Citrus Sinensis ID: 042580

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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-
Protein Sequence
MDINFRLFSERLRRLIEGEEGTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFVHESEKVIYTFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNNIGLWVELKSYFTEARNSSSTLGFKKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIKSVMPRSM
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccEEEccccHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHcccccHHcccccEEEEEcccHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHcHcccccEEEcccccccccccccccccccccEEccccHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHccHHHHHcccEEEEEEccccHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MDINFRLFSERLRRLIegeegtlpdatkEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFVHESEKVIYTFMISRITqqisgsssKDLFDALLGLQSQIIDIKQQLQQFRPNNIGLWVELKSYFTEarnssstlgfkkrniMGLEDEIEELLDLLIVGEPSLFIVAIVGnsgfdktnfageaynnnyaknyfdcrawvGCEYYLHKVLDSIIKSVMPRSM
Flexible Loop (DISEMBL)
MDINFRLFSERLRRliegeegtlpdatkeqFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFVHESEKVIYTFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNNIGLWVELKSYFTearnssstlgfkkrNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSiiksvmprsm
Low Complexity Region (SEG)
MDINFRLFSerlrrliegeegTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFVHESEKVIYTFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNNIGLWVELKSYFTEARNSSSTLGFKKRNIMGledeieelldlliVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIKSVMPRSM
Disordered region (IsUnstruct)
******LFS*RLRRLI***********KEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFVHESEKVIYTFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNNIGLWVELKSYFTE*************************LDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIK*******
Disordered Region (DISOPRED)
MDINFRLFSERLRRLIEGEEGTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFVHESEKVIYTFMISR************************IDIKQQLQ*******************************RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIKSVMP***
Disordered Region (DISEMBL)
MDINFRLFSERLRRLIEGEEGTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFVHESEKVIYTFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNNIGLWVELKSYFTEARNSSSTLGFKKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIKSVMPRSM
Disordered Region (DISPRO)
MDINFRLFSERLRRLIEGEEGTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFVHESEKVIYTFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNNIGLWVELK*************GFKKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIKSVM****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDINFRLFSERLRRLIEGEEGTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFVHESEKVIYTFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNNIGLWVELKSYFTEARNSSSTxxxxxxxxxxxxxxxxxxxxxLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIKSVMPRSM
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	241	2.2.26 [Sep-21-2011]
Q9M667	835	Disease resistance protei	yes	no	0.834	0.240	0.263	5e-06
Q9STE7	847	Putative disease resistan	no	no	0.311	0.088	0.379	6e-06
Q9XIF0	906	Putative disease resistan	no	no	0.622	0.165	0.261	2e-05
Q9C646	899	Probable disease resistan	no	no	0.580	0.155	0.247	2e-05
P0C8S1	906	Probable disease resistan	no	no	0.663	0.176	0.251	4e-05
Q9LQ54	870	Probable disease resistan	no	no	0.643	0.178	0.254	5e-05
Q9LRR4	1054	Putative disease resistan	no	no	0.871	0.199	0.225	9e-05
Q9SX38	857	Putative disease resistan	no	no	0.253	0.071	0.327	0.0002
Q8W474	907	Probable disease resistan	no	no	0.597	0.158	0.239	0.0002
Q9STE5	847	Putative disease resistan	no	no	0.854	0.243	0.236	0.0003

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

 Score = 51.6 bits (122), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 63/239 (26%), Positives = 107/239 (44%), Gaps = 38/239 (15%)

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

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

Query: 127 LQQF------RPNNIGLWVELKSYFTEARNSSSTLGFKKRNIMGLEDEIEELLD-LLIVG 179
            + +       P   G    L+    + R + S    ++  ++GLED+ + LL+ LL   
Sbjct: 126 RETYGIGGLKEPQGGGNTSSLR--VRQLRRARSV--DQEEVVVGLEDDAKILLEKLLDYE 181

Query: 180 EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAW--VGCEYYLHKVLDSIIKSV 236
           E + FI++I G  G  KT  A + YN+   K  F+ RAW  V  EY    +L  II+S+
Sbjct: 182 EKNRFIISIFGMGGLGKTALARKLYNSRDVKERFEYRAWTYVSQEYKTGDILMRIIRSL 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|Q9STE7|R13L3_ARATH Putative disease resistance RPP13-like protein 3 OS=Arabidopsis thaliana GN=RPP13L3 PE=3 SV=1

 Score = 51.2 bits (121), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 30/79 (37%), Positives = 45/79 (56%), Gaps = 4/79 (5%)

Query: 162 IMGLEDEIEELLDLLIVG--EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAW- 218
           ++GLED+++ LL  L+    +   +I++I G  G  KT  A + YN+   K  FDCRAW 
Sbjct: 162 VVGLEDDVKILLVKLLSDNEKDKSYIISIFGMGGLGKTALARKLYNSGDVKRRFDCRAWT 221

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

Potential 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 = 49.3 bits (116), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 51/195 (26%), Positives = 91/195 (46%), Gaps = 45/195 (23%)

Query: 71  VQGILKEMKDFVHESEKVIYTFMIS----------------RITQQISGSSSKDLFDAL- 113
            +  L+E+K+  +++E +I  F++                  I  QI+ S SK +   + 
Sbjct: 63  ARNCLEEIKEITYDAEDIIEIFLLKGSVNMRSLACFPGGRREIALQIT-SISKRISKVIQ 121

Query: 114 ----LGLQSQI---IDIKQQLQQFRPNNIGLWVELKSYFTEARNSSSTLGFKKRNIMGLE 166
               LG++S I   +D   QL++ R        EL+  F+    S         N++GLE
Sbjct: 122 VMQNLGIKSDIMDGVDSHAQLERKR--------ELRHTFSSESES---------NLVGLE 164

Query: 167 DEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGC--EYY 224
             +E+L++ L VG  S   V+I G  G  KT  A + ++++  K++FD  AWV    E+ 
Sbjct: 165 KNVEKLVEEL-VGNDSSHGVSITGLGGLGKTTLARQIFDHDKVKSHFDGLAWVCVSQEFT 223

Query: 225 LHKVLDSIIKSVMPR 239
              V  +I+ ++ P+
Sbjct: 224 RKDVWKTILGNLSPK 238

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C646|RX24L_ARATH Probable disease resistance protein RXW24L OS=Arabidopsis thaliana GN=RXW24L PE=2 SV=1

 Score = 49.3 bits (116), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 43/174 (24%), Positives = 81/174 (46%), Gaps = 34/174 (19%)

Query: 71  VQGILKEMKDFVHESEKVIYTFMISR-------ITQQISGSSS-----KDLFDALLGLQS 118
           V+  ++E+KD V+++E +I TF++         I ++I   +S     ++L   + G+  
Sbjct: 56  VRHCVEEIKDIVYDTEDIIETFILKEKVEMKRGIMKRIKRFASTIMDRRELASDIGGISK 115

Query: 119 QIIDIKQQLQQFRPNNIGLWVELKSYFTEARNSSSTLGFKKR------------NIMGLE 166
           +I  + Q +Q F    I          T+   SS  L  ++R            + +G+E
Sbjct: 116 RISKVIQDMQSFGVQQI---------ITDGSRSSHPLQERQREMRHTFSRDSENDFVGME 166

Query: 167 DEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG 220
             +++L+  L V +    IV++ G  G  KT  A + +N++  K+ FD  AWV 
Sbjct: 167 ANVKKLVGYL-VEKDDYQIVSLTGMGGLGKTTLARQVFNHDVVKDRFDGFAWVS 219

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 = 48.5 bits (114), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 46/183 (25%), Positives = 93/183 (50%), Gaps = 23/183 (12%)

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

Query: 100 QISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNNIGLW---VELKSYFTEARNSSSTLG 156
            I G + K + + ++G+QS  I   Q +      ++ L     E++  F+  RNS S   
Sbjct: 111 DIEGIT-KRISEVIVGMQSLGI---QHIADGGGRSLSLQERQREIRQTFS--RNSES--- 161

Query: 157 FKKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCR 216
               +++GL+  +EEL+D L+  + S+ +V++ G  G  KT  A + ++++  + +FD  
Sbjct: 162 ----DLVGLDQSVEELVDHLVEND-SVQVVSVSGMGGIGKTTLARQVFHHDIVRRHFDGF 216

Query: 217 AWV 219
           +WV
Sbjct: 217 SWV 219

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 48.1 bits (113), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 44/173 (25%), Positives = 83/173 (47%), Gaps = 18/173 (10%)

Query: 71  VQGILKEMKDFVHESEKVIYTFMISRITQQISGSSSK-DLFDALLGLQSQI-IDIKQQLQ 128
           V   +KE+K+ V+++E +I TF+  +   +  G   +   F  +L  + +I ID++    
Sbjct: 58  VSNTVKEVKEIVYDTEDIIETFLRKKQLGRTRGMKKRIKEFACVLPDRRKIAIDME---- 113

