E-value=0.003  Score=51.41  Aligned_cols=25  Identities=28%  Similarity=0.162  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+|.|+|.+|+||||+|+.+...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~   27 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEK   27 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3569999999999999999999875

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.43  E-value=0.0024  Score=53.25  Aligned_cols=24  Identities=17%  Similarity=0.267  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|+|+|+.|+|||||++.+...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999875

>PLN02318 phosphoribulokinase/uridine kinase

Probab=96.41  E-value=0.0043  Score=59.75  Aligned_cols=34  Identities=29%  Similarity=0.393  Sum_probs=27.4

Q ss_pred             HHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          173 LDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       173 ~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.|....+...+|+|.|..|+||||||+.|...
T Consensus        55 ~qlL~~~~~~riIIGIaGpSGSGKTTLAk~Lagl   88 (656)
T PLN02318         55 CQLLAQKNDGIILVGVAGPSGAGKTVFTEKVLNF   88 (656)
T ss_pred             HHHHHhcCCCeEEEEEECCCCCcHHHHHHHHHhh
Confidence            3344445556899999999999999999999874

>PRK06217 hypothetical protein; Validated

Probab=96.40  E-value=0.0024  Score=52.50  Aligned_cols=35  Identities=17%  Similarity=0.204  Sum_probs=26.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcccccccC--CeeEEEe
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSNYMKNYF--YCRAWVG  220 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~~v~~~F--~~~~wV~  220 (265)
                      .|.|.|++|+||||||+.+....... +|  |..+|-.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~-~~~~D~~~~~~   39 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIP-HLDTDDYFWLP   39 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCc-EEEcCceeecc
Confidence            48999999999999999999864332 33  4455544

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

Probab=96.38  E-value=0.0022  Score=48.06  Aligned_cols=20  Identities=30%  Similarity=0.443  Sum_probs=17.4

Q ss_pred             EEEEcCCCCChhHHHHHHhh
Q 038685          186 VAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~  205 (265)
                      |-|+|.+|+|||+||+.+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~   20 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAK   20 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999664

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

>cd01878 HflX HflX subfamily

Probab=96.36  E-value=0.012  Score=48.78  Aligned_cols=27  Identities=19%  Similarity=0.320  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      +....|+|+|.+|+|||||.+.+.+..
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            346788999999999999999998863

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.35  E-value=0.0035  Score=52.24  Aligned_cols=26  Identities=27%  Similarity=0.242  Sum_probs=23.2

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....+|.|+|++|+||||||+.+...
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~   47 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEA   47 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999874

>PRK13695 putative NTPase; Provisional

Probab=96.34  E-value=0.0038  Score=50.83  Aligned_cols=22  Identities=23%  Similarity=0.312  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|+|+|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999875

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.32  E-value=0.0032  Score=48.80  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||.+.+...
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~   34 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGL   34 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CEEEEEccCCCccccceeeeccc
Confidence            58899999999999999999884

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 ....

>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=96.31  E-value=0.0086  Score=50.01  Aligned_cols=55  Identities=20%  Similarity=0.150  Sum_probs=37.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCH--HHHHHHHHHHhCCC
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYL--HKVLDNIIKSVMPR  239 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~--~~l~~~Il~~l~~~  239 (265)
                      ++||.+||+.|+||||.+-++......+  =..+..++ -+|..  .+=++...+.++..
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp   58 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVP   58 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccc
Confidence            4799999999999999888887754333  34466666 55543  44566677777643

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 ....

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.31  E-value=0.0086  Score=58.60  Aligned_cols=74  Identities=14%  Similarity=0.020  Sum_probs=57.2

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCHHHHHHHHHHHhCC
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~~~l~~~Il~~l~~  238 (265)
                      ++++|.++.++.|...+...    ..+-++|.+|+||||||+.+.+.- -..+|+..+|.. ...+...+++.+..+++.
T Consensus        31 ~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l-~~~~~~~~~~~~np~~~~~~~~~~v~~~~G~  105 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELL-PKEELQDILVYPNPEDPNNPKIRTVPAGKGK  105 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHc-ChHhHHHheEeeCCCcchHHHHHHHHHhcCH
Confidence            56889888888777766543    257789999999999999998752 223568888988 777888888888876664

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.31  E-value=0.013  Score=49.61  Aligned_cols=49  Identities=12%  Similarity=0.019  Sum_probs=36.3

Q ss_pred             cCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCHHHH
Q 038685          178 VGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYLHKV  228 (265)
Q Consensus       178 ~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~~~l  228 (265)
                      .+=+.-.++-|+|.+|+|||||+..+....  ...-..++||+ ..++...+
T Consensus        18 GGi~~g~i~~i~G~~GsGKT~l~~~la~~~--~~~~~~v~yi~~e~~~~~r~   67 (225)
T PRK09361         18 GGFERGTITQIYGPPGSGKTNICLQLAVEA--AKNGKKVIYIDTEGLSPERF   67 (225)
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEECCCCCHHHH
Confidence            333557899999999999999999998743  23346788998 75555444

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.30  E-value=0.0064  Score=59.34  Aligned_cols=46  Identities=22%  Similarity=0.239  Sum_probs=38.5

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+.....|.+++..+. -...+-++|+.|+||||+|+.+-+.
T Consensus        15 ddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~   60 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKC   60 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999987653 2467789999999999999988664

>PRK13975 thymidylate kinase; Provisional

Probab=96.29  E-value=0.0035  Score=51.84  Aligned_cols=24  Identities=21%  Similarity=0.112  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .+|.|.|+.|+||||+++.+.+.-
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999999853

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

Probab=96.29  E-value=0.0028  Score=50.06  Aligned_cols=22  Identities=18%  Similarity=0.368  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|.++|++|+||||+|+.+.+.
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            4679999999999999999885

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=96.28  E-value=0.0037  Score=49.43  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      -|+++|.+|+|||||++.+.++.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999998753

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

>PRK13949 shikimate kinase; Provisional

Probab=96.28  E-value=0.0031  Score=51.32  Aligned_cols=22  Identities=23%  Similarity=0.258  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|++|+|||||++.+.+.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999998874

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.28  E-value=0.0034  Score=51.76  Aligned_cols=23  Identities=17%  Similarity=0.312  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|+|+.|+|||||++.+...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            47889999999999999999774

>PRK06893 DNA replication initiation factor; Validated

Probab=96.27  E-value=0.0039  Score=53.28  Aligned_cols=23  Identities=17%  Similarity=0.164  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+-+||.+|+|||+|++.+.+.
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~   62 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNH   62 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            56789999999999999999985

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=96.26  E-value=0.038  Score=55.58  Aligned_cols=49  Identities=22%  Similarity=0.358  Sum_probs=40.4

Q ss_pred             CCCcccccHHHHHHHHHHHhc----CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          158 KKRNIVGLEDEMKELLDLLIV----GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~----~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -+.+.+|.+..++.++.+|..    +.....++.++|++|+||||+++.+...
T Consensus       320 l~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~  372 (784)
T PRK10787        320 LDTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKA  372 (784)
T ss_pred             hhhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            446799999999999998853    2234568999999999999999999973

>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=96.26  E-value=0.0032  Score=49.73  Aligned_cols=21  Identities=19%  Similarity=0.292  Sum_probs=19.2

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|++|+||||+|+.+...
T Consensus         2 i~l~G~~GsGKstla~~la~~   22 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKA   22 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            689999999999999999874

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.

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

Probab=96.24  E-value=0.0051  Score=50.52  Aligned_cols=36  Identities=19%  Similarity=0.181  Sum_probs=29.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      .++|-|+|+.|+|||||++.+...  ...+|...++.+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~--~~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQE--FPDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHH--STTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh--cccccccceeec
Confidence            467889999999999999999983  556787667776

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 ....

>PRK13947 shikimate kinase; Provisional

Probab=96.24  E-value=0.0033  Score=50.81  Aligned_cols=22  Identities=18%  Similarity=0.294  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|++|+||||+++.+-+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~   24 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATT   24 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Confidence            3789999999999999999874

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.23  E-value=0.0067  Score=49.92  Aligned_cols=34  Identities=12%  Similarity=0.172  Sum_probs=26.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      -.++.|.|+.|+||+||++.++++.    .|...+-.+
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~----~l~~SVS~T   37 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD----KLRFSVSAT   37 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc----CeEEEEEec
Confidence            4678899999999999999999974    454444444

>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=96.23  E-value=0.0057  Score=52.63  Aligned_cols=36  Identities=19%  Similarity=0.188  Sum_probs=30.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      .-.++|+|..|+|||||+..+..+  ....|.+..+++
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~--~~~~f~~I~l~t   48 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYY--LRHKFDHIFLIT   48 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHh--hcccCCEEEEEe
Confidence            346789999999999999999984  777888777776

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

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

Probab=96.23  E-value=0.0032  Score=52.75  Aligned_cols=24  Identities=17%  Similarity=0.344  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .-|.|+|.+|+|||||+..+..+.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~   29 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDE   29 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCc
Confidence            467899999999999999999864

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.22  E-value=0.0042  Score=52.12  Aligned_cols=26  Identities=23%  Similarity=0.325  Sum_probs=23.8

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+.+|+++|..|+|||||.+.+...
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999999874

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

>PRK04841 transcriptional regulator MalT; Provisional

Probab=96.22  E-value=0.018  Score=58.59  Aligned_cols=67  Identities=18%  Similarity=0.234  Sum_probs=48.1

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe---CCCCHHHHHHHHHHHh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG---CEYYLHKVLDNIIKSV  236 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~---~~~~~~~l~~~Il~~l  236 (265)
                      ..++-|.    .|...|... ...+++-|.|++|.|||||+.....+      |..++|++   ..-++..+...++..+
T Consensus        14 ~~~~~R~----rl~~~l~~~-~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l   82 (903)
T PRK04841         14 HNTVVRE----RLLAKLSGA-NNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAAL   82 (903)
T ss_pred             cccCcch----HHHHHHhcc-cCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHH
Confidence            4555554    555555432 35789999999999999999997752      34799999   3345667777777777


Q ss_pred             C
Q 038685          237 M  237 (265)
Q Consensus       237 ~  237 (265)
                      .
T Consensus        83 ~   83 (903)
T PRK04841         83 Q   83 (903)
T ss_pred             H
Confidence            4

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.22  E-value=0.019  Score=57.91  Aligned_cols=47  Identities=19%  Similarity=0.207  Sum_probs=38.5

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .+++|-+.-+..|.+++..+. -...+-++|..|+||||+|+.+.+.-
T Consensus        16 ddIIGQe~Iv~~LknaI~~~r-l~HAyLFtGPpGtGKTTLARiLAk~L   62 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQR-LHHAYLFTGTRGVGKTSLARLFAKGL   62 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            589999999999988886543 23445799999999999999999854

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=96.21  E-value=0.007  Score=56.08  Aligned_cols=47  Identities=21%  Similarity=0.221  Sum_probs=37.2

Q ss_pred             CcccccHHHHHHHHHHHhc----C-------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV----G-------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~----~-------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++.|.+..+++|.+.+.-    .       -...+-|-++|++|+|||+||+.+.+.
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~  202 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHH  202 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            5788999999988876631    1       123567889999999999999999985

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.21  E-value=0.0081  Score=54.24  Aligned_cols=38  Identities=26%  Similarity=0.320  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+++.+.....+..+|+|.|.+|+|||||+..+...
T Consensus        42 ~~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~   79 (332)
T PRK09435         42 AQELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMH   79 (332)
T ss_pred             HHHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            34566655443456889999999999999999987664

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

Probab=96.19  E-value=0.0043  Score=50.12  Aligned_cols=24  Identities=33%  Similarity=0.360  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|+.|+|.+|+||||+.+.+-..
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~   27 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKE   27 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHH
Confidence            689999999999999999887763

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.18  E-value=0.004  Score=50.78  Aligned_cols=23  Identities=17%  Similarity=0.260  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++|-+.|++|+||||+|+.+.+.
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999875

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

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.18  E-value=0.0036  Score=49.13  Aligned_cols=22  Identities=18%  Similarity=0.418  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|.|+|+.|+|||||++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            3789999999999999999984

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.

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=96.17  E-value=0.006  Score=60.92  Aligned_cols=59  Identities=20%  Similarity=0.240  Sum_probs=42.9

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc---ccccc-CCeeEEEe
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN---YMKNY-FYCRAWVG  220 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~---~v~~~-F~~~~wV~  220 (265)
                      +.++||+.+...+++.|.... ...+ -++|.+|+|||+||+.+....   .+-.. .++.+|-.
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~-~~n~-LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l  248 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR-KNNP-LLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL  248 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC-CCCe-EEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec
Confidence            579999999999999887643 2233 479999999999999998742   11111 35666653

>PRK14530 adenylate kinase; Provisional

Probab=96.16  E-value=0.004  Score=52.57  Aligned_cols=22  Identities=14%  Similarity=0.253  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.|+|++|+||||+++.+...
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~   26 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEE   26 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999763

>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=96.15  E-value=0.025  Score=50.47  Aligned_cols=74  Identities=15%  Similarity=0.227  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHhcCC-CCeEEEEEEcCCCCChhHHHHHHhhccccc--ccC---CeeEEEe-C-CCCHHHHHHHHHHHhC
Q 038685          166 EDEMKELLDLLIVGE-PSLSVVAIVGSSGFDKTDFAGEAYNSNYMK--NYF---YCRAWVG-C-EYYLHKVLDNIIKSVM  237 (265)
Q Consensus       166 e~~~~~l~~~L~~~~-~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~--~~F---~~~~wV~-~-~~~~~~l~~~Il~~l~  237 (265)
                      +...+.|.+.|...+ ....+|||.|.=|+||||+.+.+.+.-+-.  ..+   ..-+|-+ . .--...++..|..++.
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l~   81 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQLE   81 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHHH
Confidence            445667777777653 678999999999999999999999854333  111   3344444 2 2234677777777776


Q ss_pred             CC
Q 038685          238 PR  239 (265)
Q Consensus       238 ~~  239 (265)
                      ..
T Consensus        82 ~~   83 (325)
T PF07693_consen   82 KH   83 (325)
T ss_pred             Hh
Confidence            54

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 [].

>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=96.15  E-value=0.0044  Score=46.69  Aligned_cols=21  Identities=24%  Similarity=0.382  Sum_probs=19.8

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+|+|+.|+|||||.+.+.+.
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            789999999999999999984

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 ....

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.14  E-value=0.0038  Score=50.13  Aligned_cols=22  Identities=27%  Similarity=0.354  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ||+|+|+.|+|||||+..+...
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~   22 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKA   22 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999985

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.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=96.13  E-value=0.017  Score=53.58  Aligned_cols=47  Identities=21%  Similarity=0.316  Sum_probs=37.4

Q ss_pred             CcccccHHHHHHHHHHHhcC------------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG------------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~------------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|.+..+..+..++...            +....-|-++|++|+||||||+.+-..
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~   73 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKL   73 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999998877531            112467889999999999999999874

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

Probab=96.13  E-value=0.009  Score=51.76  Aligned_cols=39  Identities=26%  Similarity=0.341  Sum_probs=29.9

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          168 EMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       168 ~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...++++.|.....+..+|||.|.||+||+||.-.+-..
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~   52 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRE   52 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHH
Confidence            456777777665556889999999999999999887764

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.

>PRK08727 hypothetical protein; Validated

Probab=96.10  E-value=0.013  Score=50.26  Aligned_cols=36  Identities=17%  Similarity=0.128  Sum_probs=26.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      ...+.|+|..|+|||+|++.+++.  ...+....++++
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~~--~~~~~~~~~y~~   76 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCAA--AEQAGRSSAYLP   76 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEe
Confidence            355899999999999999999885  233333455555

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.10  E-value=0.0035  Score=50.30  Aligned_cols=21  Identities=19%  Similarity=0.340  Sum_probs=18.9

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|++|+||||+|+.+-..
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999998875

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.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.10  E-value=0.022  Score=56.45  Aligned_cols=46  Identities=22%  Similarity=0.259  Sum_probs=37.1

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++||-+..++.|.+++..+. -...+-++|..|+||||+|+.+-+.
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKa   61 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKA   61 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999986553 2344459999999999999877664

>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=96.10  E-value=0.0045  Score=48.25  Aligned_cols=21  Identities=38%  Similarity=0.433  Sum_probs=18.7

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |-++|.+|+|||+||+.+..-
T Consensus         2 vlL~G~~G~GKt~l~~~la~~   22 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAAL   22 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999998873

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.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.08  E-value=0.0046  Score=53.06  Aligned_cols=23  Identities=30%  Similarity=0.316  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -..|+|+|..|+|||||.+.|--
T Consensus        29 GEfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          29 GEFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999975

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

Probab=96.08  E-value=0.016  Score=50.30  Aligned_cols=54  Identities=30%  Similarity=0.166  Sum_probs=40.6

Q ss_pred             cCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHHH
Q 038685          178 VGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNII  233 (265)
Q Consensus       178 ~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~Il  233 (265)
                      .+=+.-+++.|+|.+|+|||+++.+.-..  ...++..++||+-.-+..++.+...
T Consensus        18 GG~p~g~~~lI~G~pGsGKT~f~~qfl~~--~~~~ge~vlyvs~~e~~~~l~~~~~   71 (260)
T COG0467          18 GGLPRGSVVLITGPPGTGKTIFALQFLYE--GAREGEPVLYVSTEESPEELLENAR   71 (260)
T ss_pred             CCCcCCcEEEEEcCCCCcHHHHHHHHHHH--HHhcCCcEEEEEecCCHHHHHHHHH
Confidence            33356899999999999999999888773  4555899999994444555555553

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.06  E-value=0.017  Score=51.11  Aligned_cols=26  Identities=27%  Similarity=0.267  Sum_probs=23.9

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+..+|.|+|.+|+|||||+..+.+.
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~  127 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMR  127 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999999884

>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=96.05  E-value=0.0059  Score=45.89  Aligned_cols=22  Identities=41%  Similarity=0.409  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      -..++|+|..|+|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3678999999999999999976

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

>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=96.05  E-value=0.0048  Score=50.26  Aligned_cols=22  Identities=23%  Similarity=0.351  Sum_probs=18.8

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|.|.+|+|||||++.+.+.-
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            6799999999999999999853

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.

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

Probab=96.05  E-value=0.0043  Score=49.38  Aligned_cols=22  Identities=27%  Similarity=0.312  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ||.|+|.+|+||||||+.+-..
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~   22 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEK   22 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            5789999999999999998874

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

>TIGR01287 nifH nitrogenase iron protein

Probab=96.05  E-value=0.0042  Score=54.40  Aligned_cols=23  Identities=22%  Similarity=0.325  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.|+|+|-|||||||++..+---
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~   23 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAA   23 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHH
Confidence            46999999999999988777653

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.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.04  E-value=0.0063  Score=47.91  Aligned_cols=34  Identities=18%  Similarity=0.101  Sum_probs=25.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      ++.|+|.+|+|||||++.+....  ...-.+++|+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~--~~~~~~v~~~~   34 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI--ATKGGKVVYVD   34 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH--HhcCCEEEEEE
Confidence            46899999999999999998743  22334556665

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.04  E-value=0.049  Score=51.10  Aligned_cols=55  Identities=16%  Similarity=0.077  Sum_probs=37.2

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCH--HHHHHHHHHHhCC
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYL--HKVLDNIIKSVMP  238 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~--~~l~~~Il~~l~~  238 (265)
                      ...+|.++|.+|+||||++..+.....- ..+ .++-|+ -.+..  .+-++.+.++++.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~-~g~-kV~lV~~D~~R~aa~eQL~~la~~~gv  151 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKK-KGL-KVGLVAADTYRPAAYDQLKQLAEKIGV  151 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHH-cCC-eEEEecCCCCCHHHHHHHHHHHHHcCC
Confidence            4789999999999999999999874332 222 344455 44443  4556666666654

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.04  E-value=0.0095  Score=57.28  Aligned_cols=46  Identities=15%  Similarity=0.242  Sum_probs=37.5

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|-+..+..|...+..+. -...+-++|+.|+||||+|+.+.+.
T Consensus        16 ~diiGq~~~v~~L~~~i~~~r-l~ha~Lf~Gp~GvGKTTlAr~lAk~   61 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQK-VHHAYLFTGTRGVGKTTLGRLLAKC   61 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            579999999999988886543 2345678999999999999999873

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

Probab=96.04  E-value=0.021  Score=48.29  Aligned_cols=50  Identities=14%  Similarity=0.084  Sum_probs=34.8

Q ss_pred             cCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccC------CeeEEEe--CCCCHHHHH
Q 038685          178 VGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYF------YCRAWVG--CEYYLHKVL  229 (265)
Q Consensus       178 ~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F------~~~~wV~--~~~~~~~l~  229 (265)
                      .+=+.-.++.|+|.+|+|||+|+..+.-...  ..-      ..++|+.  ..++...+.
T Consensus        14 GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~--~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          14 GGIPTGRITEIFGEFGSGKTQLCLQLAVEAQ--LPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CCCcCCcEEEEeCCCCCChhHHHHHHHHHhh--cccccCCCcceEEEEecCCCCCHHHHH
Confidence            3435578999999999999999999876421  222      4567888  556655443

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.

>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=96.04  E-value=0.0042  Score=53.49  Aligned_cols=22  Identities=23%  Similarity=0.258  Sum_probs=18.5

Q ss_pred             EEcCCCCChhHHHHHHhhcccc
Q 038685          188 IVGSSGFDKTDFAGEAYNSNYM  209 (265)
Q Consensus       188 IvG~gGvGKTTLa~~vy~~~~v  209 (265)
                      |+|++|+||||+++.+.+.-..
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~   22 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLES   22 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTT
T ss_pred             CCCCCCCCHHHHHHHHHHHHHh
Confidence            6899999999999999996443

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

>TIGR00750 lao LAO/AO transport system ATPase

Probab=96.04  E-value=0.008  Score=53.54  Aligned_cols=37  Identities=24%  Similarity=0.263  Sum_probs=27.8

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          170 KELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       170 ~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+++-+........+|+|+|.+|+|||||+..+...
T Consensus        21 ~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~   57 (300)
T TIGR00750        21 KQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGME   57 (300)
T ss_pred             HHHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            3444444333356899999999999999999998774

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.

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

Probab=96.04  E-value=0.005  Score=52.66  Aligned_cols=23  Identities=30%  Similarity=0.302  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.++||+|..|+|||||++.+--
T Consensus        33 Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          33 GETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhc
Confidence            46889999999999999999865

>cd04163 Era Era subfamily

Probab=96.03  E-value=0.0064  Score=47.71  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|+++|..|+|||||++.+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999998765

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.

>cd01862 Rab7 Rab7 subfamily

Probab=96.02  E-value=0.0051  Score=49.16  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|+|+|.+|+|||||++.+.++
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999998765

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-

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=96.01  E-value=0.0062  Score=48.40  Aligned_cols=22  Identities=18%  Similarity=0.350  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999998764

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

>PRK08084 DNA replication initiation factor; Provisional

Probab=96.01  E-value=0.012  Score=50.57  Aligned_cols=24  Identities=8%  Similarity=0.126  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+-|+|+.|+|||+|++.+++.
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~   68 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAE   68 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            457789999999999999999884

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=96.01  E-value=0.0095  Score=55.80  Aligned_cols=47  Identities=26%  Similarity=0.306  Sum_probs=36.2

Q ss_pred             CcccccHHHHHHHHHHHhc----C-------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV----G-------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~----~-------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++.|.+..+++|.+.+.-    .       -....-+.++|.+|+|||+||+.|.+.
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~e  240 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANE  240 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            4678899999888877631    1       123455779999999999999999995

>cd04159 Arl10_like Arl10-like subfamily

Probab=96.01  E-value=0.0063  Score=47.44  Aligned_cols=21  Identities=19%  Similarity=0.262  Sum_probs=19.7

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+|+|..|+|||||.+.+.+.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            789999999999999999886

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.

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=96.01  E-value=0.0055  Score=51.38  Aligned_cols=23  Identities=17%  Similarity=0.294  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..+|||+|+.|+||||.|+.+-+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            46899999999999999998766

>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=96.00  E-value=0.0054  Score=51.65  Aligned_cols=24  Identities=33%  Similarity=0.259  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        30 G~~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          30 GEFVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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=96.00  E-value=0.0055  Score=51.33  Aligned_cols=24  Identities=25%  Similarity=0.206  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 G~~~~l~G~nGsGKSTLl~~l~G~   50 (211)
T cd03225          27 GEFVLIVGPNGSGKSTLLRLLNGL   50 (211)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999874

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=96.00  E-value=0.0056  Score=48.53  Aligned_cols=22  Identities=23%  Similarity=0.286  Sum_probs=19.6

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.++|.+|+|||||++.+.+..
T Consensus         3 i~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6899999999999999987753

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.

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

Probab=95.99  E-value=0.016  Score=48.85  Aligned_cols=36  Identities=22%  Similarity=0.090  Sum_probs=27.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      .-.|++|+|+.|+|||||.+-++.=+   ..=+-.|||.
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE---~~~~G~I~i~   62 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLE---EPDSGSITVD   62 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCc---CCCCceEEEC
Confidence            34689999999999999999998732   2224566665

>cd04155 Arl3 Arl3 subfamily

Probab=95.99  E-value=0.0053  Score=49.31  Aligned_cols=24  Identities=17%  Similarity=0.145  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|+|+|.+|+|||||++.+.+.
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcC
Confidence            455899999999999999999985

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.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.98  E-value=0.004  Score=50.06  Aligned_cols=21  Identities=19%  Similarity=0.241  Sum_probs=17.7

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+|.|..|+|||||++.+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999975

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=95.98  E-value=0.027  Score=52.29  Aligned_cols=47  Identities=21%  Similarity=0.303  Sum_probs=36.4

Q ss_pred             CcccccHHHHHHHHHHHhcC------------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG------------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~------------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|.++.+..+.-.+...            ....+-|-++|++|+||||||+.+-..
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~   70 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKL   70 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            46899988888886665431            112467889999999999999999885

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PLN02796 D-glycerate 3-kinase

Probab=95.98  E-value=0.0064  Score=54.98  Aligned_cols=25  Identities=20%  Similarity=0.133  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-+|+|.|..|+|||||++.+...
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~l  123 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYL  123 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHH
Confidence            5789999999999999999999984

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

Probab=95.97  E-value=0.0055  Score=53.90  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++|+|+|.+|+|||||+..+...
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~   24 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDR   24 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999885

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.97  E-value=0.0085  Score=50.01  Aligned_cols=23  Identities=17%  Similarity=0.300  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|+|..|+||||+++.+...
T Consensus         2 GlilI~GptGSGKTTll~~ll~~   24 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDY   24 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999987763

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.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.97  E-value=0.011  Score=54.89  Aligned_cols=47  Identities=19%  Similarity=0.128  Sum_probs=37.3

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ++++|-+..++.|..++..+. -...+-++|+.|+||||+|+.+-+.-
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l   62 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAV   62 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHh
Confidence            589999888888888886543 23457789999999999998877643

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=95.96  E-value=0.011  Score=52.17  Aligned_cols=45  Identities=20%  Similarity=0.317  Sum_probs=30.6

Q ss_pred             cccccHHHHHHHHHHHh---c-------C-C--CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          161 NIVGLEDEMKELLDLLI---V-------G-E--PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       161 ~~vG~e~~~~~l~~~L~---~-------~-~--~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .++|.++.+++|.++..   .       + .  ....-+-++|.+|+||||+|+.+..
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~   80 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQ   80 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHH
Confidence            57888888887755431   1       1 0  1122467999999999999966655

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>PLN02348 phosphoribulokinase

Probab=95.96  E-value=0.0099  Score=54.62  Aligned_cols=27  Identities=19%  Similarity=0.326  Sum_probs=24.2

Q ss_pred             CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          180 EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       180 ~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+..-+|||.|.+|+||||||+.|.+.
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~~   72 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTSV   72 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            356789999999999999999999984

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.96  E-value=0.011  Score=55.82  Aligned_cols=46  Identities=20%  Similarity=0.229  Sum_probs=37.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|-+.....|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk~   63 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAKR   63 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            579999988888888887654 2245779999999999999999874

>PRK09087 hypothetical protein; Validated

Probab=95.94  E-value=0.0061  Score=52.06  Aligned_cols=24  Identities=29%  Similarity=0.304  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -+.+.|||..|+|||||++.+++.
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~   67 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREK   67 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh
Confidence            456899999999999999999865

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.94  E-value=0.027  Score=50.54  Aligned_cols=62  Identities=13%  Similarity=0.104  Sum_probs=42.1

Q ss_pred             HHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccC----CeeEEEe--CCCCHHHHHHHHHHHhC
Q 038685          175 LLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYF----YCRAWVG--CEYYLHKVLDNIIKSVM  237 (265)
Q Consensus       175 ~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F----~~~~wV~--~~~~~~~l~~~Il~~l~  237 (265)
                      +|-.+=+.-.++-|+|.+|+|||+|+.++.-.......+    ..++||+  .+|++..+.+ +++.++
T Consensus        94 ~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g  161 (317)
T PRK04301         94 LLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALG  161 (317)
T ss_pred             HhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcC
Confidence            333443567899999999999999999997643222111    4789998  6678777654 344443

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

Probab=95.94  E-value=0.0061  Score=51.32  Aligned_cols=24  Identities=29%  Similarity=0.308  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (216)
T TIGR00960        29 GEMVFLVGHSGAGKSTFLKLILGI   52 (216)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999873

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=95.93  E-value=0.0062  Score=47.10  Aligned_cols=23  Identities=17%  Similarity=0.352  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      -|+++|.+|+|||||+..+....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998865

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.

>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=95.93  E-value=0.0063  Score=49.97  Aligned_cols=22  Identities=18%  Similarity=0.194  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|+|.|+.|+||||+++.+.+.
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~   23 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAER   23 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999885

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

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.93  E-value=0.031  Score=49.92  Aligned_cols=59  Identities=8%  Similarity=0.118  Sum_probs=40.8

Q ss_pred             cCCCCeEEEEEEcCCCCChhHHHHHHhhcccccc----cCCeeEEEe--CCCCHHHHHHHHHHHhC
Q 038685          178 VGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKN----YFYCRAWVG--CEYYLHKVLDNIIKSVM  237 (265)
Q Consensus       178 ~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~----~F~~~~wV~--~~~~~~~l~~~Il~~l~  237 (265)
                      .+=+.-.++-|+|.+|+|||||+..+.-+.....    .=..++||.  .+|+..++.+ +++.++
T Consensus        90 GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~-~~~~~g  154 (310)
T TIGR02236        90 GGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQ-MAEARG  154 (310)
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHH-HHHHcC
Confidence            3435578999999999999999999976533211    113789999  6688877653 444443

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.

>PRK04182 cytidylate kinase; Provisional

Probab=95.93  E-value=0.0064  Score=49.25  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|.|.|+.|+||||+++.+.+.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~   23 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999874

>PRK14527 adenylate kinase; Provisional

Probab=95.93  E-value=0.0068  Score=50.13  Aligned_cols=25  Identities=24%  Similarity=0.226  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|.|+|.+|+||||+|+.+.+.
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~   29 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQE   29 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999998754

>PRK10536 hypothetical protein; Provisional

Probab=95.93  E-value=0.018  Score=50.03  Aligned_cols=55  Identities=11%  Similarity=0.076  Sum_probs=40.2

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEE
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAW  218 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~w  218 (265)
                      ..+.++......++.+|..    ..+|.+.|.+|+|||+||..+.-+.-..+.|+..+-
T Consensus        55 ~~i~p~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI  109 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIV  109 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEE
Confidence            4567788888888888865    248899999999999999998775322334544333

>PRK06620 hypothetical protein; Validated

Probab=95.93  E-value=0.0062  Score=51.59  Aligned_cols=24  Identities=25%  Similarity=0.086  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      +.+-|||++|+|||+|++.+.+..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            567899999999999999988754

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

Probab=95.93  E-value=0.0057  Score=50.31  Aligned_cols=22  Identities=23%  Similarity=0.368  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|-|.|.+|.||||+|+.+-+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4679999999999999999985

>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=95.92  E-value=0.0071  Score=48.80  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|+|+|..|+|||||+..+...
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~   24 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPA   24 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999984

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.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=95.92  E-value=0.0064  Score=50.14  Aligned_cols=24  Identities=21%  Similarity=0.254  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        18 Ge~~~i~G~nGsGKSTLl~~i~G~   41 (190)
T TIGR01166        18 GEVLALLGANGAGKSTLLLHLNGL   41 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999874

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=95.91  E-value=0.0096  Score=56.77  Aligned_cols=48  Identities=25%  Similarity=0.293  Sum_probs=37.4

Q ss_pred             CcccccHHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIV-----------GEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~-----------~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .++.|.+..++++.+.+.-           +-...+-|-++|++|+|||++|+.+++..
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL  240 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSL  240 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhh
Confidence            5688899999998887632           11234557899999999999999999953

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.91  E-value=0.0063  Score=49.64  Aligned_cols=24  Identities=17%  Similarity=0.236  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|.|+|+.|+|||||++.+-+.
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~   27 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQ   27 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHH
Confidence            346899999999999999999874

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

Probab=95.91  E-value=0.013  Score=48.39  Aligned_cols=36  Identities=19%  Similarity=0.158  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          167 DEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       167 ~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+...++.+....   -..+.|+|..|+|||||++.+..
T Consensus        12 ~~~~~~l~~~v~~---g~~i~I~G~tGSGKTTll~aL~~   47 (186)
T cd01130          12 PLQAAYLWLAVEA---RKNILISGGTGSGKTTLLNALLA   47 (186)
T ss_pred             HHHHHHHHHHHhC---CCEEEEECCCCCCHHHHHHHHHh
Confidence            4445555554443   46789999999999999998876

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=95.90  E-value=0.011  Score=53.51  Aligned_cols=44  Identities=23%  Similarity=0.234  Sum_probs=35.9

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..+||-+..+..|+-.+.+.  ...-+.|.|..|+|||||++.+..
T Consensus         4 ~~ivgq~~~~~al~~~~~~~--~~g~vli~G~~G~gKttl~r~~~~   47 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDP--KIGGVMVMGDRGTGKSTAVRALAA   47 (337)
T ss_pred             cccccHHHHHHHHHHHhcCC--CCCeEEEEcCCCCCHHHHHHHHHH
Confidence            57899999888887766653  355677999999999999999964

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=95.90  E-value=0.0068  Score=53.55  Aligned_cols=43  Identities=21%  Similarity=0.158  Sum_probs=29.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCC
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYY  224 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~  224 (265)
                      ...+|+++|.+|+||||++..+......+..-..++.|+ .++.
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r  236 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYR  236 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccc
Confidence            467999999999999999999887532221112445566 4443

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=95.90  E-value=0.0066  Score=48.81  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|.|.|..|+||||+|+.+-+.
T Consensus         2 iI~i~G~~GSGKstia~~la~~   23 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEK   23 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999763

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.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=95.89  E-value=0.0066  Score=49.82  Aligned_cols=23  Identities=26%  Similarity=0.378  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.+..
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhh
Confidence            46899999999999999999963

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.

>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=95.89  E-value=0.0086  Score=48.14  Aligned_cols=36  Identities=19%  Similarity=0.003  Sum_probs=25.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      ..||=+.|.+|+||||||+.+...  ....-....++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~--L~~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERR--LFARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHH--HHHTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEec
Confidence            468899999999999999999984  333334444443

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 ....

>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=95.89  E-value=0.007  Score=50.89  Aligned_cols=25  Identities=24%  Similarity=0.250  Sum_probs=22.6

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .. .+++|+|..|.|||||++.+..-
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 89999999999999999999874

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.89  E-value=0.011  Score=54.51  Aligned_cols=25  Identities=20%  Similarity=0.356  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|+++|.+|+||||++..+...
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~  264 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQ  264 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHH
Confidence            4579999999999999999999763

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=95.89  E-value=0.0089  Score=54.34  Aligned_cols=45  Identities=24%  Similarity=0.239  Sum_probs=37.0

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.+||-++.+..|+..+.+.  .+.-|-|.|..|+||||+|+.+++-
T Consensus        17 ~~ivGq~~~k~al~~~~~~p--~~~~vli~G~~GtGKs~~ar~~~~~   61 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDP--KIGGVMIMGDRGTGKSTTIRALVDL   61 (350)
T ss_pred             HHHhChHHHHHHHHHhccCC--CCCeEEEEcCCCCCHHHHHHHHHHH
Confidence            68999998888887766654  4555669999999999999999773

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=95.88  E-value=0.0069  Score=49.51  Aligned_cols=23  Identities=26%  Similarity=0.310  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G   48 (178)
T cd03229          26 GEIVALLGPSGSGKSTLLRCIAG   48 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999986

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.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.88  E-value=0.0077  Score=50.36  Aligned_cols=24  Identities=25%  Similarity=0.282  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|.+|+||||+|+.+...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~   26 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARH   26 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            568999999999999999999885

>cd00154 Rab Rab family

Probab=95.87  E-value=0.0069  Score=47.15  Aligned_cols=22  Identities=23%  Similarity=0.428  Sum_probs=19.9

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.++|.+|+|||||++.+.+..
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            6899999999999999998764

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

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

Probab=95.86  E-value=0.012  Score=50.08  Aligned_cols=21  Identities=33%  Similarity=0.447  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhh
Q 038685          185 VVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .|+|+|-||+||||+|-.+-.
T Consensus         2 kIaI~GKGG~GKTtiaalll~   22 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLK   22 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHH
Confidence            689999999999999988444

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=95.86  E-value=0.006  Score=53.39  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++|+|+|-|||||||++-.+--
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~   23 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTA   23 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHH
Confidence            5799999999999998887755

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

Probab=95.86  E-value=0.0063  Score=49.17  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+|++|+|+-|+|||||...+-.
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~   24 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVR   24 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHH
Confidence            57999999999999999999955

>smart00175 RAB Rab subfamily of small GTPases

Probab=95.85  E-value=0.0069  Score=47.90  Aligned_cols=22  Identities=18%  Similarity=0.460  Sum_probs=19.8

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|+|.+|+|||||++.+.+..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999998753

Rab GTPases are implicated in vesicle trafficking.

>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=95.84  E-value=0.0062  Score=51.24  Aligned_cols=22  Identities=23%  Similarity=0.329  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++|+|.|-||+||||++-.+-.
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~   22 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSA   22 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHH
Confidence            4799999999999997776654

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

>PRK08356 hypothetical protein; Provisional

Probab=95.84  E-value=0.0076  Score=50.10  Aligned_cols=22  Identities=27%  Similarity=0.175  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      ..+|.|+|++|+||||+|+.+-
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999999993

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=95.84  E-value=0.007  Score=51.67  Aligned_cols=24  Identities=25%  Similarity=0.299  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (235)
T cd03261          26 GEILAIIGPSGSGKSTLLRLIVGL   49 (235)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999874

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.

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

Probab=95.83  E-value=0.0061  Score=49.98  Aligned_cols=21  Identities=19%  Similarity=0.311  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhh
Q 038685          185 VVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +|+|.|+.|+||||+++.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999876

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

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.83  E-value=0.013  Score=51.47  Aligned_cols=26  Identities=27%  Similarity=0.331  Sum_probs=22.3

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...++|.++|.+|+||||++.++...
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~   95 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANK   95 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            34789999999999999988888763

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.

>PRK06761 hypothetical protein; Provisional

Probab=95.83  E-value=0.014  Score=51.57  Aligned_cols=35  Identities=20%  Similarity=0.233  Sum_probs=26.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEE
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWV  219 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV  219 (265)
                      .+|.|.|++|+|||||++.+.+... ...+++..+.
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~-~~g~~v~~~~   38 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILS-QNGIEVELYL   38 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcC-cCceEEEEEe
Confidence            5799999999999999999998643 2234444433

>cd00876 Ras Ras family

Probab=95.83  E-value=0.0081  Score=47.15  Aligned_cols=21  Identities=19%  Similarity=0.387  Sum_probs=18.9

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||.+.+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999998754

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

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=95.83  E-value=0.0074  Score=49.48  Aligned_cols=23  Identities=17%  Similarity=0.173  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++.|+|..|+|||||++.+...
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~   26 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAAL   26 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            47899999999999999999984

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

Probab=95.82  E-value=0.0071  Score=50.65  Aligned_cols=24  Identities=17%  Similarity=0.195  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+...
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          26 GEIFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>cd04113 Rab4 Rab4 subfamily

Probab=95.82  E-value=0.0073  Score=47.86  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=19.5

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|+|.+|+|||||++.+.+..
T Consensus         3 i~v~G~~~vGKTsli~~l~~~~   24 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVENK   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6899999999999999987643

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

>PRK05642 DNA replication initiation factor; Validated

Probab=95.82  E-value=0.021  Score=49.03  Aligned_cols=36  Identities=11%  Similarity=0.087  Sum_probs=26.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      ...+-|+|..|+|||+|++.+.+..  ...-..+++++
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~--~~~~~~v~y~~   80 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRF--EQRGEPAVYLP   80 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HhCCCcEEEee
Confidence            3678899999999999999998742  21123445665

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

Probab=95.81  E-value=0.0074  Score=50.91  Aligned_cols=24  Identities=17%  Similarity=0.176  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (220)
T cd03263          28 GEIFGLLGHNGAGKTTTLKMLTGE   51 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999974

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.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=95.81  E-value=0.0073  Score=51.77  Aligned_cols=24  Identities=29%  Similarity=0.278  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        28 Ge~~~l~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        28 GEFVAIIGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999863

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.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=95.81  E-value=0.0074  Score=50.96  Aligned_cols=24  Identities=29%  Similarity=0.281  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        30 G~~~~i~G~nGsGKSTLl~~l~Gl   53 (220)
T cd03293          30 GEFVALVGPSGCGKSTLLRIIAGL   53 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999874

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.

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

Probab=95.80  E-value=0.0085  Score=47.15  Aligned_cols=22  Identities=18%  Similarity=0.431  Sum_probs=19.3

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|+|.+|+|||||++.+.++.
T Consensus         4 i~iiG~~~vGKTsl~~~~~~~~   25 (162)
T cd04138           4 LVVVGAGGVGKSALTIQLIQNH   25 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6899999999999999987653

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.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=95.79  E-value=0.0077  Score=50.58  Aligned_cols=24  Identities=25%  Similarity=0.314  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 G~~~~l~G~nGsGKSTLl~~i~Gl   51 (214)
T TIGR02673        28 GEFLFLTGPSGAGKTTLLKLLYGA   51 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=95.79  E-value=0.0069  Score=53.20  Aligned_cols=22  Identities=14%  Similarity=0.178  Sum_probs=19.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++|+|+|-|||||||++-.+-.
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~   23 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAA   23 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHH
Confidence            5799999999999998877655

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.78  E-value=0.0091  Score=49.42  Aligned_cols=25  Identities=16%  Similarity=0.134  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|.|+|+.|+|||||++.+...
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            3578999999999999999999875

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=95.78  E-value=0.0069  Score=47.72  Aligned_cols=20  Identities=25%  Similarity=0.390  Sum_probs=18.6

Q ss_pred             EEEEcCCCCChhHHHHHHhh
Q 038685          186 VAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~  205 (265)
                      |+++|..|+|||||.+.+.+
T Consensus         2 i~l~G~~g~GKTtL~~~l~~   21 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTN   21 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhc
Confidence            68999999999999999993

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.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=95.77  E-value=0.0079  Score=50.50  Aligned_cols=24  Identities=25%  Similarity=0.249  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~   49 (213)
T cd03259          26 GEFLALLGPSGCGKTTLLRLIAGL   49 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999873

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.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=95.77  E-value=0.0077  Score=51.48  Aligned_cols=24  Identities=25%  Similarity=0.257  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (241)
T cd03256          27 GEFVALIGPSGAGKSTLLRCLNGL   50 (241)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999863

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.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=95.77  E-value=0.0076  Score=50.62  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          25 GEFLAIVGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999874

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.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=95.76  E-value=0.0081  Score=51.16  Aligned_cols=23  Identities=35%  Similarity=0.299  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|+.|+|||||...+.-
T Consensus        31 Ge~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          31 GEFVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999986

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

Probab=95.76  E-value=0.0073  Score=43.14  Aligned_cols=22  Identities=27%  Similarity=0.493  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|.+.|.+|+||||++..+...
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~   22 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAA   22 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998874

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

>PRK13531 regulatory ATPase RavA; Provisional

Probab=95.76  E-value=0.015  Score=54.96  Aligned_cols=43  Identities=19%  Similarity=0.238  Sum_probs=35.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|+++..+.+...++.+.    -|-+.|.+|+||||||+.+...
T Consensus        20 ~~i~gre~vI~lll~aalag~----hVLL~GpPGTGKT~LAraLa~~   62 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE----SVFLLGPPGIAKSLIARRLKFA   62 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC----CEEEECCCChhHHHHHHHHHHH
Confidence            468999999999888876543    3458999999999999999984

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.76  E-value=0.0081  Score=49.81  Aligned_cols=24  Identities=17%  Similarity=0.214  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (195)
T PRK13541         26 SAITYIKGANGCGKSSLLRMIAGI   49 (195)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999999884

>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=95.75  E-value=0.0042  Score=48.18  Aligned_cols=27  Identities=30%  Similarity=0.319  Sum_probs=17.9

Q ss_pred             EEEEcCCCCChhHHHHHHhhcccccccCC
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSNYMKNYFY  214 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~~v~~~F~  214 (265)
                      |-++|.+|+||||||+.+-..  +...|.
T Consensus         2 vLleg~PG~GKT~la~~lA~~--~~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARS--LGLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHH--TT--EE
T ss_pred             EeeECCCccHHHHHHHHHHHH--cCCcee
Confidence            458999999999999999883  555564

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.

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

Probab=95.75  E-value=0.0081  Score=51.00  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        36 Ge~~~i~G~nGsGKSTLl~~i~Gl   59 (228)
T PRK10584         36 GETIALIGESGSGKSTLLAILAGL   59 (228)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            469999999999999999999974

>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=95.74  E-value=0.0075  Score=49.54  Aligned_cols=24  Identities=29%  Similarity=0.272  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl   48 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQ   48 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcC
Confidence            468999999999999999999874

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.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=95.74  E-value=0.0082  Score=50.93  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G~   49 (227)
T cd03260          26 GEITALIGPSGCGKSTLLRLLNRL   49 (227)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999863

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).