Query: 129 QFRPNNIGLWVELKSYFTEARNSSSTLGFKKRNIM-GLEDEIEELLDLLIVGEPSLFIVA 187
                  GL   +     + RN   T      +++ GLE+ +++L+  L+  E S  +V+
Sbjct: 114 -------GLSKRIAK--KDKRNMRQTFSNNNESVLVGLEENVKKLVGHLVEVEDSSQVVS 164

Query: 188 IVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGC--EYYLHKVLDSIIKSVMP 238
           I G  G  KT  A + +N+   K++F   AWV    ++    V  +I++ V P
Sbjct: 165 ITGMGGIGKTTLARQVFNHETVKSHFAQLAWVCVSQQFTRKYVWQTILRKVGP 217

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LRR4|R13L1_ARATH Putative disease resistance RPP13-like protein 1 OS=Arabidopsis thaliana GN=RPPL1 PE=3 SV=1

 Score = 47.4 bits (111), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 53/235 (22%), Positives = 107/235 (45%), Gaps = 25/235 (10%)

Query: 29  EQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEV-QGILKEMKDFVHESEK 87
           E F++ +   E+  +LL      +  I    +  EE+ + + V +  + E++D V+ +E 
Sbjct: 23  EPFRSFFKRRELNENLLERLSTALLTITAVLIDAEEKQITNPVVEKWVNELRDVVYHAED 82

Query: 88  VIYTFMISRITQQISGSSSKD-----------LFDALLG----LQSQIIDIKQQLQQF-- 130
            +       +   I   SS             L D L G    L++++  +  +L++   
Sbjct: 83  ALDDIATEALRLNIGAESSSSNRLRQLRGRMSLGDFLDGNSEHLETRLEKVTIRLERLAS 142

Query: 131 RPNNIGLWVELKSYFTEARNSSSTLGFKKRNIMGLEDEIEELLDLLIV---GEPSLFIVA 187
           + N +GL  EL +   + R  +++L   +  + G +D+ +E++  LI     +  + +VA
Sbjct: 143 QRNILGL-KELTAMIPKQRLPTTSL-VDESEVFGRDDDKDEIMRFLIPENGKDNGITVVA 200

Query: 188 IVGNSGFDKTNFAGEAYNNNYAKNYFDCRAW--VGCEYYLHKVLDSIIKSVMPRS 240
           IVG  G  KT  +   YN+ + ++YF  + W  V  E+ + K+   + +SV  R 
Sbjct: 201 IVGIGGVGKTTLSQLLYNDQHVRSYFGTKVWAHVSEEFDVFKITKKVYESVTSRP 255

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SX38|DRL4_ARATH Putative disease resistance protein At1g50180 OS=Arabidopsis thaliana GN=At1g50180 PE=3 SV=2

 Score = 46.6 bits (109), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 37/61 (60%)

Query: 159 KRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAW 218
           + N++GLE  +E+L++ L+ G   L + +I G  G  KT  A + ++++  + +FD  AW
Sbjct: 161 EHNLVGLEQSLEKLVNDLVSGGEKLRVTSICGMGGLGKTTLAKQIFHHHKVRRHFDRFAW 220

Query: 219 V 219
           V
Sbjct: 221 V 221

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8W474|DRL7_ARATH Probable disease resistance protein At1g58390 OS=Arabidopsis thaliana GN=At1g58390 PE=2 SV=4

 Score = 45.8 bits (107), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 40/167 (23%), Positives = 81/167 (48%), Gaps = 23/167 (13%)

Query: 71  VQGILKEMKDFVHESEKVIYTFMISRITQQISGSSSKDLFDALL------------GLQS 118
           V+ +++E+K+ V+++E +I T+++     + SG   +    A +            G+++
Sbjct: 58  VRNVVEEIKEIVYDAEDIIETYLLKEKLWKTSGIKMRIRRHACIISDRRRNALDVGGIRT 117

Query: 119 QIIDIKQQLQQFRPNNI---GLWVELKSYFTEARNSSSTLGFKK---RNIMGLEDEIEEL 172
           +I D+ + +Q F        G +++ +      R       F K    + +GLE  +++L
Sbjct: 118 RISDVIRDMQSFGVQQAIVDGGYMQPQG----DRQREMRQTFSKDYESDFVGLEVNVKKL 173

Query: 173 LDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWV 219
           +  L V E ++ +V+I G  G  KT  A + +N+   K+ FD  AWV
Sbjct: 174 VGYL-VDEENVQVVSITGMGGLGKTTLARQVFNHEDVKHQFDRLAWV 219

Possible 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 = 45.8 bits (107), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 55/233 (23%), Positives = 105/233 (45%), Gaps = 27/233 (11%)

Query: 19  EEGTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSE----VQGI 74
           EE  +    K+  + L TE+  +   L N E          +  +E+ V  E    V  I
Sbjct: 19  EEAPMLIGVKDDLEELKTELTCIQVYLKNVE----------VCDKEDEVSKEWTKLVLDI 68

Query: 75  LKEMKDFVH----ESEKVIYTFMISRITQQISGSSSK-DLFDALLGLQSQIIDIKQQLQQ 129
             +++D +     + EK ++   + R+T  IS      ++ D +  L+ + +D+ ++L+ 
Sbjct: 69  AYDVEDVLDTYFLKLEKRLHRLGLMRLTNIISDKKDAYNILDDIKTLKRRTLDVTRKLEM 128

Query: 130 FRPNNIG--LWVELKSYFTEARNSSSTLGFKKRNIMGLEDEIEELLDLLIV--GEPSLFI 185
           +   N      V   S   E R + S    ++  ++GL D+ + LL  L+   G+  +++
Sbjct: 129 YGIGNFNEHRVVASTSRVREVRRARS--DDQEERVVGLTDDAKVLLTKLLDDDGDNKIYM 186

Query: 186 VAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAW--VGCEYYLHKVLDSIIKSV 236
           ++I G  G  KT+ A + +N++  K  F+ R W  V  E     +L  II S+
Sbjct: 187 ISIFGMEGLGKTSLARKLFNSSDVKESFEYRVWTNVSGECNTRDILMRIISSL 239

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	241
255566508	985	conserved hypothetical protein [Ricinus	0.618	0.151	0.272	7e-08
225454212	936	PREDICTED: putative disease resistance p	0.912	0.235	0.273	8e-08
297744815	407	unnamed protein product [Vitis vinifera]	0.585	0.346	0.282	2e-07
147800242	801	hypothetical protein VITISV_002459 [Viti	0.821	0.247	0.262	3e-07
2258317	1240	resistance complex protein I2C-2 [Solanu	0.601	0.116	0.312	9e-07
255569114	563	leucine-rich repeat-containing protein,	0.639	0.273	0.289	1e-06
410129757	967	hypothetical protein [Beta vulgaris]	0.406	0.101	0.333	1e-06
297744817	543	unnamed protein product [Vitis vinifera]	0.788	0.349	0.258	1e-06
356496703	910	PREDICTED: disease resistance RPP8-like	0.311	0.082	0.376	1e-06
297745212	706	unnamed protein product [Vitis vinifera]	0.746	0.254	0.253	2e-06

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

 Score = 63.5 bits (153), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 45/165 (27%), Positives = 80/165 (48%), Gaps = 16/165 (9%)

Query: 71  VQGILKEMKDFVHESEKVIYTFMISRITQQISGSSS-KDLFDALLGLQSQIIDIKQQLQQ 129
           V+  + E++   +++E VI TF++   T +  G+S     F +++     I +I+ Q++ 
Sbjct: 58  VRNWVAEIRGVAYDAEDVIETFILEAATGRGEGASGIMKRFTSIIKKVPHIHEIRNQIES 117

Query: 130 FRPNNIGLWVELKSY---FTEARN-SSSTLGFKKR-----------NIMGLEDEIEELLD 174
            R     +   L++Y   F   R  SSS    ++R           +++  +  I +L  
Sbjct: 118 IRTKICDISSSLQTYDIKFVAKREWSSSASEMQQRLRRSYPHDEDEHVISFDAVIRDLKA 177

Query: 175 LLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWV 219
            L++ E  L +V+IVG  G  KT  A + YN+N  K +FDC AW 
Sbjct: 178 QLMIEEERLRVVSIVGIGGLGKTTLAKKVYNDNRVKQHFDCYAWA 222

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225454212|ref|XP_002274233.1| PREDICTED: putative disease resistance protein At1g50180-like [Vitis vinifera]

 Score = 63.2 bits (152), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 70/256 (27%), Positives = 123/256 (48%), Gaps = 36/256 (14%)

Query: 7   LFSERLRRLIEGEEGTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEF 66
           +F E+L  L+  +E  L    +EQ + L  E++ +   L + ++       QSL  E+  
Sbjct: 7   IFVEKLSNLVL-QEAFLFGQVEEQVKLLRDELKWMRLFLKDADS-------QSLCNEKIK 58

Query: 67  VFSEVQGILKEMKDFVHESEKVIYTFMISRITQQISGSSSKDL--FDALLGLQSQIIDIK 124
           ++ E      ++++  H++E VI  F++    +Q+  ++ K L      +G   ++  I 
Sbjct: 59  LWVE------QIRNVTHDAEDVIDEFILDMDRRQLRLNTLKFLKCLPTCVGFADKLPFIH 112

Query: 125 QQLQQFRPNNIGL---WVELKSYFTEA---RNSSST----LGFKKR--------NIMGLE 166
           +   + +  NI +         Y  EA    NSSST    + +K++        +++G+E
Sbjct: 113 ELDGRVKEINIRIERIMANRSKYGLEALMASNSSSTTDQVVAYKEKWAQVVEGSDVVGIE 172

Query: 167 DEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGC--EYY 224
           D  E +  +L  GE    +V+IVG  G  KT  A + YN++  K +FDC AWV    E+ 
Sbjct: 173 DGTEVVTQMLTKGEMRRAVVSIVGMGGLGKTTLAKKVYNHSGVKRHFDCIAWVCVSQEFK 232

Query: 225 LHKVLDSIIKSVMPRS 240
             ++L SII SVM  S
Sbjct: 233 PRELLLSIISSVMSLS 248

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 = 62.0 bits (149), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 44/156 (28%), Positives = 77/156 (49%), Gaps = 15/156 (9%)

Query: 77  EMKDFVHESEKVIYTFMISRITQQISGSSSKDLFDALL---GLQSQIIDIKQQLQQFRPN 133
           +++D  +++E VI  FM   +  Q  GS     F  L     L+S+I +I  ++++   N
Sbjct: 64  QIRDVTYDAEDVIDRFMFE-MNHQQQGSLKCLKFLKLRFVPKLESRIREINTKIEKIMAN 122

Query: 134 NIGLWVELKSYFTEARNSSSTLGFKKR--------NIMGLEDEIEELLDLLIVGEPSLFI 185
                VE       A +S+  +  K+R        N++G++++ + +   L+ GE    +
Sbjct: 123 KSRYGVE---TLPAASSSNEVVPHKERRAPIVEEVNVVGIQEDAKSVKQNLLNGEMRRAV 179

Query: 186 VAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGC 221
           V+IVG  G  KT  A + YN+N  +  FDC AW+ C
Sbjct: 180 VSIVGMGGLGKTTLAKKVYNDNDVRQCFDCHAWIYC 215

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 61.2 bits (147), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 57/217 (26%), Positives = 103/217 (47%), Gaps = 19/217 (8%)

Query: 34  LYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFVHESEKVIYTFM 93
           L + +E    LLSN E +  ++  +    +  +    ++  + +++D  +++E VI  FM
Sbjct: 23  LLSRVEEQVKLLSN-ELEWMRLFLKDADAKRRY-DPRIKLWVSQIRDVTYDAEDVIDRFM 80

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

Query: 151 SSSTLGFKKR--------NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGE 202
           S+  +  K++        N++G+ +  + +  +L+ GE    +V+IVG  G  KT  A +
Sbjct: 137 SNEVVPQKEKRVPIVEEVNVVGIREGAKSVKQMLLNGERRRAVVSIVGMGGLGKTTLAKK 196

Query: 203 AYNNNYAKNYFDCRAW--VGCEYYLHKVLDSIIKSVM 237
            YN+N  + YFDC AW  V  EY + ++L  I   VM
Sbjct: 197 VYNDNDVQQYFDCHAWIYVSQEYTIRELLLGIADYVM 233

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|2258317|gb|AAB63275.1| resistance complex protein I2C-2 [Solanum lycopersicum]

 Score = 59.7 bits (143), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 51/163 (31%), Positives = 84/163 (51%), Gaps = 18/163 (11%)

Query: 71  VQGILKEMKDFVHESEKVI----YTFMISRI---TQQISGSSSKDLFDAL-LGLQSQIID 122
           V+  L E++D V  +E +I    Y  +  ++    Q  S +S++ + D   L ++ ++ D
Sbjct: 70  VRDWLNELRDAVDSAENLIEEVNYEALRLKVEGQHQNFSETSNQQVSDEFFLNIKDKLED 129

Query: 123 IKQQLQQFRPNNIGLWVELKSYFT----EARNSSSTLGFKKRNIMGLEDEIEELLDLLI- 177
             + L+  +   IGL + LK YF     E R  S++L   + +I G + EIE+L+D L+ 
Sbjct: 130 TIETLKDLQ-EQIGL-LGLKEYFDSTKLETRTPSTSL-IDEPDIFGRQSEIEDLIDRLLS 186

Query: 178 --VGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAW 218
                 +L +V IVG  G  KT  A   YN+   KN+FD +AW
Sbjct: 187 EGASGKNLTVVPIVGMGGLGKTTLAKAVYNDESVKNHFDLKAW 229

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569114|ref|XP_002525526.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223535205|gb|EEF36884.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score = 59.7 bits (143), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 46/159 (28%), Positives = 73/159 (45%), Gaps = 5/159 (3%)

Query: 78  MKDFVHESEKVIYTFMISRITQQISGSSSKDLFDALLGLQSQIIDIKQQLQQFRPNNIGL 137
           ++D V++ E +I  FM   +T  + G++ +D    L   Q  +      LQ  +    G 
Sbjct: 65  VRDLVYDVEDIIDEFMY-HMTSNMVGTNPQDTLQDLWLPQMSVGKASNCLQAAKDQRSG- 122

Query: 138 WVELKSYFTEARNSSSTLGFKKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKT 197
                  +    +  S+L  K   ++G+EDE E ++  L  GE     V +VG  G  KT
Sbjct: 123 -SSSSDSYRGMIHEESSLFVKDDELVGIEDERELVIGWLTNGEQQRVTVLVVGMVGSGKT 181

Query: 198 NFAGEAYNNNYAKNYFDCRAWVGCE--YYLHKVLDSIIK 234
             A +AYN    K++FDC AWV     Y +  +  S+IK
Sbjct: 182 TLAVKAYNCQIVKHHFDCYAWVTVSQAYVIEDLFRSLIK 220

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|410129757|dbj|BAM64835.1| hypothetical protein [Beta vulgaris]

 Score = 59.3 bits (142), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 36/108 (33%), Positives = 57/108 (52%), Gaps = 10/108 (9%)

Query: 132 PNNIGLWVELKSYFTEARNSSSTLGFKKRNIMGLEDEIEELLDLLI-VGEPSLFIVAIVG 190
           P++ G W      F+   N+         +++GLE +I +L+++L+  G   + +V+IVG
Sbjct: 143 PHDEGYWRRQPPSFSHDDNNGE-------HVVGLEKDIRKLVEVLMGEGNTQVNVVSIVG 195

Query: 191 NSGFDKTNFAGEAYNNNYAKNYFDCRAWV--GCEYYLHKVLDSIIKSV 236
             G  KT  A + YN+ YAK  FDC AWV    E+    VL  I++ V
Sbjct: 196 MGGSGKTTLARKLYNHPYAKECFDCTAWVFISQEWRTEHVLLQILRKV 243

Source: Beta vulgaris

Species: Beta vulgaris

Genus: Beta

Family: Amaranthaceae

Order: Caryophyllales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744817|emb|CBI38085.3| unnamed protein product [Vitis vinifera]

 Score = 59.3 bits (142), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 54/209 (25%), Positives = 100/209 (47%), Gaps = 19/209 (9%)

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

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

Query: 151 SSSTLGFKKR--------NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGE 202
           S+  +  K+R        N++G++++ + +   L+ GE    +V+IVG  G  KT  A +
Sbjct: 137 SNEVVPHKERRAPIVEEVNVVGIQEDAKSVKQNLLNGEMRRAVVSIVGMGGLGKTTLAKK 196

Query: 203 AYNNNYAKNYFDCRAW--VGCEYYLHKVL 229
            YN+N  +  FDC AW  V  EY + ++L
Sbjct: 197 VYNDNDVRQCFDCHAWIYVSQEYTIRELL 225

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 59.3 bits (142), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/77 (37%), Positives = 44/77 (57%), Gaps = 2/77 (2%)

Query: 162 IMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAW--V 219
           ++ LED++  L   L+  EP+  +V+IVG  G  KT  A + YN+    N+F+C+AW  V
Sbjct: 161 VIELEDDMRLLFTQLLAVEPTPHVVSIVGMGGLGKTTLAKKLYNHTRITNHFECKAWVYV 220

Query: 220 GCEYYLHKVLDSIIKSV 236
             EY    VL  I++ V
Sbjct: 221 SKEYRRRDVLQGILRDV 237

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 58.9 bits (141), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 50/197 (25%), Positives = 94/197 (47%), Gaps = 17/197 (8%)