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=95.74  E-value=0.018  Score=52.08  Aligned_cols=46  Identities=20%  Similarity=0.260  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..++.|.+++..+. -...+-++|.+|+||||+|+.+...
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~   59 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKA   59 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999886543 2356778999999999999887654

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PLN02200 adenylate kinase family protein

Probab=95.73  E-value=0.0098  Score=51.09  Aligned_cols=25  Identities=12%  Similarity=0.193  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|.|.|++|+||||+|+.+...
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~   66 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVET   66 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999998763

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.73  E-value=0.0088  Score=53.75  Aligned_cols=25  Identities=28%  Similarity=0.381  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+++|++|+||||++..+...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~  137 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHK  137 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4689999999999999999998774

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=95.72  E-value=0.0085  Score=50.26  Aligned_cols=24  Identities=29%  Similarity=0.368  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 G~~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          27 GEFVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999884

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.72  E-value=0.0085  Score=50.04  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          26 GEIIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999884

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.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.72  E-value=0.039  Score=49.53  Aligned_cols=63  Identities=14%  Similarity=-0.008  Sum_probs=41.9

Q ss_pred             HHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccc----cCCeeEEEe--CCCCHHHHHHHHHHHhCC
Q 038685          175 LLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKN----YFYCRAWVG--CEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       175 ~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~----~F~~~~wV~--~~~~~~~l~~~Il~~l~~  238 (265)
                      +|..+=+.-.++-|+|.+|+|||||+..+.-......    .-..++|+.  ..|+..++ ..+.+.++.
T Consensus        88 ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~  156 (316)
T TIGR02239        88 LLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGL  156 (316)
T ss_pred             HhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCC
Confidence            3434445678999999999999999998876322211    123678998  55777764 334555443

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).

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=95.72  E-value=0.024  Score=49.11  Aligned_cols=53  Identities=13%  Similarity=0.081  Sum_probs=39.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe----CCCCHHHHHHHH---HHHhCC
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG----CEYYLHKVLDNI---IKSVMP  238 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~----~~~~~~~l~~~I---l~~l~~  238 (265)
                      -..+.++|..|+||||+.+.|+.   .-.+=.-.+.+.    ++.+..++-++|   +++++.
T Consensus        27 gef~vliGpSGsGKTTtLkMINr---Liept~G~I~i~g~~i~~~d~~~LRr~IGYviQqigL   86 (309)
T COG1125          27 GEFLVLIGPSGSGKTTTLKMINR---LIEPTSGEILIDGEDISDLDPVELRRKIGYVIQQIGL   86 (309)
T ss_pred             CeEEEEECCCCCcHHHHHHHHhc---ccCCCCceEEECCeecccCCHHHHHHhhhhhhhhccc
Confidence            45778999999999999999987   444445667776    667777776665   555543

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=95.72  E-value=0.0076  Score=50.54  Aligned_cols=22  Identities=18%  Similarity=0.247  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++|+|..|.|||||++.+..-
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCC
Confidence            8999999999999999999973

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.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=95.72  E-value=0.0085  Score=50.60  Aligned_cols=24  Identities=17%  Similarity=0.159  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          26 GEIFGLLGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=95.72  E-value=0.0088  Score=50.47  Aligned_cols=24  Identities=25%  Similarity=0.329  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          26 GEIVALLGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCC
Confidence            469999999999999999999863

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.

>cd00879 Sar1 Sar1 subfamily

Probab=95.72  E-value=0.016  Score=47.38  Aligned_cols=24  Identities=13%  Similarity=0.099  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|+|+|.+|+|||||++.+.++
T Consensus        19 ~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            344599999999999999999873

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.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=95.71  E-value=0.0085  Score=51.21  Aligned_cols=24  Identities=21%  Similarity=0.220  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~   50 (236)
T TIGR03864        27 GEFVALLGPNGAGKSTLFSLLTRL   50 (236)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999864

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.

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

Probab=95.71  E-value=0.007  Score=53.21  Aligned_cols=22  Identities=23%  Similarity=0.466  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|+|.|..|+|||||++.+..-
T Consensus         1 iigI~G~sGsGKSTl~~~L~~l   22 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSL   22 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999999863

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.

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

Probab=95.71  E-value=0.0077  Score=55.82  Aligned_cols=25  Identities=24%  Similarity=0.299  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+.|+|+|..|+|||||++.+.+.
T Consensus       218 ~~~~IvI~G~~gsGKTTL~~~La~~  242 (399)
T PRK08099        218 FVRTVAILGGESSGKSTLVNKLANI  242 (399)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            4788999999999999999999874

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

Probab=95.71  E-value=0.0075  Score=52.40  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++|+|.|-||+||||++-.+-.-
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~   24 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAA   24 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHH
Confidence            57899999999999988877653

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.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=95.71  E-value=0.0086  Score=50.52  Aligned_cols=24  Identities=38%  Similarity=0.299  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        31 G~~~~i~G~nGsGKSTLl~~i~G~   54 (221)
T TIGR02211        31 GEIVAIVGSSGSGKSTLLHLLGGL   54 (221)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999863

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.

>cd01394 radB RadB

Probab=95.70  E-value=0.038  Score=46.51  Aligned_cols=38  Identities=18%  Similarity=0.116  Sum_probs=28.6

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      +.-.++-|.|.+|+|||||+..+....  ...=..++|++
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~~a~~~--~~~g~~v~yi~   54 (218)
T cd01394          17 ERGTVTQVYGPPGTGKTNIAIQLAVET--AGQGKKVAYID   54 (218)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEE
Confidence            457899999999999999999987642  22223566776

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

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=95.69  E-value=0.009  Score=47.26  Aligned_cols=24  Identities=25%  Similarity=0.383  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      +-|-++|..|+|||||++.+...+
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            357799999999999999999864

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

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=95.69  E-value=0.0087  Score=51.24  Aligned_cols=24  Identities=29%  Similarity=0.267  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (239)
T cd03296          28 GELVALLGPSGSGKTTLLRLIAGL   51 (239)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>PRK01184 hypothetical protein; Provisional

Probab=95.68  E-value=0.0089  Score=48.98  Aligned_cols=19  Identities=26%  Similarity=0.560  Sum_probs=17.1

Q ss_pred             EEEEEEcCCCCChhHHHHH
Q 038685          184 SVVAIVGSSGFDKTDFAGE  202 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~  202 (265)
                      .+|+|+|++|+||||+++.
T Consensus         2 ~~i~l~G~~GsGKsT~a~~   20 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSKI   20 (184)
T ss_pred             cEEEEECCCCCCHHHHHHH
Confidence            4899999999999999883

>PRK13236 nitrogenase reductase; Reviewed

Probab=95.68  E-value=0.0098  Score=52.86  Aligned_cols=26  Identities=15%  Similarity=0.363  Sum_probs=21.4

Q ss_pred             CCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          180 EPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       180 ~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +++.+||++.|-|||||||++-.+--
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~   28 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLA   28 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHH
Confidence            34689999999999999997766544

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=95.68  E-value=0.0088  Score=50.64  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          31 GETLGLVGESGSGKSTLARAILGL   54 (228)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>cd04123 Rab21 Rab21 subfamily

Probab=95.67  E-value=0.0092  Score=46.93  Aligned_cols=22  Identities=18%  Similarity=0.276  Sum_probs=19.6

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |+|+|.+|+|||||.+.+.+..
T Consensus         3 i~i~G~~~~GKStli~~l~~~~   24 (162)
T cd04123           3 VVLLGEGRVGKTSLVLRYVENK   24 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999888753

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

>PRK12608 transcription termination factor Rho; Provisional

Probab=95.66  E-value=0.024  Score=51.82  Aligned_cols=68  Identities=12%  Similarity=-0.088  Sum_probs=47.0

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCe-eEEEe---CCCCHHHHHHHHHHHhCCC
Q 038685          170 KELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYC-RAWVG---CEYYLHKVLDNIIKSVMPR  239 (265)
Q Consensus       170 ~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~-~~wV~---~~~~~~~l~~~Il~~l~~~  239 (265)
                      ..+++.+.--. +-.-+.|+|.+|+|||||++.+.+...- ++=+. ++|+.   +.-.+.++++.+...+...
T Consensus       121 ~RvID~l~PiG-kGQR~LIvG~pGtGKTTLl~~la~~i~~-~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvas  192 (380)
T PRK12608        121 MRVVDLVAPIG-KGQRGLIVAPPRAGKTVLLQQIAAAVAA-NHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAS  192 (380)
T ss_pred             HhhhhheeecC-CCceEEEECCCCCCHHHHHHHHHHHHHh-cCCCceEEEEEecCCCCCHHHHHHHHhhhEEee
Confidence            44677665311 2355689999999999999998874211 12233 35655   7778899999998877754

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=95.65  E-value=0.015  Score=49.67  Aligned_cols=43  Identities=28%  Similarity=0.299  Sum_probs=33.4

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      .++||-++.++.|--...+++  ..-+-|.||+|+||||-+..+-
T Consensus        27 ~dIVGNe~tv~rl~via~~gn--mP~liisGpPG~GKTTsi~~LA   69 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGN--MPNLIISGPPGTGKTTSILCLA   69 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCC--CCceEeeCCCCCchhhHHHHHH
Confidence            579999998888876665554  6667799999999999655443

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

Probab=95.65  E-value=0.0077  Score=47.96  Aligned_cols=22  Identities=23%  Similarity=0.412  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|++.|.+|+||||++..+...
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~   22 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITA   22 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHH
Confidence            4789999999999999998774

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.

>cd01864 Rab19 Rab19 subfamily

Probab=95.64  E-value=0.0092  Score=47.60  Aligned_cols=23  Identities=17%  Similarity=0.184  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-|.|+|.+|+|||||+..+..+
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~~   26 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKSG   26 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            45789999999999999998653

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.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.64  E-value=0.0095  Score=49.77  Aligned_cols=24  Identities=25%  Similarity=0.188  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+...
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~l~G~   50 (204)
T PRK13538         27 GELVQIEGPNGAGKTSLLRILAGL   50 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=95.64  E-value=0.0091  Score=46.37  Aligned_cols=22  Identities=23%  Similarity=0.397  Sum_probs=19.7

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|+|.+|+|||||++.+.+..
T Consensus         3 v~liG~~~vGKSsL~~~l~~~~   24 (142)
T TIGR02528         3 IMFIGSVGCGKTTLTQALQGEE   24 (142)
T ss_pred             EEEECCCCCCHHHHHHHHcCCc
Confidence            7899999999999999987753

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.

>PRK13768 GTPase; Provisional

Probab=95.64  E-value=0.0094  Score=51.79  Aligned_cols=24  Identities=21%  Similarity=0.335  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|.||+||||++..+...
T Consensus         2 ~~~i~v~G~~G~GKTt~~~~~~~~   25 (253)
T PRK13768          2 MYIVFFLGTAGSGKTTLTKALSDW   25 (253)
T ss_pred             cEEEEEECCCCccHHHHHHHHHHH
Confidence            368899999999999998887764

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=95.64  E-value=0.0089  Score=52.33  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++|+|+|-|||||||++-.+-.
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~   24 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAA   24 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Confidence            6899999999999998886554

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

Probab=95.63  E-value=0.0092  Score=47.12  Aligned_cols=22  Identities=23%  Similarity=0.226  Sum_probs=19.9

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |+|+|.+|+|||||.+.+.+..
T Consensus         2 i~iiG~~~~GKssli~~~~~~~   23 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGE   23 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            6899999999999999998763

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

>PRK13946 shikimate kinase; Provisional

Probab=95.62  E-value=0.0093  Score=49.11  Aligned_cols=24  Identities=21%  Similarity=0.214  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.|.++|+.|+||||+++.+-+.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~   33 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATM   33 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999999874

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=95.62  E-value=0.0093  Score=50.33  Aligned_cols=24  Identities=17%  Similarity=0.178  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        13 Ge~~~l~G~NGsGKSTLlk~i~Gl   36 (213)
T PRK15177         13 HEHIGILAAPGSGKTTLTRLLCGL   36 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999974

>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=95.62  E-value=0.009  Score=49.11  Aligned_cols=21  Identities=19%  Similarity=0.268  Sum_probs=19.3

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|.|++|+||||+|+.+...
T Consensus         2 I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999874

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

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=95.62  E-value=0.014  Score=56.07  Aligned_cols=44  Identities=30%  Similarity=0.316  Sum_probs=35.7

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++++|.+..+..+...+....  ..-|-|+|.+|+||||+|+.+++
T Consensus        65 ~~iiGqs~~i~~l~~al~~~~--~~~vLi~Ge~GtGKt~lAr~i~~  108 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCGPN--PQHVIIYGPPGVGKTAAARLVLE  108 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHH
Confidence            479999999999988765443  33446899999999999999986

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

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

Probab=95.61  E-value=0.011  Score=46.75  Aligned_cols=22  Identities=32%  Similarity=0.564  Sum_probs=19.8

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|+|.+|+|||||++.+.+..
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~   23 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE   23 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            6899999999999999988854

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 ....

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=95.61  E-value=0.019  Score=56.20  Aligned_cols=47  Identities=23%  Similarity=0.271  Sum_probs=37.9

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .++||-+..+..|.+.+..+. -...+-++|..|+||||+|+.+.+.-
T Consensus        16 ~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L   62 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGL   62 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            689999999998888886543 23456789999999999999987743

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=95.61  E-value=0.0098  Score=50.73  Aligned_cols=24  Identities=33%  Similarity=0.253  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        35 Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         35 GEMMAIVGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999999874

>cd04124 RabL2 RabL2 subfamily

Probab=95.61  E-value=0.01  Score=47.40  Aligned_cols=21  Identities=14%  Similarity=0.316  Sum_probs=18.2

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||++.+.+.
T Consensus         3 i~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999887653

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

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=95.61  E-value=0.01  Score=49.51  Aligned_cols=24  Identities=25%  Similarity=0.167  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~   47 (206)
T TIGR03608        24 GKMYAIIGESGSGKSTLLNIIGLL   47 (206)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999999873

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.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=95.60  E-value=0.015  Score=55.45  Aligned_cols=48  Identities=23%  Similarity=0.394  Sum_probs=35.1

Q ss_pred             CcccccHHHHHHHHHHHh---c-------CCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLI---V-------GEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~---~-------~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ++++|.+..++++.+++.   .       +....+-+-++|++|+|||+||+.+.+..
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~  112 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA  112 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc
Confidence            578898888877766542   1       11223447799999999999999998853

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>cd01898 Obg Obg subfamily

Probab=95.60  E-value=0.0092  Score=47.61  Aligned_cols=21  Identities=24%  Similarity=0.339  Sum_probs=19.1

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+|+|.+|+|||||++.+.+.
T Consensus         3 v~ivG~~~~GKStl~~~l~~~   23 (170)
T cd01898           3 VGLVGLPNAGKSTLLSAISNA   23 (170)
T ss_pred             eEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999999753

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.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=95.60  E-value=0.0098  Score=51.42  Aligned_cols=24  Identities=29%  Similarity=0.436  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+...
T Consensus        25 Ge~~~i~G~NGsGKSTLlk~L~G~   48 (246)
T cd03237          25 SEVIGILGPNGIGKTTFIKMLAGV   48 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999884

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.

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

Probab=95.60  E-value=0.018  Score=48.27  Aligned_cols=50  Identities=16%  Similarity=0.077  Sum_probs=31.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhhccc-----ccccCC-eeEEEe-CCCCHHHHHHHHHH
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSNY-----MKNYFY-CRAWVG-CEYYLHKVLDNIIK  234 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~~-----v~~~F~-~~~wV~-~~~~~~~l~~~Il~  234 (265)
                      +..|+|++|.||||++..+-....     ....-. ...+++ .+..+..++..+.+
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            788999999999976666555321     112333 455555 66777888888877

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=95.60  E-value=0.0098  Score=51.62  Aligned_cols=24  Identities=21%  Similarity=0.254  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (255)
T PRK11248         27 GELLVVLGPSGCGKTTLLNLIAGF   50 (255)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=95.59  E-value=0.01  Score=50.43  Aligned_cols=24  Identities=21%  Similarity=0.148  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+...
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~   56 (225)
T PRK10247         33 GEFKLITGPSGCGKSTLLKIVASL   56 (225)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999874

>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=95.59  E-value=0.01  Score=50.59  Aligned_cols=24  Identities=21%  Similarity=0.246  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~G~   54 (233)
T cd03258          31 GEIFGIIGRSGAGKSTLIRCINGL   54 (233)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>PRK12377 putative replication protein; Provisional

Probab=95.59  E-value=0.02  Score=49.61  Aligned_cols=36  Identities=17%  Similarity=0.002  Sum_probs=27.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      ...+-++|.+|+|||+||..|.+..  ......+++++
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l--~~~g~~v~~i~  136 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRL--LAKGRSVIVVT  136 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HHcCCCeEEEE
Confidence            4678899999999999999999953  33344456665

>cd04136 Rap_like Rap-like subfamily

Probab=95.58  E-value=0.012  Score=46.60  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||+..+.++
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~   24 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQG   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999887653

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.

>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=95.58  E-value=0.0098  Score=50.72  Aligned_cols=24  Identities=17%  Similarity=0.189  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~Gl   49 (236)
T cd03219          26 GEIHGLIGPNGAGKTTLFNLISGF   49 (236)
T ss_pred             CcEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999873

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).

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=95.57  E-value=0.01  Score=49.71  Aligned_cols=24  Identities=25%  Similarity=0.192  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03301          26 GEFVVLLGPSGCGKTTTLRMIAGL   49 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999974

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.

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.57  E-value=0.018  Score=55.05  Aligned_cols=47  Identities=15%  Similarity=0.152  Sum_probs=38.5

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      +++||-+..+..|.+++..+. -...+-++|+.|+||||+|+.+-+.-
T Consensus        16 ~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAKCL   62 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999996653 23456799999999999999888743

>cd00157 Rho Rho (Ras homology) family

Probab=95.56  E-value=0.01  Score=47.27  Aligned_cols=22  Identities=18%  Similarity=0.222  Sum_probs=19.6

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|+|.+|+|||||++.+.+..
T Consensus         3 i~i~G~~~~GKSsli~~l~~~~   24 (171)
T cd00157           3 IVVVGDGAVGKTCLLISYTTGK   24 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999998764

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

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=95.56  E-value=0.014  Score=57.84  Aligned_cols=80  Identities=18%  Similarity=0.295  Sum_probs=51.0

Q ss_pred             CCcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc---cccccC-CeeEEE-------e-CCC--C
Q 038685          159 KRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN---YMKNYF-YCRAWV-------G-CEY--Y  224 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~---~v~~~F-~~~~wV-------~-~~~--~  224 (265)
                      -++++||+++...+++.|....++-.|  .+|-+|||||+++.-+...-   .|=... +.+++.       . ..|  .
T Consensus       169 lDPvIGRd~EI~r~iqIL~RR~KNNPv--LiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAGakyRGe  246 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSRRTKNNPV--LVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGE  246 (786)
T ss_pred             CCCCcChHHHHHHHHHHHhccCCCCCe--EecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhccccccCc
Confidence            367999999999999999876433333  56999999999765544421   121111 223332       1 222  4


Q ss_pred             HHHHHHHHHHHhCCCC
Q 038685          225 LHKVLDNIIKSVMPRS  240 (265)
Q Consensus       225 ~~~l~~~Il~~l~~~~  240 (265)
                      .++=++.+++.+....
T Consensus       247 FEeRlk~vl~ev~~~~  262 (786)
T COG0542         247 FEERLKAVLKEVEKSK  262 (786)
T ss_pred             HHHHHHHHHHHHhcCC
Confidence            6777888888877543

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=95.56  E-value=0.01  Score=50.54  Aligned_cols=24  Identities=17%  Similarity=0.268  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        11 Ge~~~i~G~nGsGKSTLl~~l~Gl   34 (230)
T TIGR01184        11 GEFISLIGHSGCGKSTLLNLISGL   34 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999874

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.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=95.55  E-value=0.01  Score=50.52  Aligned_cols=24  Identities=29%  Similarity=0.205  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        12 Ge~~~i~G~nGsGKSTLl~~l~Gl   35 (230)
T TIGR02770        12 GEVLALVGESGSGKSLTCLAILGL   35 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999984

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.

>cd04171 SelB SelB subfamily

Probab=95.55  E-value=0.011  Score=46.75  Aligned_cols=21  Identities=14%  Similarity=0.224  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhh
Q 038685          185 VVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +|+|+|.+|+|||||.+.+.+
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~   22 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTG   22 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhC
Confidence            799999999999999999874

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=95.54  E-value=0.01  Score=47.28  Aligned_cols=20  Identities=30%  Similarity=0.348  Sum_probs=17.9

Q ss_pred             EEEEcCCCCChhHHHHHHhh
Q 038685          186 VAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~  205 (265)
                      |.|+|..|+|||||.+.+..
T Consensus         2 i~~vG~~~~GKstLi~~l~~   21 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKT   21 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhh
Confidence            68999999999999998854

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.

>PRK06835 DNA replication protein DnaC; Validated

Probab=95.54  E-value=0.41  Score=43.27  Aligned_cols=23  Identities=17%  Similarity=0.171  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-+-++|..|+|||+||..|.+.
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~  206 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKE  206 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHH
Confidence            66889999999999999999985

>PRK00698 tmk thymidylate kinase; Validated

Probab=95.54  E-value=0.012  Score=48.85  Aligned_cols=23  Identities=17%  Similarity=0.110  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|+|.|+.|+||||+++.+.+.
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~   26 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKEL   26 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999884

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=95.54  E-value=0.011  Score=50.33  Aligned_cols=24  Identities=21%  Similarity=0.159  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~Gl   49 (232)
T cd03218          26 GEIVGLLGPNGAGKTTTFYMIVGL   49 (232)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999873

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.

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.53  E-value=0.017  Score=54.79  Aligned_cols=45  Identities=22%  Similarity=0.299  Sum_probs=36.0

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .++||-+...+.|.+.+..+. -..-+-++|+.|+||||+|+.+-.
T Consensus        13 ~dliGQe~vv~~L~~a~~~~r-i~ha~Lf~Gp~G~GKTT~ArilAk   57 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNK-IPQSILLVGASGVGKTTCARIISL   57 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCccHHHHHHHHHH
Confidence            689999888888887776543 234677999999999999988865

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=95.52  E-value=0.011  Score=50.68  Aligned_cols=24  Identities=21%  Similarity=0.286  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        26 GEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999874

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.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=95.52  E-value=0.011  Score=47.89  Aligned_cols=23  Identities=22%  Similarity=0.273  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..|.|+|+.|+||||+++.+-+.
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~   25 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQA   25 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35788999999999999999874

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.52  E-value=0.036  Score=50.34  Aligned_cols=57  Identities=11%  Similarity=0.053  Sum_probs=41.0

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcccccc----cCCeeEEEe--CCCCHHHHHHHHHHHhCC
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKN----YFYCRAWVG--CEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~----~F~~~~wV~--~~~~~~~l~~~Il~~l~~  238 (265)
                      +.-.++=|+|.+|+|||+|+..+.=......    .-..++||.  .+|++.+|.+ |++.++.
T Consensus       124 ~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~  186 (344)
T PLN03187        124 ETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGM  186 (344)
T ss_pred             CCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCC
Confidence            4567888999999999999998864322211    124689998  7788888765 5566554

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=95.52  E-value=0.011  Score=50.69  Aligned_cols=24  Identities=17%  Similarity=0.159  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G~   51 (242)
T PRK11124         28 GETLVLLGPSGAGKSSLLRVLNLL   51 (242)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999974

>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=95.52  E-value=0.02  Score=46.27  Aligned_cols=36  Identities=22%  Similarity=0.377  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          167 DEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       167 ~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      +..++|..+|..     +++.++|..|+||+||.+.+..+.
T Consensus        24 ~g~~~l~~~l~~-----k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG-----KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT-----SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC-----CEEEEECCCCCCHHHHHHHHHhhc
Confidence            445667776632     688899999999999999999874

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.

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

Probab=95.51  E-value=0.0094  Score=49.18  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|+|-|+.|+||||+++.+.+.
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~   22 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEH   22 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999885

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.

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=95.51  E-value=0.0096  Score=52.13  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++|+|+|-|||||||++-.+-.
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~   23 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVA   23 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHH
Confidence            5899999999999998776554

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.50  E-value=0.018  Score=57.61  Aligned_cols=47  Identities=21%  Similarity=0.275  Sum_probs=36.6

Q ss_pred             CcccccHHHHHHHHHHHhcC-----------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG-----------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~-----------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++.|.+..++.+.+++...           -...+-|-++|.+|+||||||+.+.+.
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~  235 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANE  235 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHH
Confidence            45889999999988876321           022456779999999999999999984

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

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

Probab=95.50  E-value=0.0091  Score=51.55  Aligned_cols=22  Identities=23%  Similarity=0.477  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|-++|++|+||||+|+.+...
T Consensus         1 LIvl~G~pGSGKST~a~~La~~   22 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKK   22 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            3679999999999999998764

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=95.49  E-value=0.011  Score=46.71  Aligned_cols=22  Identities=14%  Similarity=0.288  Sum_probs=19.9

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|+|.+|+|||||++.+.++.
T Consensus         4 i~v~G~~~~GKSsli~~l~~~~   25 (163)
T cd01860           4 LVLLGDSSVGKSSLVLRFVKNE   25 (163)
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6899999999999999998864

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

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.49  E-value=0.013  Score=48.41  Aligned_cols=24  Identities=25%  Similarity=0.130  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ..|+|.|..|+||||+++.+.+..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999998853

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.

>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=95.49  E-value=0.012  Score=47.76  Aligned_cols=22  Identities=32%  Similarity=0.339  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++.++|++|+||||++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~   23 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALY   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7889999999999999988764

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.

>PRK10908 cell division protein FtsE; Provisional

Probab=95.49  E-value=0.012  Score=49.86  Aligned_cols=24  Identities=17%  Similarity=0.140  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G~   51 (222)
T PRK10908         28 GEMAFLTGHSGAGKSTLLKLICGI   51 (222)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.49  E-value=0.032  Score=51.23  Aligned_cols=41  Identities=22%  Similarity=0.154  Sum_probs=28.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCC
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEY  223 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~  223 (265)
                      -.++.++|+.|+||||++.++-.....+.-...+..++ .++
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~  178 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSY  178 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccc
Confidence            46999999999999999999987422111123455555 444

>cd04177 RSR1 RSR1 subgroup

Probab=95.49  E-value=0.013  Score=46.98  Aligned_cols=22  Identities=14%  Similarity=0.371  Sum_probs=19.3

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.++|.+|+|||||++.+.++.
T Consensus         4 i~liG~~~~GKTsli~~~~~~~   25 (168)
T cd04177           4 IVVLGAGGVGKSALTVQFVQNV   25 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999977544

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

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.49  E-value=0.024  Score=51.85  Aligned_cols=46  Identities=20%  Similarity=0.233  Sum_probs=38.4

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+...+.+.+.+..+. -...+-++|+.|+||||+|+.+-+.
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-~~~~~L~~G~~G~GKt~~a~~la~~   62 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-LAQALLFCGPRGVGKTTCARILARK   62 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999887643 2457789999999999999998774

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=95.49  E-value=0.04  Score=48.22  Aligned_cols=22  Identities=32%  Similarity=0.351  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|+|.|..|+||||+++.+...
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~   22 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHI   22 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999988763

PRK 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.

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

Probab=95.48  E-value=0.011  Score=51.50  Aligned_cols=54  Identities=11%  Similarity=0.091  Sum_probs=34.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CC---C---CHHHHHHHHHHHhCC
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CE---Y---YLHKVLDNIIKSVMP  238 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~---~---~~~~l~~~Il~~l~~  238 (265)
                      +-.++|+||..|+|||||++.|-.   ...--.-.+++. +.   .   ...+-..++++.++.
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~---L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl   98 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILG---LEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGL   98 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHc---CcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCC
Confidence            457899999999999999999987   222223344444 22   2   233445556666553

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=95.48  E-value=0.024  Score=51.26  Aligned_cols=76  Identities=12%  Similarity=0.221  Sum_probs=54.4

Q ss_pred             CCcccccHHHHHHHHHHHhcC----CCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-------CCCC--H
Q 038685          159 KRNIVGLEDEMKELLDLLIVG----EPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-------CEYY--L  225 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~~~----~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-------~~~~--~  225 (265)
                      ...++|.++..+++++.+...    +.+-+|+-.+|+.|.||+||++.+.+-  ... |  .+|+-       .+..  +
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~--le~-y--~~Y~l~~~Pm~e~PL~L~P  134 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRG--LEE-Y--PIYTLKGCPMHEEPLHLFP  134 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHH--hhe-E--EEEEecCCccccChhhhCC
Confidence            468999999999999998643    456789999999999999999999883  222 2  44442       2212  3


Q ss_pred             HHHHHHHHHHhCCC
Q 038685          226 HKVLDNIIKSVMPR  239 (265)
Q Consensus       226 ~~l~~~Il~~l~~~  239 (265)
                      .++-+.+.+.++..
T Consensus       135 ~~~r~~~~~~~~~~  148 (358)
T PF08298_consen  135 KELRREFEDELGIR  148 (358)
T ss_pred             HhHHHHHHHHhCcc
Confidence            45556666666653

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=95.48  E-value=0.012  Score=49.61  Aligned_cols=24  Identities=21%  Similarity=0.152  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (218)
T cd03266          31 GEVTGLLGPNGAGKTTTLRMLAGL   54 (218)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>TIGR00602 rad24 checkpoint protein rad24

Probab=95.48  E-value=0.021  Score=55.83  Aligned_cols=49  Identities=14%  Similarity=0.175  Sum_probs=40.0

Q ss_pred             CCCcccccHHHHHHHHHHHhcCC---CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          158 KKRNIVGLEDEMKELLDLLIVGE---PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~~~---~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-++++|-+...+++..||....   ..-.++.++|++|+||||+++.+...
T Consensus        82 ~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~  133 (637)
T TIGR00602        82 TQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKE  133 (637)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999986532   23467999999999999999999984

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.47  E-value=0.023  Score=49.32  Aligned_cols=50  Identities=20%  Similarity=0.254  Sum_probs=38.2

Q ss_pred             CCcccccHHHHHH---HHHHHhcC----CCCeEEEEEEcCCCCChhHHHHHHhhccc
Q 038685          159 KRNIVGLEDEMKE---LLDLLIVG----EPSLSVVAIVGSSGFDKTDFAGEAYNSNY  208 (265)
Q Consensus       159 ~~~~vG~e~~~~~---l~~~L~~~----~~~~~VI~IvG~gGvGKTTLa~~vy~~~~  208 (265)
                      -+++||-++.+.+   |++.|.+.    +...+-|-.+|++|.|||.+|+.+-|..+
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~k  176 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAK  176 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccC
Confidence            3689998877764   34555443    34578888999999999999999999653

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=95.47  E-value=0.012  Score=51.26  Aligned_cols=23  Identities=22%  Similarity=0.341  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++|+|.|-||+||||++..+-..
T Consensus         3 ~~iav~~KGGvGKTT~a~nLA~~   25 (264)
T PRK13231          3 KKIAIYGKGGIGKSTTVSNMAAA   25 (264)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcc
Confidence            68999999999999999988774

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.47  E-value=0.012  Score=48.69  Aligned_cols=24  Identities=25%  Similarity=0.288  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+...
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          33 GTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999963

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.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=95.47  E-value=0.012  Score=48.83  Aligned_cols=24  Identities=17%  Similarity=0.195  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+...
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~   49 (198)
T TIGR01189        26 GEALQVTGPNGIGKTTLLRILAGL   49 (198)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999884

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.

>PRK15453 phosphoribulokinase; Provisional

Probab=95.46  E-value=0.014  Score=51.42  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +..+|+|.|.+|+||||+++.+..
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~   27 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEK   27 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999998875

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=95.46  E-value=0.012  Score=49.29  Aligned_cols=24  Identities=29%  Similarity=0.239  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 G~~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03262          26 GEVVVIIGPSGSGKSTLLRCINLL   49 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.46  E-value=0.012  Score=48.93  Aligned_cols=25  Identities=20%  Similarity=0.175  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+++|+|..|.|||||++.+...
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i~G~   50 (200)
T PRK13540         26 AGGLLHLKGSNGAGKTTLLKLIAGL   50 (200)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3468999999999999999999884

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=95.45  E-value=0.012  Score=50.74  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|.|||||++.+..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G   49 (247)
T TIGR00972        27 NQVTALIGPSGCGKSTLLRSLNR   49 (247)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999975

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.

>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=95.45  E-value=0.012  Score=50.47  Aligned_cols=24  Identities=21%  Similarity=0.176  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~   50 (242)
T cd03295          27 GEFLVLIGPSGSGKTTTMKMINRL   50 (242)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999874

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.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=95.45  E-value=0.012  Score=49.13  Aligned_cols=24  Identities=17%  Similarity=0.140  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~Gl   49 (208)
T cd03268          26 GEIYGFLGPNGAGKTTTMKIILGL   49 (208)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999863

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.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=95.44  E-value=0.012  Score=49.75  Aligned_cols=24  Identities=29%  Similarity=0.401  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        34 Ge~~~l~G~nGsGKSTLl~~i~G~   57 (224)
T TIGR02324        34 GECVALSGPSGAGKSTLLKSLYAN   57 (224)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999974

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.

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=95.44  E-value=0.014  Score=54.03  Aligned_cols=25  Identities=16%  Similarity=0.064  Sum_probs=22.5

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ...-+|||.|..|+|||||++.+..
T Consensus       210 ~~PlIIGIsG~qGSGKSTLa~~L~~  234 (460)
T PLN03046        210 IPPLVIGFSAPQGCGKTTLVFALDY  234 (460)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999999965

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=95.43  E-value=0.021  Score=56.18  Aligned_cols=46  Identities=28%  Similarity=0.324  Sum_probs=38.2

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..+..|.+++..+. -...+-++|..|+||||+|+.+-+.
T Consensus        16 ddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~   61 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKS   61 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            689999999999999987643 2356789999999999999988664

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=95.43  E-value=0.012  Score=50.74  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|.|||||++.+..
T Consensus        32 Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14242         32 NQVTALIGPSGCGKSTFLRCLNR   54 (253)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999984

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.42  E-value=0.041  Score=51.36  Aligned_cols=25  Identities=24%  Similarity=0.210  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|.++|.+|+||||++.++...
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~  123 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYY  123 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4689999999999999999988753

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.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.42  E-value=0.013  Score=49.14  Aligned_cols=25  Identities=16%  Similarity=0.155  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~   51 (207)
T PRK13539         27 AGEALVLTGPNGSGKTTLLRLIAGL   51 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999999984

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

Probab=95.42  E-value=0.011  Score=51.40  Aligned_cols=21  Identities=19%  Similarity=0.377  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhh
Q 038685          185 VVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +|+|.|-|||||||++-.+-.
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~   22 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSV   22 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHH
Confidence            689999999999997766544

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.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=95.42  E-value=0.012  Score=51.12  Aligned_cols=24  Identities=29%  Similarity=0.270  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        38 Ge~~~I~G~NGsGKSTLlk~l~Gl   61 (257)
T PRK11247         38 GQFVAVVGRSGCGKSTLLRLLAGL   61 (257)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999874

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.41  E-value=0.012  Score=49.11  Aligned_cols=24  Identities=17%  Similarity=0.194  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~   56 (202)
T cd03233          33 GEMVLVLGRPGSGCSTLLKALANR   56 (202)
T ss_pred             CcEEEEECCCCCCHHHHHHHhccc
Confidence            469999999999999999999884

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.

>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=95.41  E-value=0.013  Score=47.56  Aligned_cols=24  Identities=29%  Similarity=0.307  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~   51 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGL   51 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            458999999999999999999873

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

>PRK14532 adenylate kinase; Provisional

Probab=95.41  E-value=0.012  Score=48.45  Aligned_cols=21  Identities=14%  Similarity=0.155  Sum_probs=18.8

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |-|.|++|+||||+|+.+-..
T Consensus         3 i~~~G~pGsGKsT~a~~la~~   23 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEE   23 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999999763

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=95.40  E-value=0.023  Score=47.72  Aligned_cols=53  Identities=23%  Similarity=0.107  Sum_probs=35.5

Q ss_pred             ccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          164 GLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       164 G~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      .+.......++.|.    +..++.+.|++|.|||.||-..--+.-..++|+..+++.
T Consensus         4 p~~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~R   56 (205)
T PF02562_consen    4 PKNEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITR   56 (205)
T ss_dssp             --SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE
T ss_pred             CCCHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            34455667777776    256899999999999999987766544447788887775

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK13948 shikimate kinase; Provisional

Probab=95.40  E-value=0.014  Score=48.25  Aligned_cols=25  Identities=24%  Similarity=0.275  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....|.++||.|+||||+++.+-+.
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~   33 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRA   33 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            4577889999999999999999874

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=95.40  E-value=0.031  Score=46.92  Aligned_cols=42  Identities=26%  Similarity=0.309  Sum_probs=31.7

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+++|-+..+..|.-...++    .-|-++|.+|+|||+||+.+-.
T Consensus         3 ~dI~GQe~aKrAL~iAAaG~----h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAGG----HHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHCC------EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcCC----CCeEEECCCCCCHHHHHHHHHH
Confidence            57899888888776655542    4567899999999999999876

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>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=95.39  E-value=0.012  Score=49.07  Aligned_cols=20  Identities=30%  Similarity=0.468  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 038685          185 VVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy  204 (265)
                      +++|+|..|+|||||++.++
T Consensus        24 ~~~i~G~nGsGKStll~al~   43 (197)
T cd03278          24 LTAIVGPNGSGKSNIIDAIR   43 (197)
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            88999999999999999987

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

>cd04140 ARHI_like ARHI subfamily

Probab=95.39  E-value=0.013  Score=46.83  Aligned_cols=21  Identities=19%  Similarity=0.362  Sum_probs=18.8

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++|.+|+|||||.+.+.+.
T Consensus         4 v~~vG~~~vGKTsli~~~~~~   24 (165)
T cd04140           4 VVVFGAGGVGKSSLVLRFVKG   24 (165)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999988764

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

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.39  E-value=0.024  Score=54.53  Aligned_cols=46  Identities=24%  Similarity=0.266  Sum_probs=37.3

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|-+..+..|.+++..+. -...+-++|..|+||||+|+.+-..
T Consensus        16 ~divGq~~v~~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk~   61 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAKS   61 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            579999999999988887643 2345668999999999999998664

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

Probab=95.39  E-value=0.012  Score=47.54  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|+|+|.+|+|||||++.+.+.
T Consensus         3 kv~l~G~~g~GKTtl~~~~~~~   24 (180)
T cd04137           3 KIAVLGSRSVGKSSLTVQFVEG   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4679999999999999999754

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

>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=95.38  E-value=0.014  Score=46.13  Aligned_cols=24  Identities=17%  Similarity=0.207  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468899999999999999999884

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.

>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=95.38  E-value=0.014  Score=47.81  Aligned_cols=35  Identities=14%  Similarity=0.087  Sum_probs=26.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      -.+++|+|..|.|||||++.+..-.   ....-.+++.
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~~---~~~~G~v~~~   59 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGLL---KPSSGEILLD   59 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC---CCCCcEEEEC
Confidence            4689999999999999999999842   2234445554

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.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.38  E-value=0.013  Score=50.50  Aligned_cols=24  Identities=21%  Similarity=0.260  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14247         29 NTITALMGPSGSGKSTLLRVFNRL   52 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999864

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.38  E-value=0.04  Score=42.61  Aligned_cols=47  Identities=15%  Similarity=0.142  Sum_probs=33.0

Q ss_pred             CcccccHHHHHHHHHHH----hcC-CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLL----IVG-EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L----~~~-~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|-.-..+.+++.|    ... +++.-|++..|..|+|||.+++.|-++
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            45677555555555544    332 457899999999999999987777654

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

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=95.37  E-value=0.013  Score=50.81  Aligned_cols=24  Identities=29%  Similarity=0.332  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+...
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~laGl   53 (258)
T PRK14241         30 RSVTAFIGPSGCGKSTVLRTLNRM   53 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999963

>cd01858 NGP_1 NGP-1

Probab=95.37  E-value=0.033  Score=44.39  Aligned_cols=44  Identities=11%  Similarity=0.163  Sum_probs=28.8

Q ss_pred             ccHHHHHHHHHHHhc-CCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          164 GLEDEMKELLDLLIV-GEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       164 G~e~~~~~l~~~L~~-~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.+.-.+.+.+++.. ....-..|+++|++|+||+||.+.+..+.
T Consensus        82 ~~~~L~~~l~~~~~~~~~~~~~~v~~~G~~nvGKStliN~l~~~~  126 (157)
T cd01858          82 GKGSLIQLLRQFSKLHSDKKQISVGFIGYPNVGKSSIINTLRSKK  126 (157)
T ss_pred             cHHHHHHHHHHHHhhhccccceEEEEEeCCCCChHHHHHHHhcCC
Confidence            444444455444321 11223567899999999999999998854

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.

>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=95.36  E-value=0.013  Score=49.99  Aligned_cols=24  Identities=33%  Similarity=0.299  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (237)
T cd03252          28 GEVVGIVGRSGSGKSTLTKLIQRF   51 (237)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999864

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.36  E-value=0.04  Score=47.16  Aligned_cols=49  Identities=20%  Similarity=0.344  Sum_probs=31.3

Q ss_pred             CCeEEEEEEcCCCCChhHHHH-HHhhcccccccCCeeEEEeCCCCHHHHHHHH
Q 038685          181 PSLSVVAIVGSSGFDKTDFAG-EAYNSNYMKNYFYCRAWVGCEYYLHKVLDNI  232 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~-~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~I  232 (265)
                      +.-.++.|.|.+|+|||||+. .+++-  .+.. ..+++++-+-+..++++.+
T Consensus        22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~--~~~g-~~~~yi~~e~~~~~~~~~~   71 (230)
T PRK08533         22 PAGSLILIEGDESTGKSILSQRLAYGF--LQNG-YSVSYVSTQLTTTEFIKQM   71 (230)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH--HhCC-CcEEEEeCCCCHHHHHHHH
Confidence            345699999999999999975 44542  2222 3456676223445666665

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=95.36  E-value=0.013  Score=50.70  Aligned_cols=24  Identities=13%  Similarity=0.285  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        30 Ge~~~I~G~NGsGKSTLl~~i~Gl   53 (251)
T PRK09544         30 GKILTLLGPNGAGKSTLVRVVLGL   53 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999974

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=95.35  E-value=0.014  Score=50.46  Aligned_cols=24  Identities=21%  Similarity=0.277  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (255)
T PRK11300         31 QEIVSLIGPNGAGKTTVFNCLTGF   54 (255)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999974

>COG3899 Predicted ATPase [General function prediction only]

Probab=95.35  E-value=0.025  Score=57.34  Aligned_cols=46  Identities=26%  Similarity=0.336  Sum_probs=39.4

Q ss_pred             cccccHHHHHHHHHHHhcC-CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          161 NIVGLEDEMKELLDLLIVG-EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       161 ~~vG~e~~~~~l~~~L~~~-~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++||+.+.+.|...+..- .....|+.+.|..|||||+|++.|...
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~   47 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKP   47 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHH
Confidence            4789999999999888643 345779999999999999999999984

>TIGR00101 ureG urease accessory protein UreG

Probab=95.35  E-value=0.015  Score=48.61  Aligned_cols=23  Identities=17%  Similarity=0.248  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..|+|.|..|+|||||++.+.+.
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~   24 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRA   24 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            36899999999999999999984

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.

>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=95.35  E-value=0.042  Score=46.68  Aligned_cols=44  Identities=18%  Similarity=0.200  Sum_probs=29.5

Q ss_pred             ccc-HHHHHHHHHHHhcC-CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          163 VGL-EDEMKELLDLLIVG-EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       163 vG~-e~~~~~l~~~L~~~-~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|- ....-.....+... +.....+-|+|..|+|||.|++.+++.
T Consensus        12 ~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~   57 (219)
T PF00308_consen   12 VGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANE   57 (219)
T ss_dssp             -TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHH
Confidence            452 33333444444443 334556789999999999999999995

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=95.35  E-value=0.024  Score=54.10  Aligned_cols=47  Identities=19%  Similarity=0.095  Sum_probs=37.6

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .+++|-+..+..|...+..+. -..-+-++|+.|+||||+|+.+.+.-
T Consensus        21 ~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~L   67 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAV   67 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            578999998888888775543 23566799999999999999998753

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.34  E-value=0.032  Score=48.69  Aligned_cols=24  Identities=25%  Similarity=0.201  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.|..-
T Consensus        35 Ge~~~I~G~nGsGKSTLl~~i~Gl   58 (269)
T PRK13648         35 GQWTSIVGHNGSGKSTIAKLMIGI   58 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999874

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.34  E-value=0.014  Score=50.41  Aligned_cols=22  Identities=41%  Similarity=0.478  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      -.+++|+|..|.|||||++.+.
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~   50 (250)
T PRK14245         29 KSVVAFIGPSGCGKSTFLRLFN   50 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            4689999999999999999995

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.34  E-value=0.024  Score=55.43  Aligned_cols=47  Identities=21%  Similarity=0.215  Sum_probs=38.4

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      +++||-+..++.|.+++..+. -...+-++|..|+||||||+.+-+.-
T Consensus        16 ddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAkaL   62 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKSL   62 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999887653 23456789999999999999887643

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.34  E-value=0.015  Score=46.93  Aligned_cols=24  Identities=21%  Similarity=0.192  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~   49 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGL   49 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468899999999999999999873

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>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=95.34  E-value=0.015  Score=47.10  Aligned_cols=24  Identities=21%  Similarity=0.158  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458899999999999999999985

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=95.33  E-value=0.014  Score=46.55  Aligned_cols=22  Identities=18%  Similarity=0.265  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||...+.+.
T Consensus         4 ki~i~G~~~vGKSsli~~~~~~   25 (166)
T cd01869           4 KLLLIGDSGVGKSCLLLRFADD   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999764

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

>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=95.33  E-value=0.015  Score=47.34  Aligned_cols=24  Identities=17%  Similarity=0.221  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+...
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGL   49 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=95.33  E-value=0.014  Score=46.37  Aligned_cols=20  Identities=30%  Similarity=0.385  Sum_probs=18.1

Q ss_pred             EEEEcCCCCChhHHHHHHhh
Q 038685          186 VAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~  205 (265)
                      |.|+|.+|+|||||++.+.+
T Consensus         3 i~vvG~~~~GKtsl~~~l~~   22 (164)
T cd04101           3 CAVVGDPAVGKTAFVQMFHS   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            68999999999999998864

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.