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

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

Query: 151 SSSTLGFKKR--------NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGE 202
           S+  +  K++        N++G+ +  + +  +L+ GE    +V+IVG  G  KT  A +
Sbjct: 137 SNEVVPQKEKRVPIVEEVNVVGIREGAKSVKQMLLNGERRRAVVSIVGMGGLGKTTLAKK 196

Query: 203 AYNNNYAKNYFDCRAWV 219
            YN+N  + YFDC AW+
Sbjct: 197 VYNDNDVQQYFDCHAWI 213

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	241
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	3e-06

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

 Score = 46.9 bits (112), Expect = 3e-06
 Identities = 22/54 (40%), Positives = 31/54 (57%)

Query: 166 EDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWV 219
           ED IE L++ L+    +L +V IVG  G  KT  A + YN++    +FD  AWV
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWV 55

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	241
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.95
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.53
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.18
cd01128	249	rho_factor Transcription termination factor rho is	98.58
PRK09376	416	rho transcription termination factor Rho; Provisio	98.55
PTZ00202	550	tuzin; Provisional	98.44
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.39
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.32
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.3
PRK08118	167	topology modulation protein; Reviewed	98.19
TIGR00767	415	rho transcription termination factor Rho. Members	98.18
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.0
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.95
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.92
PRK07261	171	topology modulation protein; Provisional	97.87
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.84
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.83
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.82
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.81
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.71
PRK06696	223	uridine kinase; Validated	97.69
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.68
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.64
PRK07667	193	uridine kinase; Provisional	97.63
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.59
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.57
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	97.55
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.54
PRK13342	413	recombination factor protein RarA; Reviewed	97.48
PRK05480	209	uridine/cytidine kinase; Provisional	97.43
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.42
PRK15455	644	PrkA family serine protein kinase; Provisional	97.42
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.41
KOG2028	554	consensus ATPase related to the helicase subunit o	97.39
PF05729	166	NACHT: NACHT domain	97.38
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.38
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.37
PRK08233	182	hypothetical protein; Provisional	97.37
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.33
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.33
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.32
PRK06762	166	hypothetical protein; Provisional	97.31
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.3
PRK04195	482	replication factor C large subunit; Provisional	97.26
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.25
PRK06547	172	hypothetical protein; Provisional	97.25
PRK12402	337	replication factor C small subunit 2; Reviewed	97.24
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.24
PTZ00301	210	uridine kinase; Provisional	97.23
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.22
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.21
PRK05541	176	adenylylsulfate kinase; Provisional	97.21
PHA02544	316	44 clamp loader, small subunit; Provisional	97.19
CHL00095	821	clpC Clp protease ATP binding subunit	97.19
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.17
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	97.14
PRK14738	206	gmk guanylate kinase; Provisional	97.13
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.12
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.11
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.1
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	97.1
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.1
PRK13341	725	recombination factor protein RarA/unknown domain f	97.09
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.08
PRK04040	188	adenylate kinase; Provisional	97.08
PF13173	128	AAA_14: AAA domain	97.07
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.06
PLN03025	319	replication factor C subunit; Provisional	97.06
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	97.05
smart00382	148	AAA ATPases associated with a variety of cellular	97.05
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.04
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	97.03
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.02
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.0
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.0
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.99
PRK10865	857	protein disaggregation chaperone; Provisional	96.98
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.96
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.94
PF00004	132	AAA: ATPase family associated with various cellula	96.93
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.92
PRK05439	311	pantothenate kinase; Provisional	96.91
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	96.9
PRK13765	637	ATP-dependent protease Lon; Provisional	96.9
PHA00729	226	NTP-binding motif containing protein	96.89
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	96.88
PRK00300	205	gmk guanylate kinase; Provisional	96.88
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.88
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.87
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.87
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.86
PRK00131	175	aroK shikimate kinase; Reviewed	96.86
PLN02318	656	phosphoribulokinase/uridine kinase	96.85
PRK00625	173	shikimate kinase; Provisional	96.85
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.84
COG2256	436	MGS1 ATPase related to the helicase subunit of the	96.83
PRK04841	903	transcriptional regulator MalT; Provisional	96.81
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.81
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.79
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.79
PRK03846	198	adenylylsulfate kinase; Provisional	96.79
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	96.78
PRK13975	196	thymidylate kinase; Provisional	96.77
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.77
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.77
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.77
PRK00889	175	adenylylsulfate kinase; Provisional	96.76
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	96.76
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	96.73
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.72
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.72
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.71
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.71
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	96.7
PRK13949	169	shikimate kinase; Provisional	96.69
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.69
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.67
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.67
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	96.67
PRK10536	262	hypothetical protein; Provisional	96.67
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	96.66
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.65
COG1100	219	GTPase SAR1 and related small G proteins [General	96.65
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.64
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.64
PLN02348	395	phosphoribulokinase	96.64
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.63
PRK13947	171	shikimate kinase; Provisional	96.63
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.62
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.62
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.61
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	96.61
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.6
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	96.6
CHL00181	287	cbbX CbbX; Provisional	96.59
PRK14737	186	gmk guanylate kinase; Provisional	96.59
PLN02796	347	D-glycerate 3-kinase	96.58
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.58
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.58
PRK06893	229	DNA replication initiation factor; Validated	96.58
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	96.58
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.57
PRK14530	215	adenylate kinase; Provisional	96.57
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	96.57
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.57
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.56
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.54
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.54
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.54
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.53
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	96.53
cd03116	159	MobB Molybdenum is an essential trace element in t	96.52
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.51
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	96.51
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.51
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.51
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.5
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.49
PRK05057	172	aroK shikimate kinase I; Reviewed	96.49
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.49
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.48
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.47
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.47
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	96.47
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	96.47
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	96.47
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	96.46
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	96.46
PF07726	131	AAA_3: ATPase family associated with various cellu	96.46
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.46
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	96.45
PRK14527	191	adenylate kinase; Provisional	96.45
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.45
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.45
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.44
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.44
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	96.44
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.43
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.43
PRK08727	233	hypothetical protein; Validated	96.43
PRK06761	282	hypothetical protein; Provisional	96.42
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.42
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	96.42
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	96.42
PRK00698	205	tmk thymidylate kinase; Validated	96.41
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	96.41
PRK13531	498	regulatory ATPase RavA; Provisional	96.41
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	96.41
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	96.41
PRK12608	380	transcription termination factor Rho; Provisional	96.41
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.4
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.4
PRK08084	235	DNA replication initiation factor; Provisional	96.4
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	96.39
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.39
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	96.39
PRK08356	195	hypothetical protein; Provisional	96.38
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.38
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	96.38
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.38
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	96.38
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	96.37
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.37
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	96.37
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	96.37
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	96.36
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	96.36
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.36
PLN02200	234	adenylate kinase family protein	96.36
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	96.36
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.36
PRK09825	176	idnK D-gluconate kinase; Provisional	96.35
PRK13695	174	putative NTPase; Provisional	96.35
cd03269	210	ABC_putative_ATPase This subfamily is involved in	96.35
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.34
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.34
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	96.34
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.34
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	96.33
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	96.32
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	96.32
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	96.31
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	96.31
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	96.31
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.31
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.31
PRK14974	336	cell division protein FtsY; Provisional	96.3
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	96.3
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	96.29
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.29
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	96.29
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	96.29
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	96.29
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.29
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	96.28
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	96.28
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	96.28
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	96.28
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.28
PRK10416	318	signal recognition particle-docking protein FtsY;	96.28
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	96.27
PRK06620	214	hypothetical protein; Validated	96.27
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	96.27
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	96.27
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	96.27
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.27
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	96.27
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.27
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.26
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.25
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	96.25
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.24
PRK09087	226	hypothetical protein; Validated	96.24
PRK13946	184	shikimate kinase; Provisional	96.23
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.23
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	96.23
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	96.21
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.21
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	96.21
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	96.21
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	96.2
PLN03046	460	D-glycerate 3-kinase; Provisional	96.2
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	96.2
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	96.2
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	96.2
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	96.2
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	96.19
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	96.19
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	96.19
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	96.19
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	96.19
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	96.19
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	96.19
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.19
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	96.18
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	96.18
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	96.18
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	96.18
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	96.17
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	96.17
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	96.17
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	96.17
PRK15453	290	phosphoribulokinase; Provisional	96.17
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	96.17
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	96.17
PRK13948	182	shikimate kinase; Provisional	96.16
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.16
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	96.15
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.15
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	96.14
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	96.14
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	96.14
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.14
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	96.14
cd03114	148	ArgK-like The function of this protein family is u	96.13
PRK03731	171	aroL shikimate kinase II; Reviewed	96.13
PRK13233	275	nifH nitrogenase reductase; Reviewed	96.13
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	96.13
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	96.13
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	96.13
PRK13768	253	GTPase; Provisional	96.13
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	96.13
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.12
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	96.12
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	96.12
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	96.12
) 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	96.12
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.11
smart00178	184	SAR Sar1p-like members of the Ras-family of small	96.11
PRK10908	222	cell division protein FtsE; Provisional	96.1
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	96.09
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	96.09
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	96.09
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	96.09
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	96.09
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	96.08
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	96.08
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	96.08
PRK12377	248	putative replication protein; Provisional	96.08
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	96.08
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.07
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	96.07
PRK13236	296	nitrogenase reductase; Reviewed	96.07
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.06
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	96.06
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	96.06
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	96.06
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	96.06
cd03246	173	ABCC_Protease_Secretion This family represents the	96.05
PRK06851	367	hypothetical protein; Provisional	96.05
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	96.04
PRK07429	327	phosphoribulokinase; Provisional	96.04
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.04
PRK13231	264	nitrogenase reductase-like protein; Reviewed	96.04
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.03
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.03
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	96.03
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	96.03
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	96.03
PRK07940	394	DNA polymerase III subunit delta'; Validated	96.02
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	96.02
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.02
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	96.02
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.02
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	96.02
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.01
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.01
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.01
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	96.01
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	96.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	96.0
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	96.0
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.99
PRK10865	857	protein disaggregation chaperone; Provisional	95.99
PHA02530	300	pseT polynucleotide kinase; Provisional	95.99
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	95.99
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	95.99
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	95.98
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	95.98
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	95.98
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	95.98
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.98
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	95.97
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	95.97
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	95.97
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.96
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	95.96
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	95.96
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	95.96
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	95.96
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	95.96
cd03215	182	ABC_Carb_Monos_II This family represents domain II	95.96
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	95.96
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	95.95
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	95.95
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	95.95
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	95.95
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	95.94
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	95.94
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	95.94
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	95.94
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	95.93
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	95.93
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.93
PRK05642	234	DNA replication initiation factor; Validated	95.93
COG1123	539	ATPase components of various ABC-type transport sy	95.93
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	95.93
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	95.93
PTZ00088	229	adenylate kinase 1; Provisional	95.92
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	95.92
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	95.91
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	95.91
COG3638	258	ABC-type phosphate/phosphonate transport system, A	95.91
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	95.91
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	95.91
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	95.91
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	95.91
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	95.91
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	95.9
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	95.9
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.9
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	95.89
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	95.89
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	95.89
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	95.89
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	95.89
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	95.89
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	95.88
cd03234	226	ABCG_White The White subfamily represents ABC tran	95.88
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.88
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	95.88
PRK00089	292	era GTPase Era; Reviewed	95.87
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	95.87
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	95.87
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	95.86
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	95.86
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	95.86
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	95.86
COG0410	237	LivF ABC-type branched-chain amino acid transport	95.86
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	95.85
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	95.85
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	95.85
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	95.85
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	95.85
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	95.85
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	95.85
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.85
PRK14531	183	adenylate kinase; Provisional	95.84
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	95.84
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	95.83
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	95.83
COG3899	849	Predicted ATPase [General function prediction only	95.83
PLN02165	334	adenylate isopentenyltransferase	95.82
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	95.82
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	95.82
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	95.82
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	95.81
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	95.81
COG4619	223	ABC-type uncharacterized transport system, ATPase	95.81
PRK12338	319	hypothetical protein; Provisional	95.81
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	95.81
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	95.81
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	95.81
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	95.81
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.8
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	95.8
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	95.8
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	95.8
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	95.8
PRK09112	351	DNA polymerase III subunit delta'; Validated	95.8
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	95.79
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	95.79
cd03273	251	ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC protein	95.79
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	95.79
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	95.79
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.79
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	95.79
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	95.79
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	95.79
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	95.78
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	95.78
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	95.78
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	95.78
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	95.78
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.78
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.78
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	95.78
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	95.77
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	95.77
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	95.77
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	95.77
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	95.76
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	95.76
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	95.76
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	95.75
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	95.75
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	95.75
PRK10867	433	signal recognition particle protein; Provisional	95.75
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	95.74
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.74
PRK09183	259	transposase/IS protein; Provisional	95.74
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	95.74
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	95.74
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.74
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	95.74
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	95.74
cd03274	212	ABC_SMC4_euk Eukaryotic SMC4 proteins; SMC protein	95.73
PRK14260	259	phosphate ABC transporter ATP-binding protein; Pro	95.73
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	95.73
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	95.73
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	95.73
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	95.72
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	95.72
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	95.72
PRK14270	251	phosphate ABC transporter ATP-binding protein; Pro	95.72
PTZ00035	337	Rad51 protein; Provisional	95.72
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	95.71
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	95.71
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	95.71
CHL00176	638	ftsH cell division protein; Validated	95.71

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.95  E-value=1.6e-26  Score=218.73  Aligned_cols=219  Identities=18%  Similarity=0.252  Sum_probs=175.5

Q ss_pred             CcchHHHHHHHHHHHHhhccccCchhHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCccchHHHHHHHHHHHH
Q 042580            1 MDINFRLFSERLRRLIEGEEGTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKD   80 (241)
Q Consensus         1 ~~avv~~~~~kl~~~l~~~~~~~~~~~~~~~~~L~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~v~~Wl~~vr~   80 (241)
                      |+++++..++++.+++..+ +..+.+.+..+..|++.|..|+++++++++.  ..       ..    ..+..|...+++
T Consensus         1 ~~~~~s~~~~~~~~~l~~~-~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~--~~-------~~----~~~~~~~e~~~~   66 (889)
T KOG4658|consen    1 MGACVSFGVEKLDQLLNRE-SECLDGKDNYILELKENLKALQSALEDLDAK--RD-------DL----ERRVNWEEDVGD   66 (889)
T ss_pred             CCeEEEEehhhHHHHHHHH-HHHHhchHHHHHHHHHHHHHHHHHHHHHHhh--cc-------hH----HHHHHHHHHHHH
Confidence            7888899999999999999 9999999999999999999999999999998  66       66    899999999999


Q ss_pred             HHHhhHHHHHHHHHHHhhhcCC-----C----------CCchHHHHHHHHHHHHHHHHHHHhhccccccCCCCccccccc
Q 042580           81 FVHESEKVIYTFMISRITQQIS-----G----------SSSKDLFDALLGLQSQIIDIKQQLQQFRPNNIGLWVELKSYF  145 (241)
Q Consensus        81 ~~~~~ed~ld~~~~~~~~~~~~-----~----------~~~~~~~~~i~~l~~~i~~i~~~~~~~~~~~~~~~~~~~~~~  145 (241)
                      +.|+++|+++.|..+.......     .          .+|+.....+..+.+++..+.+....+...............
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            9999999999997766543110     0          122666666666677777666666666543311111110112


Q ss_pred             cccCCCCCccCcccCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccc-cccCCCeeEEEe--CC
Q 042580          146 TEARNSSSTLGFKKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNY-AKNYFDCRAWVG--CE  222 (241)
Q Consensus       146 ~~~~~~~~~~~~~~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~-v~~~F~~~~wV~--~~  222 (241)
                      ...+.+.+.  .++.. ||.++.++++++.|.+++.  .++||+||||+||||||++|||+.. ++++||.+|||+  ++
T Consensus       147 ~~~~e~~~~--~~~~~-VG~e~~~~kl~~~L~~d~~--~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~  221 (889)
T KOG4658|consen  147 REKVETRPI--QSESD-VGLETMLEKLWNRLMEDDV--GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKE  221 (889)
T ss_pred             hhhcccCCC--Ccccc-ccHHHHHHHHHHHhccCCC--CEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEccc
Confidence            233444554  44555 9999999999999998774  9999999999999999999999988 999999999999  99


Q ss_pred             CCHHHHHHHHHHHhCC
Q 042580          223 YYLHKVLDSIIKSVMP  238 (241)
Q Consensus       223 ~~~~~il~~Il~~l~~  238 (241)
                      |+..+|+++|++.++.
T Consensus       222 f~~~~iq~~Il~~l~~  237 (889)
T KOG4658|consen  222 FTTRKIQQTILERLGL  237 (889)
T ss_pred             ccHHhHHHHHHHHhcc
Confidence            9999999999998875

>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=99.53  E-value=3.2e-14  Score=120.11  Aligned_cols=75  Identities=33%  Similarity=0.454  Sum_probs=67.7

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHHHHHHHHhCCC
Q 042580          165 LEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVLDSIIKSVMPR  239 (241)
Q Consensus       165 ~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il~~Il~~l~~~  239 (241)
                      ||.++++|.++|.......++|+|+||||+||||||+.+|++..++++|+.++||.  +.++..+++..|+.++...
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~   77 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEP   77 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccccccccccccccccc
Confidence            58899999999988657899999999999999999999999988899999999999  7788899999999999765