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=95.33  E-value=0.014  Score=50.09  Aligned_cols=24  Identities=21%  Similarity=0.176  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        29 Ge~~~l~G~nGsGKSTLl~~l~G~   52 (241)
T PRK10895         29 GEIVGLLGPNGAGKTTTFYMVVGI   52 (241)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999884

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=95.32  E-value=0.013  Score=50.68  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|+.|.|||||.|.+..
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            37899999999999999999998

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=95.32  E-value=0.028  Score=46.81  Aligned_cols=36  Identities=17%  Similarity=0.241  Sum_probs=25.9

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+.+..++.+.  -++..|.|.+|.||||+++.+...
T Consensus         6 Q~~a~~~~l~~~--~~~~~l~G~aGtGKT~~l~~~~~~   41 (196)
T PF13604_consen    6 QREAVRAILTSG--DRVSVLQGPAGTGKTTLLKALAEA   41 (196)
T ss_dssp             HHHHHHHHHHCT--CSEEEEEESTTSTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC--CeEEEEEECCCCCHHHHHHHHHHH
Confidence            344445454433  356778999999999999998874

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.32  E-value=0.048  Score=49.52  Aligned_cols=62  Identities=13%  Similarity=0.037  Sum_probs=43.1

Q ss_pred             HhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccc----cCCeeEEEe--CCCCHHHHHHHHHHHhCC
Q 038685          176 LIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKN----YFYCRAWVG--CEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       176 L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~----~F~~~~wV~--~~~~~~~l~~~Il~~l~~  238 (265)
                      |..+=+.-.++-|+|.+|+|||+|+..++-......    .-..++|+.  .+|++.++. +|++.++.
T Consensus       116 L~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~  183 (342)
T PLN03186        116 LEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGL  183 (342)
T ss_pred             hcCCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCC
Confidence            334435578888999999999999998875432211    113789999  778887764 55666654

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=95.32  E-value=0.017  Score=47.30  Aligned_cols=25  Identities=24%  Similarity=0.218  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|.|.|.+|+||||||+.+...
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~~   41 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEKK   41 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999999974

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

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.32  E-value=0.025  Score=55.20  Aligned_cols=45  Identities=20%  Similarity=0.237  Sum_probs=36.5

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +++||-+..+..|.+++..+. -...+-++|..|+||||+|+.+-+
T Consensus        16 ~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk   60 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAK   60 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence            579998888888888887653 235667999999999999999844

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.32  E-value=0.014  Score=50.09  Aligned_cols=24  Identities=25%  Similarity=0.256  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (241)
T PRK14250         29 GAIYTIVGPSGAGKSTLIKLINRL   52 (241)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999874

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=95.32  E-value=0.016  Score=46.26  Aligned_cols=20  Identities=25%  Similarity=0.483  Sum_probs=17.5

Q ss_pred             EEEEcCCCCChhHHHHHHhh
Q 038685          186 VAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~  205 (265)
                      |.|+|.+|+|||||+....+
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

>PRK02496 adk adenylate kinase; Provisional

Probab=95.32  E-value=0.013  Score=48.02  Aligned_cols=22  Identities=18%  Similarity=0.117  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.|.|++|+||||+++.+...
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~   24 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEH   24 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998763

>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=95.32  E-value=0.014  Score=49.94  Aligned_cols=24  Identities=21%  Similarity=0.181  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        47 Ge~~~i~G~NGsGKSTLl~~i~Gl   70 (236)
T cd03267          47 GEIVGFIGPNGAGKTTTLKILSGL   70 (236)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999873

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.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.31  E-value=0.014  Score=50.64  Aligned_cols=23  Identities=35%  Similarity=0.426  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
T Consensus        38 Ge~~~l~G~nGsGKSTLl~~l~G   60 (259)
T PRK14274         38 NEVTAIIGPSGCGKSTFIKTLNL   60 (259)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999974

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=95.31  E-value=0.017  Score=50.34  Aligned_cols=20  Identities=30%  Similarity=0.355  Sum_probs=18.0

Q ss_pred             EEEEcCCCCChhHHHHHHhh
Q 038685          186 VAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~  205 (265)
                      |-+.|.+|+|||+||+.+..
T Consensus        24 vLL~G~~GtGKT~lA~~la~   43 (262)
T TIGR02640        24 VHLRGPAGTGKTTLAMHVAR   43 (262)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            34899999999999999986

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).

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=95.31  E-value=0.013  Score=50.99  Aligned_cols=24  Identities=17%  Similarity=0.196  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        37 Ge~~~i~G~nGsGKSTLl~~l~Gl   60 (265)
T PRK10575         37 GKVTGLIGHNGSGKSTLLKMLGRH   60 (265)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999974

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=95.30  E-value=0.015  Score=47.46  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999884

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.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=95.30  E-value=0.014  Score=50.17  Aligned_cols=24  Identities=38%  Similarity=0.285  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~G~   52 (250)
T PRK11264         29 GEVVAIIGPSGSGKTTLLRCINLL   52 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            457999999999999999999864

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=95.30  E-value=0.014  Score=50.27  Aligned_cols=23  Identities=22%  Similarity=0.356  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|.|||||++.+..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G   53 (252)
T PRK14239         31 NEITALIGPSGSGKSTLLRSINR   53 (252)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999964

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.29  E-value=0.015  Score=47.70  Aligned_cols=24  Identities=25%  Similarity=0.369  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (182)
T cd03215          26 GEIVGIAGLVGNGQTELAEALFGL   49 (182)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999974

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.

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.29  E-value=0.013  Score=50.16  Aligned_cols=21  Identities=24%  Similarity=0.427  Sum_probs=19.2

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|.|++|+||||+|+.+-+.
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            889999999999999999764

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=95.28  E-value=0.015  Score=48.90  Aligned_cols=24  Identities=29%  Similarity=0.302  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.++..
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~   47 (213)
T TIGR01277        24 GEIVAIMGPSGAGKSTLLNLIAGF   47 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999985

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.

>TIGR00017 cmk cytidylate kinase

Probab=95.28  E-value=0.015  Score=49.38  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|+|.|+.|+||||+++.+...
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~   25 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEK   25 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999864

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.

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=95.28  E-value=0.014  Score=49.89  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~l~G~   50 (240)
T PRK09493         27 GEVVVIIGPSGSGKSTLLRCINKL   50 (240)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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

Probab=95.28  E-value=0.027  Score=46.11  Aligned_cols=36  Identities=17%  Similarity=0.055  Sum_probs=25.2

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          170 KELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       170 ~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+..++ ....+-..|.|+|.+|+|||||++.+..+
T Consensus         5 ~~~~~~~-~~~~~~~~i~ivG~~~~GKTsli~~l~~~   40 (184)
T smart00178        5 YDILASL-GLWNKHAKILFLGLDNAGKTTLLHMLKND   40 (184)
T ss_pred             HHHHHHh-ccccccCEEEEECCCCCCHHHHHHHHhcC
Confidence            3455533 22123355689999999999999998764

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

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.27  E-value=0.015  Score=50.26  Aligned_cols=24  Identities=33%  Similarity=0.372  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~l~Gl   53 (252)
T PRK14256         30 NSVTAIIGPSGCGKSTVLRSINRM   53 (252)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            458999999999999999999863

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=95.27  E-value=0.015  Score=49.45  Aligned_cols=24  Identities=21%  Similarity=0.292  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (230)
T TIGR03410        26 GEVTCVLGRNGVGKTTLLKTLMGL   49 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>PRK07429 phosphoribulokinase; Provisional

Probab=95.26  E-value=0.017  Score=52.09  Aligned_cols=26  Identities=23%  Similarity=0.318  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.-+|+|.|..|+|||||++.+..-
T Consensus         6 ~~~~IIgI~G~SGSGKSTla~~L~~l   31 (327)
T PRK07429          6 DRPVLLGVAGDSGCGKTTFLRGLADL   31 (327)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHhH
Confidence            45789999999999999999999874

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=95.26  E-value=0.016  Score=47.00  Aligned_cols=24  Identities=33%  Similarity=0.266  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G~   51 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLRL   51 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            468899999999999999999884

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14974 cell division protein FtsY; Provisional

Probab=95.25  E-value=0.017  Score=52.29  Aligned_cols=54  Identities=19%  Similarity=0.117  Sum_probs=33.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCH--HHHHHHHHHHhC
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYL--HKVLDNIIKSVM  237 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~--~~l~~~Il~~l~  237 (265)
                      +..+|.++|++|+||||++..+...-. ...+ .++.+. -+|..  .+-++.....++
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~-~~g~-~V~li~~Dt~R~~a~eqL~~~a~~lg  195 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK-KNGF-SVVIAAGDTFRAGAIEQLEEHAERLG  195 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCC-eEEEecCCcCcHHHHHHHHHHHHHcC
Confidence            468999999999999997777775321 1223 334455 44433  233444555554

>PRK00089 era GTPase Era; Reviewed

Probab=95.24  E-value=0.017  Score=51.03  Aligned_cols=25  Identities=24%  Similarity=0.312  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +..+|+|+|.+|+|||||.+.+.+.
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~   28 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQ   28 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCC
Confidence            4688999999999999999998764

>PRK14531 adenylate kinase; Provisional

Probab=95.24  E-value=0.016  Score=47.65  Aligned_cols=23  Identities=17%  Similarity=0.224  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..|.|+|++|+||||+++.+-+.
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~   25 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAA   25 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            35889999999999999999774

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.23  E-value=0.029  Score=53.13  Aligned_cols=43  Identities=21%  Similarity=0.188  Sum_probs=29.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCH
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYL  225 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~  225 (265)
                      -.||+++|..|+||||++.++......+..-..+..|+ .++.+
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~Ri  299 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRI  299 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccch
Confidence            47999999999999999999997532222122445666 44443

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.23  E-value=0.057  Score=48.46  Aligned_cols=60  Identities=13%  Similarity=0.100  Sum_probs=41.9

Q ss_pred             cCCCCeEEEEEEcCCCCChhHHHHHHhhcccccc----cCCeeEEEe--CCCCHHHHHHHHHHHhCC
Q 038685          178 VGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKN----YFYCRAWVG--CEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       178 ~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~----~F~~~~wV~--~~~~~~~l~~~Il~~l~~  238 (265)
                      .+=+.-+++-|+|.+|+|||+|+..+.-......    .=..++||.  .+|++..|.+ +++.++.
T Consensus        91 GGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~  156 (313)
T TIGR02238        91 GGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGV  156 (313)
T ss_pred             CCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCC
Confidence            3334568899999999999999988764322221    124689999  6688888764 5666654

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.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=95.23  E-value=0.015  Score=46.70  Aligned_cols=23  Identities=17%  Similarity=0.186  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-|.++|.+|+|||||...+...
T Consensus         3 ~ki~vvG~~~vGKTsli~~~~~~   25 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCAG   25 (170)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998664

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

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

Probab=95.23  E-value=0.2  Score=44.53  Aligned_cols=84  Identities=15%  Similarity=0.100  Sum_probs=54.9

Q ss_pred             CCcccccHHH---HHHHHHHHhcCC-CCeEEEEEEcCCCCChhHHHHHHhhccccc-----ccCCeeEEEe--CCCCHHH
Q 038685          159 KRNIVGLEDE---MKELLDLLIVGE-PSLSVVAIVGSSGFDKTDFAGEAYNSNYMK-----NYFYCRAWVG--CEYYLHK  227 (265)
Q Consensus       159 ~~~~vG~e~~---~~~l~~~L~~~~-~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~-----~~F~~~~wV~--~~~~~~~  227 (265)
                      .+..+|....   .+.|.++|.... ....-+.|||..|.||||+++......-..     ..+ .++.|.  ...+...
T Consensus        33 ~~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~-PVv~vq~P~~p~~~~  111 (302)
T PF05621_consen   33 ADRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERI-PVVYVQMPPEPDERR  111 (302)
T ss_pred             cCCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccc-cEEEEecCCCCChHH
Confidence            3567775433   334444444432 344557899999999999999998642111     112 233333  7789999


Q ss_pred             HHHHHHHHhCCCCCCC
Q 038685          228 VLDNIIKSVMPRSMGS  243 (265)
Q Consensus       228 l~~~Il~~l~~~~~~~  243 (265)
                      +...|+.+++......
T Consensus       112 ~Y~~IL~~lgaP~~~~  127 (302)
T PF05621_consen  112 FYSAILEALGAPYRPR  127 (302)
T ss_pred             HHHHHHHHhCcccCCC
Confidence            9999999999865443

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

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=95.23  E-value=0.016  Score=48.30  Aligned_cols=24  Identities=17%  Similarity=0.142  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~   49 (201)
T cd03231          26 GEALQVTGPNGSGKTTLLRILAGL   49 (201)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.23  E-value=0.03  Score=52.16  Aligned_cols=24  Identities=25%  Similarity=0.338  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .-.+|+++|..|+||||++..+-.
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~  213 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAA  213 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999998765

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=95.23  E-value=0.015  Score=50.80  Aligned_cols=24  Identities=21%  Similarity=0.180  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        50 Ge~~~l~G~nGsGKSTLl~~L~Gl   73 (269)
T cd03294          50 GEIFVIMGLSGSGKSTLLRCINRL   73 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999874

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. 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.

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.23  E-value=0.015  Score=51.08  Aligned_cols=24  Identities=21%  Similarity=0.167  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~i~Gl   56 (280)
T PRK13649         33 GSYTAFIGHTGSGKSTIMQLLNGL   56 (280)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999873

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.22  E-value=0.015  Score=50.88  Aligned_cols=24  Identities=21%  Similarity=0.278  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (271)
T PRK13638         27 SPVTGLVGANGCGKSTLFMNLSGL   50 (271)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            368999999999999999999863

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=95.22  E-value=0.016  Score=51.21  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|-++|.+|+||||+|+.+...
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~   25 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAK   25 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHH
Confidence            57888999999999999998764

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=95.22  E-value=0.016  Score=49.37  Aligned_cols=24  Identities=29%  Similarity=0.264  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (234)
T cd03251          28 GETVALVGPSGSGKSTLVNLIPRF   51 (234)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999864

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.

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=95.22  E-value=0.015  Score=46.62  Aligned_cols=21  Identities=19%  Similarity=0.319  Sum_probs=19.1

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||...+.+.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~   22 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSE   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998875

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.

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=95.21  E-value=0.015  Score=51.70  Aligned_cols=24  Identities=21%  Similarity=0.140  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        19 Ge~~~l~G~NGaGKSTLl~~l~Gl   42 (302)
T TIGR01188        19 GEVFGFLGPNGAGKTTTIRMLTTL   42 (302)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999873

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=95.21  E-value=0.015  Score=50.84  Aligned_cols=24  Identities=25%  Similarity=0.272  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~Gl   56 (272)
T PRK15056         33 GSIAALVGVNGSGKSTLFKALMGF   56 (272)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=95.21  E-value=0.015  Score=50.46  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        39 Ge~~~i~G~nGsGKSTLl~~l~Gl   62 (260)
T PRK10744         39 NQVTAFIGPSGCGKSTLLRTFNRM   62 (260)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999853

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=95.20  E-value=0.016  Score=50.73  Aligned_cols=24  Identities=29%  Similarity=0.310  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~Gl   56 (269)
T PRK11831         33 GKITAIMGPSGIGKTTLLRLIGGQ   56 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999874

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=95.20  E-value=0.016  Score=49.41  Aligned_cols=24  Identities=33%  Similarity=0.313  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~i~Gl   50 (236)
T cd03253          27 GKKVAIVGPSGSGKSTILRLLFRF   50 (236)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999974

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=95.20  E-value=0.016  Score=50.06  Aligned_cols=24  Identities=25%  Similarity=0.234  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~   49 (252)
T TIGR03005        26 GEKVALIGPSGSGKSTILRILMTL   49 (252)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>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=95.20  E-value=0.042  Score=44.72  Aligned_cols=44  Identities=20%  Similarity=0.190  Sum_probs=28.7

Q ss_pred             EEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHH
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDN  231 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~  231 (265)
                      +-|.|.+|+|||+|+..+....- +.. ..++|++-+.+...+.+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~-~~g-~~v~~~s~e~~~~~~~~~   45 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL-ARG-EPGLYVTLEESPEELIEN   45 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH-HCC-CcEEEEECCCCHHHHHHH
Confidence            57899999999999998765422 221 457788822334444443

A related protein is found in archaea.

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.20  E-value=0.025  Score=55.31  Aligned_cols=47  Identities=17%  Similarity=0.067  Sum_probs=36.9

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .+++|-+..+..|.+.+..+. -...+-++|+.|+||||+|+.+-+.-
T Consensus        16 ~eivGQe~i~~~L~~~i~~~r-i~ha~Lf~Gp~GvGKttlA~~lAk~L   62 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDR-VGHGYIFSGLRGVGKTTAARVFAKAV   62 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            579999888888888776542 23457799999999999998776643

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=95.20  E-value=0.016  Score=50.82  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|.|||||++.|..
T Consensus        50 Ge~~~I~G~nGsGKSTLl~~i~G   72 (271)
T PRK14238         50 NEVTAIIGPSGCGKSTYIKTLNR   72 (271)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46999999999999999999976

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=95.19  E-value=0.016  Score=48.78  Aligned_cols=25  Identities=24%  Similarity=0.187  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        29 ~G~~~~i~G~nGsGKSTLl~~i~G~   53 (220)
T cd03245          29 AGEKVAIIGRVGSGKSTLLKLLAGL   53 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3568999999999999999999874

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=95.19  E-value=0.016  Score=50.24  Aligned_cols=24  Identities=33%  Similarity=0.350  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        32 Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (258)
T PRK11701         32 GEVLGIVGESGSGKTTLLNALSAR   55 (258)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999984

>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=95.18  E-value=0.016  Score=49.49  Aligned_cols=24  Identities=33%  Similarity=0.289  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        29 Ge~~~l~G~nGsGKSTLl~~i~G~   52 (238)
T cd03249          29 GKTVALVGSSGCGKSTVVSLLERF   52 (238)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHhcc
Confidence            478999999999999999999974

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.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=95.18  E-value=0.015  Score=50.63  Aligned_cols=21  Identities=24%  Similarity=0.382  Sum_probs=17.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhh
Q 038685          185 VVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ||+|.|-||+||||++-.+-.
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA~   22 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLSV   22 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHHH
Confidence            789999999999997776544

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.

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=95.18  E-value=0.016  Score=50.17  Aligned_cols=24  Identities=33%  Similarity=0.346  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+...
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~i~G~   54 (257)
T PRK10619         31 GDVISIIGSSGSGKSTFLRCINFL   54 (257)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999985

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.18  E-value=0.016  Score=49.99  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        30 Ge~~~l~G~nGsGKSTLl~~l~G~   53 (253)
T PRK14267         30 NGVFALMGPSGCGKSTLLRTFNRL   53 (253)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999863

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.18  E-value=0.053  Score=55.18  Aligned_cols=48  Identities=13%  Similarity=0.318  Sum_probs=37.9

Q ss_pred             CCcccccHHHHHHHHHHHhcC-------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          159 KRNIVGLEDEMKELLDLLIVG-------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~~~-------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...++|-+..+..+...+...       +..+.++-++|+.|+||||||+.+.+.
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~  621 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANF  621 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            357899999988888877531       222457889999999999999999973

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.18  E-value=0.016  Score=51.21  Aligned_cols=24  Identities=17%  Similarity=0.278  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        37 Ge~~~l~G~nGsGKSTLl~~l~Gl   60 (289)
T PRK13645         37 NKVTCVIGTTGSGKSTMIQLTNGL   60 (289)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999999863

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=95.17  E-value=0.017  Score=48.42  Aligned_cols=24  Identities=29%  Similarity=0.273  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        24 Ge~~~l~G~nGsGKSTLl~~l~gl   47 (211)
T cd03298          24 GEITAIVGPSGSGKSTLLNLIAGF   47 (211)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=95.17  E-value=0.016  Score=46.09  Aligned_cols=23  Identities=13%  Similarity=0.287  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .|.|+|.+|+|||||++.+.+..
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~   24 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAK   24 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCC
Confidence            58899999999999999998853

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.

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.17  E-value=0.017  Score=49.83  Aligned_cols=23  Identities=30%  Similarity=0.417  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|.|||||++.+..
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14262         29 NQITAIIGPSGCGKTTLLRSINR   51 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            36899999999999999999994

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

Probab=95.17  E-value=0.016  Score=53.21  Aligned_cols=25  Identities=24%  Similarity=0.185  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.-+|+|+|..|+|||||+..+...
T Consensus         4 ~~~~i~i~G~~gsGKTTl~~~l~~~   28 (369)
T PRK14490          4 HPFEIAFCGYSGSGKTTLITALVRR   28 (369)
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHH
Confidence            4579999999999999999999984

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=95.16  E-value=0.013  Score=45.87  Aligned_cols=45  Identities=29%  Similarity=0.205  Sum_probs=31.2

Q ss_pred             cccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          163 VGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       163 vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ||.-..+.++.+.+..-...-.-|-|+|..|+||+++|+.++...
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            455566677777665422234556799999999999999999953

>cd01868 Rab11_like Rab11-like

Probab=95.16  E-value=0.017  Score=45.93  Aligned_cols=24  Identities=17%  Similarity=0.378  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .-|+|+|.+|+|||||.+.+.++.
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~~~   27 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTRNE   27 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            357899999999999999997653

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

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=95.16  E-value=0.016  Score=52.65  Aligned_cols=22  Identities=27%  Similarity=0.379  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .++++.|+.|+|||||.+.|--
T Consensus        32 ef~~lLGPSGcGKTTlLR~IAG   53 (352)
T COG3842          32 EFVTLLGPSGCGKTTLLRMIAG   53 (352)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            5889999999999999999965

>cd04135 Tc10 TC10 subfamily

Probab=95.15  E-value=0.021  Score=45.78  Aligned_cols=21  Identities=24%  Similarity=0.235  Sum_probs=18.4

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||++.+.+.
T Consensus         3 i~i~G~~~~GKTsl~~~~~~~   23 (174)
T cd04135           3 CVVVGDGAVGKTCLLMSYAND   23 (174)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999887654

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

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=95.15  E-value=0.017  Score=48.66  Aligned_cols=24  Identities=21%  Similarity=0.243  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.++.-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~i~G~   50 (218)
T cd03290          27 GQLTMIVGQVGCGKSSLLLAILGE   50 (218)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999974

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=95.15  E-value=0.015  Score=52.41  Aligned_cols=24  Identities=33%  Similarity=0.230  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        33 Ge~~~lvG~sGsGKSTL~~~l~Gl   56 (326)
T PRK11022         33 GEVVGIVGESGSGKSVSSLAIMGL   56 (326)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcC
Confidence            468999999999999999999874

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=95.15  E-value=0.033  Score=51.52  Aligned_cols=46  Identities=17%  Similarity=0.137  Sum_probs=36.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCC--------CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEP--------SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~--------~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++++|-+..++.|.+.+..+..        -..-+-++|+.|+||||+|+.+-.
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~   58 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAA   58 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHH
Confidence            4789999999999998865421        245577999999999999998855

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.15  E-value=0.025  Score=51.22  Aligned_cols=44  Identities=20%  Similarity=0.211  Sum_probs=33.9

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +.++|.+..+..+.-.+....  ..-+-+.|.+|+||||||+.+-+
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~~--~~~vLl~G~pG~gKT~lar~la~   51 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDPG--IGGVLVFGDRGTGKSTAVRALAA   51 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhccC--CCcEEEEcCCCCCHHHHHHHHHH
Confidence            578999988888775554322  34477999999999999999854

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=95.14  E-value=0.015  Score=51.71  Aligned_cols=22  Identities=23%  Similarity=0.286  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++|+|+|-||+||||++-.+-.
T Consensus         1 ~vIav~gKGGvGKTT~a~nLA~   22 (296)
T TIGR02016         1 RIIAIYGKGGSGKSFTTTNLSH   22 (296)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999888776

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.

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=95.14  E-value=0.017  Score=52.73  Aligned_cols=27  Identities=15%  Similarity=0.131  Sum_probs=24.1

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .....++|||++|+|||.+|+.|++.-
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            457899999999999999999999953

>CHL00176 ftsH cell division protein; Validated

Probab=95.14  E-value=0.02  Score=56.21  Aligned_cols=48  Identities=25%  Similarity=0.313  Sum_probs=35.6

Q ss_pred             CcccccHHHHHHHHHHH---hcC-------CCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLL---IVG-------EPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L---~~~-------~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .+++|.++.++++.+.+   ...       ....+-|-++|++|+|||+||+.+.+..
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~  240 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA  240 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            57889888887776654   221       1224567899999999999999998853

>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=95.14  E-value=0.018  Score=48.81  Aligned_cols=24  Identities=38%  Similarity=0.390  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        33 Ge~~~l~G~nGsGKSTLlk~l~G~   56 (226)
T cd03234          33 GQVMAILGSSGSGKTTLLDAISGR   56 (226)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCc
Confidence            468999999999999999999864

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

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

Probab=95.14  E-value=0.03  Score=49.47  Aligned_cols=63  Identities=17%  Similarity=0.138  Sum_probs=41.7

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCCCHHHHHHH
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEYYLHKVLDN  231 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~~~~~l~~~  231 (265)
                      -.+|+..|.....+..||||.|.||+||+||.-.+-....-..|=-.++=|.  ++|+--.|+-+
T Consensus        37 a~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGD  101 (323)
T COG1703          37 ARELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGD  101 (323)
T ss_pred             HHHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccccc
Confidence            4567777766666789999999999999999988777543333322233333  55665555433

>cd04175 Rap1 Rap1 subgroup

Probab=95.14  E-value=0.02  Score=45.57  Aligned_cols=22  Identities=18%  Similarity=0.368  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         3 ki~~~G~~~~GKTsli~~~~~~   24 (164)
T cd04175           3 KLVVLGSGGVGKSALTVQFVQG   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3689999999999999887653

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

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=95.14  E-value=0.017  Score=49.86  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+...
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~i~Gl   56 (252)
T CHL00131         33 GEIHAIMGPNGSGKSTLSKVIAGH   56 (252)
T ss_pred             CcEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999873

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=95.13  E-value=0.017  Score=45.59  Aligned_cols=22  Identities=14%  Similarity=0.193  Sum_probs=19.5

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|+|.+|+|||||++.+.+..
T Consensus         2 i~i~G~~~~GKTsl~~~~~~~~   23 (160)
T cd04156           2 VLLLGLDSAGKSTLLYKLKHAE   23 (160)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            6799999999999999997653

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

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=95.13  E-value=0.017  Score=50.06  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.|..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~i~G~   50 (256)
T TIGR03873        27 GSLTGLLGPNGSGKSTLLRLLAGA   50 (256)
T ss_pred             CcEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999874

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=95.13  E-value=0.017  Score=50.40  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
T Consensus        45 Ge~~~i~G~nGsGKSTLl~~l~G   67 (267)
T PRK14235         45 KTVTAFIGPSGCGKSTFLRCLNR   67 (267)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999986

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.13  E-value=0.017  Score=48.59  Aligned_cols=24  Identities=17%  Similarity=0.127  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+...
T Consensus        37 Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         37 GEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=95.13  E-value=0.017  Score=46.48  Aligned_cols=21  Identities=19%  Similarity=0.200  Sum_probs=18.9

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++|.+|+|||||++.+.+.
T Consensus         2 i~~~G~~~~GKTsl~~~l~~~   22 (167)
T cd04161           2 LLTVGLDNAGKTTLVSALQGE   22 (167)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999998664

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.

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.13  E-value=0.017  Score=49.87  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G   55 (254)
T PRK14273         33 NSITALIGPSGCGKSTFLRTLNR   55 (254)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999986

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=95.13  E-value=0.017  Score=49.05  Aligned_cols=24  Identities=13%  Similarity=0.167  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        48 Ge~~~i~G~nGsGKSTLl~~l~G~   71 (224)
T cd03220          48 GERIGLIGRNGAGKSTLLRLLAGI   71 (224)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999984

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=95.13  E-value=0.034  Score=53.89  Aligned_cols=49  Identities=16%  Similarity=0.065  Sum_probs=34.9

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          158 KKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++..+.|.+..+.|.+..-.....-.+|-|+|+.|+||||+|+.+...
T Consensus       367 ~pP~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~  415 (568)
T PRK05537        367 EIPEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVK  415 (568)
T ss_pred             CCChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHH
Confidence            4455666666666555544333344568999999999999999999874

>cd00880 Era_like Era (E

Probab=95.12  E-value=0.011  Score=45.75  Aligned_cols=19  Identities=11%  Similarity=0.261  Sum_probs=17.5

Q ss_pred             EEcCCCCChhHHHHHHhhc
Q 038685          188 IVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       188 IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+|.+|+|||||++.+++.
T Consensus         1 i~G~~gsGKstl~~~l~~~   19 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQ   19 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCc
Confidence            5899999999999999975

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

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.12  E-value=0.017  Score=50.50  Aligned_cols=24  Identities=25%  Similarity=0.302  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+...
T Consensus        39 Ge~~~l~G~nGsGKSTLl~~l~Gl   62 (269)
T PRK14259         39 GKVTALIGPSGCGKSTVLRSLNRM   62 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999763

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=95.12  E-value=0.016  Score=46.05  Aligned_cols=23  Identities=17%  Similarity=0.294  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..-|-|.|.+|+|||||+..|-.
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHH
Confidence            34567999999999999999875

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=95.12  E-value=0.017  Score=50.36  Aligned_cols=24  Identities=21%  Similarity=0.358  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+...
T Consensus        46 Ge~~~I~G~nGsGKSTLl~~l~Gl   69 (267)
T PRK14237         46 NKITALIGPSGSGKSTYLRSLNRM   69 (267)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999974

>PRK09183 transposase/IS protein; Provisional

Probab=95.12  E-value=0.017  Score=50.42  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+.|+|.+|+||||||..+.+.
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~  125 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYE  125 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHH
Confidence            45679999999999999999764

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=95.11  E-value=0.019  Score=47.10  Aligned_cols=25  Identities=20%  Similarity=0.238  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.-|+|+|.+|+|||||.+.+.+.
T Consensus        23 ~~~~v~ivG~~~~GKSsli~~l~~~   47 (196)
T PRK00454         23 DGPEIAFAGRSNVGKSSLINALTNR   47 (196)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            4677899999999999999999985

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=95.11  E-value=0.018  Score=50.24  Aligned_cols=23  Identities=22%  Similarity=0.277  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|.|||||++.+..
T Consensus        36 Ge~~~i~G~nGsGKSTLl~~l~G   58 (264)
T PRK14243         36 NQITAFIGPSGCGKSTILRCFNR   58 (264)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999984

>KOG3308 consensus Uncharacterized protein of the uridine kinase family [Nucleotide transport and metabolism]

Probab=95.11  E-value=0.023  Score=47.31  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +.-||||-|+...||||||+.+..
T Consensus         3 K~~ivgiSG~TnsGKTTLak~l~~   26 (225)
T KOG3308|consen    3 KTLIVGISGCTNSGKTTLAKSLHR   26 (225)
T ss_pred             eEEEEEeecccCCCHhHHHHHHHH
Confidence            456899999999999999999765

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=95.11  E-value=0.065  Score=48.30  Aligned_cols=46  Identities=24%  Similarity=0.267  Sum_probs=37.6

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++++|....+..+.+.+..-...-.-|-|+|-.|+||+++|+.|+.
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~   51 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHY   51 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHH
Confidence            4689999999999888865333344567999999999999999997

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

Probab=95.11  E-value=0.018  Score=45.59  Aligned_cols=22  Identities=23%  Similarity=0.380  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|+|+|.+|+|||||+..+.++
T Consensus         4 ki~i~G~~~~GKtsl~~~~~~~   25 (164)
T cd04145           4 KLVVVGGGGVGKSALTIQFIQS   25 (164)
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            4689999999999999886543

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

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.10  E-value=0.017  Score=50.38  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|.|||||++.+..
T Consensus        47 Ge~~~i~G~nGsGKSTLl~~l~G   69 (268)
T PRK14248         47 HAVTALIGPSGCGKSTFLRSINR   69 (268)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999965

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=95.09  E-value=0.019  Score=47.90  Aligned_cols=22  Identities=9%  Similarity=0.116  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..|+|+|+.|+||||+++.+.+
T Consensus         2 ~~i~itG~~gsGKst~~~~l~~   23 (195)
T PRK14730          2 RRIGLTGGIASGKSTVGNYLAQ   23 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999999876

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.09  E-value=0.029  Score=52.44  Aligned_cols=24  Identities=33%  Similarity=0.374  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|.++|++|+||||++..+-..
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~  244 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAAR  244 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            469999999999999988877553

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=95.08  E-value=0.018  Score=48.13  Aligned_cols=22  Identities=23%  Similarity=0.144  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+++|.|..|.|||||++.|.-
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~   47 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGV   47 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHH
Confidence            7999999999999999999875

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>cd01866 Rab2 Rab2 subfamily

Probab=95.08  E-value=0.018  Score=46.20  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-|.|+|.+|+|||||...+.+.
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~   27 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDK   27 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999999875

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

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=95.08  E-value=0.019  Score=48.81  Aligned_cols=26  Identities=23%  Similarity=0.273  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .-.+++++|..|+|||||.+.|..-.
T Consensus        28 ~Geiv~llG~NGaGKTTlLkti~Gl~   53 (237)
T COG0410          28 RGEIVALLGRNGAGKTTLLKTIMGLV   53 (237)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35689999999999999999999854

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.08  E-value=0.019  Score=49.09  Aligned_cols=23  Identities=30%  Similarity=0.384  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+|+|+|..|.|||||.+.+..
T Consensus        30 GE~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          30 GEMVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             CcEEEEECCCCCcHHHHHHHHhc
Confidence            46899999999999999999987

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.08  E-value=0.018  Score=50.78  Aligned_cols=24  Identities=21%  Similarity=0.192  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        33 Ge~~~I~G~nGaGKSTLl~~l~G~   56 (282)
T PRK13640         33 GSWTALIGHNGSGKSTISKLINGL   56 (282)
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcc
Confidence            468999999999999999999974

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.07  E-value=0.018  Score=49.79  Aligned_cols=23  Identities=26%  Similarity=0.316  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
T Consensus        32 Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14261         32 NRVTALIGPSGCGKSTLLRCFNR   54 (253)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999974

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.07  E-value=0.018  Score=50.38  Aligned_cols=24  Identities=25%  Similarity=0.220  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        35 Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (271)
T PRK13632         35 GEYVAILGHNGSGKSTISKILTGL   58 (271)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999874

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

Probab=95.07  E-value=0.019  Score=50.12  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++|+|.|-||+||||++-.+-.
T Consensus         3 ~iIav~~KGGVGKTT~~~nLA~   24 (270)
T PRK13185          3 LVLAVYGKGGIGKSTTSSNLSA   24 (270)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999997777655

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=95.07  E-value=0.018  Score=49.79  Aligned_cols=24  Identities=33%  Similarity=0.318  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        29 Ge~~~l~G~nGsGKSTLl~~l~Gl   52 (254)
T PRK10418         29 GRVLALVGGSGSGKSLTCAAALGI   52 (254)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999864

>cd04103 Centaurin_gamma Centaurin gamma

Probab=95.06  E-value=0.018  Score=46.01  Aligned_cols=19  Identities=21%  Similarity=0.260  Sum_probs=16.9

Q ss_pred             EEEEcCCCCChhHHHHHHh
Q 038685          186 VAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy  204 (265)
                      |+++|.+|+|||||.+...
T Consensus         3 i~vvG~~gvGKTsli~~~~   21 (158)
T cd04103           3 LGIVGNLQSGKSALVHRYL   21 (158)
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            6899999999999998753

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.

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=95.06  E-value=0.018  Score=49.52  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (248)
T PRK09580         27 GEVHAIMGPNGSGKSTLSATLAGR   50 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999985

>TIGR01351 adk adenylate kinases

Probab=95.06  E-value=0.017  Score=48.52  Aligned_cols=21  Identities=19%  Similarity=0.272  Sum_probs=18.8

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|.|++|+||||+|+.+-..
T Consensus         2 I~i~G~pGsGKsT~a~~La~~   22 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEK   22 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            679999999999999998763

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.

>PHA02575 1 deoxynucleoside monophosphate kinase; Provisional

Probab=95.06  E-value=0.018  Score=48.86  Aligned_cols=21  Identities=24%  Similarity=0.235  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhh
Q 038685          185 VVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +|+|+||.|+||+|.|+.+-+
T Consensus         2 iI~i~G~~gsGKstva~~~~~   22 (227)
T PHA02575          2 LIAISGKKRSGKDTVADFIIE   22 (227)
T ss_pred             EEEEeCCCCCCHHHHHHHHHh
Confidence            799999999999999999865

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

Probab=95.05  E-value=0.073  Score=46.90  Aligned_cols=51  Identities=16%  Similarity=0.072  Sum_probs=40.6

Q ss_pred             cCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCCCHHHHHH
Q 038685          178 VGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEYYLHKVLD  230 (265)
Q Consensus       178 ~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~~~~~l~~  230 (265)
                      .+=+.-.++=|+|+.|.||||||-+++-.  ++..-..++|+.  ..+++..+..
T Consensus        55 GGl~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~~  107 (279)
T COG0468          55 GGLPRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAKQ  107 (279)
T ss_pred             CCcccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHHH
Confidence            44456789999999999999999998874  445556899999  6688876644

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

Probab=95.05  E-value=0.045  Score=49.30  Aligned_cols=40  Identities=23%  Similarity=0.233  Sum_probs=29.2

Q ss_pred             CCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          179 GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       179 ~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      +=+.-+++=|+|++|+||||||..+.-.  ....-..++||.
T Consensus        51 Glp~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId   90 (325)
T cd00983          51 GYPKGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFID   90 (325)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEEC
Confidence            3355678889999999999999997764  223334566665

RecA couples ATP hydrolysis to DNA strand exchange.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=95.05  E-value=0.041  Score=52.72  Aligned_cols=57  Identities=18%  Similarity=0.282  Sum_probs=42.8

Q ss_pred             CcccccHHHHHHHHHHHhc---CCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          160 RNIVGLEDEMKELLDLLIV---GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~---~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      .+++--..-.+++..||..   +....+++-+.|++|+||||.++.+.+.    --|+.+=|.+
T Consensus        19 ~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~e----lg~~v~Ew~n   78 (519)
T PF03215_consen   19 DELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKE----LGFEVQEWIN   78 (519)
T ss_pred             HHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHH----hCCeeEEecC
Confidence            4555556777888888864   2334568999999999999999999984    2466677765

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=95.05  E-value=0.019  Score=49.49  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14240         29 NQVTALIGPSGCGKSTFLRTLNR   51 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999975

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=95.05  E-value=0.019  Score=49.73  Aligned_cols=24  Identities=17%  Similarity=0.224  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        28 Ge~~~l~G~nGsGKSTLl~~l~Gl   51 (255)
T PRK11231         28 GKITALIGPNGCGKSTLLKCFARL   51 (255)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999873

---

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	265
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-08

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 57.9 bits (139), Expect = 1e-09
 Identities = 42/237 (17%), Positives = 84/237 (35%), Gaps = 44/237 (18%)

Query: 50  NDMFQILFQSLGGEEEFDFSELQGILKEMKDFVHESEKVIYIFMISRITQQISGSSSKDL 109
            D+  +   +    + FD  ++Q + K     +   E++ +I M            +  L
Sbjct: 19  KDILSVFEDAF--VDNFDCKDVQDMPKS----ILSKEEIDHIIMSKDAVSG-----TLRL 67

Query: 110 FDALLGLQSQIIDIKQQLQQF-----RPNTIGLWVELKS----------YFIEARNSSST 154
           F  LL  Q +++      Q+F     R N   L   +K+           +IE R+    
Sbjct: 68  FWTLLSKQEEMV------QKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN 121

Query: 155 AGS--KKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNY 212
                 K N V       +L   L+   P+ +V+ I G  G  KT  A +   S  ++  
Sbjct: 122 DNQVFAKYN-VSRLQPYLKLRQALLELRPAKNVL-IDGVLGSGKTWVALDVCLSYKVQCK 179

Query: 213 FYCRA-WVG-----CEYYLHKVLDNIIKSVMPRSMGSEIMDKDYELKITTDTTRPDL 263
              +  W+          + ++L  ++  + P    +   D    +K+   + + +L
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP--NWTSRSDHSSNIKLRIHSIQAEL 234

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.4 bits (96), Expect = 3e-04
 Identities = 44/285 (15%), Positives = 89/285 (31%), Gaps = 79/285 (27%)

Query: 29  EQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQ--GILKEMKDFVHESE 86
           +      T  E+  SLL  Y +       Q L   E    +  +   I + ++D +   +
Sbjct: 292 DHHSMTLTPDEVK-SLLLKYLD----CRPQDLP-REVLTTNPRRLSIIAESIRDGLATWD 345

Query: 87  KVIYIFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQ---FRPN------TIG- 136
              ++    ++T  I  S      + L     +  + ++   +   F P+       +  
Sbjct: 346 NWKHV-NCDKLTTIIESS-----LNVL-----EPAEYRKMFDRLSVFPPSAHIPTILLSL 394

Query: 137 LWVELKSYFIEA-----RNSSSTAGSKKRNIVGLED---EMKELLDLLIVGEPSLSVVAI 188
           +W ++    +          S      K + + +     E+K  L+     E +L   +I
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE----NEYALHR-SI 449

Query: 189 VGS----SGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKV-------------LD- 230
           V        FD  D         Y+  YFY    +G  ++L  +             LD 
Sbjct: 450 VDHYNIPKTFDSDDLI-----PPYLDQYFYS--HIG--HHLKNIEHPERMTLFRMVFLDF 500

Query: 231 -----NIIKSVMPRSMGSEIMD-----KDYELKITTDTTRPDLHV 265
                 I       +    I++     K Y+  I  +  + +  V
Sbjct: 501 RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV 545

>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 = 52.9 bits (127), Expect = 3e-08
 Identities = 23/146 (15%), Positives = 44/146 (30%), Gaps = 10/146 (6%)

Query: 116 LQSQIIDIKQQLQQFRPNTIGLWVELKSYFIEARNSSSTAGS----KKRNIVGLEDEMKE 171
           L     D+   L    P       +     I +   +         +    V  +  +  
Sbjct: 76  LHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFVTRKKLVNA 135

Query: 172 LLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNY-MKNYFYCR-AW--VGCEYYLHK 227
           +   L   +     V I G +G  K+  A EA   +  ++  F     W  VG +     
Sbjct: 136 IQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGL 195

Query: 228 V--LDNIIKSVMPRSMGSEIMDKDYE 251
           +  L N+   +      S+ +  + E
Sbjct: 196 LMKLQNLCTRLDQDESFSQRLPLNIE 221

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	265
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.65
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.62
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.33
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.3
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.22
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.43
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.39
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.33
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.25
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.24
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.2
2fna_A	357	Conserved hypothetical protein; structural genomic	98.17
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.98
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.88
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.84
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.82
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.71
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.52
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.51
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.43
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.4
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.31
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.3
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.29
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.28
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.25
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.25
3co5_A	143	Putative two-component system transcriptional RES	97.22
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.21
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.2
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.19
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.19
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.18
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.16
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.14
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	97.13
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.13
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.13
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.13
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.13
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.12
3bos_A	242	Putative DNA replication factor; P-loop containing	97.11
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.09
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.06
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.05
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.05
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.03
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.0
3pvs_A	447	Replication-associated recombination protein A; ma	96.98
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.98
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.91
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.91
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.9
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.9
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.87
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.86
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.83
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.83
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.81
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.81
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.81
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.78
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.77
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.77
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.76
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.75
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.75
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.75
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.75
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.75
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.74
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.74
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.74
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.74
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.73
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.7
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.7
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.69
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.68
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.67
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.67
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.65
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.64
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.62
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.61
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.61
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.6
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.6
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.59
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.59
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.59
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.58
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.58
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.58
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.56
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.56
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.55
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.54
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.53
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.53
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.53
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.53
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.51
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.51
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.5
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.49
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.49
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.47
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.46
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.46
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.46
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.46
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.45
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.45
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.43
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.43
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.42
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.42
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.41
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.41
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.41
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.41
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.41
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.4
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.4
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.39
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.39
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.39
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.37
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.37
1via_A	175	Shikimate kinase; structural genomics, transferase	96.36
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.36
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.36
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.35
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.34
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.34
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.33
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.33
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.33
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.32
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.32
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.32
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.31
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.31
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.31
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.29
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.29
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.28
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.28
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.27
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.25
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.24
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.24
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.23
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.23
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.22
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.22
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.21
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.2
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.2
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.19
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.19
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.19
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.18
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.18
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.17
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.15
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.14
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.14
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.13
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.13
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.13
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.13
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.13
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.13
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.12
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.1
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.1
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.1
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.09
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.08
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.07
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.07
1g6h_A	257	High-affinity branched-chain amino acid transport	96.06
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.04
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.04
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.03
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	96.03
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.02
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.02
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.0
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.99
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.99
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.97
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.97
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.97
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.97
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.96
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.95
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.95
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.95
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.94
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.94
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.93
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.93
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.93
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.93
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.92
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.92
2og2_A	359	Putative signal recognition particle receptor; nuc	95.91
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.9
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.89
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.88
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.88
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.87
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.87
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.86
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.86
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.85
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.82
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.82
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.8
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.8
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.8
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.79
2qgz_A	308	Helicase loader, putative primosome component; str	95.78
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.77
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.77
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.76
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.75
2xxa_A	433	Signal recognition particle protein; protein trans	95.74
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.74
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.74
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.74
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.73
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.7
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.69
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.69
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.68
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.68
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.67
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.64
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.63
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.62
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.61
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.61
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.61
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.58
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.58
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.58
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.57
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.57
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.57
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.56
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.56
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.56
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.56
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.55
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.55
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.55
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.54
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.53
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.52
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.49
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.49
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.49
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.49
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	95.46
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.46
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.46
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.43
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.43
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.43
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.41
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.41
3end_A	307	Light-independent protochlorophyllide reductase ir	95.38
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.38
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	95.37
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.37
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	95.36
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.36
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.34
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.34
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	95.34
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.33
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.32
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.31
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.31
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	95.31
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.31
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.3
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.3
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.3
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.3
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.29
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.28
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	95.27
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.27
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.27
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	95.25
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	95.25
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.25
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	95.24
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.24
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.23
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	95.23
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.2
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.2
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.19
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.19
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.19
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	95.18
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	95.18
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	95.18
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.16
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	95.16
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	95.16
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.15
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	95.14
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.14
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.14
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	95.14
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.13
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.12
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	95.12
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.12
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.12
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.12
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.11
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.11
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.11
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	95.11
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.1
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.1
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.09
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.08
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	95.07
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.05
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.04
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	95.04
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	95.04
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	95.02
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	95.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	95.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.99
3llu_A	196	RAS-related GTP-binding protein C; structural geno	94.97
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	94.97
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	94.97
2fh5_B	214	SR-beta, signal recognition particle receptor beta	94.97
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	94.96
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.95
1p9r_A	418	General secretion pathway protein E; bacterial typ	94.93
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.91
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.9
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	94.9
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	94.89
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	94.88
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	94.88
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.88
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	94.88
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.88
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	94.87
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	94.85
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.85
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	94.84
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	94.84
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.84
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	94.84
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	94.83
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	94.82
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.8
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	94.8
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	94.8
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	94.8
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.79
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	94.78
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.77
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.76
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.76
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	94.76
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	94.75
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	94.74
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	94.74
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	94.74
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.72
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.71
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.7
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	94.69
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.69
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	94.69
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.66
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.66
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.65
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	94.65
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	94.64
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	94.63
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	94.62
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	94.61
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	94.6
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.59
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	94.58
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	94.55
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.53
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	94.52
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.52
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	94.51
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	94.51
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	94.49
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.48
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.47
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	94.46
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	94.45
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	94.43
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.42
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	94.41
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	94.4
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	94.4
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.38
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	94.37
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.36
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.35
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.34
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	94.33
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.27
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	94.21
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	94.2
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	94.2
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.14
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.12
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	94.12
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	94.11
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	94.1
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	94.09
3io5_A	333	Recombination and repair protein; storage dimer, i	94.08
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.05
2r6a_A	454	DNAB helicase, replicative helicase; replication,	94.04
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	94.03
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.02
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	94.01
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	94.01
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	93.99
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.98
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	93.97
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	93.94
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.92
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.91
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	93.9
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	93.88
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	93.86
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	93.85
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	93.84
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.83
1u94_A	356	RECA protein, recombinase A; homologous recombinat	93.79
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	93.79
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	93.77
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	93.74
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.73
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	93.72
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	93.72
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	93.7
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.69
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	93.68
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	93.66
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	93.66
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.66
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	93.63
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	93.61
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	93.61
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.59
3cwq_A	209	Para family chromosome partitioning protein; alpha	93.59
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.58
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.57
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	93.56
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.55
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	93.52
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	93.51
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	93.5
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.46
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	93.45
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	93.39
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	93.37
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	93.36
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	93.34
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	93.34
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	93.34
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	93.29
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	93.28
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	93.25
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	92.36
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	93.19
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.15
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	93.12
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	93.11
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	93.11
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	93.1
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	93.09
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	93.06
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	93.02
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	92.98