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=99.18  E-value=1.4e-10  Score=114.90  Aligned_cols=60  Identities=25%  Similarity=0.461  Sum_probs=52.7

Q ss_pred             cCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          159 KRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      ..++||++..+++|..+|..+....++|+||||||+||||||+.+|+.  +..+|+..+|+.
T Consensus       183 ~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~--l~~~F~g~vfv~  242 (1153)
T PLN03210        183 FEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSR--LSRQFQSSVFID  242 (1153)
T ss_pred             cccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHH--HhhcCCeEEEee
Confidence            456899999999999998665567999999999999999999999997  778898887764

syringae 6; Provisional

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

Probab=98.58  E-value=1.2e-07  Score=78.52  Aligned_cols=49  Identities=14%  Similarity=-0.117  Sum_probs=43.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe----CCCCHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG----CEYYLHKVLDSI  232 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~----~~~~~~~il~~I  232 (241)
                      -..++|+|++|+|||||++.+|++.... +|++++||+    +++++.++++.|
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I   68 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSV   68 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHh
Confidence            5678999999999999999999986544 899999988    458999999998

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=98.55  E-value=7.9e-08  Score=83.52  Aligned_cols=50  Identities=16%  Similarity=-0.085  Sum_probs=42.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCC--CHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEY--YLHKVLDSII  233 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~--~~~~il~~Il  233 (241)
                      =.-..|+|++|+||||||+.||++...+ ||++++||.  +.+  .+.++++.|+
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIl  222 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVK  222 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhc
Confidence            3557899999999999999999986554 899999998  666  8888888875

>PTZ00202 tuzin; Provisional

Probab=98.44  E-value=1.5e-05  Score=70.38  Aligned_cols=76  Identities=18%  Similarity=0.059  Sum_probs=58.7

Q ss_pred             cccCCcccchHHHHHHHHHHhcC-CCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEeCCCCHHHHHHHHHHH
Q 042580          157 FKKRNIMGLEDEIEELLDLLIVG-EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIKS  235 (241)
Q Consensus       157 ~~~~~~vG~~~~~~~l~~~L~~~-~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~~~~~~~~il~~Il~~  235 (241)
                      .+...++||+.+...|...|... ....+++.|+|++|+|||||++.+.....      ..+++.......++++.|+..
T Consensus       259 a~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~------~~qL~vNprg~eElLr~LL~A  332 (550)
T PTZ00202        259 AVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG------MPAVFVDVRGTEDTLRSVVKA  332 (550)
T ss_pred             CCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC------ceEEEECCCCHHHHHHHHHHH
Confidence            35667899999999999998653 23456999999999999999999997532      223333222779999999999


Q ss_pred             hCC
Q 042580          236 VMP  238 (241)
Q Consensus       236 l~~  238 (241)
                      |+.
T Consensus       333 LGV  335 (550)
T PTZ00202        333 LGV  335 (550)
T ss_pred             cCC
Confidence            985

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

Probab=98.39  E-value=6.6e-07  Score=70.23  Aligned_cols=49  Identities=31%  Similarity=0.337  Sum_probs=34.2

Q ss_pred             cccchHHHHHHHHHHh-cCCCCeEEEEEEcCCCccHHHHHHHHHhccccc
Q 042580          162 IMGLEDEIEELLDLLI-VGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAK  210 (241)
Q Consensus       162 ~vG~~~~~~~l~~~L~-~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~  210 (241)
                      ++||+.+.+.|...|. ......+++.|+|.+|+|||||++.++......
T Consensus         2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            6899999999999993 334557999999999999999999999974444

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.32  E-value=3.1e-06  Score=74.75  Aligned_cols=80  Identities=18%  Similarity=0.158  Sum_probs=58.5

Q ss_pred             cCCcccchHHHHHHHHHHhcC--CCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHHHHHHH
Q 042580          159 KRNIMGLEDEIEELLDLLIVG--EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVLDSIIK  234 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~~~--~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il~~Il~  234 (241)
                      +..++||++++++|...|...  ......+-|+|++|+||||+++.++++.......-..+++.  ...+...++..|++
T Consensus        29 P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~  108 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIAR  108 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHH
Confidence            356899999999999998442  23445678999999999999999999743332122345555  44567788889988


Q ss_pred             HhCC
Q 042580          235 SVMP  238 (241)
Q Consensus       235 ~l~~  238 (241)
                      ++..
T Consensus       109 ~l~~  112 (394)
T PRK00411        109 QLFG  112 (394)
T ss_pred             HhcC
Confidence            8864

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.30  E-value=2.9e-06  Score=74.15  Aligned_cols=78  Identities=21%  Similarity=0.142  Sum_probs=57.2

Q ss_pred             CCcccchHHHHHHHHHHhc--CCCCeEEEEEEcCCCccHHHHHHHHHhccccc-cCC--C-eeEEEe--CCCCHHHHHHH
Q 042580          160 RNIMGLEDEIEELLDLLIV--GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAK-NYF--D-CRAWVG--CEYYLHKVLDS  231 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~--~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~-~~F--~-~~~wV~--~~~~~~~il~~  231 (241)
                      ..++||+.+++.|..+|..  .......+-|+|++|+|||++++.++++.... ...  . ..+|+.  ...+...++..
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~   94 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVE   94 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHH
Confidence            4789999999999999864  22345678999999999999999999863211 111  1 245666  44466788888


Q ss_pred             HHHHhC
Q 042580          232 IIKSVM  237 (241)
Q Consensus       232 Il~~l~  237 (241)
                      |++++.
T Consensus        95 i~~~l~  100 (365)
T TIGR02928        95 LANQLR  100 (365)
T ss_pred             HHHHHh
Confidence            888883

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.

>PRK08118 topology modulation protein; Reviewed

Probab=98.19  E-value=2.2e-06  Score=66.73  Aligned_cols=36  Identities=17%  Similarity=0.293  Sum_probs=30.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhccccc-cCCCeeEEEe
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNNYAK-NYFDCRAWVG  220 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~~v~-~~F~~~~wV~  220 (241)
                      -|.|+|++|+||||||+.+++..... -+||...|-.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~   39 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKP   39 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhccc
Confidence            58999999999999999999986555 4688888654

>TIGR00767 rho transcription termination factor Rho

Probab=98.18  E-value=2.8e-06  Score=74.29  Aligned_cols=51  Identities=14%  Similarity=-0.132  Sum_probs=43.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe----CCCCHHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG----CEYYLHKVLDSIIK  234 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~----~~~~~~~il~~Il~  234 (241)
                      =..++|+|.+|+|||||++.+++.... +||+..+||.    +++++.++++.|+.
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg  222 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKG  222 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhc
Confidence            467899999999999999999997433 3799999998    55899999999854

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

>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=98.00  E-value=6e-06  Score=66.96  Aligned_cols=44  Identities=32%  Similarity=0.395  Sum_probs=36.5

Q ss_pred             cccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          162 IMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       162 ~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ++||+.+++.|.+++..+.  ...+.|+|+.|+|||+|++.+.+..
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            5899999999999987643  7889999999999999999999964

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

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

Probab=97.95  E-value=5.4e-05  Score=63.22  Aligned_cols=55  Identities=13%  Similarity=0.037  Sum_probs=41.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCHHHHHHHHHHHhCC
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYLHKVLDSIIKSVMP  238 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~~~il~~Il~~l~~  238 (241)
                      ...++.|+|++|+|||||++.+++...... + +.+|+. ...+..+++..|+..++.
T Consensus        42 ~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~-~-~~~~~~~~~~~~~~~l~~i~~~lG~   97 (269)
T TIGR03015        42 REGFILITGEVGAGKTTLIRNLLKRLDQER-V-VAAKLVNTRVDAEDLLRMVAADFGL   97 (269)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHhcCCCC-e-EEeeeeCCCCCHHHHHHHHHHHcCC
Confidence            356899999999999999999999743221 1 234555 667888899999888754

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.

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

Probab=97.92  E-value=2.6e-05  Score=69.29  Aligned_cols=66  Identities=18%  Similarity=0.126  Sum_probs=52.8

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHH
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVL  229 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il  229 (241)
                      ..+++.+...+.+...|..    -+.|.++|++|+||||+|+.+.+......+|+.+.||+  +.++..+++
T Consensus       175 ~d~~i~e~~le~l~~~L~~----~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI  242 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI----KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFI  242 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc----CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHh
Confidence            4577888899999998865    44677899999999999999998755556788888988  667666654

>PRK07261 topology modulation protein; Provisional

Probab=97.87  E-value=3.5e-05  Score=60.22  Aligned_cols=49  Identities=20%  Similarity=0.181  Sum_probs=32.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHhccccc-cCCCeeEEEe--CCCCHHHHHHHHH
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNNYAK-NYFDCRAWVG--CEYYLHKVLDSII  233 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~~v~-~~F~~~~wV~--~~~~~~~il~~Il  233 (241)
                      -|.|+|++|+||||||+.+.....+. -+.|...|-.  ...+..++...+.
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~   53 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADIS   53 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHH
Confidence            48999999999999999998753332 2466666654  3444445544443

>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=97.84  E-value=1.3e-05  Score=58.63  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=20.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +|.|+|++|+||||+|+.+.+.
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            6999999999999999999886

...