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.65  E-value=4.3e-16  Score=118.16  Aligned_cols=84  Identities=20%  Similarity=0.247  Sum_probs=76.5

Q ss_pred             chHHHHHHHHHHhhccccCCchhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccCCCCCCChHHHHHHHHHHHHHH
Q 038685            3 INFRLFSERLRRLVEGEEGTLPDAAKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFDFSELQGILKEMKDFV   82 (265)
Q Consensus         3 ~~v~~~~~kl~~~l~~~e~~~~~~~~~~~~~L~~~l~~l~~~l~~ae~~~~~~~~~~~~~~~~~~~~~v~~Wl~~lr~~~   82 (265)
                      ++++++++||.+++. +|+.++.+++++++.|+++|+.|+++|.+++.         ++ .+..+ +.++.|+.+||+++
T Consensus         1 a~v~~ll~KL~~ll~-~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~---------~~-~~~~d-~~vk~W~~~vrdla   68 (115)
T 3qfl_A            1 AAISNLIPKLGELLT-EEFKLHKGVKKNIEDLGKELESMNAALIKIGE---------VP-REQLD-SQDKLWADEVRELS   68 (115)
T ss_dssp             CTTCSHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT---------SC-GGGCC-HHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHH-HHHHHHhchHHHHHHHHHHHHHHHHHHHHHHH---------hc-cccCC-HHHHHHHHHHHHHH
Confidence            477899999999999 99999999999999999999999999999998         51 12468 99999999999999


Q ss_pred             HhhHHHHHHHHHhhhh
Q 038685           83 HESEKVIYIFMISRIT   98 (265)
Q Consensus        83 ~~~eDild~~~~~~~~   98 (265)
                      ||+||+||+|.++...
T Consensus        69 YD~ED~iD~f~~~~~~   84 (115)
T 3qfl_A           69 YVIEDVVDKFLVQVDG   84 (115)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcc
Confidence            9999999999998764

>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=99.62  E-value=1.4e-15  Score=144.34  Aligned_cols=78  Identities=12%  Similarity=0.128  Sum_probs=70.1

Q ss_pred             cccHHHHHHHHHHHhcC-CCCeEEEEEEcCCCCChhHHHHHHhh--cccccccCCeeEEEe--CC--CCHHHHHHHHHHH
Q 038685          163 VGLEDEMKELLDLLIVG-EPSLSVVAIVGSSGFDKTDFAGEAYN--SNYMKNYFYCRAWVG--CE--YYLHKVLDNIIKS  235 (265)
Q Consensus       163 vG~e~~~~~l~~~L~~~-~~~~~VI~IvG~gGvGKTTLa~~vy~--~~~v~~~F~~~~wV~--~~--~~~~~l~~~Il~~  235 (265)
                      +||+.++++|.++|..+ +...+||+||||||+||||||+.+|+  +.+++.+|++++||+  +.  ++...+++.|+++
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~  210 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  210 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHH
Confidence            69999999999999765 44689999999999999999999998  678999999999999  43  4799999999999


Q ss_pred             hCCCC
Q 038685          236 VMPRS  240 (265)
Q Consensus       236 l~~~~  240 (265)
                      ++...
T Consensus       211 l~~~~  215 (549)
T 2a5y_B          211 LKSED  215 (549)
T ss_dssp             HTTTS
T ss_pred             HhcCc
Confidence            98753

>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=99.33  E-value=2.6e-12  Score=131.18  Aligned_cols=102  Identities=19%  Similarity=0.168  Sum_probs=74.1

Q ss_pred             CCCCcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccc-cccC-CeeEEEe-CC-CC--HHHHHH
Q 038685          157 SKKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYM-KNYF-YCRAWVG-CE-YY--LHKVLD  230 (265)
Q Consensus       157 ~~~~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v-~~~F-~~~~wV~-~~-~~--~~~l~~  230 (265)
                      ...+.+|||+.++++|.++|...+...++|+|+||||+||||||+.+|++.++ ..+| +.+.||+ .. .+  ....+.
T Consensus       121 ~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  200 (1249)
T 3sfz_A          121 QRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQ  200 (1249)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHH
T ss_pred             CCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHH
Confidence            35567999999999999999876667999999999999999999999997654 5556 5666999 33 32  345577


Q ss_pred             HHHHHhCCCCCCCccCChHHhHHHHHHhhc
Q 038685          231 NIIKSVMPRSMGSEIMDKDYELKITTDTTR  260 (265)
Q Consensus       231 ~Il~~l~~~~~~~~~~~~~~~~~~~~d~lr  260 (265)
                      .++..+..........  ......+.+.+|
T Consensus       201 ~~~~~l~~~~~~~~~~--~~~~~~~~~~l~  228 (1249)
T 3sfz_A          201 NLCMRLDQEESFSQRL--PLNIEEAKDRLR  228 (1249)
T ss_dssp             HHHHHHTTTCTTCSSC--CSSHHHHHHHHH
T ss_pred             HHHHHhhhhcccccCC--CCCHHHHHHHHH
Confidence            7888887654322211  123445555655

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.30  E-value=2.7e-12  Score=128.03  Aligned_cols=75  Identities=20%  Similarity=0.053  Sum_probs=66.3

Q ss_pred             cccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCe-eEEEe--CCCCHHHHHHHHHHHh
Q 038685          161 NIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYC-RAWVG--CEYYLHKVLDNIIKSV  236 (265)
Q Consensus       161 ~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~-~~wV~--~~~~~~~l~~~Il~~l  236 (265)
                      -.|||+.++++|.++|...+ ..++|+|+||||+||||||+.+|++.+++.+|++ ++||+  +.++...++..|++.+
T Consensus       129 ~~VGRe~eLeeL~elL~~~d-~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL  206 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELR-PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL  206 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCC-SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccC-CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34999999999999998643 3789999999999999999999998889999997 99999  7788888888887754

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.22  E-value=3.2e-11  Score=114.85  Aligned_cols=80  Identities=18%  Similarity=0.156  Sum_probs=64.6

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccc-cccC-CeeEEEe-CCCCHHHHHHHH--
Q 038685          158 KKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYM-KNYF-YCRAWVG-CEYYLHKVLDNI--  232 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v-~~~F-~~~~wV~-~~~~~~~l~~~I--  232 (265)
                      ..+.+|||+.+.+.|.++|.......++|+|+||||+||||||+.+|++..+ ..+| +.++||+ ...+...++..+  
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~~~~l~~  201 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQN  201 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHHHHHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHHHHHHHH
Confidence            4467999999999999999865556899999999999999999999998666 7889 5899999 555555555544  


Q ss_pred             -HHHhC
Q 038685          233 -IKSVM  237 (265)
Q Consensus       233 -l~~l~  237 (265)
                       +..+.
T Consensus       202 l~~~l~  207 (591)
T 1z6t_A          202 LCTRLD  207 (591)
T ss_dssp             HHHHHC
T ss_pred             HHHHhc
Confidence             44554

>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=98.43  E-value=9e-07  Score=79.16  Aligned_cols=79  Identities=15%  Similarity=0.014  Sum_probs=59.9

Q ss_pred             CcccccHHHHHHHHHHHhc--CCCCeEEEEEEcCCCCChhHHHHHHhhccccc----cc--CCeeEEEe--CCC-CHHHH
Q 038685          160 RNIVGLEDEMKELLDLLIV--GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMK----NY--FYCRAWVG--CEY-YLHKV  228 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~--~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~----~~--F~~~~wV~--~~~-~~~~l  228 (265)
                      ++++|++..++.+..+|..  .......+.|+|++|+||||||+.+++...-.    ..  ....+|+.  ... +...+
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            7899999999999988854  23345688999999999999999999853111    11  33567777  445 88889


Q ss_pred             HHHHHHHhCC
Q 038685          229 LDNIIKSVMP  238 (265)
Q Consensus       229 ~~~Il~~l~~  238 (265)
                      +..++.++..
T Consensus       100 ~~~l~~~l~~  109 (384)
T 2qby_B          100 LSSLAGKLTG  109 (384)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHhcC
Confidence            9999988843

>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=98.39  E-value=5.5e-07  Score=81.28  Aligned_cols=81  Identities=16%  Similarity=0.104  Sum_probs=59.4

Q ss_pred             CCcccccHHHHHHHHHHH-hc---C---CCCeEEEEEEcCCCCChhHHHHHHhhccccc---ccCC-eeEEEe--CCCCH
Q 038685          159 KRNIVGLEDEMKELLDLL-IV---G---EPSLSVVAIVGSSGFDKTDFAGEAYNSNYMK---NYFY-CRAWVG--CEYYL  225 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L-~~---~---~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~---~~F~-~~~wV~--~~~~~  225 (265)
                      +..++||+.+.+.|..+| ..   +   ....-+|+|+|++|+|||||++.+++.....   ..|. ..+|+.  ...+.
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCH
Confidence            368999999999999988 42   2   2233444449999999999999999853221   1233 357777  56788


Q ss_pred             HHHHHHHHHHhCCC
Q 038685          226 HKVLDNIIKSVMPR  239 (265)
Q Consensus       226 ~~l~~~Il~~l~~~  239 (265)
                      ..++..|+.+++..
T Consensus       101 ~~~~~~l~~~l~~~  114 (412)
T 1w5s_A          101 YTILSLIVRQTGYP  114 (412)
T ss_dssp             HHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhCCC
Confidence            89999999999754

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.33  E-value=1e-06  Score=77.46  Aligned_cols=70  Identities=13%  Similarity=0.208  Sum_probs=55.1

Q ss_pred             CCCCcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CC-------CCHHHH
Q 038685          157 SKKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CE-------YYLHKV  228 (265)
Q Consensus       157 ~~~~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~-------~~~~~l  228 (265)
                      ..+..++||+.+.+.|.+++..+    +++.|+|++|+|||||++.+.+..      . .+|+. ..       .+...+
T Consensus         9 ~~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~~~~~   77 (350)
T 2qen_A            9 TRREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHITREEL   77 (350)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBCHHHH
T ss_pred             CChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCCHHHH
Confidence            34567999999999999988653    689999999999999999999853      2 67776 22       256777


Q ss_pred             HHHHHHHhC
Q 038685          229 LDNIIKSVM  237 (265)
Q Consensus       229 ~~~Il~~l~  237 (265)
                      ++.+.+.+.
T Consensus        78 ~~~l~~~l~   86 (350)
T 2qen_A           78 IKELQSTIS   86 (350)
T ss_dssp             HHHHHHHSC
T ss_pred             HHHHHHHHH
Confidence            777777654

>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=98.25  E-value=2.2e-06  Score=76.28  Aligned_cols=78  Identities=17%  Similarity=0.235  Sum_probs=59.8

Q ss_pred             CCcccccHHHHHHHHHHHhcC--CCCeEEEEEEcCCCCChhHHHHHHhhcccccccC---CeeEEEe--CCCCHHHHHHH
Q 038685          159 KRNIVGLEDEMKELLDLLIVG--EPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYF---YCRAWVG--CEYYLHKVLDN  231 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~~~--~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F---~~~~wV~--~~~~~~~l~~~  231 (265)
                      +++++|++.+++.|.++|...  ......+.|+|++|+|||||++.+.+.  ....|   ...+|+.  ...+...++..
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~i~~~~~~~~~~~~~~   96 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSK--LHKKFLGKFKHVYINTRQIDTPYRVLAD   96 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHH--HHHHTCSSCEEEEEEHHHHCSHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHH--HHHHhcCCceEEEEECCCCCCHHHHHHH
Confidence            478999999999999988642  334668899999999999999999984  33332   2456776  55577788888


Q ss_pred             HHHHhCC
Q 038685          232 IIKSVMP  238 (265)
Q Consensus       232 Il~~l~~  238 (265)
                      ++.+++.
T Consensus        97 i~~~l~~  103 (386)
T 2qby_A           97 LLESLDV  103 (386)
T ss_dssp             HTTTTSC
T ss_pred             HHHHhCC
Confidence            8887754

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.24  E-value=5e-06  Score=74.00  Aligned_cols=81  Identities=19%  Similarity=0.132  Sum_probs=60.5

Q ss_pred             CCcccccHHHHHHHHHHHhcC--CCCeEEEEEEcCCCCChhHHHHHHhhccccc----ccCCeeEEEe--CCCCHHHHHH
Q 038685          159 KRNIVGLEDEMKELLDLLIVG--EPSLSVVAIVGSSGFDKTDFAGEAYNSNYMK----NYFYCRAWVG--CEYYLHKVLD  230 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~~~--~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~----~~F~~~~wV~--~~~~~~~l~~  230 (265)
                      ++.++|++..++.+..+|...  ......+.|+|++|+||||||+.+.+...-.    ..--..+|+.  ...+...++.
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~   97 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVAS   97 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHH
Confidence            378999999999999988542  3346678899999999999999999853111    0012356676  5567888899


Q ss_pred             HHHHHhCCC
Q 038685          231 NIIKSVMPR  239 (265)
Q Consensus       231 ~Il~~l~~~  239 (265)
                      .++.+++..
T Consensus        98 ~l~~~l~~~  106 (387)
T 2v1u_A           98 AIAEAVGVR  106 (387)
T ss_dssp             HHHHHHSCC
T ss_pred             HHHHHhCCC
Confidence            999888653

>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=98.20  E-value=1.7e-05  Score=70.73  Aligned_cols=78  Identities=14%  Similarity=0.130  Sum_probs=59.5

Q ss_pred             CcccccHHHHHHHHHHHhc---C-CCCeEEEEEEcCCCCChhHHHHHHhhcccccccC-CeeEEEe--CCCCHHHHHHHH
Q 038685          160 RNIVGLEDEMKELLDLLIV---G-EPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYF-YCRAWVG--CEYYLHKVLDNI  232 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~---~-~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F-~~~~wV~--~~~~~~~l~~~I  232 (265)
                      +.++|++..++.|..+|..   + .+..+.+.|+|++|+|||||++.+.+..  .... ...+|+.  ...+...++..+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~--~~~~~~~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY--KDKTTARFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH--TTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHH--hhhcCeeEEEEeCccCCCHHHHHHHH
Confidence            6899999999999998865   2 2233488999999999999999999853  2221 2456666  555678999999


Q ss_pred             HHHhCCC
Q 038685          233 IKSVMPR  239 (265)
Q Consensus       233 l~~l~~~  239 (265)
                      +..++..
T Consensus        95 ~~~l~~~  101 (389)
T 1fnn_A           95 ARSLNIP  101 (389)
T ss_dssp             HHHTTCC
T ss_pred             HHHhCcc
Confidence            9988653

>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=98.17  E-value=3.6e-06  Score=74.02  Aligned_cols=68  Identities=13%  Similarity=0.180  Sum_probs=50.7

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CC------CCHHHHHH
Q 038685          158 KKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CE------YYLHKVLD  230 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~------~~~~~l~~  230 (265)
                      .+..++||+.+.+.|.+ +..     +++.|+|++|+|||||++.+.+...  .   ..+|+. ..      .+...++.
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~~~--~---~~~~~~~~~~~~~~~~~~~~~~~   79 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINELN--L---PYIYLDLRKFEERNYISYKDFLL   79 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHHHT--C---CEEEEEGGGGTTCSCCCHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHhcC--C---CEEEEEchhhccccCCCHHHHHH
Confidence            45689999999999999 643     5899999999999999999998532  1   257887 43      24556655


Q ss_pred             HHHHHh
Q 038685          231 NIIKSV  236 (265)
Q Consensus       231 ~Il~~l  236 (265)
                      .+.+.+
T Consensus        80 ~l~~~l   85 (357)
T 2fna_A           80 ELQKEI   85 (357)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.98  E-value=7.7e-06  Score=65.00  Aligned_cols=45  Identities=16%  Similarity=0.327  Sum_probs=38.7

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|++...+.+.+++....  ...+-|+|.+|+||||||+.+.+.
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcCC--CCceEEECCCCCCHHHHHHHHHHH
Confidence            579999999999999987643  455679999999999999999885

>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=97.88  E-value=4e-05  Score=62.23  Aligned_cols=45  Identities=18%  Similarity=0.232  Sum_probs=38.6

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|++..++.+..++....  ...+-|+|.+|+||||||+.+.+.
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999997654  333889999999999999999884

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.84  E-value=1.3e-05  Score=63.57  Aligned_cols=45  Identities=16%  Similarity=0.279  Sum_probs=38.3

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|++.....+.+.+....  ...+-|+|.+|+||||||+.+.+.
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~--~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRT--KNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCC--CCceEEECCCCCCHHHHHHHHHHH
Confidence            579999999999999986643  445679999999999999999885

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=97.82  E-value=1.9e-05  Score=64.92  Aligned_cols=47  Identities=23%  Similarity=0.278  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .+++|++..++.|..++..+. ....+.|+|++|+||||||+.+.+..
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~~   69 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGL   69 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999987653 23578899999999999999998753

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.71  E-value=4.6e-05  Score=67.14  Aligned_cols=79  Identities=5%  Similarity=0.038  Sum_probs=58.1

Q ss_pred             CcccccHHHHHHHHHHHhcC--CCCeEEEEEEcCCCCChhHHHHHHhhcccccc------cCCeeEEEe--CCCCHHHHH
Q 038685          160 RNIVGLEDEMKELLDLLIVG--EPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKN------YFYCRAWVG--CEYYLHKVL  229 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~--~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~------~F~~~~wV~--~~~~~~~l~  229 (265)
                      .-+.||+++...|...|...  ......+-|+|++|+|||++++.|.+.-.-..      .| ..+.|+  .-.+...+.
T Consensus        20 ~~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~-~~v~INc~~~~t~~~~~   98 (318)
T 3te6_A           20 ELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIF-DYIHIDALELAGMDALY   98 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCE-EEEEEETTCCC--HHHH
T ss_pred             cccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCce-EEEEEeccccCCHHHHH
Confidence            34889999999999888542  34567778999999999999999998642111      12 245565  556788999


Q ss_pred             HHHHHHhCCC
Q 038685          230 DNIIKSVMPR  239 (265)
Q Consensus       230 ~~Il~~l~~~  239 (265)
                      ..|++++.+.
T Consensus        99 ~~I~~~L~g~  108 (318)
T 3te6_A           99 EKIWFAISKE  108 (318)
T ss_dssp             HHHHHHHSCC
T ss_pred             HHHHHHhcCC
Confidence            9999999765

>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=97.52  E-value=0.00013  Score=63.28  Aligned_cols=45  Identities=22%  Similarity=0.316  Sum_probs=38.6

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|++..++.|..++..+.  ...+-++|++|+||||+|+.+.+.
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~   65 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAHE   65 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHHH
Confidence            579999999999999987654  223889999999999999999985

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.51  E-value=6.6e-05  Score=58.10  Aligned_cols=46  Identities=13%  Similarity=0.046  Sum_probs=34.6

Q ss_pred             cccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          161 NIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       161 ~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++|....+..+.+.+..-...-.-|-|+|.+|+|||+||+.+++.
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHh
Confidence            5789999999998887542222233569999999999999999985

>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=97.43  E-value=0.00018  Score=62.46  Aligned_cols=45  Identities=27%  Similarity=0.336  Sum_probs=38.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..++.|..++..+.  ...+-++|++|+||||+|+.+.+.
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~la~~l~~~   69 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGS--MPHLLFAGPPGVGKTTAALALARE   69 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC--CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHHH
Confidence            579999999999999887654  334889999999999999999885

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.40  E-value=0.00012  Score=62.70  Aligned_cols=48  Identities=23%  Similarity=0.295  Sum_probs=38.7

Q ss_pred             CCcccccHHHHHHHHHHHhcC-----------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          159 KRNIVGLEDEMKELLDLLIVG-----------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~~~-----------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -++++|.+..++.|...+...           -....-+-|+|++|+||||||+.+.+.
T Consensus        16 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           16 YEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            367999999999998877431           123456789999999999999999985

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.31  E-value=0.00034  Score=56.74  Aligned_cols=51  Identities=18%  Similarity=0.075  Sum_probs=33.2

Q ss_pred             HHHHHHHHHhcCCC--CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          168 EMKELLDLLIVGEP--SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       168 ~~~~l~~~L~~~~~--~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      ..+.+..++.....  ....|-|+|.+|+||||||+.+++..  ..+....+|++
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~--~~~~~~~~~~~   89 (202)
T 2w58_A           37 AIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANEL--AKRNVSSLIVY   89 (202)
T ss_dssp             HHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHH--HTTTCCEEEEE
T ss_pred             HHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHH--HHcCCeEEEEE
Confidence            34445555544322  12678899999999999999999853  23334455555

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.30  E-value=0.00025  Score=61.66  Aligned_cols=47  Identities=34%  Similarity=0.386  Sum_probs=38.2

Q ss_pred             CcccccHHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV-----------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~-----------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.|.+++..           +-.....|.++|++|+||||||+.+.+.
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHH
Confidence            5799999999998887643           1133567889999999999999999985

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.29  E-value=0.00018  Score=63.26  Aligned_cols=47  Identities=21%  Similarity=0.285  Sum_probs=39.1

Q ss_pred             CcccccHHHHHHHHHHHhcC---CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG---EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~---~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..+..+..++...   ......|-|+|++|+||||||+.+.+.
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHH
Confidence            67999999999999888642   334556789999999999999999874

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.28  E-value=0.00026  Score=65.54  Aligned_cols=45  Identities=18%  Similarity=0.341  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|++..+..++..|....  ..-+-++|.+|+||||||+.+...
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~--~~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRT--KNNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS--SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHHH
Confidence            579999999999999987643  233469999999999999999885

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=97.25  E-value=0.00023  Score=59.86  Aligned_cols=47  Identities=17%  Similarity=0.266  Sum_probs=36.0

Q ss_pred             CcccccHHHHHHHHHHHh---cCC-------CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLI---VGE-------PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~---~~~-------~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.|.+++.   ...       ....-|-++|.+|+||||||+.+.+.
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~   62 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATE   62 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            579999998888876652   111       23345779999999999999999884

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.25  E-value=0.00028  Score=57.77  Aligned_cols=38  Identities=21%  Similarity=0.332  Sum_probs=28.5

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++|.+.+....+.-.+|+|+|..|+|||||++.+..-
T Consensus         8 ~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A            8 CQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             HHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34455554433345789999999999999999999873

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.22  E-value=8.4e-05  Score=57.38  Aligned_cols=46  Identities=13%  Similarity=0.102  Sum_probs=33.0

Q ss_pred             CcccccHHHHHHHHHHHhcC-CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG-EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~-~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..+.++.+.+..- ..... |-|+|.+|+|||+||+.+++.
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~-vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSP-VFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSC-EEEEEETTCCHHHHHGGGCCT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCc-EEEECCCCccHHHHHHHHHHh
Confidence            46889999988888887531 11233 569999999999999999984

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.21  E-value=0.00037  Score=61.81  Aligned_cols=49  Identities=22%  Similarity=0.259  Sum_probs=37.2

Q ss_pred             CCcccccHHHHHHH---HHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          159 KRNIVGLEDEMKEL---LDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       159 ~~~~vG~e~~~~~l---~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      -++++|.+..+..+   ...+..+......+-|+|++|+||||||+.+.+..
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l   94 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL   94 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            35799999887764   44444444334678899999999999999999853

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.20  E-value=0.00028  Score=61.00  Aligned_cols=46  Identities=17%  Similarity=0.227  Sum_probs=35.7

Q ss_pred             cccccHHHHHHHHHHHhc-------------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          161 NIVGLEDEMKELLDLLIV-------------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       161 ~~vG~e~~~~~l~~~L~~-------------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++|.+..++.|.+++..             .......|-|+|.+|+||||||+.+.+.
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~   90 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGL   90 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            689999999988876532             1233456789999999999999977764

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.19  E-value=0.00029  Score=56.15  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -..+.|+|++|+|||||++.+.+.
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            578899999999999999999875

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.19  E-value=0.00029  Score=60.66  Aligned_cols=47  Identities=19%  Similarity=0.284  Sum_probs=37.9

Q ss_pred             CcccccHHHHHHHHHHHhcC----------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG----------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~----------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.|.+++...          .....-|-|+|++|+||||||+.+.+.
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHH
Confidence            57999999999998877321          112457789999999999999999984

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.18  E-value=0.00026  Score=62.19  Aligned_cols=45  Identities=16%  Similarity=0.152  Sum_probs=38.1

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..++.|..++..+.  ...+-++|++|+||||||+.+.+.
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSAN--LPHMLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT--CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHhcCC--CCEEEEECCCCCCHHHHHHHHHHH
Confidence            579999999999999887653  222789999999999999999885

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=97.16  E-value=0.00029  Score=62.17  Aligned_cols=47  Identities=26%  Similarity=0.290  Sum_probs=35.8

Q ss_pred             CcccccHHHHHHHHHHHhcC---CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG---EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~---~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.++|.+..++.+-..+..+   ...+..+.++|++|+||||||+.+.+.
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            46788877777766655432   234567899999999999999999884

>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=97.14  E-value=0.0004  Score=60.91  Aligned_cols=47  Identities=21%  Similarity=0.345  Sum_probs=37.8

Q ss_pred             CcccccHHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV----------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~----------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.|...+..          .....+-|-++|.+|+|||+||+.|.+.
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            6799999999999887731          1122456789999999999999999985

>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=97.13  E-value=0.00022  Score=62.06  Aligned_cols=47  Identities=21%  Similarity=0.265  Sum_probs=38.0

Q ss_pred             CcccccHHHHHHHHHHHhc---CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV---GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~---~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|++..+..+..++..   .......+-|+|++|+||||||+.+.+.
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~   61 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHE   61 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHH
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence            6799999999998888753   1223456789999999999999999884

>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=97.13  E-value=0.00035  Score=62.29  Aligned_cols=47  Identities=15%  Similarity=0.172  Sum_probs=38.0

Q ss_pred             CcccccHHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV----------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~----------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.|.+.+..          ......-|-|+|.+|+||||||+.+.+.
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~  140 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQ  140 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            5799999999999887742          1123556789999999999999999884

>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=97.13  E-value=0.00095  Score=56.51  Aligned_cols=47  Identities=23%  Similarity=0.246  Sum_probs=33.7

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..+..+.+.+..-.....-|-|+|.+|+|||+||+.+++.
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHT
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            46889999999888877542212244569999999999999999984

>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=97.13  E-value=0.00049  Score=60.88  Aligned_cols=47  Identities=23%  Similarity=0.278  Sum_probs=39.1

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .+++|++..++.|...+..+. ....+-|+|.+|+||||||+.+.+..
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~l   62 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGL   62 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            569999999999999987653 23467799999999999999998753

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.13  E-value=0.00041  Score=58.55  Aligned_cols=47  Identities=21%  Similarity=0.253  Sum_probs=35.1

Q ss_pred             CcccccHHHHHHHHHHHh---cC-------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLI---VG-------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~---~~-------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.+...+.   ..       .....-|.|+|.+|+||||||+.+.+.
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHH
Confidence            679999988887766542   11       011234789999999999999999885

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.12  E-value=0.00061  Score=55.50  Aligned_cols=41  Identities=24%  Similarity=0.225  Sum_probs=32.5

Q ss_pred             cHHHHHHHHHHHhcC-CCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          165 LEDEMKELLDLLIVG-EPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       165 ~e~~~~~l~~~L~~~-~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +++..+.|.+.+..- .....+|+|.|..|+|||||++.+..
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            445667777777653 24568999999999999999999986

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=97.11  E-value=0.00069  Score=55.77  Aligned_cols=45  Identities=9%  Similarity=0.059  Sum_probs=31.0

Q ss_pred             Cccccc---HHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGL---EDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~---e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.   +.....+..++..+  ....+-|+|.+|+||||||+.+.+.
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             hhccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            456652   34444555554433  3567789999999999999999874

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.09  E-value=0.00057  Score=60.09  Aligned_cols=47  Identities=21%  Similarity=0.385  Sum_probs=37.5

Q ss_pred             CcccccHHHHHHHHHHHhc---------C-CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV---------G-EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~---------~-~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.|.+.+..         + ....+-|-++|++|+|||+||+.+.+.
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHH
Confidence            6899999999998877632         1 122467789999999999999999985

>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=97.06  E-value=0.00059  Score=63.91  Aligned_cols=47  Identities=17%  Similarity=0.203  Sum_probs=39.5

Q ss_pred             CcccccHHHHHHHHHHHhcC---------------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG---------------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~---------------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..++.|..||...               .+..+.+-|+|++|+||||||+.+.+.
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~  100 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQE  100 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            67999999999999999641               013468889999999999999999985

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.05  E-value=0.00029  Score=55.08  Aligned_cols=20  Identities=35%  Similarity=0.511  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCChhHHHHHH
Q 038685          184 SVVAIVGSSGFDKTDFAGEA  203 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~v  203 (265)
                      .+|.|+|++|+||||+|+.+
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            47999999999999999999

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=97.05  E-value=0.0007  Score=58.76  Aligned_cols=53  Identities=15%  Similarity=0.061  Sum_probs=34.1

Q ss_pred             HHHHHHHHHhc----CCCCeEEEEEEcCCCCChhHHHHHHhhcccccc-cCCeeEEEe
Q 038685          168 EMKELLDLLIV----GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKN-YFYCRAWVG  220 (265)
Q Consensus       168 ~~~~l~~~L~~----~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~-~F~~~~wV~  220 (265)
                      -.+.|.+.+..    ......+|+|+|..|+|||||++.+........ ...+.+.|+
T Consensus        12 ~~~~l~~~i~~~~~~~~~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~   69 (290)
T 1odf_A           12 TIEFLDKYIPEWFETGNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYAS   69 (290)
T ss_dssp             HHHHHHHHHHHHHTTTCCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEE
T ss_pred             HHHHHHHHHHHhhhccCCCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEec
Confidence            33444444433    345678999999999999999999887422211 133555557

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=97.03  E-value=0.0004  Score=59.75  Aligned_cols=47  Identities=21%  Similarity=0.306  Sum_probs=37.1

Q ss_pred             CcccccHHHHHHHHHHHhcC------------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG------------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~------------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|.+..++.+...+...            .....-+-++|.+|+||||||+.+.+.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   73 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   73 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            56899999999998877540            112345679999999999999999874

>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=97.00  E-value=0.00036  Score=60.26  Aligned_cols=45  Identities=18%  Similarity=0.232  Sum_probs=37.6

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.+..++..+.  ...+-++|++|+||||+|+.+.+.
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~   61 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALARD   61 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTC--CCCEEEESSSSSSHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHhCCC--CCeEEEECcCCcCHHHHHHHHHHH
Confidence            569999999999988886543  333789999999999999999874

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.98  E-value=0.00062  Score=62.69  Aligned_cols=45  Identities=22%  Similarity=0.285  Sum_probs=37.4

Q ss_pred             CcccccHHHH---HHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEM---KELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~---~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..+   ..|...+..+.  +..+-++|.+|+||||||+.|.+.
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~~--~~~vLL~GppGtGKTtlAr~ia~~   73 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAGH--LHSMILWGPPGTGKTTLAEVIARY   73 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHTC--CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHhchHHHHHHHHcCC--CcEEEEECCCCCcHHHHHHHHHHH
Confidence            6789988887   67777776654  567889999999999999999984

>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=96.98  E-value=0.00039  Score=61.30  Aligned_cols=44  Identities=14%  Similarity=0.051  Sum_probs=35.7

Q ss_pred             CcccccHHHHHHHHHHH-hcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLL-IVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L-~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++++|.+.....+.+++ ..+. ... +.|+|+.|+|||||++.+..
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~-~~~-~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRD-LPH-LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTC-CCC-EEEECSTTSSHHHHHHTHHH
T ss_pred             HHhcCCHHHHHHHHHHHhhCCC-CCe-EEEECCCCCCHHHHHHHHHH
Confidence            57899999888888887 4332 233 89999999999999998877

>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=96.91  E-value=0.00046  Score=55.24  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|+|+|+.|+|||||++.+...
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999874

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.91  E-value=0.0009  Score=65.52  Aligned_cols=45  Identities=18%  Similarity=0.341  Sum_probs=37.9

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|++..+..+...|....  ..-+-++|.+|+||||+|+.+.+.
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~--~~~vLL~G~pGtGKT~la~~la~~  224 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRT--KNNPVLIGEPGVGKTAIAEGLAQQ  224 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS--SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCCC--CCCeEEECCCCCCHHHHHHHHHHH
Confidence            579999999999999987643  223569999999999999999875

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.90  E-value=0.00097  Score=57.25  Aligned_cols=46  Identities=28%  Similarity=0.315  Sum_probs=33.9

Q ss_pred             CcccccHHHHHHHHHHHhc---C---------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV---G---------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~---~---------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++.|.++.++.|.+.+..   .         ..... +.++|++|+||||||+.+...
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~G-vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAG-VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSE-EEEESSTTSCHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCe-EEEECCCCCcHHHHHHHHHHH
Confidence            5788999988888775421   1         11223 899999999999999999884

>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=96.90  E-value=0.00075  Score=56.80  Aligned_cols=46  Identities=24%  Similarity=0.416  Sum_probs=34.2

Q ss_pred             CcccccHHHHHHHHHHHhc--C---------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV--G---------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~--~---------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..+.++.+....  .         ..... +.|+|.+|+|||||++.+.+.
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g-~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKG-VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSE-EEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCe-EEEECCCCCCHHHHHHHHHHH
Confidence            5789988887777665421  1         11123 889999999999999999985

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.87  E-value=0.00069  Score=58.50  Aligned_cols=47  Identities=17%  Similarity=0.406  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHHhcC-------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG-------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~-------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|.+..++.+...+...       ......+.++|.+|+||||||+.+.+.
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHH
Confidence            46889999988888877542       122468899999999999999999884

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.86  E-value=0.00067  Score=59.15  Aligned_cols=47  Identities=28%  Similarity=0.330  Sum_probs=36.7

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|....+..+.+.+..-.....-|-|+|.+|+|||++|+.|++.
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~   48 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHAC   48 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHh
Confidence            46899999999998887643222334569999999999999999984

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=96.83  E-value=0.00043  Score=58.68  Aligned_cols=47  Identities=23%  Similarity=0.360  Sum_probs=34.9

Q ss_pred             CcccccHHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV----------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~----------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.+.+.+..          +.....-|-++|.+|+||||||+.+.+.
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence            5799998888888776531          1111223669999999999999999985

>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=96.83  E-value=0.00073  Score=67.10  Aligned_cols=46  Identities=15%  Similarity=0.369  Sum_probs=38.6

Q ss_pred             CCcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          159 KRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -++++|++..+..+++.|....  ..-+.++|.+|+||||||+.+.+.
T Consensus       169 ld~viGr~~~i~~l~~~l~~~~--~~~vlL~G~pG~GKT~la~~la~~  214 (854)
T 1qvr_A          169 LDPVIGRDEEIRRVIQILLRRT--KNNPVLIGEPGVGKTAIVEGLAQR  214 (854)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSS--CCCCEEEECTTSCHHHHHHHHHHH
T ss_pred             CcccCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHHH
Confidence            3579999999999999987643  334578999999999999999885

>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=96.81  E-value=0.0011  Score=58.46  Aligned_cols=45  Identities=16%  Similarity=0.221  Sum_probs=36.3

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..+..|...+..+.  +..+.++|++|+||||||+.+.+.
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~--~~~~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence            568898888888888776654  333789999999999999998874

>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=0.00061  Score=53.35  Aligned_cols=23  Identities=13%  Similarity=0.198  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|.|+.|+||||+++.+...
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999999764

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.81  E-value=0.00061  Score=54.46  Aligned_cols=24  Identities=8%  Similarity=0.296  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|+|+|+.|+|||||++.+...
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            368999999999999999999874

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.78  E-value=0.001  Score=56.85  Aligned_cols=48  Identities=23%  Similarity=0.377  Sum_probs=35.3

Q ss_pred             CCCcccccHHHHHHHHHHHhc--C---------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          158 KKRNIVGLEDEMKELLDLLIV--G---------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~--~---------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-++++|.+..+.++.+....  .         ..... |.|+|.+|+|||||++.+.+.
T Consensus        38 ~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~g-vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           38 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKG-VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             CGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCE-EEEECCTTSSHHHHHHHHHHH
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCe-EEEECCCcChHHHHHHHHHHH
Confidence            336789998888877665421  1         11123 889999999999999999985

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.77  E-value=0.00078  Score=53.14  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+|.|.|++|+||||+|+.+..
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            5799999999999999999987

>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=96.77  E-value=0.002  Score=54.79  Aligned_cols=47  Identities=21%  Similarity=0.225  Sum_probs=35.5

Q ss_pred             CcccccHHHHHHHHHH-------Hhc-CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDL-------LIV-GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~-------L~~-~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|.....+.++..       +.. ......-+-|+|.+|+||||||+.+.+.
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            5678887777766663       222 2345677889999999999999999985

>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=96.76  E-value=0.0013  Score=57.39  Aligned_cols=38  Identities=24%  Similarity=0.142  Sum_probs=27.5

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+..++.........+-|+|++|+||||||+.+.+.
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            34444444443334567889999999999999999984

>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=96.75  E-value=0.0015  Score=56.86  Aligned_cols=46  Identities=13%  Similarity=0.076  Sum_probs=38.9

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..+..|..++..+. ...++-+.|++|+||||+|+.+.+.
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~-~~~~~L~~G~~G~GKT~la~~la~~   71 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGK-IPHIILHSPSPGTGKTTVAKALCHD   71 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTC-CCSEEEECSSTTSSHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEeeCcCCCCHHHHHHHHHHH
Confidence            679999999999999987553 3467778899999999999999875

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.75  E-value=0.0006  Score=53.67  Aligned_cols=23  Identities=17%  Similarity=0.277  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|+|+|+.|+|||||++.+...
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999874

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.75  E-value=0.00073  Score=54.64  Aligned_cols=24  Identities=21%  Similarity=0.254  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|+|+|+.|+|||||++.+...
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhh
Confidence            358999999999999999999873

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=96.75  E-value=0.0013  Score=60.46  Aligned_cols=47  Identities=19%  Similarity=0.331  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHHhc----------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV----------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~----------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.|...+..          .....+-|-++|++|+|||+||+.|.+.
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~  190 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATE  190 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            6799999999999887631          1123467789999999999999999985

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.75  E-value=0.0011  Score=59.63  Aligned_cols=47  Identities=19%  Similarity=0.274  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHHhcC----------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG----------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~----------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.|..++...          .....-|-|+|.+|+|||+||+.|.+.
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~  171 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAE  171 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            67999999999998887321          112456789999999999999999875

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=96.74  E-value=0.0011  Score=59.14  Aligned_cols=47  Identities=21%  Similarity=0.331  Sum_probs=36.8

Q ss_pred             CcccccHHHHHHHHHHHhcC----------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG----------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~----------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..++.|...+...          ....+-|-++|++|+|||+||+.+.+.
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence            57999999999998876311          112345779999999999999999985

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.74  E-value=0.00078  Score=53.48  Aligned_cols=23  Identities=43%  Similarity=0.748  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.++.
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            46899999999999999997654

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.74  E-value=0.0013  Score=58.54  Aligned_cols=46  Identities=24%  Similarity=0.207  Sum_probs=35.7

Q ss_pred             cccccHHHHHHHHHHHhc-------------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          161 NIVGLEDEMKELLDLLIV-------------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       161 ~~vG~e~~~~~l~~~L~~-------------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++|.+..++.+...+..             .......|-++|++|+|||++|+.|.+.
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~   74 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARL   74 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            478999999988887721             1113456789999999999999999874

>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=96.74  E-value=0.0014  Score=64.14  Aligned_cols=77  Identities=18%  Similarity=0.208  Sum_probs=52.3

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhccc---cc-ccCCeeEEEe----------CCCCH
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNY---MK-NYFYCRAWVG----------CEYYL  225 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~---v~-~~F~~~~wV~----------~~~~~  225 (265)
                      ++++|++..+..+++.|....  ..-+-++|.+|+||||||+.+.+...   +. ..+.+.+|..          ..-..
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~--~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g~~  263 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDF  263 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCH
T ss_pred             CCccCCHHHHHHHHHHHhccC--CCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccchH
Confidence            579999999999999887543  33456999999999999999987421   11 1134444432          11234


Q ss_pred             HHHHHHHHHHhCC
Q 038685          226 HKVLDNIIKSVMP  238 (265)
Q Consensus       226 ~~l~~~Il~~l~~  238 (265)
                      ...++.+++.+..
T Consensus       264 e~~l~~~~~~~~~  276 (758)
T 1r6b_X          264 EKRFKALLKQLEQ  276 (758)
T ss_dssp             HHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHh
Confidence            5667777777754

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.73  E-value=0.00071  Score=54.89  Aligned_cols=24  Identities=17%  Similarity=0.198  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|.|+|+.|+||||+++.+...
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~   48 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARK   48 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999763

>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=96.70  E-value=0.0018  Score=59.56  Aligned_cols=47  Identities=19%  Similarity=0.172  Sum_probs=36.1

Q ss_pred             CcccccHHHHHHHHHHH---hcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLL---IVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L---~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.+..++   ..+....+-+-++|++|+|||+||+.+.+.
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~   86 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQE   86 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHH
Confidence            68999998888665544   334323345779999999999999999985

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.70  E-value=0.00093  Score=54.44  Aligned_cols=25  Identities=24%  Similarity=0.267  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+|+|..|+|||||++.+..-
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999873

>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=96.69  E-value=0.00093  Score=53.51  Aligned_cols=22  Identities=18%  Similarity=0.267  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+|+|+|+.|+|||||++.+..
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            5789999999999999999975

>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=96.68  E-value=0.00099  Score=52.59  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|+|+|+.|+|||||++.+...
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~   31 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQ   31 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            468999999999999999998763

>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=96.67  E-value=0.0011  Score=53.91  Aligned_cols=25  Identities=24%  Similarity=0.218  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+|+|+|+.|+|||||++.+...
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3689999999999999999999874

>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=96.67  E-value=0.00089  Score=52.90  Aligned_cols=23  Identities=13%  Similarity=0.156  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|-|.|++|+||||+++.+.+.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=96.65  E-value=0.00097  Score=53.52  Aligned_cols=22  Identities=23%  Similarity=0.385  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++|+|..|+|||||++.+...
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            5899999999999999999874

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.64  E-value=0.0018  Score=59.24  Aligned_cols=47  Identities=23%  Similarity=0.294  Sum_probs=37.6

Q ss_pred             CcccccHHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV-----------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~-----------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++.|.++.+++|.+.+.-           +-...+-|-++|++|+|||+||+.|.+.
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999998876632           2234566789999999999999999984

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.62  E-value=0.0011  Score=52.86  Aligned_cols=23  Identities=13%  Similarity=0.242  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|.|+.|+||||+++.+...
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~   24 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999999874

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.61  E-value=0.0023  Score=52.40  Aligned_cols=37  Identities=16%  Similarity=0.127  Sum_probs=27.4

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          168 EMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       168 ~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+.+...+..  ....+|.|+|.+|+|||||+..+...
T Consensus        25 ~a~~~r~~~~~--~~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           25 LADKNRKLLNK--HGVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             HHHHHHHHHHH--TTCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            34444444432  34788999999999999999998875

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.61  E-value=0.0011  Score=53.64  Aligned_cols=24  Identities=17%  Similarity=0.320  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|+|+|+.|+|||||++.+...
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            458999999999999999999774

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.60  E-value=0.001  Score=51.75  Aligned_cols=26  Identities=12%  Similarity=0.109  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .-..+.|+|..|+|||||++.+++..
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            35688999999999999999999843

>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=96.60  E-value=0.0013  Score=53.53  Aligned_cols=25  Identities=20%  Similarity=0.243  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+|+|+.|+|||||++.+...
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            4579999999999999999999773

>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=96.59  E-value=0.0011  Score=54.51  Aligned_cols=22  Identities=27%  Similarity=0.360  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+|+|+|+.|+||||+++.+..
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            5899999999999999999875

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.59  E-value=0.0011  Score=53.73  Aligned_cols=25  Identities=28%  Similarity=0.322  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+|+|+|+.|+|||||++.+...
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHh
Confidence            3578999999999999999999763

>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=96.58  E-value=0.0011  Score=53.74  Aligned_cols=22  Identities=18%  Similarity=0.261  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+|+|+|+.|+||||+++.+..
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            3799999999999999999876

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.58  E-value=0.0011  Score=53.27  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|+|.|+.|+||||+++.+...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~   23 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKK   23 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHh
Confidence            6899999999999999999874

>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=96.58  E-value=0.0013  Score=53.02  Aligned_cols=25  Identities=20%  Similarity=0.244  Sum_probs=22.5

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+..+|+|+|+.|+||||+++.+-.
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            3578999999999999999999876

>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=96.56  E-value=0.0014  Score=52.33  Aligned_cols=24  Identities=13%  Similarity=0.231  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|++|+||||+++.+...
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~   28 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATG   28 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999999763

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.56  E-value=0.0011  Score=52.69  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|.|+|+.|+||||+++.+...
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~   28 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKL   28 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            457889999999999999999763

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.55  E-value=0.003  Score=56.33  Aligned_cols=44  Identities=27%  Similarity=0.285  Sum_probs=32.7

Q ss_pred             cccHHHHHHHHHHHhc--CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          163 VGLEDEMKELLDLLIV--GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       163 vG~e~~~~~l~~~L~~--~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+.+.-.+.+++.|..  .......|.|+|+.|+||||+++.+...
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~   47 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQI   47 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHH
Confidence            4556666777777642  2334667899999999999999988773