>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=97.83  E-value=3.3e-05  Score=62.40  Aligned_cols=52  Identities=23%  Similarity=0.206  Sum_probs=35.9

Q ss_pred             CCcccchHHHHHHHHHHhc---CCCCeEEEEEEcCCCccHHHHHHHHHhccccccCC
Q 042580          160 RNIMGLEDEIEELLDLLIV---GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYF  213 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F  213 (241)
                      .+++|.+.-++.+.-++..   ....+..+-.||++|+||||||+.|-+.  ...+|
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e--~~~~~   78 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANE--LGVNF   78 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHH--CT--E
T ss_pred             HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhc--cCCCe
Confidence            3689999988887666542   2346888999999999999999999997  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.

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

Probab=97.82  E-value=2.3e-05  Score=57.97  Aligned_cols=58  Identities=17%  Similarity=0.117  Sum_probs=39.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccc---cCCCeeEEEe--CCCCHHHHHHHHHHHhCCC
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAK---NYFDCRAWVG--CEYYLHKVLDSIIKSVMPR  239 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~---~~F~~~~wV~--~~~~~~~il~~Il~~l~~~  239 (241)
                      +-+++.|+|.+|+|||++++.+.++....   ..-...+|+.  ...+..++...|+..+..+
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~   65 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLP   65 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-S
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCcc
Confidence            35789999999999999999999963211   0123356888  4448999999999998754

>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=97.81  E-value=3.7e-05  Score=57.16  Aligned_cols=42  Identities=29%  Similarity=0.294  Sum_probs=34.6

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          164 GLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       164 G~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |++..+..+...+...  ....+.|+|.+|+|||||++.+++..
T Consensus         2 ~~~~~~~~i~~~~~~~--~~~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009           2 GQEEAIEALREALELP--PPKNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             chHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            6677788888877553  35678899999999999999999973

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.

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.71  E-value=5.9e-05  Score=65.27  Aligned_cols=49  Identities=18%  Similarity=0.314  Sum_probs=41.7

Q ss_pred             cCCcccchHHHHHHHHHHhcC----CCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          159 KRNIMGLEDEIEELLDLLIVG----EPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~~~----~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+++|+++.++++++++...    +...+++.++|++|+||||||+.+.+.-
T Consensus        50 ~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       50 DHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             chhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            347999999999999998652    3457899999999999999999998864

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=97.69  E-value=7.2e-05  Score=60.99  Aligned_cols=42  Identities=29%  Similarity=0.300  Sum_probs=34.4

Q ss_pred             chHHHHHHHHHHhc-CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          165 LEDEIEELLDLLIV-GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       165 ~~~~~~~l~~~L~~-~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +....++|.+.+.. ......+|+|.|.+|+||||||+.|.+.
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~   45 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEE   45 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            45567778887764 3456899999999999999999999885

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.68  E-value=3.8e-05  Score=65.50  Aligned_cols=48  Identities=23%  Similarity=0.255  Sum_probs=39.2

Q ss_pred             CCcccchHHHHHHHHHHhc---CCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          160 RNIMGLEDEIEELLDLLIV---GEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+++|++..++.|..++..   ....+..+-++|++|+|||+||+.+.+..
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            3589999999999988853   12346668899999999999999998863

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.

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

Probab=97.64  E-value=0.001  Score=61.78  Aligned_cols=52  Identities=27%  Similarity=0.395  Sum_probs=43.2

Q ss_pred             CCcccchHHHHHHHHHHh----cCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCC
Q 042580          160 RNIMGLEDEIEELLDLLI----VGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYF  213 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~----~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F  213 (241)
                      .+-.|+++.++.++++|-    .+..+-.|++.+|++|||||.+++.|..-  ....|
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~A--LnRkF  466 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARA--LNRKF  466 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHH--hCCce
Confidence            356799999999999873    35667899999999999999999999885  44554

>PRK07667 uridine kinase; Provisional

Probab=97.63  E-value=8.3e-05  Score=59.27  Aligned_cols=38  Identities=29%  Similarity=0.399  Sum_probs=31.2

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+.+.+.|........+|+|.|.+|+||||||+.+...
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~   40 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKEN   40 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45666767655556799999999999999999999885

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

Probab=97.59  E-value=0.00028  Score=60.95  Aligned_cols=74  Identities=23%  Similarity=0.248  Sum_probs=62.1

Q ss_pred             cCCcccchHHHHHHHHHHhcCCCC-eEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHHHHHHHH
Q 042580          159 KRNIMGLEDEIEELLDLLIVGEPS-LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVLDSIIKS  235 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~~~~~~-~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il~~Il~~  235 (241)
                      ++.+.+|+.+...|..++.+.+.. +.+|-|+|.+|.|||.+++++++...  -   ..+|++  ..|+.+.++..|+.+
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n--~---~~vw~n~~ecft~~~lle~IL~~   79 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLN--L---ENVWLNCVECFTYAILLEKILNK   79 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcC--C---cceeeehHHhccHHHHHHHHHHH
Confidence            567889999999999999776543 45558999999999999999999852  2   358999  889999999999998


Q ss_pred             hC
Q 042580          236 VM  237 (241)
Q Consensus       236 l~  237 (241)
                      +.
T Consensus        80 ~~   81 (438)
T KOG2543|consen   80 SQ   81 (438)
T ss_pred             hc
Confidence            84

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.57  E-value=9e-05  Score=64.00  Aligned_cols=48  Identities=25%  Similarity=0.256  Sum_probs=39.5

Q ss_pred             CCcccchHHHHHHHHHHhc---CCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          160 RNIMGLEDEIEELLDLLIV---GEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+++|++..++.+..++..   .......+-++|++|+||||||+.+.+..
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            4689999999999888753   23346778899999999999999998863

>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=97.55  E-value=0.00017  Score=60.52  Aligned_cols=102  Identities=13%  Similarity=0.136  Sum_probs=76.9

Q ss_pred             hHHHHHHHHHHHHhhccccCchhHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCccchHHHHHHHHHHHHHHH
Q 042580            4 NFRLFSERLRRLIEGEEGTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFVH   83 (241)
Q Consensus         4 vv~~~~~kl~~~l~~~~~~~~~~~~~~~~~L~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~v~~Wl~~vr~~~~   83 (241)
                      -|.++++.|..+.... .+.+.-++.+++-++++|+.+++||+..-... +.       ..    .....++.++-..||
T Consensus       297 yVdFlL~NLkdfq~ry-sdSlaflKnQiqvIQ~elesLqpFLk~V~ee~-~n-------kh----~~~ed~a~~ii~kAy  363 (402)
T PF12061_consen  297 YVDFLLKNLKDFQGRY-SDSLAFLKNQIQVIQTELESLQPFLKHVVEEP-HN-------KH----DTNEDCATQIIRKAY  363 (402)
T ss_pred             HHHHHHhhHHHHhccc-cchHHHHHHHHHHHHHHHHHhhHHHHHHHhcc-ch-------hh----hhhhhHHHHHHHHHh
Confidence            4678889999998888 88888999999999999999999999984431 33       33    458999999999999


Q ss_pred             hhHHHHHHHHHHHhhhcCCCCCc---hHHHHHHHHHHHHHH
Q 042580           84 ESEKVIYTFMISRITQQISGSSS---KDLFDALLGLQSQII  121 (241)
Q Consensus        84 ~~ed~ld~~~~~~~~~~~~~~~~---~~~~~~i~~l~~~i~  121 (241)
                      ++|.++|.|......   .+|.-   ..+..+|..++++++
T Consensus       364 evEYVVDaCi~k~~P---~Wcl~~WL~dIieei~~ik~~i~  401 (402)
T PF12061_consen  364 EVEYVVDACISKSVP---HWCLERWLLDIIEEITCIKAKIQ  401 (402)
T ss_pred             heeeeeehhhcCCCc---HHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999998543221   12211   556666666666554

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.54  E-value=0.004  Score=58.35  Aligned_cols=50  Identities=24%  Similarity=0.211  Sum_probs=39.9

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccC
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNY  212 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~  212 (241)
                      .++|.+..+..+...+...  ....+.|+|++|+||||||+.+++.......
T Consensus       155 ~iiGqs~~~~~l~~~ia~~--~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~  204 (615)
T TIGR02903       155 EIVGQERAIKALLAKVASP--FPQHIILYGPPGVGKTTAARLALEEAKKLKH  204 (615)
T ss_pred             hceeCcHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHhhhhccC
Confidence            5889999999888877543  3567999999999999999999987443333

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.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.48  E-value=0.00016  Score=64.51  Aligned_cols=44  Identities=23%  Similarity=0.299  Sum_probs=34.5

Q ss_pred             CcccchHHHHH---HHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEE---LLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~---l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|.+..+..   |..++..+  ....+-++|++|+||||||+.+.+.
T Consensus        13 d~vGq~~~v~~~~~L~~~i~~~--~~~~ilL~GppGtGKTtLA~~ia~~   59 (413)
T PRK13342         13 EVVGQEHLLGPGKPLRRMIEAG--RLSSMILWGPPGTGKTTLARIIAGA   59 (413)
T ss_pred             HhcCcHHHhCcchHHHHHHHcC--CCceEEEECCCCCCHHHHHHHHHHH
Confidence            47888776555   66666543  3667888999999999999999886

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.43  E-value=0.00014  Score=58.66  Aligned_cols=27  Identities=33%  Similarity=0.468  Sum_probs=24.1

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+..+|+|+|.+|+|||||++.|...-
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999999999853

>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=97.42  E-value=0.00011  Score=53.83  Aligned_cols=21  Identities=33%  Similarity=0.392  Sum_probs=19.8

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.|.|+.|+||||+|+.+.+.
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            789999999999999999887

...