>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=96.54  E-value=0.0013  Score=53.40  Aligned_cols=22  Identities=27%  Similarity=0.330  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999999965

>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=96.53  E-value=0.0013  Score=52.36  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|.|+.|+||||+++.+.+.
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~   26 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDN   26 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999873

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.53  E-value=0.0021  Score=58.92  Aligned_cols=47  Identities=21%  Similarity=0.355  Sum_probs=37.6

Q ss_pred             CcccccHHHHHHHHHHHh----c-------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLI----V-------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~----~-------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++.|.++.+++|.+.+.    .       +-+..+-|-++|++|+|||+||+.|.+.
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHH
Confidence            678999999999887642    2       1234567789999999999999999985

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.53  E-value=0.0023  Score=58.64  Aligned_cols=47  Identities=26%  Similarity=0.362  Sum_probs=37.4

Q ss_pred             CcccccHHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV-----------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~-----------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++.|.++.+++|.+.+.-           +-...+-|-++|++|+|||+||+.|.+.
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            5788999999988776632           1234567789999999999999999885

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.53  E-value=0.001  Score=53.88  Aligned_cols=24  Identities=17%  Similarity=0.289  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|+.|+||||||+.+...
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999999764

>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=96.51  E-value=0.0021  Score=59.88  Aligned_cols=47  Identities=17%  Similarity=0.239  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHHhcC-----------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG-----------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~-----------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..+..|.+++...           .....-|-|+|.+|+|||+||+.|.+.
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~  261 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE  261 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHH
Confidence            46899999999998877431           233455789999999999999999885

>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=96.51  E-value=0.0014  Score=53.58  Aligned_cols=24  Identities=17%  Similarity=0.329  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|+|+|+.|+|||||++.+...
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhh
Confidence            568999999999999999999874

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.50  E-value=0.0011  Score=54.03  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -++++|+|+.|+|||||++.+..
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35789999999999999999976

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.49  E-value=0.0022  Score=52.41  Aligned_cols=43  Identities=16%  Similarity=0.119  Sum_probs=31.2

Q ss_pred             ccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          162 IVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       162 ~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +-+..+..+.+...+...  ...+|+|+|.+|+|||||+..+...
T Consensus        11 l~~~~~~~~~~~~~~~~~--~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           11 LAENKRLAEKNREALRES--GTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             CHHHHHHHHHHHHHHHHH--TCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             HhhcHHHHHHHHHhhccc--CceEEEEEcCCCCCHHHHHHHHHHH
Confidence            334445555555555332  4789999999999999999988764

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.49  E-value=0.0016  Score=51.96  Aligned_cols=24  Identities=21%  Similarity=0.235  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|+.|+||||+|+.+.+.
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~   26 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEK   26 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999998763

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.47  E-value=0.0014  Score=51.41  Aligned_cols=25  Identities=20%  Similarity=0.268  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+|.|+.|+||||+++.+-+.
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~   30 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLA   30 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999999773

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.46  E-value=0.0014  Score=53.43  Aligned_cols=24  Identities=21%  Similarity=0.177  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999998763

>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=96.46  E-value=0.0017  Score=56.96  Aligned_cols=26  Identities=19%  Similarity=0.215  Sum_probs=23.2

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....+|+|+|..|+|||||++.+..-
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhh
Confidence            45689999999999999999999873

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.46  E-value=0.0018  Score=52.30  Aligned_cols=25  Identities=20%  Similarity=0.328  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|.|.|+.|+||||+++.+.+.
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~   38 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKD   38 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4679999999999999999999864

>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=96.46  E-value=0.0014  Score=54.92  Aligned_cols=23  Identities=22%  Similarity=0.248  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..+|+|+|+.|+|||||++.+..
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            57999999999999999999983

>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=96.45  E-value=0.0016  Score=57.16  Aligned_cols=24  Identities=21%  Similarity=0.328  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..+||+|.|-|||||||.+-.+--
T Consensus        47 ~aKVIAIaGKGGVGKTTtavNLA~   70 (314)
T 3fwy_A           47 GAKVFAVYGKGGIGKSTTSSNLSA   70 (314)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCccCHHHHHHHHHH
Confidence            579999999999999998877654

>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=96.45  E-value=0.0034  Score=55.84  Aligned_cols=37  Identities=22%  Similarity=0.179  Sum_probs=28.7

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ...+...+.....+..+|+|+|.+|+|||||+..+..
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            4455555554445688999999999999999999864

>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=96.43  E-value=0.0018  Score=54.60  Aligned_cols=26  Identities=8%  Similarity=0.150  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....+|+|.|+.|+||||+|+.+...
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~   45 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQL   45 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            35679999999999999999998773

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.43  E-value=0.0021  Score=58.20  Aligned_cols=47  Identities=23%  Similarity=0.324  Sum_probs=37.0

Q ss_pred             CcccccHHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV-----------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~-----------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++.|.++.+++|.+.+.-           +-...+-|-++|++|+|||+||+.|.+.
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e  205 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHH  205 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHh
Confidence            5788999999988776532           1233456779999999999999999885

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=96.42  E-value=0.0033  Score=58.28  Aligned_cols=47  Identities=21%  Similarity=0.322  Sum_probs=35.4

Q ss_pred             CcccccHHHHHHHHHHHhc--C--------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV--G--------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~--~--------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.++.++++.+.+..  .        -.-.+-|.++|++|+||||||+.|.+.
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~   72 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGE   72 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            5799999988888776531  1        111233779999999999999999985

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.42  E-value=0.002  Score=56.31  Aligned_cols=42  Identities=21%  Similarity=0.249  Sum_probs=35.6

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..++|.+..+..+...+..+.    -+-++|.+|+|||+||+.+.+
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~~----~vll~G~pGtGKT~la~~la~   68 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTGG----HILLEGVPGLAKTLSVNTLAK   68 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC----CEEEESCCCHHHHHHHHHHHH
T ss_pred             cceeCcHHHHHHHHHHHHcCC----eEEEECCCCCcHHHHHHHHHH
Confidence            578999999988888877642    466899999999999999977

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.41  E-value=0.0034  Score=55.23  Aligned_cols=25  Identities=16%  Similarity=0.143  Sum_probs=22.6

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ....+|||.|..|+|||||++.+..
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4577999999999999999999976

>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=96.41  E-value=0.0028  Score=55.93  Aligned_cols=26  Identities=27%  Similarity=0.203  Sum_probs=23.2

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +...+|+|+|..|+|||||++.+...
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~  152 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANW  152 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999999874

>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=96.41  E-value=0.0014  Score=51.99  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|+|++|+||||+++.+...
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~   34 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASK   34 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHH
Confidence            457889999999999999999763

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.41  E-value=0.002  Score=54.08  Aligned_cols=25  Identities=8%  Similarity=0.162  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+|+|.|..|+|||||++.+..-
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999773

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.41  E-value=0.0019  Score=51.59  Aligned_cols=25  Identities=28%  Similarity=0.186  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+|.|+|++|+||||+++.+...
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999874

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.40  E-value=0.0013  Score=53.50  Aligned_cols=24  Identities=17%  Similarity=0.376  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|+|+.|+|||||++.+...
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            568899999999999999999774

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.39  E-value=0.0017  Score=51.89  Aligned_cols=24  Identities=17%  Similarity=0.288  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|+.|+||||+++.+.+.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~   32 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQK   32 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999763

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.39  E-value=0.003  Score=56.35  Aligned_cols=47  Identities=23%  Similarity=0.210  Sum_probs=35.4

Q ss_pred             CcccccHHHHHHHHHHHhc----------------------------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV----------------------------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~----------------------------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|.+..++.|...+..                            .......|-++|.+|+||||||+.+.+.
T Consensus        21 ~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           21 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             hHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHH
Confidence            4688998888888776620                            0112345779999999999999999874

>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=96.39  E-value=0.0036  Score=52.58  Aligned_cols=40  Identities=18%  Similarity=0.064  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          167 DEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       167 ~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....++...+........+|.|.|++|+||||+|+.+.+.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~~   52 (243)
T 3tlx_A           13 DLLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKKS   52 (243)
T ss_dssp             HHHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3444444444333335678999999999999999999763

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.37  E-value=0.0021  Score=50.59  Aligned_cols=25  Identities=20%  Similarity=0.226  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+++++|..|.|||||++.+..-
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~   56 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3579999999999999999999873

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.37  E-value=0.002  Score=51.17  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -..|.+.|+.|+||||+++.+.+
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999976

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.36  E-value=0.0014  Score=51.84  Aligned_cols=22  Identities=18%  Similarity=0.265  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.|+|++|+||||+|+.+...
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~   27 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKD   27 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            5899999999999999999764

>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=96.36  E-value=0.002  Score=51.49  Aligned_cols=25  Identities=24%  Similarity=0.201  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....|.|+|+.|+||||+++.+.+.
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999998774

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.36  E-value=0.0045  Score=53.42  Aligned_cols=39  Identities=23%  Similarity=0.366  Sum_probs=27.9

Q ss_pred             HHHHHHHHHhcC---CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          168 EMKELLDLLIVG---EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       168 ~~~~l~~~L~~~---~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.++++..++.+   .....+|-|.|++|+||||||+.+...
T Consensus        15 ~~~~~~~~~l~~~~~~~~~~livl~G~sGsGKSTla~~L~~~   56 (287)
T 1gvn_B           15 RLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEE   56 (287)
T ss_dssp             HHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            334444444433   234678999999999999999999763

>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=96.35  E-value=0.0079  Score=49.61  Aligned_cols=55  Identities=9%  Similarity=0.003  Sum_probs=36.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccc----cCCeeEEEe-CC-CCHHHHHHHHHHHhC
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKN----YFYCRAWVG-CE-YYLHKVLDNIIKSVM  237 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~----~F~~~~wV~-~~-~~~~~l~~~Il~~l~  237 (265)
                      .-.++.|+|.+|+|||||++.+........    .-..++|+. .. ++...+. .+++.++
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g   83 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYG   83 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcC
Confidence            346899999999999999999987422211    125678888 33 4554443 3444444

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.34  E-value=0.002  Score=54.58  Aligned_cols=23  Identities=26%  Similarity=0.186  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|+|+.|+||||||+.+...
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~   24 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQE   24 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhc
Confidence            47899999999999999998654

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.34  E-value=0.0014  Score=54.09  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999763

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.33  E-value=0.0035  Score=52.86  Aligned_cols=41  Identities=20%  Similarity=0.186  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHhcC---CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          166 EDEMKELLDLLIVG---EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       166 e~~~~~l~~~L~~~---~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +...+.++..+..+   .....+|.|+|++|+||||+|+.+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~i~l~G~~GsGKSTla~~L~~~   55 (253)
T 2p5t_B           12 KHALARNLRSLTRGKKSSKQPIAILLGGQSGAGKTTIHRIKQKE   55 (253)
T ss_dssp             HHHHHHHHHHHHTTCCCCSSCEEEEEESCGGGTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCCcccCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            34444555555443   234678999999999999999999763

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=96.33  E-value=0.0023  Score=56.06  Aligned_cols=45  Identities=24%  Similarity=0.197  Sum_probs=32.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..+..+...+....  ..-|-|+|.+|+|||+||+.+.+.
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~--~~~vLl~G~~GtGKT~la~~la~~   68 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPG--IGGVLVFGDRGTGKSTAVRALAAL   68 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG--GCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHhhCCC--CceEEEECCCCccHHHHHHHHHHh
Confidence            568998886665544443322  223779999999999999999984

>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=96.33  E-value=0.0021  Score=51.07  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|+.|+||||+++.+...
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~   29 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999763

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.32  E-value=0.003  Score=58.12  Aligned_cols=47  Identities=21%  Similarity=0.294  Sum_probs=37.1

Q ss_pred             CcccccHHHHHHHHHHHh----c-------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLI----V-------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~----~-------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++.|.++.+++|.+.+.    .       +-...+-|-++|++|+|||+||+.|.+.
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e  266 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANR  266 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhc
Confidence            478899999999977642    1       2234566779999999999999999984

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.32  E-value=0.0022  Score=51.86  Aligned_cols=24  Identities=21%  Similarity=0.098  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|+.|+||||+++.+...
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDW   27 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            368999999999999999999874

>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=96.32  E-value=0.0014  Score=52.14  Aligned_cols=23  Identities=17%  Similarity=0.263  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|.|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~   25 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKA   25 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999998763

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.31  E-value=0.0019  Score=54.56  Aligned_cols=22  Identities=23%  Similarity=0.308  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      -.+|+|+|+.|+|||||++.+.
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            4689999999999999999997

>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=96.31  E-value=0.0053  Score=49.88  Aligned_cols=43  Identities=14%  Similarity=0.005  Sum_probs=31.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCCCHHHHH
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEYYLHKVL  229 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~~~~~l~  229 (265)
                      .-.++.|+|.+|+|||||+..+.. .    .=..++|+.  ..++...+.
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-~----~~~~v~~i~~~~~~~~~~~~   63 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-L----SGKKVAYVDTEGGFSPERLV   63 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-H----HCSEEEEEESSCCCCHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-H----cCCcEEEEECCCCCCHHHHH
Confidence            456899999999999999999986 1    124567777  335555544

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.31  E-value=0.0019  Score=51.79  Aligned_cols=24  Identities=17%  Similarity=0.279  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|+.|+||||+++.+...
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~   35 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEK   35 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999774

>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=96.29  E-value=0.0024  Score=54.20  Aligned_cols=24  Identities=17%  Similarity=0.393  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|+|++|+||||+|+.+...
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~   27 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKI   27 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999874

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.29  E-value=0.0022  Score=51.10  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|+|.|+.|+||||+++.+.+.
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~   23 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEY   23 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999873

>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=96.28  E-value=0.0023  Score=55.87  Aligned_cols=25  Identities=28%  Similarity=0.248  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+|+|.+|+|||||++.+..-
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagl  125 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRY  125 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4679999999999999999999863

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.28  E-value=0.0053  Score=57.27  Aligned_cols=43  Identities=19%  Similarity=0.238  Sum_probs=35.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|.+..++.+...+..+.    -|-++|.+|+|||+||+.+.+.
T Consensus        22 ~~ivGq~~~i~~l~~al~~~~----~VLL~GpPGtGKT~LAraLa~~   64 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSGE----SVFLLGPPGIAKSLIARRLKFA   64 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHTC----EEEEECCSSSSHHHHHHHGGGG
T ss_pred             hhhHHHHHHHHHHHHHHhcCC----eeEeecCchHHHHHHHHHHHHH
Confidence            468999998888887776542    4678999999999999999884

>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=96.27  E-value=0.0023  Score=51.08  Aligned_cols=25  Identities=20%  Similarity=0.216  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+|+|..|+|||||+..+...
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            3679999999999999999999874

>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=96.25  E-value=0.0024  Score=52.37  Aligned_cols=39  Identities=15%  Similarity=0.207  Sum_probs=28.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhccccc----ccCCeeEEEe
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMK----NYFYCRAWVG  220 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~----~~F~~~~wV~  220 (265)
                      .-.+++|+|..|+|||||++.+.......    ..-...+|+.
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~   66 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWID   66 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEE
Confidence            45799999999999999999997632111    1134578887

>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=96.24  E-value=0.0019  Score=50.66  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|.|+.|+||||+|+.+.+.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~   25 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARA   25 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999773

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.24  E-value=0.0025  Score=49.77  Aligned_cols=22  Identities=14%  Similarity=0.075  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.|.|+.|+||||+++.+.+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRS   23 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999873

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.23  E-value=0.0024  Score=53.79  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=22.0

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +. .+++|+|..|+|||||.+.+..
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~G   46 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHT
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhC
Confidence            35 7999999999999999999987

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.22  E-value=0.002  Score=52.28  Aligned_cols=22  Identities=27%  Similarity=0.353  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++|+|..|+|||||++.+...
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            6899999999999999998874

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.22  E-value=0.0019  Score=51.13  Aligned_cols=24  Identities=25%  Similarity=0.221  Sum_probs=17.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|+.|+||||+|+.+...
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~   28 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHER   28 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999764

>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=96.21  E-value=0.0024  Score=53.54  Aligned_cols=23  Identities=26%  Similarity=0.224  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999986

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=96.20  E-value=0.0027  Score=51.55  Aligned_cols=26  Identities=19%  Similarity=0.224  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-.+|+|.|+.|+||||+++.+-+.
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999999998773

>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=96.20  E-value=0.0026  Score=51.41  Aligned_cols=25  Identities=24%  Similarity=0.174  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|.|.|+.|+||||+|+.+...
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~   43 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEK   43 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999763

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.19  E-value=0.0025  Score=52.48  Aligned_cols=23  Identities=26%  Similarity=0.208  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||++.+..-
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            57899999999999999999863

>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=96.19  E-value=0.0057  Score=53.26  Aligned_cols=26  Identities=19%  Similarity=0.126  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....+|+|+|..|+|||||++.+..-
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999999999873

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.19  E-value=0.0054  Score=53.87  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+|+|.+|+||||++..+...
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~  128 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANY  128 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4689999999999999999998763

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.18  E-value=0.0024  Score=53.14  Aligned_cols=23  Identities=26%  Similarity=0.174  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            35899999999999999999987

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=96.18  E-value=0.0043  Score=56.86  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-+.|+|.+|+||||||+.|.+.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~  153 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNY  153 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            677889999999999999999984

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.17  E-value=0.0025  Score=52.84  Aligned_cols=25  Identities=12%  Similarity=0.179  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+++|+|+.|+|||||++.+...
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcc
Confidence            3568999999999999999999874

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.15  E-value=0.0031  Score=54.93  Aligned_cols=25  Identities=32%  Similarity=0.364  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+++|+|..|+|||||++.+..-
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~  123 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHR  123 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            3579999999999999999999874

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=96.14  E-value=0.0053  Score=57.83  Aligned_cols=47  Identities=26%  Similarity=0.365  Sum_probs=36.6

Q ss_pred             CcccccHHHHHHHHHHHhc----CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV----GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~----~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|.+..+..+.+.+.-    ......++.++|++|+||||||+.+...
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~  131 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKS  131 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4689998888887665431    2224568999999999999999999874

>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=96.14  E-value=0.0029  Score=54.38  Aligned_cols=24  Identities=33%  Similarity=0.411  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ...+|+|.|+.|+||||+|+.+-.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999873

>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=96.13  E-value=0.003  Score=51.28  Aligned_cols=24  Identities=8%  Similarity=0.122  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|+.|+||||+++.+.+.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~   32 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEA   32 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999874

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.13  E-value=0.0028  Score=51.80  Aligned_cols=25  Identities=12%  Similarity=0.379  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-++|+|+|+.|+|||||++.+...
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhh
Confidence            3578999999999999999999864

>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=96.13  E-value=0.0034  Score=51.43  Aligned_cols=23  Identities=26%  Similarity=0.320  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..+|+|.|+.|+||||+++.+..
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            46899999999999999999865

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.13  E-value=0.0038  Score=58.19  Aligned_cols=48  Identities=23%  Similarity=0.340  Sum_probs=35.5

Q ss_pred             CCcccccHHHHHHHHHHHhc--CC--------CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          159 KRNIVGLEDEMKELLDLLIV--GE--------PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~~--~~--------~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -++++|.++.+.++.+....  ..        .-.+-|.|+|.+|+||||||+.|.+.
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            36799999888887766421  10        11123889999999999999999874

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.13  E-value=0.0018  Score=53.74  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=16.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      -.+|+|+|+.|+|||||++.+.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            3689999999999999999998

>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=96.12  E-value=0.0035  Score=49.64  Aligned_cols=24  Identities=25%  Similarity=0.112  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|+|.|+.|+||||+++.+...
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~   28 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEY   28 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999773

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.10  E-value=0.0028  Score=54.82  Aligned_cols=25  Identities=16%  Similarity=0.171  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....+-++|++|+|||+||+.|.+.
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4567889999999999999999985

>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=96.10  E-value=0.0029  Score=53.07  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999873

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.10  E-value=0.0028  Score=51.36  Aligned_cols=24  Identities=8%  Similarity=-0.061  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|+.|+||||+++.+.+.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999874

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.09  E-value=0.0029  Score=53.94  Aligned_cols=23  Identities=35%  Similarity=0.391  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999986

>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=96.08  E-value=0.003  Score=53.07  Aligned_cols=24  Identities=21%  Similarity=0.277  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||.+.+..-
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999873

>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=96.07  E-value=0.0013  Score=53.56  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|+|.|..|+|||||++.+...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~   23 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGA   23 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7899999999999999999764

>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=96.07  E-value=0.0057  Score=56.87  Aligned_cols=25  Identities=28%  Similarity=0.376  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+|+|+|..|+|||||++.+..-
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgl  316 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQ  316 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHH
Confidence            4579999999999999999999873

>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=96.06  E-value=0.0031  Score=53.56  Aligned_cols=23  Identities=22%  Similarity=0.281  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.+..
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            35899999999999999999986

>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=96.04  E-value=0.0041  Score=50.75  Aligned_cols=24  Identities=21%  Similarity=0.102  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|.|.|+.|+||||+++.+...
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~   48 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQ   48 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999998774

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.04  E-value=0.0032  Score=54.16  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            36899999999999999999986

>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=96.03  E-value=0.0035  Score=52.73  Aligned_cols=23  Identities=26%  Similarity=0.248  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999986

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.03  E-value=0.0062  Score=55.57  Aligned_cols=47  Identities=28%  Similarity=0.362  Sum_probs=37.2

Q ss_pred             CcccccHHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV-----------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~-----------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++.|.++.+++|.+.+.-           +-...+=|-++|++|+|||+||+.|.+.
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e  239 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQ  239 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHH
Confidence            5788999999988776531           1134566789999999999999999985

>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=96.02  E-value=0.0034  Score=53.08  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+++|+|..|+|||||++.+..
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999998

>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=96.02  E-value=0.0033  Score=52.40  Aligned_cols=24  Identities=25%  Similarity=0.290  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999873

>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=96.00  E-value=0.0034  Score=53.59  Aligned_cols=23  Identities=30%  Similarity=0.333  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999987

>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=95.99  E-value=0.0036  Score=50.43  Aligned_cols=24  Identities=17%  Similarity=0.073  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|.|+.|+||||+++.+.+.
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            357999999999999999999874

>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=95.99  E-value=0.0033  Score=54.64  Aligned_cols=25  Identities=20%  Similarity=0.215  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+++|.+|+||||++..+...
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~  128 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAI  128 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999998764

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=95.97  E-value=0.003  Score=52.29  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||++.+..-
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            57899999999999999999873

>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=95.97  E-value=0.0031  Score=51.09  Aligned_cols=22  Identities=23%  Similarity=0.418  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|-|+|+.|+|||||++.+...
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4779999999999999999864

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=95.97  E-value=0.0036  Score=52.84  Aligned_cols=23  Identities=30%  Similarity=0.348  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~G   57 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQR   57 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999987

>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=95.97  E-value=0.0039  Score=51.19  Aligned_cols=24  Identities=17%  Similarity=0.176  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|.|.|+.|+||||+++.+...
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~   27 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQER   27 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999999774

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.96  E-value=0.0037  Score=53.43  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
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            468999999999999999999883

>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=95.95  E-value=0.0039  Score=50.31  Aligned_cols=21  Identities=29%  Similarity=0.317  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhh
Q 038685          185 VVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +|+|.|+.|+||||+++.+..
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            899999999999999999976

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.95  E-value=0.0037  Score=53.12  Aligned_cols=23  Identities=17%  Similarity=0.206  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999987

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.95  E-value=0.0047  Score=51.20  Aligned_cols=26  Identities=15%  Similarity=0.240  Sum_probs=23.5

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.+||-|.|++|+||||.|+.+.+.
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~   52 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQK   52 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            46789999999999999999999874

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=95.94  E-value=0.0037  Score=53.44  Aligned_cols=23  Identities=26%  Similarity=0.315  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999987

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.94  E-value=0.0039  Score=50.86  Aligned_cols=22  Identities=18%  Similarity=0.259  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.|.|+.|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999653

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.93  E-value=0.0038  Score=53.49  Aligned_cols=23  Identities=35%  Similarity=0.368  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999987

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.93  E-value=0.0017  Score=51.79  Aligned_cols=24  Identities=25%  Similarity=0.272  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|+|+|..|+|||||++.+..-
T Consensus         2 ~~~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            2 SLILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             -CEEEEEESCHHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            358999999999999999999873

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.93  E-value=0.0039  Score=51.50  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|.|.|+.|+||||+++.+...
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~   30 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTH   30 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            467999999999999999999763

>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=95.93  E-value=0.012  Score=50.46  Aligned_cols=52  Identities=13%  Similarity=0.067  Sum_probs=35.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCC-eeEEEeCCCCHHHHHHHHHHHh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFY-CRAWVGCEYYLHKVLDNIIKSV  236 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~-~~~wV~~~~~~~~l~~~Il~~l  236 (265)
                      -.+++|+|.+|+|||||++.+.......  -. .++|+..+.+...+.+.++...
T Consensus        35 G~~~~i~G~~G~GKTTl~~~ia~~~~~~--~G~~v~~~~~e~~~~~~~~r~~~~~   87 (296)
T 1cr0_A           35 GEVIMVTSGSGMGKSTFVRQQALQWGTA--MGKKVGLAMLEESVEETAEDLIGLH   87 (296)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHHHHHT--SCCCEEEEESSSCHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHH--cCCeEEEEeCcCCHHHHHHHHHHHH
Confidence            4689999999999999999998753221  22 4556663334556666655544

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.92  E-value=0.0039  Score=53.07  Aligned_cols=24  Identities=29%  Similarity=0.360  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999863

>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=95.92  E-value=0.004  Score=49.83  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|+|+|..|+|||||++.+...
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            567899999999999999998764

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.91  E-value=0.0046  Score=55.25  Aligned_cols=25  Identities=32%  Similarity=0.364  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+|+|..|+|||||++.+...
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~  180 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHR  180 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhh
Confidence            4579999999999999999999874

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.90  E-value=0.004  Score=53.14  Aligned_cols=23  Identities=13%  Similarity=0.185  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            35899999999999999999987

>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=95.89  E-value=0.0043  Score=49.59  Aligned_cols=25  Identities=20%  Similarity=0.238  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+++|+|..|+|||||++.+...
T Consensus         5 ~~~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            5 MIPLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCHHHHHHHHHHh
Confidence            3678999999999999999999874

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=95.88  E-value=0.0042  Score=52.61  Aligned_cols=23  Identities=17%  Similarity=0.368  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||.+.+..-
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            58999999999999999999873

>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=95.88  E-value=0.0048  Score=53.86  Aligned_cols=25  Identities=28%  Similarity=0.345  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+|+|.+|+||||++..+...
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~  127 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKM  127 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHH
Confidence            4689999999999999999999874

>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=95.87  E-value=0.0044  Score=50.60  Aligned_cols=22  Identities=14%  Similarity=0.185  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.|.|++|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998653

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.87  E-value=0.0042  Score=53.49  Aligned_cols=24  Identities=17%  Similarity=0.029  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            358999999999999999999873

>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=95.86  E-value=0.0076  Score=55.31  Aligned_cols=47  Identities=21%  Similarity=0.306  Sum_probs=36.3

Q ss_pred             CcccccHHHHHHHHHHHhcC------------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG------------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~------------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|.++.++.|...+...            ....+-|-++|++|+||||||+.+...
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~   73 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   73 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHH
Confidence            56899999988887766321            112455789999999999999999884

>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=95.86  E-value=0.0043  Score=49.86  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|+|+|..|+|||||.+.+...
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            456899999999999999999875

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.85  E-value=0.0042  Score=52.64  Aligned_cols=23  Identities=17%  Similarity=0.385  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||.+.+..-
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999873

>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=95.82  E-value=0.0044  Score=49.15  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhh
Q 038685          185 VVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -|+|+|.+|+|||||++.+.+
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999877

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.82  E-value=0.02  Score=49.90  Aligned_cols=52  Identities=15%  Similarity=0.084  Sum_probs=38.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHHHHH
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKS  235 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~Il~~  235 (265)
                      .-.++-|.|.+|+||||||..+..+...+.  ..++|++-+.+...+...++..
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE~s~~~l~~R~~~~  118 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLEMGKKENIKRLIVT  118 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESSSCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECCCCHHHHHHHHHHH
Confidence            456888999999999999999886543333  6788888335667777776654

>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=95.80  E-value=0.01  Score=53.26  Aligned_cols=26  Identities=19%  Similarity=0.138  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.-.+|+|+|+.|+|||||++.+...
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~  192 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLEL  192 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            44679999999999999999999873

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.80  E-value=0.0036  Score=53.05  Aligned_cols=22  Identities=23%  Similarity=0.184  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+|+|+|+.|+||||+++.+..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999976

>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=95.80  E-value=0.0062  Score=47.31  Aligned_cols=23  Identities=13%  Similarity=0.254  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..|+|+|.+|+|||||.+.+.+.
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            56899999999999999999764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.79  E-value=0.0041  Score=51.12  Aligned_cols=24  Identities=17%  Similarity=-0.003  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|.|.|+.|+||||+++.+...
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~   28 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTK   28 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999999874

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.78  E-value=0.0098  Score=51.81  Aligned_cols=39  Identities=13%  Similarity=0.177  Sum_probs=28.0

Q ss_pred             HHHHHHHHHhcCCC-CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          168 EMKELLDLLIVGEP-SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       168 ~~~~l~~~L~~~~~-~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....+.+++....+ ....+-++|.+|+|||+||+.+.+.
T Consensus       136 ~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          136 AFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             HHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            34445556654322 2466789999999999999999985

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.77  E-value=0.0056  Score=52.13  Aligned_cols=24  Identities=13%  Similarity=0.358  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .-.+++|+|..|+|||||++.+..
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            357999999999999999999876

>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=95.77  E-value=0.0056  Score=51.33  Aligned_cols=24  Identities=33%  Similarity=0.476  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ...++.+.|.||+|||||+..+..
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~   36 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGR   36 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHH
Confidence            468889999999999999999974

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.76  E-value=0.0064  Score=46.42  Aligned_cols=24  Identities=21%  Similarity=0.308  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .-|.|+|.+|+|||||++.+.+..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            458899999999999999998753

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=95.75  E-value=0.0074  Score=59.35  Aligned_cols=74  Identities=14%  Similarity=0.166  Sum_probs=49.1

Q ss_pred             CcccccHHHHHHHHHHHh----cC-------CCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-----CC-
Q 038685          160 RNIVGLEDEMKELLDLLI----VG-------EPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-----CE-  222 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~----~~-------~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-----~~-  222 (265)
                      +++.|.++.+++|.+++.    ..       -...+-|-++|++|+|||+||+.|.+.  ...+|   +.|.     .. 
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~e--lg~~~---~~v~~~~l~sk~  278 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE--TGAFF---FLINGPEIMSKL  278 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTT--TTCEE---EEEEHHHHHSSC
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHH--hCCeE---EEEEhHHhhccc
Confidence            568888888888877652    21       123566789999999999999999985  33333   3343     22 


Q ss_pred             C-CHHHHHHHHHHHhCC
Q 038685          223 Y-YLHKVLDNIIKSVMP  238 (265)
Q Consensus       223 ~-~~~~l~~~Il~~l~~  238 (265)
                      . .....++.+++....
T Consensus       279 ~gese~~lr~lF~~A~~  295 (806)
T 3cf2_A          279 AGESESNLRKAFEEAEK  295 (806)
T ss_dssp             TTHHHHHHHHHHHHHTT
T ss_pred             chHHHHHHHHHHHHHHH
Confidence            2 235566777776643

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.74  E-value=0.009  Score=54.69  Aligned_cols=40  Identities=23%  Similarity=0.142  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHhcC-------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          167 DEMKELLDLLIVG-------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       167 ~~~~~l~~~L~~~-------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.++|.++|...       ....++|.|+|.+|+||||++-.+-..
T Consensus        77 ~~~~~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~LA~~  123 (433)
T 2xxa_A           77 IVRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLGKF  123 (433)
T ss_dssp             HHHHHHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3455666666432       134789999999999999999988753

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.74  E-value=0.0052  Score=50.21  Aligned_cols=48  Identities=17%  Similarity=0.045  Sum_probs=31.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHH
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNI  232 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~I  232 (265)
                      -.+++|+|.+|+|||||++.+.....-  .=..+.|+..+.....+...+
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~~--~~~~v~~~~~~~~~~~~~~~~   70 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGLR--DGDPCIYVTTEESRDSIIRQA   70 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHH--HTCCEEEEESSSCHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH--CCCeEEEEEcccCHHHHHHHH
Confidence            468999999999999999999864221  112355665333445554443

>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=95.74  E-value=0.014  Score=51.75  Aligned_cols=55  Identities=13%  Similarity=0.166  Sum_probs=35.3

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcccccccC----CeeEEEe-C-CCCHHHHHHHHHHHh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYF----YCRAWVG-C-EYYLHKVLDNIIKSV  236 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F----~~~~wV~-~-~~~~~~l~~~Il~~l  236 (265)
                      +.-.++.|+|..|+|||||++.+..........    ..++|+. . .+....+ ..+.+..
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~  189 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNR  189 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHc
Confidence            346899999999999999999998753212111    2458888 3 3444433 3344443

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.74  E-value=0.005  Score=52.73  Aligned_cols=22  Identities=27%  Similarity=0.582  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++|+|..|+|||||.+.++.-
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5799999999999999999973

>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=95.73  E-value=0.0052  Score=46.90  Aligned_cols=22  Identities=18%  Similarity=0.388  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.++|.+|+|||||++.+.+.
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            4789999999999999999765

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.70  E-value=0.0073  Score=47.61  Aligned_cols=24  Identities=13%  Similarity=0.214  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|+|+|.+|+|||||.+.+.+.
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            457899999999999999999874

>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=95.69  E-value=0.0074  Score=47.69  Aligned_cols=26  Identities=12%  Similarity=0.107  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ....-|.|+|.+|+|||||.+.+.+.
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            34567899999999999999999875

>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=95.69  E-value=0.0054  Score=50.87  Aligned_cols=26  Identities=23%  Similarity=0.174  Sum_probs=22.9

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-.+|+|.|..|+|||||++.+...
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            34579999999999999999999874

>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=95.68  E-value=0.038  Score=48.74  Aligned_cols=57  Identities=11%  Similarity=0.060  Sum_probs=39.4

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcccccc----cCCeeEEEe--CCCCHHHHHHHHHHHhCC
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKN----YFYCRAWVG--CEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~----~F~~~~wV~--~~~~~~~l~~~Il~~l~~  238 (265)
                      +.-.++-|+|.+|+||||||..+........    .=..++|++  ..++...+.. +++.++.
T Consensus       120 ~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~  182 (343)
T 1v5w_A          120 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNV  182 (343)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCC
Confidence            4567999999999999999999887532211    124688998  5567766653 4455443

>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=95.68  E-value=0.0058  Score=46.97  Aligned_cols=24  Identities=13%  Similarity=0.224  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
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            445789999999999999999764

>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=95.67  E-value=0.0057  Score=51.27  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|+|.|+.|+||||+++.+...
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~   32 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARA   32 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999763

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.64  E-value=0.0059  Score=52.10  Aligned_cols=22  Identities=27%  Similarity=0.333  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+++|+|..|+|||||.+.+..
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            4899999999999999999986

>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=95.63  E-value=0.0094  Score=54.55  Aligned_cols=25  Identities=28%  Similarity=0.272  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|.++|.+|+||||++..+...
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~  120 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYF  120 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999988763

>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=95.62  E-value=0.0076  Score=55.15  Aligned_cols=24  Identities=29%  Similarity=0.311  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|+|+|.+|+||||++..+...
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~  122 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARY  122 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            569999999999999999988774

>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=95.61  E-value=0.0065  Score=46.52  Aligned_cols=24  Identities=25%  Similarity=0.340  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .-|.|+|.+|+|||||++.+.+..
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            457899999999999999997653

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.61  E-value=0.0053  Score=50.37  Aligned_cols=23  Identities=13%  Similarity=0.146  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..|.|.|+.|+||||+++.+...
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~   28 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKE   28 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999764

>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=95.61  E-value=0.0062  Score=47.23  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEEECCCCccHHHHHHHHhcC
Confidence            446789999999999999999765

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.58  E-value=0.0069  Score=50.36  Aligned_cols=25  Identities=20%  Similarity=0.092  Sum_probs=22.1

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ....+|+|+|+.|+||||+++.+..
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            3567899999999999999999876

>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=95.58  E-value=0.0066  Score=48.02  Aligned_cols=24  Identities=17%  Similarity=0.346  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      --|.|+|.+|+|||||++.+.+..
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            457899999999999999997653

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=95.58  E-value=0.013  Score=50.85  Aligned_cols=24  Identities=33%  Similarity=0.337  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|+++|.+|+||||++..+...
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~  121 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYF  121 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            679999999999999999998864

>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=95.57  E-value=0.026  Score=51.05  Aligned_cols=56  Identities=7%  Similarity=-0.020  Sum_probs=36.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccc----cCCeeEEEe--CCCCHHHHHHHHHHHhCC
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKN----YFYCRAWVG--CEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~----~F~~~~wV~--~~~~~~~l~~~Il~~l~~  238 (265)
                      .-.++.|+|.+|+|||||+..+.-......    .-..++|+.  ..++...+. .+.+.++.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~gl  238 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGL  238 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTC
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHcCC
Confidence            356899999999999999997753211111    234688888  445655543 35555553

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.57  E-value=0.011  Score=57.74  Aligned_cols=47  Identities=15%  Similarity=0.329  Sum_probs=37.6

Q ss_pred             CcccccHHHHHHHHHHHhcC-------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG-------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~-------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|.+..++.+...+...       ......+-++|.+|+|||+||+.+.+.
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~  544 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAES  544 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            56899999999888877532       122347889999999999999999874

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.57  E-value=0.0068  Score=50.02  Aligned_cols=22  Identities=18%  Similarity=0.207  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.|.|+.|+||||+++.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~   23 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDK   23 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999763

>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=95.56  E-value=0.0072  Score=52.87  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.+++|+|+.|.|||||.+.+...
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            4789999999999999999999964

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=95.56  E-value=0.0076  Score=54.82  Aligned_cols=25  Identities=28%  Similarity=0.405  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ....+++|+|..|+|||||.+.+..
T Consensus        67 ~~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           67 SSVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             HCCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             cCCeEEEEECCCCCcHHHHHHHHhC
Confidence            3467999999999999999999988

>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=95.56  E-value=0.0082  Score=46.04  Aligned_cols=22  Identities=18%  Similarity=0.368  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||.+.+.+.
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            4789999999999999999864

>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=95.56  E-value=0.0067  Score=49.52  Aligned_cols=22  Identities=14%  Similarity=0.071  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.|.|+.|+||||+++.+.+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEK   23 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999763

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.55  E-value=0.0045  Score=53.54  Aligned_cols=24  Identities=17%  Similarity=0.277  Sum_probs=18.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +..+|+|.|..|+||||+|+.+.+
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            356899999999999999999876

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.55  E-value=0.0066  Score=52.96  Aligned_cols=24  Identities=13%  Similarity=0.238  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .-.+++|+|..|.|||||++.+..
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhh
Confidence            457899999999999999999986

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.55  E-value=0.011  Score=56.42  Aligned_cols=43  Identities=14%  Similarity=0.204  Sum_probs=35.0

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.+...+..+    ..+.|+|.+|+||||||+.+..-
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~~   83 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAEL   83 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHHT
T ss_pred             ceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhcc
Confidence            46899888877776666544    47889999999999999999884

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.54  E-value=0.0074  Score=53.45  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|+|.|+.|+||||||+.+...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~   30 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKK   30 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHHH
Confidence            58999999999999999998874

>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=95.53  E-value=0.0091  Score=46.00  Aligned_cols=24  Identities=17%  Similarity=0.145  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||.+.+.+.
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            456789999999999999999865

>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=95.52  E-value=0.0069  Score=47.88  Aligned_cols=24  Identities=17%  Similarity=-0.022  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhh
Confidence            445789999999999999888753

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.49  E-value=0.012  Score=45.85  Aligned_cols=25  Identities=28%  Similarity=0.319  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +...|.|+|.+|+|||||++.+.+.
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            4567899999999999999998763

>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=95.49  E-value=0.0079  Score=51.67  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999987

>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=95.49  E-value=0.0068  Score=52.47  Aligned_cols=24  Identities=25%  Similarity=0.290  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            468999999999999999999873

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.49  E-value=0.0074  Score=47.86  Aligned_cols=26  Identities=15%  Similarity=0.119  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ....|.|+|.+|+|||||+..+.+..
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45578999999999999999998753

>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=95.46  E-value=0.0078  Score=46.32  Aligned_cols=24  Identities=17%  Similarity=0.292  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      --|.|+|.+|+|||||.+.+.+..
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            457899999999999999987753

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.46  E-value=0.0078  Score=46.35  Aligned_cols=23  Identities=22%  Similarity=0.307  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|.+|+|||||.+.+.+.
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            34789999999999999999864

>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=95.46  E-value=0.008  Score=46.19  Aligned_cols=23  Identities=9%  Similarity=0.238  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      -|.|+|.+|+|||||.+.+.+..
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            47899999999999999987653

>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=95.43  E-value=0.0082  Score=45.89  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|.+|+|||||.+.+.+.
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999998764

>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=95.43  E-value=0.017  Score=50.94  Aligned_cols=25  Identities=16%  Similarity=0.181  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+..+|+|+|.+|+|||||+..+..
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            4578999999999999999999864

>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=95.43  E-value=0.0069  Score=46.57  Aligned_cols=22  Identities=23%  Similarity=0.277  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||.+.+.+.
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~   25 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGV   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCc
Confidence            4789999999999999998653

>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=95.41  E-value=0.0082  Score=46.74  Aligned_cols=25  Identities=32%  Similarity=0.426  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...-|.|+|.+|+|||||.+.+.+.
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            3566899999999999999988764

>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=95.41  E-value=0.0087  Score=51.86  Aligned_cols=25  Identities=24%  Similarity=0.138  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+|+|.+|+||||++..+...
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~  121 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALY  121 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999999874

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.38  E-value=0.014  Score=54.51  Aligned_cols=24  Identities=25%  Similarity=0.266  Sum_probs=20.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ...+|+|+|.+|+|||||+..+..
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            467999999999999999999884

>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=95.37  E-value=0.0082  Score=47.13  Aligned_cols=23  Identities=17%  Similarity=0.186  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..|+|+|.+|+|||||.+.+...
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            45789999999999999999875

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.37  E-value=0.016  Score=51.17  Aligned_cols=25  Identities=20%  Similarity=0.154  Sum_probs=22.3

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ....+++|+|.+|+|||||.+.+..
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999999974

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=95.36  E-value=0.0079  Score=46.81  Aligned_cols=25  Identities=24%  Similarity=0.317  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..--|.|+|.+|+|||||++.+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcC
Confidence            4566799999999999999999764

>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=95.36  E-value=0.0089  Score=49.56  Aligned_cols=24  Identities=17%  Similarity=0.127  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|.|.|+.|+||||+|+.+.+.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~   39 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKN   39 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999999774

>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=95.34  E-value=0.0089  Score=45.84  Aligned_cols=21  Identities=19%  Similarity=0.128  Sum_probs=19.0

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||.+.+.+.
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            789999999999999999754

>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=95.34  E-value=0.0099  Score=46.21  Aligned_cols=25  Identities=20%  Similarity=0.317  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...-|.|+|..|+|||||.+.+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4567899999999999999998775

>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=95.34  E-value=0.011  Score=46.44  Aligned_cols=25  Identities=16%  Similarity=0.348  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..--|.|+|.+|+|||||++.+.+.
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456789999999999999999865

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=95.33  E-value=0.0054  Score=53.53  Aligned_cols=23  Identities=26%  Similarity=0.359  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999976

>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=95.32  E-value=0.0092  Score=46.38  Aligned_cols=24  Identities=21%  Similarity=0.368  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||.+.+.+.
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            456799999999999999999764

>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=95.31  E-value=0.0087  Score=51.05  Aligned_cols=24  Identities=25%  Similarity=0.159  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.++.|+|.+|+|||||+..+...
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~   53 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQ   53 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999998863

>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=95.31  E-value=0.011  Score=46.45  Aligned_cols=24  Identities=17%  Similarity=0.347  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      --|.|+|.+|+|||||.+.+.+..
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            357899999999999999998754

>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=95.31  E-value=0.0087  Score=47.25  Aligned_cols=24  Identities=21%  Similarity=0.187  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.+.
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            455789999999999999998764

>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=95.31  E-value=0.0095  Score=45.73  Aligned_cols=23  Identities=13%  Similarity=0.187  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|.+|+|||||.+.+.+.
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            45789999999999999998763

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.30  E-value=0.01  Score=46.13  Aligned_cols=24  Identities=13%  Similarity=0.129  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            445789999999999999998764

>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=95.30  E-value=0.0095  Score=46.25  Aligned_cols=26  Identities=15%  Similarity=0.185  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ...-|.|+|.+|+|||||.+.+.+..
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            35668899999999999999998754

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=95.30  E-value=0.0086  Score=53.44  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|+.|+|||||.+.|..
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            36899999999999999999987

>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=95.30  E-value=0.0092  Score=45.91  Aligned_cols=23  Identities=17%  Similarity=0.265  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|.+|+|||||.+.+.+.
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

>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=95.29  E-value=0.032  Score=48.54  Aligned_cols=56  Identities=13%  Similarity=0.092  Sum_probs=39.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccc---------cC-----CeeEEEe--CCCCHHHHHHHHHHHhCC
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKN---------YF-----YCRAWVG--CEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~---------~F-----~~~~wV~--~~~~~~~l~~~Il~~l~~  238 (265)
                      .-.++-|+|.+|+||||||..+.-+.....         ..     ..++|++  ..++...+.+ +++.++.
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~  168 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGI  168 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCC
Confidence            457899999999999999999886532211         11     4678888  5577777664 3455543

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=95.28  E-value=0.0092  Score=53.38  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999987

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=95.27  E-value=0.026  Score=47.83  Aligned_cols=37  Identities=19%  Similarity=0.267  Sum_probs=26.9

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          171 ELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       171 ~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ++...+.........|.++|.+|+|||||...+.+..
T Consensus        27 ~~~~~~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           27 ELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             HHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHhhcCCCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            3444344433345678899999999999999998754

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.27  E-value=0.023  Score=46.85  Aligned_cols=48  Identities=23%  Similarity=0.160  Sum_probs=31.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHH
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNI  232 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~I  232 (265)
                      -.++.|+|.+|+|||||+..+.....  ..=..++|++-+.....+.+.+
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~--~~~~~v~~~~~e~~~~~~~~~~   70 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGL--KMGEPGIYVALEEHPVQVRQNM   70 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHH--HTTCCEEEEESSSCHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEEccCCHHHHHHHH
Confidence            46889999999999999887765321  1123577777222344554443

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.27  E-value=0.011  Score=52.49  Aligned_cols=25  Identities=24%  Similarity=0.254  Sum_probs=22.5

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ....+|+|+|.+|+|||||.+.+..
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            3478999999999999999999985

>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=95.25  E-value=0.0053  Score=49.50  Aligned_cols=24  Identities=25%  Similarity=0.120  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -..|+|+|..|+|||||.+.+...
T Consensus        26 ~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           26 GIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999998764

>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=95.25  E-value=0.01  Score=45.76  Aligned_cols=24  Identities=21%  Similarity=0.115  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||.+.+.+.
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            356789999999999999999653

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.25  E-value=0.011  Score=49.21  Aligned_cols=24  Identities=17%  Similarity=0.196  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|.|.|..|+||||+++.+.+.
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999885

>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=95.24  E-value=0.011  Score=46.19  Aligned_cols=24  Identities=17%  Similarity=0.214  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.+.
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            456889999999999999999854

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.24  E-value=0.0097  Score=53.04  Aligned_cols=23  Identities=26%  Similarity=0.264  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.|..
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36899999999999999999986

>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=95.23  E-value=0.011  Score=46.94  Aligned_cols=26  Identities=27%  Similarity=0.450  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ....|.|+|.+|+|||||.+.+.+..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45678999999999999999998753

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=95.23  E-value=0.027  Score=47.51  Aligned_cols=37  Identities=16%  Similarity=0.242  Sum_probs=27.3

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          171 ELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       171 ~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ++...+.....+...|+|+|.+|+|||||...+....
T Consensus        24 ~~~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           24 EFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             HHHHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4444444443446678999999999999999998754

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.20  E-value=0.0098  Score=46.94  Aligned_cols=25  Identities=28%  Similarity=0.408  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ...|.|+|..|+|||||++.+.+..
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCc
Confidence            4567899999999999999998763

>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=95.20  E-value=0.012  Score=45.90  Aligned_cols=25  Identities=28%  Similarity=0.380  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ..-|.|+|.+|+|||||++.+.+..
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            4567899999999999999998653

>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=95.19  E-value=0.012  Score=49.05  Aligned_cols=27  Identities=22%  Similarity=0.315  Sum_probs=23.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhccc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNY  208 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~  208 (265)
                      .-.+|.|.|+.|+||||+++.+.+.-.
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~   51 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLV   51 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            457899999999999999999998533

>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=95.19  E-value=0.014  Score=44.98  Aligned_cols=22  Identities=36%  Similarity=0.454  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      --|.|+|.+|+|||||++.+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            4578999999999999999853

>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=95.19  E-value=0.01  Score=46.61  Aligned_cols=25  Identities=16%  Similarity=0.208  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..--|.|+|.+|+|||||++.+.+.
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3456789999999999999998764

>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=95.18  E-value=0.008  Score=52.22  Aligned_cols=23  Identities=22%  Similarity=0.547  Sum_probs=19.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++| +|+|..|+|||||.+.++..
T Consensus        19 ~~I-~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           19 FTL-MVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEE-EEEEETTSSHHHHHHHHHC-
T ss_pred             EEE-EEECCCCCCHHHHHHHHhCC
Confidence            454 99999999999999998763

>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=95.18  E-value=0.0096  Score=46.85  Aligned_cols=23  Identities=13%  Similarity=0.192  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      -|.|+|.+|+|||||.+.+.+..
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            47899999999999999988753

>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=95.18  E-value=0.01  Score=47.07  Aligned_cols=24  Identities=21%  Similarity=0.169  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999877654

>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=95.16  E-value=0.027  Score=54.92  Aligned_cols=47  Identities=13%  Similarity=0.288  Sum_probs=36.8

Q ss_pred             CcccccHHHHHHHHHHHhcC-------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG-------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~-------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|.+..++.+...+...       ......+-++|.+|+|||+||+.+.+.
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~  511 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA  511 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHH
Confidence            56889999988887776431       123457889999999999999999874

>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=95.16  E-value=0.011  Score=46.97  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
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            445789999999999999888764

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=95.16  E-value=0.011  Score=49.85  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++|+|.|-||+||||+|-.+-.-
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~   24 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSG   24 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHHHH
Confidence            58899999999999999888764

>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=95.15  E-value=0.011  Score=52.85  Aligned_cols=23  Identities=30%  Similarity=0.209  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.|..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHC
Confidence            46899999999999999999986

>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=95.14  E-value=0.011  Score=46.19  Aligned_cols=23  Identities=17%  Similarity=0.112  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|.+|+|||||.+.+.++
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            45789999999999999988754

>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=95.14  E-value=0.011  Score=46.85  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|+|+|..|+|||||.+.+.+.
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            456799999999999999998874

>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=95.14  E-value=0.011  Score=46.42  Aligned_cols=24  Identities=25%  Similarity=0.249  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
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            456789999999999999999864

>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=95.14  E-value=0.011  Score=47.21  Aligned_cols=22  Identities=18%  Similarity=0.137  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .-|+|+|.+|+|||||.+.+.+
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4678999999999999999986

>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=95.13  E-value=0.011  Score=45.89  Aligned_cols=23  Identities=13%  Similarity=0.163  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|..|+|||||.+.+.++
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            45789999999999999999754

>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=95.12  E-value=0.013  Score=47.49  Aligned_cols=26  Identities=15%  Similarity=0.119  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ....|.|+|.+|+|||||+..+.+..
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678899999999999999998753

>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=95.12  E-value=0.012  Score=46.02  Aligned_cols=23  Identities=17%  Similarity=0.065  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|.+|+|||||.+.+.+.
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            45689999999999999998764

>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=95.12  E-value=0.012  Score=53.51  Aligned_cols=25  Identities=36%  Similarity=0.396  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|-|+|++|+||||+|+.+..+
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            4689999999999999999998874

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.12  E-value=0.011  Score=52.85  Aligned_cols=23  Identities=22%  Similarity=0.239  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.|..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAG   51 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            46899999999999999999986

>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=95.12  E-value=0.012  Score=48.32  Aligned_cols=22  Identities=18%  Similarity=0.280  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|-|.|++|+||+|.|+.+...
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~   23 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKE   23 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999874

>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=95.11  E-value=0.012  Score=46.59  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+.+|+|..|+|||||+..|+-
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            3789999999999999999863

>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=95.11  E-value=0.034  Score=48.62  Aligned_cols=56  Identities=9%  Similarity=0.100  Sum_probs=38.7

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhccccccc----CCeeEEEe--CCCCHHHHHHHHHHHhCC
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNY----FYCRAWVG--CEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~----F~~~~wV~--~~~~~~~l~~~Il~~l~~  238 (265)
                      .-.++-|+|.+|+||||||..+.........    =..++|++  ..++...+.+ +++.++.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~  167 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGL  167 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTC
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCC
Confidence            3468999999999999999998875322211    24688998  5567776653 4555543

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=95.11  E-value=0.011  Score=53.26  Aligned_cols=23  Identities=26%  Similarity=0.274  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.|..
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHc
Confidence            36899999999999999999987

>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=95.11  E-value=0.0084  Score=48.21  Aligned_cols=22  Identities=14%  Similarity=0.132  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .-|+|+|.+|+|||||++.+.+
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999999975

>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=95.10  E-value=0.012  Score=47.09  Aligned_cols=26  Identities=27%  Similarity=0.379  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ...-|.|+|.+|+|||||++.+.++.
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            35568899999999999999997643

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=95.10  E-value=0.011  Score=52.97  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.|..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAG   51 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCcHHHHHHHHHHc
Confidence            35899999999999999999986

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.09  E-value=0.012  Score=51.64  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|+|+.|+|||||++.+...
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999998874

>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=95.08  E-value=0.012  Score=45.90  Aligned_cols=24  Identities=13%  Similarity=0.205  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+...
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346789999999999999998764

>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=95.07  E-value=0.012  Score=47.12  Aligned_cols=25  Identities=36%  Similarity=0.453  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...-|.|+|.+|+|||||++.+.+.
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3566899999999999999998764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.05  E-value=0.015  Score=47.79  Aligned_cols=37  Identities=16%  Similarity=0.199  Sum_probs=26.5

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+..++.. -++-+-+-|+|++|+||||+|..+.+.
T Consensus        45 ~~~l~~~~~~-iPkkn~ili~GPPGtGKTt~a~ala~~   81 (212)
T 1tue_A           45 LGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIHF   81 (212)
T ss_dssp             HHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHhc-CCcccEEEEECCCCCCHHHHHHHHHHH
Confidence            4555555543 333456899999999999998887764

>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=95.04  E-value=0.012  Score=52.82  Aligned_cols=23  Identities=22%  Similarity=0.208  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.|..
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            46899999999999999999986

>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=95.04  E-value=0.01  Score=47.63  Aligned_cols=23  Identities=35%  Similarity=0.475  Sum_probs=20.2

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      ...-|.|+|.+|+|||||++.+.
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            35678999999999999999984

>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=95.04  E-value=0.013  Score=45.69  Aligned_cols=24  Identities=29%  Similarity=0.250  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||.+.+.+.
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456799999999999999998764

>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=95.02  E-value=0.013  Score=50.83  Aligned_cols=25  Identities=20%  Similarity=0.320  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +...|+|+|.+|+|||||.+.+...
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            4568999999999999999999875

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.00  E-value=0.013  Score=46.42  Aligned_cols=24  Identities=13%  Similarity=0.129  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|+|+|.+|+|||||++.+.+.
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

>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=95.00  E-value=0.013  Score=46.80  Aligned_cols=24  Identities=21%  Similarity=0.266  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.+.
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            445789999999999999999765

>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=95.00  E-value=0.012  Score=46.75  Aligned_cols=25  Identities=16%  Similarity=0.282  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .--|+|+|..|+|||||.+.+.+..
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            4567999999999999999997643

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.99  E-value=0.017  Score=45.75  Aligned_cols=26  Identities=19%  Similarity=0.222  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ..--|.|+|..|+|||||.+.+.++.
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            35568999999999999999998754

>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=94.97  E-value=0.012  Score=47.00  Aligned_cols=24  Identities=8%  Similarity=0.178  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.+.
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            445689999999999999988773

>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=94.97  E-value=0.013  Score=46.76  Aligned_cols=25  Identities=24%  Similarity=0.321  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .--|.|+|.+|+|||||++.+.+..
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            4568999999999999999987753

>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=94.97  E-value=0.013  Score=46.03  Aligned_cols=26  Identities=12%  Similarity=0.075  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ...-|.|+|.+|+|||||.+.+.+..
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            35667899999999999999998643

>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=94.97  E-value=0.015  Score=46.91  Aligned_cols=25  Identities=20%  Similarity=0.080  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ...|.|+|.+|+|||||.+.+.+..
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            4567899999999999999998643

>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=94.96  E-value=0.0094  Score=46.49  Aligned_cols=23  Identities=9%  Similarity=0.170  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|.+|+|||||++.+.+.
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            45789999999999999998764

>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=94.95  E-value=0.011  Score=52.52  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -..++|+|..|+|||||++.+..-
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            468899999999999999998763

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=94.93  E-value=0.028  Score=51.16  Aligned_cols=42  Identities=14%  Similarity=0.258  Sum_probs=28.5

Q ss_pred             cccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          163 VGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       163 vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +|.......++.-+..  ..-.+|+|+|..|+|||||++.+...
T Consensus       149 Lg~~~~~~~~L~~l~~--~~ggii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          149 LGMTAHNHDNFRRLIK--RPHGIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             SCCCHHHHHHHHHHHT--SSSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHH--hcCCeEEEECCCCCCHHHHHHHHHhh
Confidence            3443333333333333  33578999999999999999998773

>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=94.91  E-value=0.014  Score=46.11  Aligned_cols=25  Identities=20%  Similarity=0.288  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ..-|.|+|.+|+|||||++.+.+..
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            4568999999999999999987653

>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=94.90  E-value=0.014  Score=49.92  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++|+|.|-||+||||+|-.+-.-
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~   25 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAA   25 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHH
Confidence            468999999999999999888764

>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=94.90  E-value=0.013  Score=46.47  Aligned_cols=25  Identities=24%  Similarity=0.299  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .--|.|+|.+|+|||||++.+.+..
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcCC
Confidence            3457899999999999999998753

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=94.89  E-value=0.013  Score=51.95  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      -.+++|+|..|+|||||++.|.+..
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999999953

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=94.88  E-value=0.014  Score=46.83  Aligned_cols=26  Identities=23%  Similarity=0.253  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ...-|.|+|.+|+|||||++.+.+..
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            35667899999999999999998753

>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=94.88  E-value=0.0093  Score=46.68  Aligned_cols=24  Identities=21%  Similarity=0.092  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ...-|.|+|.+|+|||||.+.+.+
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            356678999999999999999875

>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=94.88  E-value=0.015  Score=46.12  Aligned_cols=24  Identities=21%  Similarity=0.142  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||.+.+.+.
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            455789999999999999999864

>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=94.88  E-value=0.015  Score=46.25  Aligned_cols=25  Identities=16%  Similarity=0.131  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            4567899999999999999998753

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=94.88  E-value=0.015  Score=52.08  Aligned_cols=24  Identities=13%  Similarity=0.358  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .-.+|+|+|..|+|||||++.+..
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            357899999999999999999876

>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=94.87  E-value=0.037  Score=49.30  Aligned_cols=38  Identities=24%  Similarity=0.191  Sum_probs=28.1

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      +.-.++.|+|.+|+|||||+..+.....-  .=..++|+.
T Consensus        59 ~~G~i~~I~GppGsGKSTLal~la~~~~~--~gg~VlyId   96 (356)
T 3hr8_A           59 PRGRIVEIFGQESSGKTTLALHAIAEAQK--MGGVAAFID   96 (356)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHHHH--TTCCEEEEE
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEe
Confidence            34579999999999999999999875321  113456777

>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=94.85  E-value=0.018  Score=50.07  Aligned_cols=27  Identities=22%  Similarity=0.347  Sum_probs=23.9

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      +....|+|+|.+|+|||||...+....
T Consensus         8 ~~~g~v~ivG~~nvGKSTLin~l~g~~   34 (308)
T 3iev_A            8 MKVGYVAIVGKPNVGKSTLLNNLLGTK   34 (308)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            457899999999999999999998753

>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=94.85  E-value=0.015  Score=46.11  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||.+.+.+.
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            445789999999999999998764

>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=94.84  E-value=0.02  Score=46.97  Aligned_cols=25  Identities=12%  Similarity=0.260  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...-|.|+|.+|+|||||+..+.+.
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567899999999999999999875

>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=94.84  E-value=0.015  Score=45.87  Aligned_cols=24  Identities=21%  Similarity=0.282  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            346789999999999999999765

>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=94.84  E-value=0.012  Score=49.77  Aligned_cols=25  Identities=16%  Similarity=0.216  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +...|.|.|..|+||||+++.+.+.
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            4679999999999999999998874

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=94.84  E-value=0.014  Score=46.50  Aligned_cols=24  Identities=17%  Similarity=0.140  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||.+.+.+.
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            455789999999999999988764

>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=94.83  E-value=0.014  Score=53.16  Aligned_cols=21  Identities=24%  Similarity=0.578  Sum_probs=19.7

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++|+|..|+|||||++.++.-
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            999999999999999999874

>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=94.82  E-value=0.014  Score=47.26  Aligned_cols=24  Identities=21%  Similarity=0.187  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.+.
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            456789999999999999999765

>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=94.80  E-value=0.017  Score=50.64  Aligned_cols=24  Identities=29%  Similarity=0.259  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|.|+|+.|+||||||..+...
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHh
Confidence            468999999999999999998763

>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=94.80  E-value=0.016  Score=45.87  Aligned_cols=24  Identities=17%  Similarity=0.217  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|..|+|||||.+.+.+.
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            456899999999999999999754

>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=94.80  E-value=0.017  Score=50.79  Aligned_cols=24  Identities=17%  Similarity=0.181  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -+++-|+|++|+||||||..+...
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            456789999999999999999874

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=94.80  E-value=0.0097  Score=52.89  Aligned_cols=23  Identities=26%  Similarity=0.218  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.|..
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaG   48 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAG   48 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCccHHHHHHHHHc
Confidence            35899999999999999999987

>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=94.79  E-value=0.016  Score=46.38  Aligned_cols=24  Identities=13%  Similarity=0.253  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.+.
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            566789999999999999999764

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=94.78  E-value=0.019  Score=45.52  Aligned_cols=26  Identities=15%  Similarity=0.148  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ...-|.|+|.+|+|||||.+.+.+..
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            46778999999999999999988753

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.77  E-value=0.02  Score=50.63  Aligned_cols=25  Identities=12%  Similarity=0.282  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|.|+|+.|+|||||+..+...
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999874

>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=94.76  E-value=0.015  Score=46.14  Aligned_cols=24  Identities=17%  Similarity=0.207  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||.+.+.+.
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            345789999999999999999764

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.76  E-value=0.013  Score=47.76  Aligned_cols=22  Identities=18%  Similarity=0.214  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+|+|.|+.|+||||+++.+-.
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            4799999999999999998866

>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=94.76  E-value=0.015  Score=46.70  Aligned_cols=25  Identities=20%  Similarity=0.236  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..--|.|+|.+|+|||||.+.+.+.
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3556789999999999999998754

>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=94.75  E-value=0.014  Score=46.54  Aligned_cols=24  Identities=17%  Similarity=0.043  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.+.
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            455799999999999999999653

>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=94.74  E-value=0.015  Score=46.96  Aligned_cols=25  Identities=20%  Similarity=0.296  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...-|+|+|.+|+|||||++.+.+.
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3556789999999999999988653

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=94.74  E-value=0.015  Score=46.35  Aligned_cols=25  Identities=28%  Similarity=0.341  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .--|.|+|..|+|||||++.+.++.
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~~   50 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDDT   50 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            4457899999999999999998653

>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=94.74  E-value=0.016  Score=46.31  Aligned_cols=23  Identities=22%  Similarity=0.320  Sum_probs=19.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..-|.|+|.+|+|||||.+.+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34578999999999999998863

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=94.72  E-value=0.015  Score=52.38  Aligned_cols=23  Identities=17%  Similarity=0.263  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.|..
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhC
Confidence            46899999999999999999986

>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=94.71  E-value=0.017  Score=45.60  Aligned_cols=24  Identities=25%  Similarity=0.088  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||.+.+.+.
T Consensus        16 ~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           16 EHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            566789999999999999999853

>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=94.70  E-value=0.022  Score=45.87  Aligned_cols=24  Identities=17%  Similarity=0.091  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.++
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            445689999999999999888764

>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=94.69  E-value=0.019  Score=48.75  Aligned_cols=24  Identities=29%  Similarity=0.343  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|+++|.+|+|||||.+.+...
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            457899999999999999999875

>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=94.69  E-value=0.018  Score=52.81  Aligned_cols=25  Identities=20%  Similarity=0.243  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...||.++|.+|+||||++..+...
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~  123 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARY  123 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHH
Confidence            4789999999999999999888753

>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=94.69  E-value=0.016  Score=46.42  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.+.
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

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=94.66  E-value=0.018  Score=51.21  Aligned_cols=23  Identities=17%  Similarity=0.306  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+|+|+|..|+|||||.+.+..
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35999999999999999998865

>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=94.66  E-value=0.0086  Score=53.32  Aligned_cols=23  Identities=30%  Similarity=0.284  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.|..
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36899999999999999999986

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.65  E-value=0.013  Score=52.26  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            35889999999999999999987

>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=94.65  E-value=0.017  Score=46.58  Aligned_cols=24  Identities=17%  Similarity=0.084  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.+.
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            346789999999999999998764

>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=94.64  E-value=0.015  Score=46.08  Aligned_cols=25  Identities=24%  Similarity=0.124  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ..-|.|+|..|+|||||.+.+.+..
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            3457899999999999999998754

>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=94.63  E-value=0.032  Score=55.26  Aligned_cols=47  Identities=17%  Similarity=0.419  Sum_probs=36.8

Q ss_pred             CcccccHHHHHHHHHHHhcC-----C--CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG-----E--PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~-----~--~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|.+..+..+...+...     +  .....+-|+|..|+|||+||+.+.+.
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~  611 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT  611 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            35799999888888877431     1  22467889999999999999999874

>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=94.62  E-value=0.018  Score=46.20  Aligned_cols=24  Identities=17%  Similarity=0.293  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||+..+...
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            456789999999999999998864

>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=94.61  E-value=0.016  Score=47.00  Aligned_cols=24  Identities=25%  Similarity=0.252  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            456789999999999999999764

>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=94.60  E-value=0.024  Score=46.97  Aligned_cols=26  Identities=19%  Similarity=0.284  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ...-|+|+|.+|+|||||.+.+....
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            45678999999999999999998754

>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=94.59  E-value=0.024  Score=49.55  Aligned_cols=25  Identities=20%  Similarity=0.165  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|.|+|+.|+||||||..+...
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHh
Confidence            4578999999999999999999764

>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=94.58  E-value=0.016  Score=45.49  Aligned_cols=24  Identities=25%  Similarity=0.088  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|..|+|||||.+.+.+.
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            356789999999999999999754

>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=94.55  E-value=0.018  Score=45.63  Aligned_cols=24  Identities=21%  Similarity=0.192  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.+.
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999999865

>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=94.53  E-value=0.012  Score=46.15  Aligned_cols=24  Identities=25%  Similarity=0.223  Sum_probs=10.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.+.
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            456899999999999999988754

>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=94.52  E-value=0.019  Score=46.02  Aligned_cols=24  Identities=21%  Similarity=0.097  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..-|.|+|.+|+|||||++.+.++
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346789999999999999999864

>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=94.52  E-value=0.015  Score=51.28  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||++.+..-
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~  194 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEF  194 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999874

>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=94.51  E-value=0.047  Score=49.77  Aligned_cols=44  Identities=20%  Similarity=0.275  Sum_probs=33.2

Q ss_pred             cccHHHHHHHHHHHhcC---------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          163 VGLEDEMKELLDLLIVG---------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       163 vG~e~~~~~l~~~L~~~---------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.++-.+.+.+.+...         .....-|+|+|.+|+|||||.+.+...
T Consensus       151 ~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~  203 (439)
T 1mky_A          151 INLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNK  203 (439)
T ss_dssp             BSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCC
Confidence            46677777777776421         123467899999999999999999765

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=94.51  E-value=0.015  Score=53.62  Aligned_cols=24  Identities=29%  Similarity=0.231  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.+..-
T Consensus       138 Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          138 GPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCc
Confidence            468999999999999999999873

>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=94.49  E-value=0.019  Score=46.08  Aligned_cols=25  Identities=20%  Similarity=0.165  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...-|.|+|.+|+|||||++.+.+.
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhhC
Confidence            3567899999999999999998764

>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=94.48  E-value=0.021  Score=52.05  Aligned_cols=25  Identities=24%  Similarity=0.138  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...+|+|+|.+|+||||++..+...
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~  121 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALY  121 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3679999999999999999998874

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.47  E-value=0.019  Score=53.96  Aligned_cols=23  Identities=35%  Similarity=0.521  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||++.++.-
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            58999999999999999999984

>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=94.46  E-value=0.026  Score=48.92  Aligned_cols=25  Identities=24%  Similarity=0.300  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +...|+|+|.+|+|||||.+.+...
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            4567999999999999999999875

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=94.45  E-value=0.031  Score=44.04  Aligned_cols=24  Identities=17%  Similarity=-0.003  Sum_probs=20.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..--|.|+|.+|+|||||.+.+.+
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~   44 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHL   44 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHc
Confidence            345578999999999999999964

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=94.43  E-value=0.02  Score=46.08  Aligned_cols=24  Identities=17%  Similarity=0.040  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
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            455789999999999999998764

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.42  E-value=0.019  Score=53.93  Aligned_cols=23  Identities=30%  Similarity=0.551  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||++.++.-
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            47999999999999999999973

>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=94.41  E-value=0.021  Score=46.17  Aligned_cols=24  Identities=29%  Similarity=0.350  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|..|+|||||++.+.+.
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            456789999999999999998864

>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=94.40  E-value=0.02  Score=49.64  Aligned_cols=31  Identities=26%  Similarity=0.379  Sum_probs=24.5

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHh
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      .++|.+.+.     -.+++++|..|+|||||.+.+.
T Consensus       156 i~~L~~~l~-----G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLE-----GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTT-----TCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhcc-----CcEEEEECCCCCCHHHHHHHHH
Confidence            355555543     2578999999999999999997

>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=94.40  E-value=0.025  Score=45.95  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            345679999999999999998765

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.38  E-value=0.022  Score=53.62  Aligned_cols=24  Identities=17%  Similarity=0.306  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .-.+++|+|..|+|||||++.+..
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~G   47 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAG   47 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            347999999999999999999987

>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=94.37  E-value=0.02  Score=52.18  Aligned_cols=21  Identities=24%  Similarity=0.544  Sum_probs=19.2

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+|+|..|+|||||++.++..
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            499999999999999999874

>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=94.36  E-value=0.045  Score=46.74  Aligned_cols=37  Identities=14%  Similarity=0.091  Sum_probs=27.9

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          170 KELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       170 ~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-+..||....++.+-|-++|++|.|||+||..|.+.
T Consensus        91 ~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            3456666544344566889999999999999999873

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.35  E-value=0.045  Score=45.02  Aligned_cols=51  Identities=20%  Similarity=0.206  Sum_probs=32.8

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHHH
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNII  233 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~Il  233 (265)
                      .-.++-|.|.+|+||||||.++.-+. ....-..+++++-+.+...+.+.+.
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~-~~~~~~~v~~~s~E~~~~~~~~~~~   79 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKG-AEEYGEPGVFVTLEERARDLRREMA   79 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHH-HHHHCCCEEEEESSSCHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-HHhcCCCceeecccCCHHHHHHHHH
Confidence            34678899999999999998865421 2222345666663345566655543

>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=94.34  E-value=0.022  Score=50.71  Aligned_cols=23  Identities=17%  Similarity=0.313  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||++.+...
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

>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=94.33  E-value=0.023  Score=45.57  Aligned_cols=23  Identities=17%  Similarity=0.173  Sum_probs=19.5

Q ss_pred             EEEEEE-cCCCCChhHHHHHHhhc
Q 038685          184 SVVAIV-GSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~Iv-G~gGvGKTTLa~~vy~~  206 (265)
                      ++|+|+ +-||+||||+|-.+-..
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~   25 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATA   25 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHH
Confidence            688998 67999999999888763

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.27  E-value=0.022  Score=53.50  Aligned_cols=23  Identities=30%  Similarity=0.248  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999987

>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=94.21  E-value=0.024  Score=46.43  Aligned_cols=23  Identities=22%  Similarity=0.320  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..-|.|+|.+|+|||||.+.+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45688999999999999999864

>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=94.20  E-value=0.024  Score=52.48  Aligned_cols=22  Identities=18%  Similarity=0.223  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+++|+|..|+|||||++.+..
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            8999999999999999999976

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=94.20  E-value=0.023  Score=51.99  Aligned_cols=24  Identities=17%  Similarity=0.160  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.|.+-
T Consensus       157 Gq~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          157 GQRMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999985

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.14  E-value=0.026  Score=47.19  Aligned_cols=24  Identities=17%  Similarity=0.131  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.-+||.|++|+||||+|+.+.+.
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~~   31 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKEK   31 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHHH
Confidence            346799999999999999998763

>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=94.12  E-value=0.025  Score=53.99  Aligned_cols=23  Identities=35%  Similarity=0.521  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||++.+..-
T Consensus       383 ei~~i~G~NGsGKSTLlk~l~Gl  405 (607)
T 3bk7_A          383 EVIGIVGPNGIGKTTFVKMLAGV  405 (607)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999974

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=94.12  E-value=0.022  Score=48.40  Aligned_cols=23  Identities=22%  Similarity=0.456  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|+|+|.+|+|||||...++..
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~~   31 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFLT   31 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            34789999999999999997753

>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=94.11  E-value=0.031  Score=46.80  Aligned_cols=26  Identities=19%  Similarity=0.258  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ...-|+|+|.+|+|||||...+....
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            35678999999999999999997643

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=94.10  E-value=0.018  Score=54.84  Aligned_cols=47  Identities=21%  Similarity=0.181  Sum_probs=32.5

Q ss_pred             CcccccHHHHHHHHHHHhcCCCC---------eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPS---------LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~---------~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.++|.+..+..+.-.|..+...         -.-|-++|.+|+|||+||+.+.+.
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~  350 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRV  350 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTT
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHh
Confidence            46788877666665545444210         014679999999999999999874

>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=94.09  E-value=0.038  Score=48.99  Aligned_cols=37  Identities=22%  Similarity=0.083  Sum_probs=27.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      .-.++.|+|.+|+||||||..+......  .=..++|++
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~--~g~~vlyi~   96 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQA--AGGIAAFID   96 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH--TTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh--CCCeEEEEE
Confidence            4578999999999999999998764221  113466776

>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=94.08  E-value=0.099  Score=45.85  Aligned_cols=39  Identities=13%  Similarity=0.008  Sum_probs=29.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhccccccc--CCeeEEEe--CCCCH
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSNYMKNY--FYCRAWVG--CEYYL  225 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~~v~~~--F~~~~wV~--~~~~~  225 (265)
                      ++-|+|.+|+|||||+-.+.....  ..  =..++||.  ..++.
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~--~~g~g~~vlyId~E~s~~~   72 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYM--RQYPDAVCLFYDSEFGITP   72 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHH--HHCTTCEEEEEESSCCCCH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH--hcCCCceEEEEeccchhhH
Confidence            789999999999999888776422  22  24678888  55554

>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=94.05  E-value=0.028  Score=48.68  Aligned_cols=33  Identities=21%  Similarity=0.325  Sum_probs=25.4

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++..++.     -.+++|+|..|+|||||.+.+...
T Consensus       160 v~~lf~~l~-----geiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          160 IEELKEYLK-----GKISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             HHHHHHHHS-----SSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HHHHHHHhc-----CCeEEEECCCCCcHHHHHHHhccc
Confidence            345555553     247899999999999999999864

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=94.04  E-value=0.08  Score=48.46  Aligned_cols=51  Identities=14%  Similarity=0.082  Sum_probs=35.7

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHHH
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNII  233 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~Il  233 (265)
                      .-.++.|.|.+|+|||||+..+..+.... .=..++|++-+.+...+...++
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~~~~-~g~~Vl~~s~E~s~~~l~~r~~  252 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNVATK-TNENVAIFSLEMSAQQLVMRML  252 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHHHHH-SSCCEEEEESSSCHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHh-CCCcEEEEECCCCHHHHHHHHH
Confidence            35688999999999999999998853322 1135777773445566666654

>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=94.02  E-value=0.029  Score=50.79  Aligned_cols=23  Identities=22%  Similarity=0.443  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|.|+.|+||||||..+...
T Consensus         3 ~~i~i~GptgsGKttla~~La~~   25 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQK   25 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHH
Confidence            58999999999999999998763

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.01  E-value=0.046  Score=51.95  Aligned_cols=24  Identities=29%  Similarity=0.310  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .-.+++|+|..|.|||||++.+..
T Consensus       380 ~G~~~~ivG~sGsGKSTll~~l~g  403 (598)
T 3qf4_B          380 PGQKVALVGPTGSGKTTIVNLLMR  403 (598)
T ss_dssp             TTCEEEEECCTTSSTTHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            346899999999999999999986

>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=94.01  E-value=0.033  Score=45.57  Aligned_cols=24  Identities=13%  Similarity=-0.006  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ...+|+|+||.|+||+|+|..+-+
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~   33 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQS   33 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHH
Confidence            357999999999999999999866

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=93.99  E-value=0.029  Score=45.73  Aligned_cols=24  Identities=21%  Similarity=0.427  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||++.+.+.
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            456799999999999999998764

>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=93.98  E-value=0.092  Score=42.81  Aligned_cols=24  Identities=25%  Similarity=0.418  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ..|+|-|.-|+||||+++.+.+.-
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L   26 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRL   26 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            468999999999999999999853

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=93.97  E-value=0.028  Score=53.67  Aligned_cols=23  Identities=17%  Similarity=0.329  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||++.+..-
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            57999999999999999999873

>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=93.94  E-value=0.024  Score=50.47  Aligned_cols=22  Identities=23%  Similarity=0.519  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|+|+|..|+|||||++.++..
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            3589999999999999998764

>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=93.92  E-value=0.07  Score=44.62  Aligned_cols=37  Identities=14%  Similarity=0.026  Sum_probs=27.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      -.+|.|.|..|+||||+++.+.+.-. ...+.+.+...
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~-~~~~~~~~~~r   63 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQ-QNGIDHITRTR   63 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHH-HTTCCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-hcCCCeeeeec
Confidence            46899999999999999999988533 23455444433

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.91  E-value=0.02  Score=54.05  Aligned_cols=24  Identities=25%  Similarity=0.144  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|+|+|+.|+|||||++.+...
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCChHHHHHHHHHHh
Confidence            478999999999999999999874

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=93.90  E-value=0.029  Score=53.53  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||.+.+..
T Consensus       103 Gei~~LvGpNGaGKSTLLkiL~G  125 (608)
T 3j16_B          103 GQVLGLVGTNGIGKSTALKILAG  125 (608)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            46899999999999999999986

>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=93.88  E-value=0.027  Score=48.55  Aligned_cols=26  Identities=19%  Similarity=0.258  Sum_probs=23.1

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+..|+|+|..|+|||||...+...
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~   47 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGR   47 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTS
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCC
Confidence            45778999999999999999999775

>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=93.86  E-value=0.03  Score=50.00  Aligned_cols=26  Identities=19%  Similarity=0.261  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .+.+|+|+|.+|+|||||.+.+.+..
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            46789999999999999999998753

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=93.84  E-value=0.14  Score=45.21  Aligned_cols=52  Identities=15%  Similarity=-0.042  Sum_probs=37.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHHHHH
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKS  235 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~Il~~  235 (265)
                      .-.++-|.|.+|+||||||..+..+...  +=..++|++-+-+...+...++..
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~a~--~g~~Vl~fSlEms~~ql~~Rlls~   96 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSALN--DDRGVAVFSLEMSAEQLALRALSD   96 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHH--TTCEEEEEESSSCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEeCCCCHHHHHHHHHHH
Confidence            3468889999999999999999875433  114567777445566777666554

>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=93.83  E-value=0.036  Score=51.89  Aligned_cols=24  Identities=25%  Similarity=0.259  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ...+|-++|++|.||||+|+.+..
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~   57 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTR   57 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999865

>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=93.79  E-value=0.052  Score=48.28  Aligned_cols=37  Identities=16%  Similarity=0.065  Sum_probs=27.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      .-.++-|.|.+|+||||||..+......  .=..++|++
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~--~g~~vlyid   98 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQR--EGKTCAFID   98 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHH--TTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEe
Confidence            4568899999999999999988764321  123567777

>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=93.79  E-value=0.04  Score=45.33  Aligned_cols=24  Identities=17%  Similarity=0.083  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -..|.|-|..|+||||+++.+.+.
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~   29 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAER   29 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999875

>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=93.77  E-value=0.058  Score=49.40  Aligned_cols=44  Identities=16%  Similarity=0.199  Sum_probs=29.5

Q ss_pred             CcccccHHHHHHHHHHH----hcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLL----IVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L----~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+-+......+.+..+    ..++   ..+-|.|.+|+||||++..+...
T Consensus        21 ~~~~~Ln~~Q~~av~~~~~~i~~~~---~~~li~G~aGTGKT~ll~~~~~~   68 (459)
T 3upu_A           21 MTFDDLTEGQKNAFNIVMKAIKEKK---HHVTINGPAGTGATTLTKFIIEA   68 (459)
T ss_dssp             CCSSCCCHHHHHHHHHHHHHHHSSS---CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CccccCCHHHHHHHHHHHHHHhcCC---CEEEEEeCCCCCHHHHHHHHHHH
Confidence            33444544444444433    3323   38889999999999999998874

>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=93.74  E-value=0.032  Score=53.27  Aligned_cols=23  Identities=35%  Similarity=0.263  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
T Consensus       117 Ge~~~LiG~NGsGKSTLlkiL~G  139 (607)
T 3bk7_A          117 GMVVGIVGPNGTGKTTAVKILAG  139 (607)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhC
Confidence            46899999999999999999987

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.73  E-value=0.16  Score=46.35  Aligned_cols=58  Identities=16%  Similarity=-0.054  Sum_probs=39.5

Q ss_pred             cCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHHHHHh
Q 038685          178 VGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKSV  236 (265)
Q Consensus       178 ~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~Il~~l  236 (265)
                      .+=..-.++-|.|.+|+||||||..+..+.... +=..++|++-+-+...+...++...
T Consensus       195 gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~-~g~~vl~~slE~~~~~l~~R~~~~~  252 (444)
T 2q6t_A          195 GTLGPGSLNIIAARPAMGKTAFALTIAQNAALK-EGVGVGIYSLEMPAAQLTLRMMCSE  252 (444)
T ss_dssp             CCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSSCHHHHHHHHHHHH
T ss_pred             CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCeEEEEECCCCHHHHHHHHHHHH
Confidence            443345688899999999999999988753321 1135778873355667777766543

>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=93.72  E-value=0.039  Score=47.10  Aligned_cols=24  Identities=17%  Similarity=0.285  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|+++|.+|+|||||.+.+...
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            456899999999999999999874

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=93.72  E-value=0.018  Score=46.73  Aligned_cols=26  Identities=19%  Similarity=0.162  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ....|+|+|..|+|||||.+.+.+..
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            45678999999999999999998864

>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=93.70  E-value=0.042  Score=46.44  Aligned_cols=24  Identities=21%  Similarity=0.302  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|+++|.+|+|||||...+...
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            456899999999999999999874

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=93.69  E-value=0.044  Score=42.26  Aligned_cols=22  Identities=18%  Similarity=0.324  Sum_probs=19.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      ..+..|+|..|.|||||...|+
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            3578899999999999999886

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=93.68  E-value=0.015  Score=46.42  Aligned_cols=23  Identities=22%  Similarity=0.270  Sum_probs=4.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|.+|+|||||.+.+.+.
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            46789999999999999988765

>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=93.66  E-value=0.036  Score=46.82  Aligned_cols=23  Identities=17%  Similarity=0.284  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.|+++|.+|+|||||.+.+...
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            46899999999999999999875

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=93.66  E-value=0.036  Score=45.05  Aligned_cols=24  Identities=17%  Similarity=0.012  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+|+|.|+.|+||||+++.+-..
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~~   29 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAEH   29 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHH
Confidence            358999999999999999998774

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=93.66  E-value=0.032  Score=52.87  Aligned_cols=23  Identities=35%  Similarity=0.342  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
T Consensus       369 G~~~~ivG~sGsGKSTLl~~l~g  391 (582)
T 3b60_A          369 GKTVALVGRSGSGKSTIASLITR  391 (582)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhh
Confidence            46899999999999999999986

>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=93.61  E-value=0.037  Score=45.48  Aligned_cols=22  Identities=14%  Similarity=0.212  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|-+|||||+|+....++
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            3579999999999999987654

>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=93.61  E-value=0.047  Score=48.64  Aligned_cols=25  Identities=20%  Similarity=0.193  Sum_probs=21.6

Q ss_pred             CCeEEEEEEc-CCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVG-SSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG-~gGvGKTTLa~~vy~  205 (265)
                      ...++|+|+| -||+||||+|-.+-.
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~  166 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAI  166 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHH
Confidence            4689999996 899999999988765

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.59  E-value=0.035  Score=46.22  Aligned_cols=24  Identities=17%  Similarity=0.094  Sum_probs=18.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -..|.|-|+.|+||||+++.+.+.
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~   48 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDR   48 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999985

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=93.59  E-value=0.038  Score=45.00  Aligned_cols=22  Identities=18%  Similarity=0.150  Sum_probs=18.5

Q ss_pred             EEEEE-cCCCCChhHHHHHHhhc
Q 038685          185 VVAIV-GSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~Iv-G~gGvGKTTLa~~vy~~  206 (265)
                      +|+|+ +-||+||||++-.+-.-
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~   24 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAY   24 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHH
Confidence            67776 67999999999998764

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.58  E-value=0.05  Score=45.12  Aligned_cols=26  Identities=15%  Similarity=0.023  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ....|.|.|..|+||||+++.+.+.-
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l   45 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYL   45 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999999999853

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=93.57  E-value=0.035  Score=52.59  Aligned_cols=23  Identities=35%  Similarity=0.320  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|.|||||++.+..
T Consensus       369 G~~~~ivG~sGsGKSTll~~l~g  391 (582)
T 3b5x_A          369 GKTVALVGRSGSGKSTIANLFTR  391 (582)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999976

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=93.56  E-value=0.039  Score=48.85  Aligned_cols=26  Identities=15%  Similarity=0.245  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .....|+|+|.+|+|||||.+.+...
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            34678999999999999999999874

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=93.55  E-value=0.05  Score=44.50  Aligned_cols=23  Identities=35%  Similarity=0.319  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..|.|.|..|+||||||..+...
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            56889999999999999998764

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=93.52  E-value=0.038  Score=46.02  Aligned_cols=22  Identities=23%  Similarity=0.114  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|-+.|.||+||||+|-.+-..
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~   29 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHA   29 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            3668899999999998877764

>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=93.51  E-value=0.018  Score=46.61  Aligned_cols=24  Identities=17%  Similarity=0.451  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|..|+|||||.+.+.+.
T Consensus        11 ~~ki~vvG~~~~GKSsli~~l~~~   34 (218)
T 4djt_A           11 TYKICLIGDGGVGKTTYINRVLDG   34 (218)
T ss_dssp             EEEEEEECCTTSSHHHHHCBCTTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999998853

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=93.50  E-value=0.049  Score=51.68  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
T Consensus       369 Ge~~~ivG~sGsGKSTll~~l~g  391 (587)
T 3qf4_A          369 GSLVAVLGETGSGKSTLMNLIPR  391 (587)
T ss_dssp             TCEEEEECSSSSSHHHHHHTTTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999986

>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=93.46  E-value=0.045  Score=50.37  Aligned_cols=24  Identities=17%  Similarity=0.180  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+|-++|++|+||||+++.+...
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            467889999999999999998764

>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=93.45  E-value=0.026  Score=46.56  Aligned_cols=22  Identities=27%  Similarity=0.374  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|+|.|-||+||||+|-.+-..
T Consensus         2 kI~vs~kGGvGKTt~a~~LA~~   23 (254)
T 3kjh_A            2 KLAVAGKGGVGKTTVAAGLIKI   23 (254)
T ss_dssp             EEEEECSSSHHHHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHHH
Confidence            3778999999999999998764

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=93.39  E-value=0.089  Score=44.72  Aligned_cols=26  Identities=19%  Similarity=0.309  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ...-|+|+|.+|+|||||...+....
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            46689999999999999999998753

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=93.37  E-value=0.085  Score=48.86  Aligned_cols=52  Identities=17%  Similarity=0.075  Sum_probs=39.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe---CCCCHHHHHHHHHHH
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG---CEYYLHKVLDNIIKS  235 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~---~~~~~~~l~~~Il~~  235 (265)
                      -.-++|.|..|+|||+|++.+.++. .+.|-++++++-   +.-...++.+++.+.
T Consensus       165 Gqr~gIfgg~GvGKT~L~~~l~~~~-a~~~~~v~V~~~iGER~rEv~e~~~~~~~~  219 (498)
T 1fx0_B          165 GGKIGLFGGAGVGKTVLIMELINNI-AKAHGGVSVFGGVGERTREGNDLYMEMKES  219 (498)
T ss_dssp             TCCEEEEECSSSSHHHHHHHHHHHT-TTTCSSCEEEEEESCCSHHHHHHHHHHHHT
T ss_pred             CCeEEeecCCCCCchHHHHHHHHHH-HhhCCCEEEEEEcccCcHHHHHHHHhhhcc
Confidence            4567999999999999999988751 234557777776   455677888888764

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=93.36  E-value=0.022  Score=46.29  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=18.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      .--|.|+|.+|+|||||++.+.
T Consensus        15 ~~ki~v~G~~~~GKSsli~~~~   36 (221)
T 3gj0_A           15 QFKLVLVGDGGTGKTTFVKRHL   36 (221)
T ss_dssp             EEEEEEEECTTSSHHHHHTTBH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            4467899999999999999833

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=93.34  E-value=0.13  Score=46.99  Aligned_cols=52  Identities=15%  Similarity=0.084  Sum_probs=35.2

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHHHHH
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKS  235 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~Il~~  235 (265)
                      .-.++-|.|.+|+||||||..+..+...++  ..++|++-+-+...+...++..
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~a~~g--~~vl~fSlEms~~ql~~R~~~~  247 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLEMGKKENIKRLIVT  247 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHHHHTT--CEEEEECSSSCTTHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHHcC--CEEEEEECCCCHHHHHHHHHHH
Confidence            456888999999999999999987643332  3677787223444455555443

>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=93.34  E-value=0.016  Score=50.59  Aligned_cols=23  Identities=17%  Similarity=0.293  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|+|..|+|||||.+.+...
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CEEEEECCCCCCHHHHHHHhccc
Confidence            58899999999999999999763

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=93.34  E-value=0.079  Score=48.87  Aligned_cols=63  Identities=21%  Similarity=0.191  Sum_probs=43.1

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe---CCCCHHHHHHHHHHH
Q 038685          171 ELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG---CEYYLHKVLDNIIKS  235 (265)
Q Consensus       171 ~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~---~~~~~~~l~~~Il~~  235 (265)
                      +.++.|.-- .+-.-++|+|..|+|||||++.+.++. .+.|-++++++-   +.-...++.+++.+.
T Consensus       142 r~ID~l~pi-gkGQr~~Ifgg~G~GKT~L~~~i~~~~-~~~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          142 KVVDLLAPY-AKGGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             HHHHHHSCE-ETTCEEEEEECTTSSHHHHHHHHHHHT-TTTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEEeccccc-ccCCeeeeecCCCCChHHHHHHHHHhh-HhhCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            455655321 124578999999999999999987752 234446666665   445577888888765

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=93.29  E-value=0.045  Score=43.82  Aligned_cols=21  Identities=19%  Similarity=-0.031  Sum_probs=17.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      .++-|+|..|+||||++..+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~   24 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFV   24 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            467899999999999984443

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=93.28  E-value=0.051  Score=45.67  Aligned_cols=22  Identities=14%  Similarity=0.093  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+|+|.|+.|+||||+++.+-.
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            5899999999999999999876

>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=93.25  E-value=0.046  Score=45.94  Aligned_cols=28  Identities=14%  Similarity=-0.019  Sum_probs=21.6

Q ss_pred             CCeEEEEEE-cCCCCChhHHHHHHhhccc
Q 038685          181 PSLSVVAIV-GSSGFDKTDFAGEAYNSNY  208 (265)
Q Consensus       181 ~~~~VI~Iv-G~gGvGKTTLa~~vy~~~~  208 (265)
                      ...++|+|+ |-||+||||+|-.+-.--.
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la   53 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS   53 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH
Confidence            357899996 5699999999998877433

>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=92.36  E-value=0.016  Score=46.54  Aligned_cols=24  Identities=17%  Similarity=0.091  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .--|.|+|.+|+|||||.+.+.+.
T Consensus        30 ~~ki~v~G~~~~GKSsli~~l~~~   53 (204)
T 3th5_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
Confidence            445689999999999999877653

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=93.19  E-value=0.097  Score=47.60  Aligned_cols=45  Identities=11%  Similarity=0.245  Sum_probs=33.1

Q ss_pred             cccHHHHHHHHHHHhcC-----CCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          163 VGLEDEMKELLDLLIVG-----EPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       163 vG~e~~~~~l~~~L~~~-----~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .|.++-.+.+.+.+...     ++...-|+|+|.+|+|||||...+....
T Consensus       150 ~gv~~L~~~i~~~l~~~~~~~~~~~~~ki~lvG~~nvGKSSLin~l~~~~  199 (436)
T 2hjg_A          150 LGLGDLLDAVAEHFKNIPETKYNEEVIQFCLIGRPNVGKSSLVNAMLGEE  199 (436)
T ss_dssp             BTHHHHHHHHHHTGGGCCSSCCCTTCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CChHHHHHHHHHhcCccccccccccCcEEEEEcCCCCCHHHHHHHHhCCC
Confidence            35666666666666432     1245678999999999999999998754

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=93.15  E-value=0.044  Score=51.22  Aligned_cols=19  Identities=32%  Similarity=0.342  Sum_probs=0.0

Q ss_pred             EEEEEcCCCCChhHHHHHH
Q 038685          185 VVAIVGSSGFDKTDFAGEA  203 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~v  203 (265)
                      +++|+|..|+|||||++.+
T Consensus        41 ~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           41 STLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=93.12  E-value=0.045  Score=48.93  Aligned_cols=22  Identities=23%  Similarity=0.305  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|+|+|.+|+|||||.+.+.+.
T Consensus         3 ~v~IVG~pnvGKSTL~n~L~~~   24 (368)
T 2dby_A            3 AVGIVGLPNVGKSTLFNALTRA   24 (368)
T ss_dssp             SEEEECCSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3799999999999999998764

>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=93.11  E-value=0.096  Score=46.92  Aligned_cols=26  Identities=19%  Similarity=0.010  Sum_probs=21.6

Q ss_pred             CCCeEEEEEE-cCCCCChhHHHHHHhh
Q 038685          180 EPSLSVVAIV-GSSGFDKTDFAGEAYN  205 (265)
Q Consensus       180 ~~~~~VI~Iv-G~gGvGKTTLa~~vy~  205 (265)
                      ....++|+|+ |-||+||||+|-.+-.
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            3468899998 7799999999888765

>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=93.11  E-value=0.09  Score=49.93  Aligned_cols=33  Identities=24%  Similarity=0.217  Sum_probs=27.1

Q ss_pred             HHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          175 LLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       175 ~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .|..-+....+|+|+|.+|+||+||...+....
T Consensus        30 ~L~~i~~~~~~VaivG~pnvGKStLiN~L~g~~   62 (592)
T 1f5n_A           30 ILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKK   62 (592)
T ss_dssp             HHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             HHHhccCCCcEEEEECCCCCCHHHHHHhHcCCC
Confidence            344445568999999999999999999998753

>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=93.10  E-value=0.045  Score=49.34  Aligned_cols=25  Identities=24%  Similarity=0.227  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-..|+|+|.+|+|||||.+.+...
T Consensus        19 ~g~~vgiVG~pnaGKSTL~n~Ltg~   43 (392)
T 1ni3_A           19 NNLKTGIVGMPNVGKSTFFRAITKS   43 (392)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
Confidence            3468899999999999999999873

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=93.09  E-value=0.047  Score=47.27  Aligned_cols=23  Identities=22%  Similarity=0.407  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-|.++|.+|+|||||.+.+++.
T Consensus         4 ~KI~lvG~~~vGKSSLi~~l~~~   26 (307)
T 3r7w_A            4 SKLLLMGRSGSGKSSMRSIIFSN   26 (307)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998765

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=93.06  E-value=0.062  Score=49.57  Aligned_cols=50  Identities=12%  Similarity=0.098  Sum_probs=33.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe---CCCCHHHHHHHHHH
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG---CEYYLHKVLDNIIK  234 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~---~~~~~~~l~~~Il~  234 (265)
                      ..++|+|..|+|||||++.+..+.... +-++++++-   ++-...++..++.+
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~-~~~i~V~~~iGerttev~el~~~l~~  204 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQE-HGGISVFAGVGERTREGNDLYHEMKD  204 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHH-TCCCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhc-cCcEEEEeeeccCchHHHHHHHHhhh
Confidence            358899999999999999998753222 224455555   33345666666654

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=93.02  E-value=0.047  Score=50.95  Aligned_cols=23  Identities=17%  Similarity=0.072  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..|+|+|..|+|||||++.+..-
T Consensus       261 ~~i~I~GptGSGKTTlL~aL~~~  283 (511)
T 2oap_1          261 FSAIVVGETASGKTTTLNAIMMF  283 (511)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            35899999999999999999873

>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=92.98  E-value=0.059  Score=44.79  Aligned_cols=23  Identities=13%  Similarity=0.281  Sum_probs=18.9

Q ss_pred             EEEEEEc-CCCCChhHHHHHHhhc
Q 038685          184 SVVAIVG-SSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG-~gGvGKTTLa~~vy~~  206 (265)
                      ++|+|+| -||+||||+|-.+-.-
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~~   26 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIATG   26 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHH
Confidence            6788865 5899999999988763

---

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	265
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-05

>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 = 43.3 bits (101), Expect = 1e-05
 Identities = 10/85 (11%), Positives = 26/85 (30%), Gaps = 5/85 (5%)

Query: 158 KKRNIVGLEDEMKELLDLLI-VGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYM--KNYFY 214
           K+      E  +  ++  L  + +     + + G +G  K+  A +A + +       + 
Sbjct: 18  KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYD 77

Query: 215 CRAWV--GCEYYLHKVLDNIIKSVM 237
              W+                  +M
Sbjct: 78  SIVWLKDSGTAPKSTFDLFTDILLM 102

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	265
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.63
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.44
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.11
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.01
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.73
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.72
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.72
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.72
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.69
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.67
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.67
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.64
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.63
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.61
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.58
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.57
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.5
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.44
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.42
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.41
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.34
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.31
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.26
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.26
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.25
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.24
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.24
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.23
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.22
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.2
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.17
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.1
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.1
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.09
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.07
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.06
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.05
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.03
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.98
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.98
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.94
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.89
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.89
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.88
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.87
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.83
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.82
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.8
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.79
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.78
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.73
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.71
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.67
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.63
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.58
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.56
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.55
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.54
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.51
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.5
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.48
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.42
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.41
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.41
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.4
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.39
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.38
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.36
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.36
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.36
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.33
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.26
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.24
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.24
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.23
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.22
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.2
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.2
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.19
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.19
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.17
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.14
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.14
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.14
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.12
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.1
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.06
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.05
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.04
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.03
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.02
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.02
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.98
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.97
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.95
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.94
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.93
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.91
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.91
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.9
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.88
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.85
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.82
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.82
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.79
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.79
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.77
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.76
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.76
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.75
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.75
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.72
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	95.71
d1okkd2	207	GTPase domain of the signal recognition particle r	95.7
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.67
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	95.66
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.63
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.62
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.62
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.62
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.6
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.6
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.59
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	95.58
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.57
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.56
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.55
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	95.54
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.53
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.53
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.53
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.51
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.5
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.49
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.49
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.48
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.48
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	95.46
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.45
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.43
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.42
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.42
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	95.42
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	95.42
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.41
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.4
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.39
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.39
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.38
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.37
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.36
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.36
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.35
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.35
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.32
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.32
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.3
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.29
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.29
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.27
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.25
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.24
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.22
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.19
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	95.14
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.11
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	95.05
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.03
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.02
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.02
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.0
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.94
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	94.91
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.9
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.88
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.87
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.86
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	94.86
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	94.85
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	94.85
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	94.84
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.83
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.83
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.82
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.78
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.66
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	94.64
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	94.6
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.54
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.53
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	94.51
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.44
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.41
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	94.29
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.14
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.08
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	94.06
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.05
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	93.93
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	93.85
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	93.85
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	93.84
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	93.83
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	93.79
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	93.66
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	93.52
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	93.48
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	93.39
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.31
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.3
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	93.24
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.14
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	93.12
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	92.86
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.39
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	92.35
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	92.07
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.05
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.93
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	91.8
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	91.71
d1xpua3	289	Transcription termination factor Rho, ATPase domai	91.63
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	91.61
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	91.4
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	91.33
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	90.84
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.51
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	90.24
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	90.18
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	90.16
d1tuea_	205	Replication protein E1 helicase domain {Human papi	90.12
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	90.01
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	89.84
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	89.8
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	89.67
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	89.61
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	89.6
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	88.9
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	88.54
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	88.31
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	88.08
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	87.58
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	87.38
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	87.23
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	86.79
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	85.85
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	85.45
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	85.02
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	84.59
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	84.27
d1o5za2	296	Folylpolyglutamate synthetase {Thermotoga maritima	82.46
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	80.86
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	80.68
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	80.39
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	80.18

>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=99.63  E-value=7.7e-16  Score=132.09  Aligned_cols=77  Identities=12%  Similarity=-0.000  Sum_probs=64.8

Q ss_pred             CCCcccccHHHHHHHHHHHhc-CCCCeEEEEEEcCCCCChhHHHHHHhhccc--ccccCCeeEEEe--CCCCHHHHHHHH
Q 038685          158 KKRNIVGLEDEMKELLDLLIV-GEPSLSVVAIVGSSGFDKTDFAGEAYNSNY--MKNYFYCRAWVG--CEYYLHKVLDNI  232 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~-~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~--v~~~F~~~~wV~--~~~~~~~l~~~I  232 (265)
                      .++.++||+.++++|+++|.. .+....+|+|+||||+||||||+.+|++..  .+.+|++++||+  +.++...+...+
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~   97 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFT   97 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHH
Confidence            446789999999999999975 455689999999999999999999999754  778899999999  777777666555


Q ss_pred             HH
Q 038685          233 IK  234 (265)
Q Consensus       233 l~  234 (265)
                      ..
T Consensus        98 ~~   99 (277)
T d2a5yb3          98 DI   99 (277)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=98.44  E-value=5.9e-07  Score=73.97  Aligned_cols=81  Identities=14%  Similarity=0.086  Sum_probs=59.8

Q ss_pred             CCcccccHHHHHHHHHHHhc----CCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCCCHHHHHHHH
Q 038685          159 KRNIVGLEDEMKELLDLLIV----GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEYYLHKVLDNI  232 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~~----~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~~~~~l~~~I  232 (265)
                      +..++||+.+.+.|.++|..    .......+-|+|++|+||||+|+.+.+.-.-...|. .+|+.  .......+...+
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTAR-FVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCE-EEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCc-EEEecchhhhhhhhhhhhh
Confidence            35689999999999998853    234567888999999999999999998533222222 34555  556778888888


Q ss_pred             HHHhCCCC
Q 038685          233 IKSVMPRS  240 (265)
Q Consensus       233 l~~l~~~~  240 (265)
                      ...+....
T Consensus        94 ~~~~~~~~  101 (276)
T d1fnna2          94 ARSLNIPF  101 (276)
T ss_dssp             HHHTTCCC
T ss_pred             HHhhhhhh
Confidence            88876543

>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=98.11  E-value=2.1e-06  Score=70.54  Aligned_cols=43  Identities=16%  Similarity=0.304  Sum_probs=36.0

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          158 KKRNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++++||+++.+.|.+.    .  .++|.|+|++|+|||||++.+.+.
T Consensus        10 ~~~~f~GR~~el~~l~~~----~--~~~i~i~G~~G~GKTsLl~~~~~~   52 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL----R--APITLVLGLRRTGKSSIIKIGINE   52 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT----C--SSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             ChhhCCChHHHHHHHHhc----c--CCEEEEEcCCCCcHHHHHHHHHHH
Confidence            357899999999888662    2  467889999999999999998874

>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=98.01  E-value=1.4e-05  Score=65.83  Aligned_cols=83  Identities=16%  Similarity=0.114  Sum_probs=56.6

Q ss_pred             CCCcccccHHHHHHHHHHHhc----CC---CCeEEEEEEcCCCCChhHHHHHHhhcccc----cccCCeeEEEe--CCCC
Q 038685          158 KKRNIVGLEDEMKELLDLLIV----GE---PSLSVVAIVGSSGFDKTDFAGEAYNSNYM----KNYFYCRAWVG--CEYY  224 (265)
Q Consensus       158 ~~~~~vG~e~~~~~l~~~L~~----~~---~~~~VI~IvG~gGvGKTTLa~~vy~~~~v----~~~F~~~~wV~--~~~~  224 (265)
                      .++.++||+.+.+.|.++|..    +.   +...++.++|++|+||||+++.+.+.-.-    .......+++.  ...+
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   93 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   93 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccc
Confidence            446899999999999887732    22   12335677899999999999999985311    11113345555  5556


Q ss_pred             HHHHHHHHHHHhCCCC
Q 038685          225 LHKVLDNIIKSVMPRS  240 (265)
Q Consensus       225 ~~~l~~~Il~~l~~~~  240 (265)
                      ...+...+...+....
T Consensus        94 ~~~~~~~~~~~~~~~~  109 (287)
T d1w5sa2          94 LYTILSLIVRQTGYPI  109 (287)
T ss_dssp             HHHHHHHHHHHHTCCC
T ss_pred             hhhHHHHHhhhccccc
Confidence            7777777777776644

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.73  E-value=1.1e-05  Score=65.61  Aligned_cols=47  Identities=26%  Similarity=0.290  Sum_probs=37.6

Q ss_pred             CcccccHHHHHHHHHHHhcC---CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVG---EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~---~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++||-+..++.|..|+...   .....-+-++|++|+||||||+.+.+.
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhc
Confidence            68999999999999888532   222344569999999999999999884

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.72  E-value=1.8e-05  Score=64.00  Aligned_cols=45  Identities=27%  Similarity=0.336  Sum_probs=38.6

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|-+..++.|..|+..+.  ..-+-++|++|+||||||+.+.+.
T Consensus        24 ~diig~~~~~~~l~~~i~~~~--~~~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTGS--MPHLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC--CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCcHHHHHHHHHHH
Confidence            689999999999999997764  444669999999999999998763

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.72  E-value=1.4e-05  Score=64.98  Aligned_cols=73  Identities=16%  Similarity=0.105  Sum_probs=49.0

Q ss_pred             CcccccHHHHHHHHHHHhcC---CCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCHHHHHHHHHHH
Q 038685          160 RNIVGLEDEMKELLDLLIVG---EPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYLHKVLDNIIKS  235 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~---~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~~~l~~~Il~~  235 (265)
                      +++||-++.+++|..++...   ...+.-+-++|++|+||||||+.+.+...     ....+++ ............+..
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~-----~~~~~~~~~~~~~~~~~~~~~~~   83 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG-----VNLRVTSGPAIEKPGDLAAILAN   83 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHT-----CCEEEEETTTCCSHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhC-----CCeEeccCCccccchhhHHHHHh
Confidence            68999999999998888532   22344455899999999999999998422     2235555 444444444444444


Q ss_pred             hC
Q 038685          236 VM  237 (265)
Q Consensus       236 l~  237 (265)
                      ..
T Consensus        84 ~~   85 (239)
T d1ixsb2          84 SL   85 (239)
T ss_dssp             TC
T ss_pred             hc
Confidence            43

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.72  E-value=1.7e-05  Score=64.74  Aligned_cols=70  Identities=17%  Similarity=0.171  Sum_probs=48.8

Q ss_pred             CcccccHHHHHHHHHHHhc---------------CCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCC
Q 038685          160 RNIVGLEDEMKELLDLLIV---------------GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEY  223 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~---------------~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~  223 (265)
                      .+++|-+..+++|.+||..               +....+.+-++|++|+||||+|+.+.+...     -...++. ...
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~-----~~~~~~~~~~~   88 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG-----YDILEQNASDV   88 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT-----CEEEEECTTSC
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHH-----hhhhccccccc
Confidence            6899999999999999853               123456788999999999999999998422     1234555 444


Q ss_pred             CHHHHHHHHHH
Q 038685          224 YLHKVLDNIIK  234 (265)
Q Consensus       224 ~~~~l~~~Il~  234 (265)
                      .....+...++
T Consensus        89 ~~~~~~~~~~~   99 (253)
T d1sxja2          89 RSKTLLNAGVK   99 (253)
T ss_dssp             CCHHHHHHTGG
T ss_pred             hhhHHHHHHHH
Confidence            43444444443

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.69  E-value=2e-05  Score=62.57  Aligned_cols=76  Identities=13%  Similarity=0.243  Sum_probs=53.1

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc---cc-cccCCeeEEEe--------CCC--CH
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN---YM-KNYFYCRAWVG--------CEY--YL  225 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~---~v-~~~F~~~~wV~--------~~~--~~  225 (265)
                      +.++||+++.++++..|.....  +-+-+||.+|+|||+|+..+...-   ++ ....+.++|.-        ..+  ..
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k--~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~   99 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTK--NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEF   99 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSS--CEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhccCC--CCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHH
Confidence            5789999999999999976542  234599999999999987766532   22 23346777764        222  35


Q ss_pred             HHHHHHHHHHhC
Q 038685          226 HKVLDNIIKSVM  237 (265)
Q Consensus       226 ~~l~~~Il~~l~  237 (265)
                      ++-++.+++++.
T Consensus       100 E~rl~~il~e~~  111 (195)
T d1jbka_         100 EERLKGVLNDLA  111 (195)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            666777887763

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.67  E-value=1.1e-05  Score=65.74  Aligned_cols=46  Identities=17%  Similarity=0.078  Sum_probs=36.1

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.++.+..|..++..+.. ..-+-++|++|+||||+|+.+.+.
T Consensus        11 ~diig~~~~~~~L~~~~~~~~~-~~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPRD-LPHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTC-CCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCC-CCeEEEECCCCCCHHHHHHHHHHh
Confidence            6799998888888877755432 333459999999999999999774

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.67  E-value=0.00011  Score=61.08  Aligned_cols=103  Identities=16%  Similarity=0.164  Sum_probs=66.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc---cccc-cCCeeEEEe--------C--CCCH
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN---YMKN-YFYCRAWVG--------C--EYYL  225 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~---~v~~-~F~~~~wV~--------~--~~~~  225 (265)
                      +.++||+++.++++..|.... +.++ -+||.+|+|||+|+..+...-   .+-. ....++|.-        .  .-..
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~-k~n~-lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~   95 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRR-KNNP-LLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDF   95 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS-SCEE-EEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCH
T ss_pred             CcccChHHHHHHHHHHHhcCc-cCCc-EEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhH
Confidence            468999999999999997654 2344 499999999998887776531   2222 235667764        1  2357


Q ss_pred             HHHHHHHHHHhCCCCCCC---ccC-------ChHHhHHHHHHhhccccC
Q 038685          226 HKVLDNIIKSVMPRSMGS---EIM-------DKDYELKITTDTTRPDLH  264 (265)
Q Consensus       226 ~~l~~~Il~~l~~~~~~~---~~~-------~~~~~~~~~~d~lr~~~~  264 (265)
                      ..-++.|+..+....+..   +..       ...-.-.-+++.|+++|.
T Consensus        96 e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~  144 (268)
T d1r6bx2          96 EKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS  144 (268)
T ss_dssp             HHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS
T ss_pred             HHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh
Confidence            788899999986543211   000       001112347888888874

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.64  E-value=2.1e-05  Score=63.26  Aligned_cols=45  Identities=16%  Similarity=0.221  Sum_probs=37.9

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++||-++.++.|..|+..+.  +..+-++|++|+||||||+.+.+.
T Consensus        14 ~divg~~~~~~~L~~~i~~~~--~~~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChhHHHHHHHHH
Confidence            679999999999999997654  333559999999999999999874

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.63  E-value=2e-05  Score=63.44  Aligned_cols=45  Identities=22%  Similarity=0.316  Sum_probs=37.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++||-+..++.|..|+..+.  ..-+-++|++|+||||+|+.+.+.
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~--~~~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHcCC--CCeEEEECCCCCCchhhHHHHHHH
Confidence            689999999999999997764  333558999999999999988764

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.61  E-value=1.5e-05  Score=64.41  Aligned_cols=45  Identities=16%  Similarity=0.152  Sum_probs=37.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.|..|+..+.  ...+-++|++|+||||||+.+.+.
T Consensus        12 ~diig~~~~~~~l~~~i~~~~--~~~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSAN--LPHMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT--CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChHHHHHHHHHH
Confidence            579999999999999986554  344679999999999999999874

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.58  E-value=8.1e-05  Score=65.17  Aligned_cols=78  Identities=15%  Similarity=0.312  Sum_probs=53.1

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHH----HHHhhcccccccCCeeEEEe--------CCC--CH
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFA----GEAYNSNYMKNYFYCRAWVG--------CEY--YL  225 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa----~~vy~~~~v~~~F~~~~wV~--------~~~--~~  225 (265)
                      +.++||+.+..++++.|.....+ + +-+||.+|||||+|+    +.|.+..--....+.++|.-        ..+  ..
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~-n-~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~   99 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKN-N-PVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEF   99 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCC-C-CEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CH
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCC-C-CeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhH
Confidence            56899999999999999865322 2 247799999999976    55555422233456777775        222  56


Q ss_pred             HHHHHHHHHHhCCC
Q 038685          226 HKVLDNIIKSVMPR  239 (265)
Q Consensus       226 ~~l~~~Il~~l~~~  239 (265)
                      ..-++.|+.++...
T Consensus       100 e~r~~~i~~~~~~~  113 (387)
T d1qvra2         100 EERLKAVIQEVVQS  113 (387)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccC
Confidence            67778888887543

>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=97.57  E-value=1.5e-05  Score=60.63  Aligned_cols=23  Identities=22%  Similarity=0.262  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +.||+|+|..|+|||||++.+-+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46999999999999999999976

>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=97.50  E-value=2e-05  Score=60.40  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.|.|.|+.|+||||||+.+.+.
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999999999874

>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=97.44  E-value=3.3e-05  Score=57.81  Aligned_cols=23  Identities=22%  Similarity=0.417  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++|-|+|++|+||||||+.+..+
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999998653

>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=97.42  E-value=0.00011  Score=56.91  Aligned_cols=39  Identities=21%  Similarity=0.171  Sum_probs=28.7

Q ss_pred             HHHHHHHHHhcC-CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          168 EMKELLDLLIVG-EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       168 ~~~~l~~~L~~~-~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+.|......- ....-+|||.|..|+||||||+.+.+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~~   45 (198)
T d1rz3a_           6 RIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQT   45 (198)
T ss_dssp             HHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            344454444332 345779999999999999999999874

>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=97.41  E-value=3.7e-05  Score=58.26  Aligned_cols=22  Identities=18%  Similarity=0.267  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ++|.|.|++|+||||+|+.+..
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            6899999999999999999876

>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=97.34  E-value=3.5e-05  Score=57.68  Aligned_cols=23  Identities=17%  Similarity=0.277  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.|-+.|++|+||||+|+.+-+.
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46788899999999999999874

>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=97.31  E-value=6e-05  Score=57.41  Aligned_cols=25  Identities=12%  Similarity=-0.007  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +-.+|.++|++|+||||+|+.+...
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~   29 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVT   29 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999874

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.26  E-value=0.00015  Score=59.21  Aligned_cols=42  Identities=24%  Similarity=0.402  Sum_probs=30.7

Q ss_pred             cHHHHHHHHHHHhcC---CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          165 LEDEMKELLDLLIVG---EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       165 ~e~~~~~l~~~L~~~---~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++...+.+..|..+   ....+.|-++|++|+||||||+.+.+.
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          11 FENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             HHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            344445555556543   235677889999999999999999984

>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=97.26  E-value=6.2e-05  Score=57.11  Aligned_cols=23  Identities=22%  Similarity=0.385  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..|.|.|++|+||||+|+.+...
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            45779999999999999999763

>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=97.25  E-value=6.2e-05  Score=57.50  Aligned_cols=23  Identities=22%  Similarity=0.179  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +||+|+|..|+|||||+..+-..
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~   24 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAA   24 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHH
Confidence            68999999999999999998774

>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=97.24  E-value=7.8e-05  Score=58.31  Aligned_cols=26  Identities=19%  Similarity=0.259  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++.+|.|+|++|+||||+|+.+.++
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999999874

>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=97.24  E-value=5.3e-05  Score=57.85  Aligned_cols=24  Identities=25%  Similarity=0.279  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      +.|.|+|++|+|||||++.+....
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            468899999999999999999753

>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=97.23  E-value=6.9e-05  Score=57.43  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++|.|.|+.|+||||+++.+.+.
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~   24 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDN   24 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999764

>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=97.22  E-value=8.4e-05  Score=58.41  Aligned_cols=24  Identities=17%  Similarity=0.180  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.+|.++|.+|+||||||+.+...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~   25 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRY   25 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999999863

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.20  E-value=0.00011  Score=57.64  Aligned_cols=26  Identities=19%  Similarity=0.307  Sum_probs=23.8

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +...||.|.|++|+||||+|+.+..+
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999999874

>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=97.17  E-value=9.9e-05  Score=56.11  Aligned_cols=26  Identities=27%  Similarity=0.290  Sum_probs=22.5

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++...|.|.|++|+||||+|+.+.+.
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            44567899999999999999999874

>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=97.10  E-value=0.00031  Score=56.95  Aligned_cols=46  Identities=24%  Similarity=0.305  Sum_probs=37.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+++|-+..++.|..++..+. -...+-++|.+|+||||+|+.+.+.
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~   57 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKG   57 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHH
Confidence            689999999999999997653 2344569999999999999997653

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.10  E-value=0.00024  Score=58.44  Aligned_cols=47  Identities=17%  Similarity=0.264  Sum_probs=37.0

Q ss_pred             CcccccHHHHHHHHHHHh----c-------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLI----V-------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~----~-------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..+++|.+.+.    .       +-+..+-|-++|++|+|||+||+.+.+.
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHH
Confidence            578999999999988642    1       1123456779999999999999999984

>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=97.09  E-value=7.5e-05  Score=57.93  Aligned_cols=37  Identities=16%  Similarity=-0.089  Sum_probs=27.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      +-.+|-++|++|+||||+|+.+...  ....|....|+.
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~--l~~~~~~~~~~~   54 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEY--LVCHGIPCYTLD   54 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHH--HHHTTCCEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH--HHhcCCCccchh
Confidence            4578899999999999999999773  333344444443

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.07  E-value=0.00011  Score=56.10  Aligned_cols=21  Identities=24%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+|+|.+|+|||||++.|...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhc
Confidence            789999999999999999873

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.06  E-value=0.00017  Score=54.67  Aligned_cols=26  Identities=23%  Similarity=0.331  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...++|.|+|++|+||||+|+.+...
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999998774

>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=97.05  E-value=0.00014  Score=55.08  Aligned_cols=24  Identities=13%  Similarity=0.131  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++|.|.|.+|+||||+|+.+.+.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999884

>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=97.03  E-value=0.00015  Score=55.09  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -++|.|.|++|+||||+|+.+-+
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999876

>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=96.98  E-value=0.00031  Score=57.82  Aligned_cols=47  Identities=21%  Similarity=0.256  Sum_probs=36.1

Q ss_pred             CcccccHHHHHHHHHHH---hcC-------CCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLL---IVG-------EPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L---~~~-------~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..+++|.+.+   ...       -...+-|-++|++|+|||+||+.+.+.
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~   68 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE   68 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHH
Confidence            68999999998886543   221       123456779999999999999999984

>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=96.98  E-value=0.00016  Score=55.06  Aligned_cols=21  Identities=19%  Similarity=0.313  Sum_probs=19.0

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++||+|+||||+++.+..+
T Consensus         3 I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999999875

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.94  E-value=0.00019  Score=54.72  Aligned_cols=21  Identities=19%  Similarity=0.308  Sum_probs=18.1

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++||+|+||||+++.+.+.
T Consensus         4 IvliG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            346699999999999999874

>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=96.89  E-value=0.00061  Score=55.61  Aligned_cols=48  Identities=21%  Similarity=0.203  Sum_probs=35.0

Q ss_pred             CCcccccHHHHHHHHHHHh-------cCC-CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          159 KRNIVGLEDEMKELLDLLI-------VGE-PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       159 ~~~~vG~e~~~~~l~~~L~-------~~~-~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...++|..+..+.+++-+.       .+. ...+-|-++|++|+|||+||+.|.+.
T Consensus         8 ~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_           8 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhc
Confidence            3568887777776665442       111 23556779999999999999999984

>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=96.89  E-value=0.00027  Score=56.01  Aligned_cols=24  Identities=8%  Similarity=0.181  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +-||||.|..|+||||||+.+.+.
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~   25 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQL   25 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999998774

>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=96.88  E-value=0.00026  Score=54.64  Aligned_cols=26  Identities=38%  Similarity=0.478  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +...+|-++|++|+||||+|+.+...
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999999998763

>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=96.87  E-value=0.00079  Score=54.98  Aligned_cols=47  Identities=26%  Similarity=0.406  Sum_probs=35.6

Q ss_pred             CcccccHHHHHHHHHHH---hc-------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLL---IV-------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L---~~-------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.+..++.|.+.+   ..       +-...+-|-++|++|+|||+||+.+.+.
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHH
Confidence            57999999888765543   22       1223456789999999999999999984

>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=96.83  E-value=0.00031  Score=54.66  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+-+|||.|+.|+||||+|+.+-+
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999998743

>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=96.82  E-value=0.0003  Score=53.92  Aligned_cols=23  Identities=13%  Similarity=0.242  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++|.|.|+.|+||||+++.+...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~   24 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68899999999999999999764

>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=96.80  E-value=0.00032  Score=54.54  Aligned_cols=24  Identities=21%  Similarity=0.235  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.+|.|.|++|+||||+|+.+.+.
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~   24 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEK   24 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999999874

>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=96.79  E-value=0.00024  Score=54.35  Aligned_cols=22  Identities=23%  Similarity=0.314  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|-++|++|+||||+|+.+.+.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~   25 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARA   25 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4668899999999999999874

>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=96.78  E-value=0.0003  Score=55.58  Aligned_cols=41  Identities=15%  Similarity=0.111  Sum_probs=30.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHHHHH
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKS  235 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~Il~~  235 (265)
                      .||+|-|++|+||||+|+.+-++-      ....     .+.-+|++.++..
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~------gl~~-----iStGdLlR~~a~~   44 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEAL------QWHL-----LDSGAIYRVLALA   44 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH------TCEE-----EEHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh------CCcE-----ECHHHHHHHHHHH
Confidence            599999999999999999998853      2211     4566777766553

>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=96.73  E-value=0.00041  Score=58.59  Aligned_cols=47  Identities=21%  Similarity=0.304  Sum_probs=34.9

Q ss_pred             CcccccHHHHHHHHHHHhc------------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLIV------------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~------------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++|-++.++.+...+..            .....+-|-.+|++|+|||.||+.+.+.
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhc
Confidence            4688999888888665421            0113466678999999999999999874

>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=96.71  E-value=0.00086  Score=57.00  Aligned_cols=37  Identities=19%  Similarity=0.276  Sum_probs=29.7

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..+|++.+.....+..+|||.|++|+|||||...+..
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHH
Confidence            4455555555556789999999999999999998875

>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=96.67  E-value=0.00089  Score=57.00  Aligned_cols=37  Identities=19%  Similarity=0.198  Sum_probs=29.5

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..++++.|.....+..+|||.|.+|+|||||...+-.
T Consensus        40 ~~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          40 STQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             HHHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHH
Confidence            3456666655556799999999999999999998865

>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=96.63  E-value=0.00045  Score=54.72  Aligned_cols=23  Identities=22%  Similarity=0.159  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -+|+|-|++|+||||+|+.+-.+
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999874

>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=96.58  E-value=0.00059  Score=53.03  Aligned_cols=26  Identities=23%  Similarity=0.174  Sum_probs=22.9

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+..+|+|-|.-|+|||||++.+.++
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            45679999999999999999998764

>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=96.56  E-value=0.00054  Score=56.18  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.|+|+|-||+||||+|-.+-.-
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~   24 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSG   24 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHHHH
Confidence            68999999999999999887664

>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=96.55  E-value=0.00038  Score=57.51  Aligned_cols=47  Identities=34%  Similarity=0.380  Sum_probs=35.5

Q ss_pred             CcccccHHHHHHHHHHHh----c-------CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          160 RNIVGLEDEMKELLDLLI----V-------GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~----~-------~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++++|.++.+++|.+.+.    .       +-+..+-|-++|++|+|||+||+.+.+.
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHH
Confidence            568888888777776552    1       2233556779999999999999999884

>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=96.54  E-value=0.00071  Score=52.40  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=20.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..++| |+|++|+||||+|+.+...
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~   26 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKN   26 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHH
Confidence            45666 8899999999999999863

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.51  E-value=0.00058  Score=52.25  Aligned_cols=21  Identities=19%  Similarity=0.268  Sum_probs=19.0

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|.|++|+||||+|+.+...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAA   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            679999999999999999763

>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=96.50  E-value=0.00048  Score=53.43  Aligned_cols=24  Identities=17%  Similarity=-0.003  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +..|.|.|++|+||||+|+.+.+.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            345779999999999999999874

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=96.48  E-value=0.00064  Score=54.32  Aligned_cols=22  Identities=36%  Similarity=0.526  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ||+|.|+.|+|||||.+.+-.+
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~   23 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRY   23 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Confidence            8999999999999999998653

>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=96.42  E-value=0.0007  Score=52.02  Aligned_cols=22  Identities=23%  Similarity=0.214  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|.|++|+||||+|+.+.+.
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3678999999999999999874

>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=96.41  E-value=0.00072  Score=52.04  Aligned_cols=22  Identities=18%  Similarity=0.247  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.|.|++|+||||+|+.+.++
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3679999999999999999985

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.41  E-value=0.0014  Score=53.69  Aligned_cols=23  Identities=35%  Similarity=0.369  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999987

>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=96.40  E-value=0.0017  Score=51.64  Aligned_cols=47  Identities=23%  Similarity=0.142  Sum_probs=30.8

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          172 LLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       172 l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      +.++..........+-|||..|+|||.|++.+++..  .......++++
T Consensus        25 ~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~--~~~~~~~~~~~   71 (213)
T d1l8qa2          25 VKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA--KKRGYRVIYSS   71 (213)
T ss_dssp             HHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH--HHTTCCEEEEE
T ss_pred             HHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHh--ccCccceEEec
Confidence            334443333334457799999999999999999953  33334455554

>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=96.39  E-value=0.00074  Score=52.68  Aligned_cols=25  Identities=24%  Similarity=0.292  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.--|.|.|++|+||||+|+.+...
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHH
Confidence            3445668899999999999999874

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.38  E-value=0.0026  Score=51.28  Aligned_cols=23  Identities=26%  Similarity=0.224  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999987

>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=96.36  E-value=0.0025  Score=53.78  Aligned_cols=46  Identities=13%  Similarity=0.277  Sum_probs=36.8

Q ss_pred             CcccccHHHHHHHHHHHhc-------CCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIV-------GEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~-------~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..++|-++.++.+...+..       .+....++..+|+.|+|||.||+.+-.
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHh
Confidence            5689999999988776631       123466889999999999999999876

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.36  E-value=0.00084  Score=51.75  Aligned_cols=23  Identities=22%  Similarity=0.248  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++|.|+|+.|+|||||++.+.++
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            47889999999999999999774

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.36  E-value=0.0019  Score=52.55  Aligned_cols=23  Identities=30%  Similarity=0.348  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -..|+|+|..|.|||||++.+..
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            36799999999999999999987

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.33  E-value=0.00075  Score=53.38  Aligned_cols=23  Identities=26%  Similarity=0.302  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|+.|+|||||.+.+..
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            45899999999999999999987

>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=96.26  E-value=0.0012  Score=51.27  Aligned_cols=26  Identities=27%  Similarity=0.419  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.+..|+|+|.+|+|||||.+.+.+.
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            45678999999999999999999863

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.24  E-value=0.0016  Score=53.26  Aligned_cols=23  Identities=35%  Similarity=0.342  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999975

>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=96.24  E-value=0.0011  Score=49.41  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ++ |+|+|.+|+|||||.+.+.++.
T Consensus         6 ~k-I~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           6 MR-ILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EE-EEEECSTTSSHHHHHHHHHHSS
T ss_pred             eE-EEEECCCCCCHHHHHHHHhCCC
Confidence            44 6799999999999999998764

>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=96.23  E-value=0.0011  Score=51.58  Aligned_cols=25  Identities=16%  Similarity=0.256  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.++|-|.|++|+||||+|+.+.+.
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3688999999999999999999773

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=96.22  E-value=0.0025  Score=54.85  Aligned_cols=45  Identities=13%  Similarity=0.182  Sum_probs=33.9

Q ss_pred             ccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          162 IVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       162 ~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.|.+....+....+..+.+.-+.+.++|++|+|||++|+.+.+.
T Consensus       133 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         133 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             STTHHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHHH
Confidence            445555454555555566667778999999999999999999984

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.20  E-value=0.0012  Score=55.56  Aligned_cols=26  Identities=19%  Similarity=0.126  Sum_probs=23.4

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...-+|||.|..|+||||+|+.+...
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~l  103 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHH
Confidence            46789999999999999999999873

>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=96.20  E-value=0.0015  Score=50.56  Aligned_cols=22  Identities=23%  Similarity=0.418  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|+.|+|||||++.+.+.
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            3679999999999999999874

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.19  E-value=0.0011  Score=50.83  Aligned_cols=21  Identities=14%  Similarity=0.105  Sum_probs=19.0

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|.|++|+||||+|+.+.++
T Consensus         3 I~i~G~pGSGKsT~~~~La~~   23 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEK   23 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            668999999999999999874

>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=0.0015  Score=51.83  Aligned_cols=25  Identities=20%  Similarity=0.090  Sum_probs=22.6

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+-.||-+.|++|+||||||+.+..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999999986

>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=96.17  E-value=0.0012  Score=48.81  Aligned_cols=22  Identities=18%  Similarity=0.135  Sum_probs=19.4

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|+|.+|+|||||.+.+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5699999999999999987654

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.14  E-value=0.0013  Score=53.41  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.++.
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            36899999999999999999976

>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=96.14  E-value=0.0013  Score=54.52  Aligned_cols=23  Identities=22%  Similarity=0.315  Sum_probs=19.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -+.|+|.|-||+||||+|-.+--
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~   24 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVA   24 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHH
Confidence            36789999999999998887654

>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=96.14  E-value=0.0019  Score=48.80  Aligned_cols=34  Identities=15%  Similarity=0.141  Sum_probs=25.0

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          172 LLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       172 l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +++.+.-.....+ |.++|.+|+|||||...+...
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            4455544444455 669999999999999998764

>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=96.12  E-value=0.0014  Score=53.03  Aligned_cols=23  Identities=26%  Similarity=0.274  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|+.|+|||||.+.+.-
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            46899999999999999999976

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.10  E-value=0.0013  Score=53.41  Aligned_cols=24  Identities=17%  Similarity=0.200  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|..|+|||||++.++--
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999873

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.06  E-value=0.0014  Score=51.03  Aligned_cols=21  Identities=24%  Similarity=0.466  Sum_probs=18.9

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|+.|+|||||++.+...
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            669999999999999998763

>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=96.05  E-value=0.0015  Score=50.19  Aligned_cols=21  Identities=19%  Similarity=0.294  Sum_probs=18.3

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|.|++|+||||+|+.+.+.
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            448899999999999999874

>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=96.04  E-value=0.0015  Score=53.67  Aligned_cols=23  Identities=35%  Similarity=0.391  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999986

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.03  E-value=0.0028  Score=52.70  Aligned_cols=28  Identities=21%  Similarity=0.258  Sum_probs=24.0

Q ss_pred             CCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          179 GEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       179 ~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +....-+|||-|..|+|||||+..|...
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l~~~   50 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQIYNH   50 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEeECCCCCCHHHHHHHHHHH
Confidence            3456789999999999999999988764

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.02  E-value=0.0016  Score=52.81  Aligned_cols=23  Identities=22%  Similarity=0.208  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            46899999999999999999987

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.02  E-value=0.0017  Score=52.80  Aligned_cols=23  Identities=26%  Similarity=0.248  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -..++|+|..|+|||||++.+..
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999976

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.98  E-value=0.0016  Score=54.16  Aligned_cols=25  Identities=28%  Similarity=0.274  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCC
Confidence            3468999999999999999999863

>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=95.97  E-value=0.0024  Score=48.40  Aligned_cols=23  Identities=13%  Similarity=0.169  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|.+|+|||||.+.+.+.
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34679999999999999999775

>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=95.95  E-value=0.0018  Score=49.57  Aligned_cols=35  Identities=23%  Similarity=0.267  Sum_probs=25.3

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          171 ELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       171 ~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.+.|......++|+ ++|.+|+|||||.+.+.+.
T Consensus         6 ~~~~~l~~~~k~~KI~-lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_           6 SMFDKLWGSNKELRIL-ILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             HHHGGGTTCSSCEEEE-EEEETTSSHHHHHHHTCCS
T ss_pred             HHHHHHhCCCceEEEE-EECCCCCCHHHHHHHHhcC
Confidence            3444444445556654 9999999999999998654

>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=95.94  E-value=0.0058  Score=48.16  Aligned_cols=40  Identities=8%  Similarity=-0.047  Sum_probs=29.1

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhccccccc----CCeeEEEe
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNY----FYCRAWVG  220 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~----F~~~~wV~  220 (265)
                      +.-+++-|+|.+|+|||||+-.+-.+......    -..++|+.
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~   75 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYID   75 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEE
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEe
Confidence            34678899999999999999887654332222    24678887

>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=95.93  E-value=0.0014  Score=52.15  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.|+|-|+-|+||||+++.+.+.
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999998875

>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=95.91  E-value=0.0019  Score=54.65  Aligned_cols=43  Identities=26%  Similarity=0.225  Sum_probs=31.2

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHh
Q 038685          160 RNIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      .+++|.+..+..|.-.+....  ..-|-++|.+|+||||||+.+-
T Consensus         7 ~~I~Gq~~~kral~laa~~~~--~h~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPG--IGGVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG--GCCEEEECCGGGCTTHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhccC--CCeEEEECCCCccHHHHHHHHH
Confidence            589999887776654443211  2235789999999999999874

>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=95.91  E-value=0.0019  Score=52.34  Aligned_cols=22  Identities=18%  Similarity=0.280  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+++|+|+.|+|||||++.+..
T Consensus        25 e~~~liGpnGaGKSTll~~i~G   46 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCChHHHHHHHHHc
Confidence            4788999999999999999987

>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=95.90  E-value=0.0066  Score=48.21  Aligned_cols=38  Identities=13%  Similarity=0.007  Sum_probs=31.9

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      +.-.++-|+|.+|+|||+|+..+-.+  ...+...++|++
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~--~~~~~~~~~~is   61 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVEN--ACANKERAILFA   61 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHH--HHTTTCCEEEEE
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH--HHHhccccceee
Confidence            45678899999999999999999885  556677788888

>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=95.88  E-value=0.0024  Score=47.98  Aligned_cols=21  Identities=14%  Similarity=0.330  Sum_probs=18.3

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++|.+|+|||||++.+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            569999999999999877754

>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=95.85  E-value=0.0035  Score=49.54  Aligned_cols=23  Identities=9%  Similarity=0.190  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..|+|-|+-|+||||+++.+.+.
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~   26 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEA   26 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999884

>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=95.82  E-value=0.0062  Score=48.12  Aligned_cols=56  Identities=16%  Similarity=-0.091  Sum_probs=36.9

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCHH--HHHHHHHHHhCCC
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYLH--KVLDNIIKSVMPR  239 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~~--~l~~~Il~~l~~~  239 (265)
                      +.+||.++|+.|+||||.+-++-....  .+-..+..++ -+|.+-  +-++.-.+.++..
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~--~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~   67 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK--GKGRRPLLVAADTQRPAAREQLRLLGEKVGVP   67 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH--HTTCCEEEEECCSSCHHHHHHHHHHHHHHTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH--HCCCcEEEEecccccchHHHHHHHHHHhcCCc
Confidence            468999999999999987777765432  2223455666 666653  4455666666553

>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=95.82  E-value=0.0023  Score=48.04  Aligned_cols=21  Identities=14%  Similarity=0.170  Sum_probs=18.9

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||.+.+.++
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            569999999999999998774

>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=0.0023  Score=49.35  Aligned_cols=23  Identities=9%  Similarity=0.341  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.|.|+|+.|+|||||++.+..+
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999998863

>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=95.79  E-value=0.0023  Score=50.45  Aligned_cols=21  Identities=29%  Similarity=0.351  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      .+|||+|+.|+||||.++.+-
T Consensus         4 ~iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHHH
Confidence            389999999999999998653

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=95.77  E-value=0.0024  Score=51.86  Aligned_cols=24  Identities=21%  Similarity=0.277  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|+.|.|||||.+.+..-
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            358999999999999999999873

>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=95.76  E-value=0.0026  Score=50.81  Aligned_cols=24  Identities=17%  Similarity=0.196  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++.|+|=|+-|+||||+++.+.++
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            678999999999999999999875

>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=95.76  E-value=0.0029  Score=47.75  Aligned_cols=21  Identities=24%  Similarity=0.398  Sum_probs=18.4

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||.+.+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            569999999999999987764

>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=95.75  E-value=0.0029  Score=47.42  Aligned_cols=23  Identities=17%  Similarity=0.231  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      -|.++|.+|+|||||++.+.++.
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36799999999999999888753

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=95.75  E-value=0.0024  Score=51.75  Aligned_cols=24  Identities=17%  Similarity=0.169  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.++||+|+.|.|||||.+.+..-
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999873

>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=95.72  E-value=0.003  Score=47.59  Aligned_cols=22  Identities=18%  Similarity=0.375  Sum_probs=19.2

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|+|.+|+|||||++.+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5699999999999999987654

>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=95.71  E-value=0.0032  Score=47.67  Aligned_cols=24  Identities=21%  Similarity=0.360  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|+|+|.+|+|||||.+.+.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999999864

>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=95.70  E-value=0.01  Score=46.80  Aligned_cols=57  Identities=18%  Similarity=0.018  Sum_probs=38.1

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCC--CHHHHHHHHHHHhCCC
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEY--YLHKVLDNIIKSVMPR  239 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~--~~~~l~~~Il~~l~~~  239 (265)
                      ++.+||.++|+.|+||||.+-++-...... . ..++.|+ -+|  ...+=++...+.++..
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~-g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   63 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNL-G-KKVMFCAGDTFRAAGGTQLSEWGKRLSIP   63 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTT-T-CCEEEECCCCSSTTHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC-C-CcEEEEEeccccccchhhHhhcccccCce
Confidence            356899999999999999877776643322 2 3566777 444  3445566666666543

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.67  E-value=0.0027  Score=51.94  Aligned_cols=24  Identities=21%  Similarity=0.231  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.+++|+|+.|.|||||++.+..-
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            358999999999999999999984

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=95.66  E-value=0.0048  Score=50.30  Aligned_cols=33  Identities=21%  Similarity=0.323  Sum_probs=24.2

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          171 ELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       171 ~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+.+.+-.  +..+||.+.|-||+||||++-.+-.
T Consensus        10 ~~~~~~~~--~~~~iii~sGKGGVGKTT~a~nLA~   42 (279)
T d1ihua2          10 ALVDDIAR--NEHGLIMLMGKGGVGKTTMAAAIAV   42 (279)
T ss_dssp             HHHHHHHT--TSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHhhc--CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34444443  4589999999999999998666644

>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=95.63  E-value=0.003  Score=47.68  Aligned_cols=22  Identities=23%  Similarity=0.329  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|+|+|.+|+|||||.+.+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999753

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=95.62  E-value=0.0019  Score=52.09  Aligned_cols=23  Identities=26%  Similarity=0.218  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45899999999999999999987

>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=95.62  E-value=0.0034  Score=47.47  Aligned_cols=22  Identities=36%  Similarity=0.460  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||.+.+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999987653

>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=95.62  E-value=0.0037  Score=47.57  Aligned_cols=24  Identities=25%  Similarity=0.339  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...|+|+|.+|+|||||.+.+.+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            567999999999999999999864

>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=95.60  E-value=0.0096  Score=47.21  Aligned_cols=56  Identities=16%  Similarity=0.055  Sum_probs=38.7

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCHH--HHHHHHHHHhCC
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYLH--KVLDNIIKSVMP  238 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~~--~l~~~Il~~l~~  238 (265)
                      ....||.++|+.|+||||.+-++..... +.. ..+..|+ -+|.+-  +=++...+.++.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~-~~~-~kV~lit~Dt~R~gA~eQL~~~a~~l~i   67 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFV-DEG-KSVVLAAADTFRAAAIEQLKIWGERVGA   67 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH-HTT-CCEEEEEECTTCHHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC-CceEEEeecccccchhHHHHHHhhhcCc
Confidence            4688999999999999998777766432 222 4577777 667654  345666666654

>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=95.60  E-value=0.003  Score=49.55  Aligned_cols=21  Identities=29%  Similarity=0.311  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      .+|||.|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            689999999999999998763

>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=95.59  E-value=0.0022  Score=53.47  Aligned_cols=24  Identities=17%  Similarity=0.277  Sum_probs=18.0

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +..||||.|..|+||||+++.+-+
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            345999999999999999998765

>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=95.58  E-value=0.016  Score=46.90  Aligned_cols=72  Identities=18%  Similarity=0.003  Sum_probs=44.7

Q ss_pred             cccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHHH
Q 038685          161 NIVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNII  233 (265)
Q Consensus       161 ~~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~Il  233 (265)
                      ++||-...++.+.+.+..-...-.-|-|.|..|+|||++|+.|+..- -..+......-+...+.......++
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s-~~~~~~~~~~~~~~~~~~~~~~~lf   72 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS-DRSKEPFVALNVASIPRDIFEAELF   72 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS-TTTTSCEEEEETTTSCHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc-CCcccccccchhhhhhhcccHHHhc
Confidence            36788888888888876532222235799999999999999998741 1122222222225555555555554

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.57  E-value=0.003  Score=49.88  Aligned_cols=23  Identities=13%  Similarity=0.255  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+|.|+|+.|+|||||.+.+..+
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            47789999999999999999874

>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=95.56  E-value=0.0034  Score=49.61  Aligned_cols=36  Identities=14%  Similarity=0.090  Sum_probs=26.3

Q ss_pred             eEEEEEE-cCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          183 LSVVAIV-GSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       183 ~~VI~Iv-G~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      .+||+|+ |-||+||||+|..+-..-  ..+=..+++|.
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~l--a~~g~~VlliD   37 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVAL--AQLGHDVTIVD   37 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHH--HHTTCCEEEEE
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHH--HhCCCCEEEEe
Confidence            3799999 889999999999887642  22323566665

>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=95.55  E-value=0.0032  Score=47.71  Aligned_cols=21  Identities=19%  Similarity=0.292  Sum_probs=18.7

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||++.+.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            679999999999999997765

>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=95.54  E-value=0.002  Score=49.18  Aligned_cols=20  Identities=20%  Similarity=0.295  Sum_probs=18.8

Q ss_pred             EEEEcCCCCChhHHHHHHhh
Q 038685          186 VAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~  205 (265)
                      |+|+|.+|+|||||.+.+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999975

>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=95.53  E-value=0.0037  Score=47.25  Aligned_cols=22  Identities=18%  Similarity=0.360  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4679999999999999998764

>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=95.53  E-value=0.027  Score=44.36  Aligned_cols=40  Identities=10%  Similarity=-0.037  Sum_probs=30.6

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhccc----ccccCCeeEEEe
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNY----MKNYFYCRAWVG  220 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~----v~~~F~~~~wV~  220 (265)
                      +.-+++-|+|.+|+|||+||.++..+..    ....+..+.|+.
T Consensus        35 p~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~   78 (258)
T d1v5wa_          35 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFID   78 (258)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEE
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEec
Confidence            5568999999999999999998876432    223456777777

>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=95.53  E-value=0.0089  Score=47.34  Aligned_cols=56  Identities=23%  Similarity=0.186  Sum_probs=32.0

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCHHHH--HHHHHHHhCC
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYLHKV--LDNIIKSVMP  238 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~~~l--~~~Il~~l~~  238 (265)
                      ....||.++|+.|+||||.+-++-..-+ +... .++.|+ -+|..-.+  ++.-.+.++.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v   68 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK-KKGF-KVGLVGADVYRPAALEQLQQLGQQIGV   68 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH-HTTC-CEEEEECCCSSHHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCC-ceEEEEeeccccchhHHHHHhccccCc
Confidence            4689999999999999987666655432 2222 467777 66665433  4444455544

>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=95.51  E-value=0.004  Score=46.77  Aligned_cols=22  Identities=18%  Similarity=0.235  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||++.+.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999887653

>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=95.50  E-value=0.0036  Score=48.69  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|+|-|.-|+||||+++.+.+.
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~   23 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGA   23 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998874

>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=95.49  E-value=0.004  Score=46.61  Aligned_cols=21  Identities=14%  Similarity=0.249  Sum_probs=18.7

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||++.+.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998764

>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=95.49  E-value=0.0041  Score=46.91  Aligned_cols=22  Identities=23%  Similarity=0.377  Sum_probs=19.2

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.++|.+|+|||+|.+...++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            4699999999999999988754

>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=95.48  E-value=0.022  Score=45.01  Aligned_cols=53  Identities=13%  Similarity=0.185  Sum_probs=34.6

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhccccc----ccCCeeEEEe--CCCCHHHHHHHHHH
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMK----NYFYCRAWVG--CEYYLHKVLDNIIK  234 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~----~~F~~~~wV~--~~~~~~~l~~~Il~  234 (265)
                      +.-+++-|+|.+|+|||||+.++..+....    .....++|+.  ..++.. .++....
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~   92 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPE-RIREIAQ   92 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHH-HHHHHHH
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHH-HHHHHHH
Confidence            456799999999999999999887643221    1235677887  444443 3334433

>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=95.48  E-value=0.0035  Score=47.31  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.++|.+|+|||||.+.+.++
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

>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=95.46  E-value=0.0041  Score=46.72  Aligned_cols=23  Identities=17%  Similarity=0.254  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-|.|+|..|+|||||++.+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            34779999999999999997654

>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=95.45  E-value=0.0037  Score=47.20  Aligned_cols=21  Identities=24%  Similarity=0.317  Sum_probs=18.8

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++|.+|+|||||++.+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            679999999999999998764

>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=95.43  E-value=0.0039  Score=45.81  Aligned_cols=22  Identities=18%  Similarity=0.138  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.++|.+|+|||||+..+-+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998875

>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=95.42  E-value=0.0086  Score=50.33  Aligned_cols=46  Identities=17%  Similarity=0.389  Sum_probs=35.3

Q ss_pred             CcccccHHHHHHHHHHHhc-------CCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIV-------GEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~-------~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..++|-++.++.+...+..       .+....++..+|+.|+|||.||+.+-+
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHH
Confidence            4678988888888776532       122356889999999999999998765

>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=95.42  E-value=0.0043  Score=46.60  Aligned_cols=21  Identities=19%  Similarity=0.433  Sum_probs=19.0

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++|.+|+|||||++.+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999998775

>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=95.42  E-value=0.0041  Score=48.12  Aligned_cols=23  Identities=17%  Similarity=0.271  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      -|.|+|.+|+|||||++.+.++.
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            36799999999999999887653

>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=95.42  E-value=0.0027  Score=48.64  Aligned_cols=22  Identities=18%  Similarity=0.247  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|||+|.+++|||||.+.+.+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998653

>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=95.41  E-value=0.0037  Score=47.87  Aligned_cols=22  Identities=27%  Similarity=0.348  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3679999999999999998764

>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=95.40  E-value=0.0041  Score=46.68  Aligned_cols=23  Identities=17%  Similarity=0.297  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      -|.++|.+|+|||||++.+.++.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36799999999999999987653

>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=95.39  E-value=0.0044  Score=46.80  Aligned_cols=21  Identities=24%  Similarity=0.425  Sum_probs=18.6

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||.+.+.++
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999987664

>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=95.39  E-value=0.0046  Score=46.41  Aligned_cols=21  Identities=24%  Similarity=0.434  Sum_probs=18.8

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++|-+|+|||||++.+.++
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988765

>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=95.38  E-value=0.003  Score=50.90  Aligned_cols=23  Identities=17%  Similarity=0.325  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|.|||||.+.+..
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            46899999999999999999986

>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=95.37  E-value=0.0036  Score=47.57  Aligned_cols=21  Identities=14%  Similarity=0.197  Sum_probs=19.5

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+|+|.+|+|||||...+.+.
T Consensus         3 I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           3 IIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            799999999999999999874

>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=95.36  E-value=0.0048  Score=46.50  Aligned_cols=22  Identities=14%  Similarity=0.274  Sum_probs=19.2

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.|+|.+|+|||||++.+.++.
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6899999999999999887643

>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=95.36  E-value=0.012  Score=46.58  Aligned_cols=57  Identities=14%  Similarity=0.018  Sum_probs=36.2

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe-CCCCHH--HHHHHHHHHhCCC
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG-CEYYLH--KVLDNIIKSVMPR  239 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~-~~~~~~--~l~~~Il~~l~~~  239 (265)
                      +...||.++|+.|+||||.+-++-.... +.. ..+..|+ -+|..-  +=++...+.++..
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~v~   66 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFE-QQG-KSVMLAAGDTFRAAAVEQLQVWGQRNNIP   66 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHH-TTT-CCEEEECCCTTCHHHHHHHHHHHHHTTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC-CcEEEEecccccccchhhhhhhhhhcCCc
Confidence            4578999999999999997777765422 221 2334444 667663  3355555665543

>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=95.35  E-value=0.0041  Score=51.00  Aligned_cols=24  Identities=17%  Similarity=0.162  Sum_probs=19.7

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..++|-+.|-||+||||+|-.+-.
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~   30 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAI   30 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCcChHHHHHHHHHH
Confidence            467888999999999997666554

>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=95.35  E-value=0.0046  Score=46.77  Aligned_cols=22  Identities=14%  Similarity=0.261  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.++|.+|+|||||+..+.++
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987653

>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=95.32  E-value=0.005  Score=46.26  Aligned_cols=22  Identities=18%  Similarity=0.232  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||++.+.++
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999987654

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=95.32  E-value=0.0026  Score=52.12  Aligned_cols=23  Identities=30%  Similarity=0.216  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -..++|+|..|+|||||++.+..
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            46889999999999999999875

>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=95.30  E-value=0.0053  Score=46.14  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=19.0

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.++|.+|+|||+|++.+.++.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            5799999999999999976653

>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=95.29  E-value=0.0048  Score=46.79  Aligned_cols=22  Identities=23%  Similarity=0.445  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|..|+|||||++.+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987664

>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=95.29  E-value=0.0048  Score=48.75  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=20.3

Q ss_pred             EEEEEE-cCCCCChhHHHHHHhhc
Q 038685          184 SVVAIV-GSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~Iv-G~gGvGKTTLa~~vy~~  206 (265)
                      +||+|+ +-||+||||+|-.+-..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~   26 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVA   26 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHH
Confidence            699999 67999999999998764

>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=95.27  E-value=0.0045  Score=46.63  Aligned_cols=24  Identities=25%  Similarity=0.131  Sum_probs=20.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ..+ |.|+|.+|+|||||...+-++
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            355 569999999999999998765

>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=95.25  E-value=0.022  Score=44.56  Aligned_cols=57  Identities=12%  Similarity=0.017  Sum_probs=36.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccc--------------cCCeeEEEe-CCCCHHHHHHHHHHHhCC
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKN--------------YFYCRAWVG-CEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~--------------~F~~~~wV~-~~~~~~~l~~~Il~~l~~  238 (265)
                      .-.++-|.|.+|+|||||+..+..+.....              ....+.|+. ...........+.+.+..
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~~~~~  104 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGI  104 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHHHHHHTC
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHHHHHHHHhhcch
Confidence            457899999999999999999976542221              122467777 332224444555555543

>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=95.24  E-value=0.0047  Score=47.83  Aligned_cols=22  Identities=18%  Similarity=0.173  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .|.|+|.+|+|||||...+.+.
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            6789999999999999999765

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=95.22  E-value=0.0024  Score=51.88  Aligned_cols=23  Identities=30%  Similarity=0.284  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -.+++|+|..|+|||||++.+..
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            46899999999999999999987

>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=95.19  E-value=0.0055  Score=46.41  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|.+|+|||||++.+.++
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34679999999999999987764

>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=95.14  E-value=0.014  Score=47.33  Aligned_cols=41  Identities=17%  Similarity=0.257  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          167 DEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       167 ~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ..+.++...|...+...--|.++|..|+|||||...|+...
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            44455666665554445567899999999999999999754

>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=95.11  E-value=0.0053  Score=47.78  Aligned_cols=22  Identities=23%  Similarity=0.107  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||.+.+.+.
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4889999999999999999774

>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=95.05  E-value=0.0057  Score=46.56  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ++ |+|+|..|+|||||...+.+.
T Consensus         9 ~k-V~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           9 IK-VAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EE-EEEECSTTSSHHHHHHHHHTS
T ss_pred             CE-EEEECCCCCCHHHHHHHHHCC
Confidence            44 799999999999999988764

>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=95.03  E-value=0.006  Score=45.63  Aligned_cols=22  Identities=23%  Similarity=0.258  Sum_probs=18.7

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.++|.+|+|||||...+.++.
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            4689999999999999886643

>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=95.02  E-value=0.0071  Score=45.57  Aligned_cols=24  Identities=29%  Similarity=0.383  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.-|.|+|-+|+|||||++.+.++
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhC
Confidence            345779999999999999997654

>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=95.02  E-value=0.007  Score=45.48  Aligned_cols=21  Identities=10%  Similarity=0.252  Sum_probs=18.4

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|..|+|||||...+.++
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999987764

>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=95.00  E-value=0.0067  Score=46.49  Aligned_cols=23  Identities=22%  Similarity=0.186  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhhcc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      -|.|+|.+|+|||||.+.+.++.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            47899999999999999877643

>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=94.94  E-value=0.0071  Score=48.20  Aligned_cols=22  Identities=14%  Similarity=0.093  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+|||.|..|+||||+|+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999865

>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=94.91  E-value=0.005  Score=46.46  Aligned_cols=25  Identities=24%  Similarity=0.135  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      ...-|+|+|.+++|||||.+.+...
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4667899999999999999988653

>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=94.90  E-value=0.0079  Score=45.61  Aligned_cols=21  Identities=24%  Similarity=0.403  Sum_probs=18.5

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++|.+|+|||||.+.+-++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999987653

>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=94.88  E-value=0.011  Score=45.09  Aligned_cols=23  Identities=17%  Similarity=0.112  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      --|.|+|.+|+|||||.+.+.++
T Consensus         6 iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           6 IKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            34689999999999999887764

>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=94.87  E-value=0.008  Score=45.29  Aligned_cols=21  Identities=19%  Similarity=0.485  Sum_probs=18.5

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++|..|+|||||++.+.++
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999998764

>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=94.86  E-value=0.0078  Score=45.58  Aligned_cols=21  Identities=24%  Similarity=0.202  Sum_probs=18.5

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||+..+.++
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999887765

>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=94.86  E-value=0.0081  Score=45.79  Aligned_cols=21  Identities=38%  Similarity=0.551  Sum_probs=18.7

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++|.+|+|||||++.+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=94.85  E-value=0.0068  Score=44.90  Aligned_cols=21  Identities=19%  Similarity=0.253  Sum_probs=18.5

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+++|.+|+|||||.+.+...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            579999999999999998643

>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=94.85  E-value=0.0076  Score=45.50  Aligned_cols=24  Identities=21%  Similarity=0.368  Sum_probs=19.4

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +--|.|+|.+|+|||||+..+.++
T Consensus         6 ~~KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           6 LFKVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            334789999999999999776553

>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=94.84  E-value=0.0044  Score=46.87  Aligned_cols=21  Identities=29%  Similarity=0.514  Sum_probs=17.4

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.|+|.+|+|||||++.+.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999987664

>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=94.83  E-value=0.0093  Score=44.82  Aligned_cols=22  Identities=32%  Similarity=0.333  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987554

>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=94.83  E-value=0.0063  Score=46.64  Aligned_cols=26  Identities=15%  Similarity=0.087  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .-.++-|.|.+|+||||||..+..+.
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45688999999999999999887654

>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=94.82  E-value=0.009  Score=47.52  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.|.-|.|.-|.|||||.+.+...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4789999999999999999999875

>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=94.78  E-value=0.0094  Score=45.28  Aligned_cols=21  Identities=10%  Similarity=0.142  Sum_probs=18.1

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++|-+|+|||||++..-.+
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            469999999999999997554

>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=94.66  E-value=0.0081  Score=45.40  Aligned_cols=22  Identities=23%  Similarity=0.335  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      --|.++|.+|+|||||++.+..
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3467999999999999998754

>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=94.64  E-value=0.0095  Score=45.39  Aligned_cols=21  Identities=24%  Similarity=0.271  Sum_probs=18.3

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |.++|..|+|||+|++.+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            569999999999999988664

>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=94.60  E-value=0.022  Score=44.59  Aligned_cols=40  Identities=13%  Similarity=0.187  Sum_probs=29.6

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          165 LEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       165 ~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .+...++|.+.+..+. -...+-++|+.|+||||+|+.+.+
T Consensus         7 ~~~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             GHHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCC-cCeEEEEECCCCCcHHHHHHHHHH
Confidence            4556677777776543 234577899999999999997765

>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=94.54  E-value=0.0065  Score=45.87  Aligned_cols=27  Identities=11%  Similarity=0.127  Sum_probs=22.0

Q ss_pred             CCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          180 EPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       180 ~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ...++| .++|.+|+|||||.+.+.++.
T Consensus        10 ~k~~kI-vlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_          10 NKEMRI-LMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             TCCEEE-EEEEETTSSHHHHHHHTTCCC
T ss_pred             CCeEEE-EEECCCCCCHHHHHHHHhcCC
Confidence            345775 499999999999999997654

>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=94.53  E-value=0.0087  Score=45.87  Aligned_cols=18  Identities=17%  Similarity=0.399  Sum_probs=16.7

Q ss_pred             EEEEcCCCCChhHHHHHH
Q 038685          186 VAIVGSSGFDKTDFAGEA  203 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~v  203 (265)
                      |.++|.+|+|||||++..
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            569999999999999998

>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=94.51  E-value=0.0096  Score=45.34  Aligned_cols=22  Identities=9%  Similarity=0.209  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.++|.+|+|||||++.+.++
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3579999999999999987664

>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=94.44  E-value=0.0094  Score=46.52  Aligned_cols=23  Identities=22%  Similarity=0.235  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.|+|-|.-|+||||+++.+.+.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~   25 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVET   25 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999999874

>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=94.41  E-value=0.011  Score=45.29  Aligned_cols=22  Identities=18%  Similarity=0.182  Sum_probs=18.2

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      |.++|.+|+|||+|+..+.++.
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5699999999999998766543

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=94.29  E-value=0.055  Score=45.32  Aligned_cols=50  Identities=14%  Similarity=0.236  Sum_probs=32.6

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc----c---cccc----CC-eeEEEe----CCCCHHHHHHHHHHH
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN----Y---MKNY----FY-CRAWVG----CEYYLHKVLDNIIKS  235 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~----~---v~~~----F~-~~~wV~----~~~~~~~l~~~Il~~  235 (265)
                      |-|.|..|+|||||++.+.+..    +   +.+.    +. ..-|+.    ..++..++++..+++
T Consensus       169 ili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~lR~  234 (323)
T d1g6oa_         169 VIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRM  234 (323)
T ss_dssp             EEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTS
T ss_pred             EEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHHHhcc
Confidence            6789999999999999998742    0   1111    11 122333    567777777776653

>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=94.14  E-value=0.012  Score=46.36  Aligned_cols=24  Identities=21%  Similarity=0.171  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -..|+|-|+-|+||||+++.+.+.
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~   26 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKK   26 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHH
Confidence            467999999999999999999874

>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=94.08  E-value=0.012  Score=44.84  Aligned_cols=21  Identities=14%  Similarity=0.234  Sum_probs=18.1

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |-++|-+|+|||||.+.+.++
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999998554

>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=94.06  E-value=0.0042  Score=46.06  Aligned_cols=21  Identities=24%  Similarity=0.412  Sum_probs=19.3

Q ss_pred             EEEEcCCCCChhHHHHHHhhc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~  206 (265)
                      |+++|.+|+|||||.+.+.+.
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            789999999999999999764

>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=94.05  E-value=0.008  Score=45.38  Aligned_cols=22  Identities=23%  Similarity=0.224  Sum_probs=8.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|.|+|-+|+|||||+..+.++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999866653

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=93.93  E-value=0.069  Score=43.52  Aligned_cols=61  Identities=18%  Similarity=0.128  Sum_probs=43.4

Q ss_pred             HHHHhc-CC-CCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCCCHHHHHHHHHHHhCCCC
Q 038685          173 LDLLIV-GE-PSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEYYLHKVLDNIIKSVMPRS  240 (265)
Q Consensus       173 ~~~L~~-~~-~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~~~~~l~~~Il~~l~~~~  240 (265)
                      ++.++. +. +.-+++-|+|.+|+||||||-.+.-...-..  ..++|+.  ..++..     ++++++.+.
T Consensus        45 lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~  109 (268)
T d1xp8a1          45 LDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVNT  109 (268)
T ss_dssp             HHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCG
T ss_pred             HHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH-----HHHHhCCCc
Confidence            444554 32 4457999999999999999999988644333  4688998  667774     567776643

>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=93.85  E-value=0.015  Score=47.93  Aligned_cols=24  Identities=17%  Similarity=0.099  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhh
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +++-|+|+|.+|.|||||+-.+..
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHH
Confidence            578899999999999999999854

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.85  E-value=0.051  Score=44.38  Aligned_cols=54  Identities=20%  Similarity=0.079  Sum_probs=40.0

Q ss_pred             CCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCCCHHHHHHHHHHHhCCC
Q 038685          179 GEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEYYLHKVLDNIIKSVMPR  239 (265)
Q Consensus       179 ~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~~~~~l~~~Il~~l~~~  239 (265)
                      +=+.-+++-|+|.+|+||||||-.+.....  ..=..++|+.  ..++...     +++++..
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q--~~g~~~vyIDtE~~~~~e~-----a~~~GvD  111 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQ--AAGGVAAFIDAEHALDPDY-----AKKLGVD  111 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHH--HTTCEEEEEESSCCCCHHH-----HHHHTCC
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHh--cCCCEEEEEECCccCCHHH-----HHHhCCC
Confidence            335678999999999999999988887533  3345789998  6687764     4556554

>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=93.84  E-value=0.016  Score=48.78  Aligned_cols=23  Identities=17%  Similarity=0.219  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .++-++|++|+|||.||+.+-..
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            45556899999999999999984

>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=93.83  E-value=0.031  Score=45.89  Aligned_cols=33  Identities=24%  Similarity=0.214  Sum_probs=27.1

Q ss_pred             HHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          174 DLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       174 ~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +.|..-+..+.||+|+|.-+.||+||+..++..
T Consensus        23 ~~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          23 KILSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHHcCCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            344443556999999999999999999999974

>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=93.79  E-value=0.015  Score=46.08  Aligned_cols=22  Identities=18%  Similarity=0.353  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .||+|+|..++|||||+..+..
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            5699999999999999998854

>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=93.66  E-value=0.019  Score=47.04  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCChhHHHHHHh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      ++-|+|+|..|.|||||+..+.
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            5779999999999999999883

>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=93.52  E-value=0.12  Score=39.87  Aligned_cols=66  Identities=8%  Similarity=-0.147  Sum_probs=41.6

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhccc--ccccCCeeEEEe---CCCCHHHHHHHHHHHhCCC
Q 038685          170 KELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNY--MKNYFYCRAWVG---CEYYLHKVLDNIIKSVMPR  239 (265)
Q Consensus       170 ~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~--v~~~F~~~~wV~---~~~~~~~l~~~Il~~l~~~  239 (265)
                      +-|..++..+  ...-+-++|.+|+||||+|..+-+...  -..|-| ..++.   +...++++- .+.+.+...
T Consensus         4 ~~l~~~i~~~--~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~IR-~i~~~~~~~   74 (198)
T d2gnoa2           4 ETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDIR-TIKDFLNYS   74 (198)
T ss_dssp             HHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHHH-HHHHHHTSC
T ss_pred             HHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHHH-HHHHHHhhC
Confidence            3444444443  477888999999999999998877421  123334 34444   344566664 477777654

>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=93.48  E-value=0.022  Score=42.80  Aligned_cols=26  Identities=19%  Similarity=0.181  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .-.+|.+.|.=|+||||++|.+.+.-
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc
Confidence            45699999999999999999999854

>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=93.39  E-value=0.037  Score=47.28  Aligned_cols=46  Identities=24%  Similarity=0.218  Sum_probs=32.8

Q ss_pred             CcccccHHHHHHHHHHHh----------------------------cCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLI----------------------------VGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~----------------------------~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..+||-++.++.+-..+.                            +.+....-|-.+|+.|||||-||+.+-.
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHh
Confidence            468898888777754431                            1122355577889999999999998854

>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=93.30  E-value=0.043  Score=42.52  Aligned_cols=46  Identities=24%  Similarity=0.251  Sum_probs=28.2

Q ss_pred             CCeEEEEEEcCCCCChhHHHHHH-hhcccccccCCeeEEEeCCCCHHHH
Q 038685          181 PSLSVVAIVGSSGFDKTDFAGEA-YNSNYMKNYFYCRAWVGCEYYLHKV  228 (265)
Q Consensus       181 ~~~~VI~IvG~gGvGKTTLa~~v-y~~~~v~~~F~~~~wV~~~~~~~~l  228 (265)
                      +.-.++-|+|.+|+|||+||..+ ++-  ....=....|++-+.....+
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~~~--~~~~~~~~~~~s~e~~~~~~   70 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLYNG--IIEFDEPGVFVTFEETPQDI   70 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHH--HHHHCCCEEEEESSSCHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHH--HHhcCCCcccccccCCHHHH
Confidence            34577889999999999999664 442  12222345666633334443

>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=93.24  E-value=0.021  Score=44.99  Aligned_cols=22  Identities=9%  Similarity=0.134  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .-|-++|.+|+|||||++.+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3467999999999999998764

>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=0.025  Score=43.66  Aligned_cols=23  Identities=13%  Similarity=0.089  Sum_probs=19.1

Q ss_pred             EEEEEEcCC-CCChhHHHHHHhhc
Q 038685          184 SVVAIVGSS-GFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~g-GvGKTTLa~~vy~~  206 (265)
                      +.+-|.|.| ||||||++-.+..-
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~a   25 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQA   25 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHH
Confidence            457799998 99999988877763

>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=93.12  E-value=0.022  Score=43.25  Aligned_cols=21  Identities=19%  Similarity=0.200  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhh
Q 038685          185 VVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      -|||+|..++|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999999874

>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=92.86  E-value=0.058  Score=43.87  Aligned_cols=51  Identities=12%  Similarity=0.001  Sum_probs=37.4

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe--CCCCHHHHHHHHHHHhCCC
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG--CEYYLHKVLDNIIKSVMPR  239 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~--~~~~~~~l~~~Il~~l~~~  239 (265)
                      .-+++-|+|.+|+|||||+-.+.....-.  =..++|+.  ..++..     .++.++.+
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q~~--g~~~vyidtE~~~~~~-----~a~~~Gvd  105 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVD  105 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCC
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcC--CCEEEEEccccccCHH-----HHHHhCCC
Confidence            45789999999999999999999864433  24678888  566664     35555554

>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=92.39  E-value=0.036  Score=44.12  Aligned_cols=34  Identities=24%  Similarity=0.393  Sum_probs=25.9

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      .+.|..+|. +    +...++|..|||||||.+.+..+.
T Consensus        86 ~~~L~~~l~-~----kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLK-G----KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHS-S----SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhc-C----CeEEEECCCCCCHHHHHHhhcchh
Confidence            466666663 2    355689999999999999998653

>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=92.35  E-value=0.062  Score=44.00  Aligned_cols=63  Identities=21%  Similarity=0.189  Sum_probs=42.2

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe---CCCCHHHHHHHHHHH
Q 038685          171 ELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG---CEYYLHKVLDNIIKS  235 (265)
Q Consensus       171 ~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~---~~~~~~~l~~~Il~~  235 (265)
                      +.++.|.--. +-.-++|.|..|+|||||+..+.++. .+.+=++++++-   +.....++.++..+.
T Consensus        57 raID~l~pig-kGQr~~If~~~g~GKt~l~~~i~~~~-~~~~~~v~V~~~iGer~~ev~~~~~~~~~~  122 (276)
T d2jdid3          57 KVVDLLAPYA-KGGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIES  122 (276)
T ss_dssp             HHHHHHSCEE-TTCEEEEEECTTSSHHHHHHHHHHHH-TTTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             eeeeeecccc-CCCEEEeeCCCCCCHHHHHHHHHHHH-HhhCCCeEEEEEeccChHHHHHHHHHHHhc
Confidence            5666664211 13458999999999999999887752 223335666666   445567888888774

>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=92.07  E-value=0.038  Score=43.10  Aligned_cols=19  Identities=21%  Similarity=0.310  Sum_probs=17.5

Q ss_pred             EEEEcCCCCChhHHHHHHh
Q 038685          186 VAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy  204 (265)
                      |+|+|.++.|||||+..+.
T Consensus         6 i~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHH
Confidence            7999999999999998884

>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=92.05  E-value=0.035  Score=44.70  Aligned_cols=23  Identities=26%  Similarity=0.229  Sum_probs=19.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+.-|+|.+|+|||||+-.+.-.
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHH
Confidence            45669999999999999887653

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=91.80  E-value=0.048  Score=45.96  Aligned_cols=24  Identities=13%  Similarity=0.158  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +-.|.|=|.-|+||||+++.+.+.
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHH
Confidence            567899999999999999999985

>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=91.71  E-value=0.061  Score=43.30  Aligned_cols=54  Identities=13%  Similarity=0.033  Sum_probs=34.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEeCCCCHHHHHHHHHHHhCC
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVGCEYYLHKVLDNIIKSVMP  238 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~~~~~~~~l~~~Il~~l~~  238 (265)
                      .++-|.|.+|+|||||+..+--+......+. +++++-+.+...+...++.....
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~-v~~~s~E~~~~~~~~r~~~~~~~   89 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGKK-VGLAMLEESVEETAEDLIGLHNR   89 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCCC-EEEEESSSCHHHHHHHHHHHHTT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhcccc-eeEeeeccchhhHHhHHHHHhhc
Confidence            5677999999999999988865422233333 44455345566666666665543

>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=91.63  E-value=0.048  Score=45.01  Aligned_cols=48  Identities=23%  Similarity=-0.025  Sum_probs=32.5

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe
Q 038685          171 ELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG  220 (265)
Q Consensus       171 ~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~  220 (265)
                      ++++.|.-= .+=.-++|.|..|+|||||+..+.++.. .++-++++.+.
T Consensus        32 r~ID~l~Pi-grGQr~~I~g~~g~GKT~l~~~i~~~~~-~~~~~~v~~~~   79 (289)
T d1xpua3          32 RVLDLASPI-GRGQRGLIVAPPKAGKTMLLQNIAQSIA-YNHPDCVLMVL   79 (289)
T ss_dssp             HHHHHHSCC-BTTCEEEEEECSSSSHHHHHHHHHHHHH-HHCTTSEEEEE
T ss_pred             eeeeecccc-cCCCeeeEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEE
Confidence            677777531 1246779999999999999999988532 23344444443

>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=91.61  E-value=0.044  Score=46.08  Aligned_cols=25  Identities=28%  Similarity=0.194  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .+..|+|=|.-|+||||+++.+.+.
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             CceEEEEECCcCCCHHHHHHHHHHH
Confidence            3566999999999999999999763

>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=91.40  E-value=0.044  Score=48.02  Aligned_cols=46  Identities=22%  Similarity=0.330  Sum_probs=30.8

Q ss_pred             CcccccHHHHHHHHHHHhc--------C----CCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          160 RNIVGLEDEMKELLDLLIV--------G----EPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       160 ~~~vG~e~~~~~l~~~L~~--------~----~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..+||-++.++.|--.+..        .    +-..+=|-++|+.|+|||.||+.+-.
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHH
Confidence            3467777776665443311        1    11234566889999999999999987

>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=91.33  E-value=0.054  Score=45.76  Aligned_cols=27  Identities=4%  Similarity=0.102  Sum_probs=23.0

Q ss_pred             cCCCCeEEEEEEcCCCCChhHHHHHHh
Q 038685          178 VGEPSLSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       178 ~~~~~~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      ....+++=|+|+|..|.|||||+-.+.
T Consensus        12 ~~~~~IRNI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2          12 DKVTNVRNMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             HCGGGEEEEEEECCGGGTHHHHHHHHH
T ss_pred             cCcccCcEEEEEeCCCCcHHHHHHHHH
Confidence            344568889999999999999998875

>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=90.84  E-value=0.057  Score=44.00  Aligned_cols=22  Identities=18%  Similarity=0.234  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|||||++.+|||||-..+=+.
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            4899999999999999988764

>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=90.51  E-value=0.1  Score=43.78  Aligned_cols=24  Identities=25%  Similarity=0.270  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhhc
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      +-.|+|=|.-|+||||+++.+.+.
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            345899999999999999999885

>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=90.24  E-value=0.15  Score=41.33  Aligned_cols=36  Identities=14%  Similarity=0.079  Sum_probs=28.2

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          170 KELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       170 ~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ..+..+|....++-..+-++|.|+.||||++..|..
T Consensus        91 ~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_          91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHH
Confidence            344555655556678888999999999999998876

>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=90.18  E-value=0.021  Score=43.04  Aligned_cols=21  Identities=19%  Similarity=0.279  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhh
Q 038685          185 VVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +..|+|..|+||||+...|+-
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~   46 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVT   46 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            345789999999999999863

>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=90.16  E-value=0.09  Score=45.26  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCCChhHHHHHHhh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .--|+|+|.+|+||+||.+.+..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            34579999999999999999974

>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=90.12  E-value=0.11  Score=40.35  Aligned_cols=36  Identities=19%  Similarity=0.325  Sum_probs=28.3

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhh
Q 038685          169 MKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       169 ~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      ...+..+| .+.++-+-|.++|+++.|||++|..+.+
T Consensus        40 l~~l~~~l-~~~PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          40 LGALKSFL-KGTPKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             HHHHHHHH-HTCTTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHH-cCCCCceEEEEECCCCccHHHHHHHHHH
Confidence            35556666 4556778889999999999999987765

>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=90.01  E-value=0.069  Score=43.93  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhhc
Q 038685          185 VVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -|||+|.+.+|||||-..+-+.
T Consensus        12 kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4899999999999999999865

>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=89.84  E-value=0.086  Score=42.81  Aligned_cols=26  Identities=15%  Similarity=0.189  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCCChhHHHHHHhhcc
Q 038685          182 SLSVVAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       182 ~~~VI~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ..--|+|+|++.|||+||+..+....
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEEecCccchhhhhhhhhccc
Confidence            34558999999999999999999864

>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=89.80  E-value=0.09  Score=40.05  Aligned_cols=23  Identities=35%  Similarity=0.319  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-|.|.|.+|+||||||-.+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            45678999999999999987763

>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=89.61  E-value=0.083  Score=44.86  Aligned_cols=50  Identities=18%  Similarity=0.126  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhcc-cccccCCeeEEEe
Q 038685          166 EDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNSN-YMKNYFYCRAWVG  220 (265)
Q Consensus       166 e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~~-~v~~~F~~~~wV~  220 (265)
                      +..+..+...|.     -++.-|.|.+|.||||++..+...- +....=..+++++
T Consensus       151 ~~Q~~A~~~al~-----~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~  201 (359)
T d1w36d1         151 NWQKVAAAVALT-----RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLA  201 (359)
T ss_dssp             CHHHHHHHHHHT-----BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEE
T ss_pred             cHHHHHHHHHHc-----CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEe
Confidence            345555554442     3567789999999999886554321 1111123467776

>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=89.60  E-value=0.078  Score=43.83  Aligned_cols=20  Identities=25%  Similarity=0.419  Sum_probs=18.4

Q ss_pred             EEEEcCCCCChhHHHHHHhh
Q 038685          186 VAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~  205 (265)
                      |||+|.+.+|||||-+.+-+
T Consensus         3 v~lvG~pn~GKStlfn~lt~   22 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATL   22 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC
T ss_pred             EeEECCCCCCHHHHHHHHHC
Confidence            79999999999999999854

>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=88.90  E-value=0.11  Score=39.56  Aligned_cols=22  Identities=32%  Similarity=0.398  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      .-|-|.|..|+||||||-.+..
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            3467899999999999988766

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=88.54  E-value=0.26  Score=42.26  Aligned_cols=43  Identities=14%  Similarity=0.230  Sum_probs=31.3

Q ss_pred             ccccHHHHHHHHHHHhcCCCCeEEEEEEcCCCCChhHHHHHHhhc
Q 038685          162 IVGLEDEMKELLDLLIVGEPSLSVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       162 ~vG~e~~~~~l~~~L~~~~~~~~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      -.|........+..+....  -.+|-|.|+.|.||||.+..+.+.
T Consensus       139 ~LG~~~~~~~~l~~l~~~~--~GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         139 SLGMTAHNHDNFRRLIKRP--HGIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             GSCCCHHHHHHHHHHHTSS--SEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             hhcccHHHHHHHHHHHhhh--hceEEEEcCCCCCccHHHHHHhhh
Confidence            4566555544445454433  689999999999999999988874

>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=88.31  E-value=0.13  Score=38.86  Aligned_cols=23  Identities=35%  Similarity=0.355  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhc
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNS  206 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~  206 (265)
                      .-|-|.|..|+||||||-.+...
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            34679999999999999876653

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=88.08  E-value=0.13  Score=39.64  Aligned_cols=19  Identities=21%  Similarity=0.317  Sum_probs=17.4

Q ss_pred             EEEEcCCCCChhHHHHHHh
Q 038685          186 VAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy  204 (265)
                      |+|+|-.+.|||||+..+-
T Consensus         6 i~iiGHvd~GKSTL~~~l~   24 (196)
T d1d2ea3           6 VGTIGHVDHGKTTLTAAIT   24 (196)
T ss_dssp             EEEESSTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHH
Confidence            7899999999999999774

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=87.58  E-value=0.15  Score=38.89  Aligned_cols=20  Identities=20%  Similarity=0.283  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 038685          185 VVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy  204 (265)
                      -|+|+|-...|||||+..+-
T Consensus         7 nIaiiGhvd~GKSTL~~~L~   26 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALT   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEeccCCcHHHHHHHHH
Confidence            47999999999999999994

>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=87.38  E-value=0.049  Score=43.47  Aligned_cols=22  Identities=18%  Similarity=0.259  Sum_probs=18.1

Q ss_pred             EEEEcCCCCChhHHHHHHhhcc
Q 038685          186 VAIVGSSGFDKTDFAGEAYNSN  207 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~vy~~~  207 (265)
                      ..++|..|+|||||.+.+..+.
T Consensus       100 ~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2         100 TVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEESHHHHHHHHHHHHCC--
T ss_pred             EEEECCCCccHHHHHHhhccHh
Confidence            3488999999999999998764

>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=87.23  E-value=0.11  Score=42.05  Aligned_cols=15  Identities=20%  Similarity=0.319  Sum_probs=12.5

Q ss_pred             EEEEcCCCCChhHHH
Q 038685          186 VAIVGSSGFDKTDFA  200 (265)
Q Consensus       186 I~IvG~gGvGKTTLa  200 (265)
                      +-|.|.+|.||||.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            568899999999753

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=86.79  E-value=0.16  Score=39.77  Aligned_cols=19  Identities=16%  Similarity=0.406  Sum_probs=16.9

Q ss_pred             EEEEEcCCCCChhHHHHHH
Q 038685          185 VVAIVGSSGFDKTDFAGEA  203 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~v  203 (265)
                      -|+|+|-.+.|||||+..+
T Consensus         5 Ni~viGHVd~GKTTL~~~L   23 (224)
T d1jnya3           5 NLIVIGHVDHGKSTLVGRL   23 (224)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEecCCCCHHHHHHHH
Confidence            3789999999999999866

>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=85.85  E-value=0.15  Score=41.57  Aligned_cols=15  Identities=27%  Similarity=0.366  Sum_probs=12.4

Q ss_pred             EEEEcCCCCChhHHH
Q 038685          186 VAIVGSSGFDKTDFA  200 (265)
Q Consensus       186 I~IvG~gGvGKTTLa  200 (265)
                      +-|.|.+|+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            457899999999764

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=85.45  E-value=0.22  Score=38.22  Aligned_cols=20  Identities=20%  Similarity=0.293  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 038685          185 VVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy  204 (265)
                      -|+|+|-...|||||+..+-
T Consensus        10 ni~iiGhVd~GKSTL~~~L~   29 (205)
T d2qn6a3          10 NIGVVGHVDHGKTTLVQAIT   29 (205)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEEccCCcHHHHHHHHH
Confidence            58999999999999999885

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=85.02  E-value=0.21  Score=40.33  Aligned_cols=20  Identities=35%  Similarity=0.521  Sum_probs=17.3

Q ss_pred             EEEEEEcCCCCChhHHHHHH
Q 038685          184 SVVAIVGSSGFDKTDFAGEA  203 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~v  203 (265)
                      ++-.|+|..|+||||+...|
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHH
Confidence            35579999999999998877

>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=84.59  E-value=0.21  Score=40.70  Aligned_cols=49  Identities=16%  Similarity=0.127  Sum_probs=31.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhhcccccccCCeeEEEe---CCCCHHHHHHHHHH
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYNSNYMKNYFYCRAWVG---CEYYLHKVLDNIIK  234 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~~~~v~~~F~~~~wV~---~~~~~~~l~~~Il~  234 (265)
                      .-++|+|..|+|||+|+..+-..  ...+-..++++-   +.....++..+..+
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~--~~~~~~v~V~~~iGer~~Ev~e~~~~~~~  119 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILN--QQGQNVICVYVAIGQKASSVAQVVTNFQE  119 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHT--CCTTTCEEEEEEESCCHHHHHHHHHHTGG
T ss_pred             ceEeeccCCCCChHHHHHHHHhh--hcccCceeeeeeecchhHHHHHHHHhhcc
Confidence            44789999999999999875443  233445666665   33344555555544

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=84.27  E-value=0.35  Score=37.89  Aligned_cols=22  Identities=14%  Similarity=0.167  Sum_probs=19.0

Q ss_pred             eEEEEEEcCCCCChhHHHHHHh
Q 038685          183 LSVVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       183 ~~VI~IvG~gGvGKTTLa~~vy  204 (265)
                      .--|+|+|-...|||||+..+.
T Consensus         9 ~~~i~viGHVd~GKSTL~~~Ll   30 (222)
T d1zunb3           9 MLRFLTCGNVDDGKSTLIGRLL   30 (222)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHH
T ss_pred             cceEEEEcCCCCCHHHHHHHHH
Confidence            4447999999999999999884

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=80.86  E-value=0.41  Score=40.16  Aligned_cols=20  Identities=20%  Similarity=0.423  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 038685          185 VVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy  204 (265)
                      +-.|+|..|+||||+...|+
T Consensus        27 l~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          27 FTSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999884

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=80.68  E-value=0.4  Score=37.91  Aligned_cols=20  Identities=20%  Similarity=0.310  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 038685          185 VVAIVGSSGFDKTDFAGEAY  204 (265)
Q Consensus       185 VI~IvG~gGvGKTTLa~~vy  204 (265)
                      -|+|+|..+.|||||+..+.
T Consensus         8 Ni~iiGHvD~GKsTl~~~ll   27 (239)
T d1f60a3           8 NVVVIGHVDSGKSTTTGHLI   27 (239)
T ss_dssp             EEEEEECTTSCHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            57899999999999997774

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=80.39  E-value=0.41  Score=40.70  Aligned_cols=22  Identities=18%  Similarity=0.205  Sum_probs=18.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhh
Q 038685          184 SVVAIVGSSGFDKTDFAGEAYN  205 (265)
Q Consensus       184 ~VI~IvG~gGvGKTTLa~~vy~  205 (265)
                      +-+.|+|..|+|||++++.+..
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~   72 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAY   72 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHH
Confidence            4478999999999999876554

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=80.18  E-value=0.31  Score=38.78  Aligned_cols=18  Identities=17%  Similarity=0.455  Sum_probs=17.0

Q ss_pred             EEEEcCCCCChhHHHHHH
Q 038685          186 VAIVGSSGFDKTDFAGEA  203 (265)
Q Consensus       186 I~IvG~gGvGKTTLa~~v  203 (265)
                      |+|.|..+.|||||+-.+
T Consensus        27 i~iiGHVD~GKSTL~~~L   44 (245)
T d1r5ba3          27 IVFIGHVDAGKSTLGGNI   44 (245)
T ss_dssp             EEEEECGGGTHHHHHHHH
T ss_pred             EEEEeeCCCCHHHHHHHH
Confidence            899999999999999888