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.42  E-value=0.00021  Score=65.32  Aligned_cols=46  Identities=22%  Similarity=0.307  Sum_probs=39.5

Q ss_pred             CcccchHHHHHHHHHHhc----CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIV----GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~----~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|+++.++.+++.|..    -+..-+|+.++|++|+||||||+.|.+-
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~  126 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSL  126 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHH
Confidence            589999999999999832    2345689999999999999999999883

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

Probab=97.41  E-value=0.0002  Score=66.27  Aligned_cols=51  Identities=25%  Similarity=0.334  Sum_probs=42.1

Q ss_pred             CcccchHHHHHHHHHHh----cCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCC
Q 042580          161 NIMGLEDEIEELLDLLI----VGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYF  213 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~----~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F  213 (241)
                      +-.|.++.++.++++|-    ...-+-.|++.||++|||||.|++.|.+-  ....|
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~a--l~Rkf  378 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKA--LGRKF  378 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHH--hCCCE
Confidence            45799999999999983    23444589999999999999999999986  55666

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

Probab=97.39  E-value=0.00031  Score=60.49  Aligned_cols=50  Identities=12%  Similarity=0.078  Sum_probs=32.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHHH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVLD  230 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il~  230 (241)
                      +.+..+-.||++|+||||||+.|-+..+-..+|-.-.-.+  ..-++.+|..
T Consensus       160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife  211 (554)
T KOG2028|consen  160 NRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFE  211 (554)
T ss_pred             CCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHH
Confidence            3588888999999999999999999744333332222222  4444544443

>PF05729 NACHT: NACHT domain

Probab=97.38  E-value=0.00016  Score=55.30  Aligned_cols=37  Identities=14%  Similarity=0.161  Sum_probs=28.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhccccccC----CCeeEEEe
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNNYAKNY----FDCRAWVG  220 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~~v~~~----F~~~~wV~  220 (241)
                      +++.|+|.+|+||||+++.+..+-.....    |...+|..
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~   41 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFS   41 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEe
Confidence            57899999999999999999986443332    44566666

>TIGR00235 udk uridine kinase

Probab=97.38  E-value=0.00017  Score=58.06  Aligned_cols=26  Identities=38%  Similarity=0.555  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.-.+|+|+|++|+|||||++.+...
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            34689999999999999999999874

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

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.37  E-value=0.0012  Score=56.63  Aligned_cols=75  Identities=21%  Similarity=0.281  Sum_probs=55.1

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc----cccccCCCeeEEEe---CCCCHHHHHHHH
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN----NYAKNYFDCRAWVG---CEYYLHKVLDSI  232 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~----~~v~~~F~~~~wV~---~~~~~~~il~~I  232 (241)
                      .+++|.+..++.|..++..+. -.+..-++|+.|+||||||+.+...    .....|+|+..|..   ....+.+ .+++
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~-~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~   81 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNR-FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNI   81 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHH
Confidence            467899999999999986543 4577789999999999999988873    22345778877765   5566666 4445


Q ss_pred             HHHh
Q 042580          233 IKSV  236 (241)
Q Consensus       233 l~~l  236 (241)
                      .+.+
T Consensus        82 ~~~~   85 (313)
T PRK05564         82 IEEV   85 (313)
T ss_pred             HHHH
Confidence            5544

>PRK08233 hypothetical protein; Provisional

Probab=97.37  E-value=0.00017  Score=56.46  Aligned_cols=25  Identities=24%  Similarity=0.182  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+|+|.|.+|+||||||+.+....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            5799999999999999999998754

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.33  E-value=0.00021  Score=54.54  Aligned_cols=25  Identities=20%  Similarity=0.242  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|.||+|||||||++++-+.-
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHH
Confidence            4568999999999999999999863

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

Probab=97.33  E-value=0.0014  Score=57.35  Aligned_cols=76  Identities=17%  Similarity=0.139  Sum_probs=56.6

Q ss_pred             CcccchHHHHHHHHHHhc--CCCCeEEEEEEcCCCccHHHHHHHHHhcccccc-CCCeeEEEe--CCCCHHHHHHHHHHH
Q 042580          161 NIMGLEDEIEELLDLLIV--GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKN-YFDCRAWVG--CEYYLHKVLDSIIKS  235 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~--~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~-~F~~~~wV~--~~~~~~~il~~Il~~  235 (241)
                      .+.+|+.+.+++...|..  .+....-+-|+|..|+|||+.++.|.+...... ..+ .+.|.  ...+...++..|+++
T Consensus        18 ~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~~~   96 (366)
T COG1474          18 ELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKILNK   96 (366)
T ss_pred             cccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHHHH
Confidence            388999999999988754  122344489999999999999999999743221 122 45555  666788899999988


Q ss_pred             hC
Q 042580          236 VM  237 (241)
Q Consensus       236 l~  237 (241)
                      ++
T Consensus        97 ~~   98 (366)
T COG1474          97 LG   98 (366)
T ss_pred             cC
Confidence            75

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.32  E-value=0.00044  Score=56.61  Aligned_cols=27  Identities=26%  Similarity=0.186  Sum_probs=24.1

Q ss_pred             CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          180 EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       180 ~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .....+|+|.|..|+|||||++.+...
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~   56 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEAL   56 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999999999988874

>PRK06762 hypothetical protein; Provisional

Probab=97.31  E-value=0.00022  Score=55.15  Aligned_cols=24  Identities=33%  Similarity=0.398  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|+|+.|+||||+|+.+.+.
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999999875

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.30  E-value=0.00056  Score=55.55  Aligned_cols=40  Identities=18%  Similarity=0.128  Sum_probs=32.1

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          165 LEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       165 ~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+..++.+..++..  .....+-|+|..|+||||||+.+++.
T Consensus        22 ~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKT~la~~~~~~   61 (226)
T TIGR03420        22 NAELLAALRQLAAG--KGDRFLYLWGESGSGKSHLLQAACAA   61 (226)
T ss_pred             cHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            45567777777643  34678899999999999999999986

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=97.26  E-value=0.00033  Score=63.67  Aligned_cols=46  Identities=22%  Similarity=0.269  Sum_probs=39.2

Q ss_pred             CcccchHHHHHHHHHHhcC--CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVG--EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~--~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|.+..++.|..|+..-  ....+.+-|+|++|+||||||+.+.+.
T Consensus        15 dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~e   62 (482)
T PRK04195         15 DVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALAND   62 (482)
T ss_pred             HhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999998642  222678999999999999999999886

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

Probab=97.25  E-value=0.00026  Score=53.15  Aligned_cols=22  Identities=18%  Similarity=0.373  Sum_probs=19.9

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ||-++|++|+||||+|+.+...
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            6889999999999999999854

...

>PRK06547 hypothetical protein; Provisional

Probab=97.25  E-value=0.00051  Score=53.73  Aligned_cols=26  Identities=35%  Similarity=0.413  Sum_probs=23.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....+|+|.|+.|+||||||+.+.+.
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999999999875

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.24  E-value=0.00044  Score=59.63  Aligned_cols=45  Identities=20%  Similarity=0.238  Sum_probs=37.3

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|..++..+.  ...+-++|+.|+||||||+.+.+.
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~GtGKT~la~~~~~~   59 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPN--LPHLLVQGPPGSGKTAAVRALARE   59 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999886643  445779999999999999998774

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.24  E-value=0.00041  Score=60.81  Aligned_cols=48  Identities=25%  Similarity=0.257  Sum_probs=38.0

Q ss_pred             cCCcccchHHHHHHHHHHhc---C--------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          159 KRNIMGLEDEIEELLDLLIV---G--------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~~---~--------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++.|++..++.|.+.+..   .        -...+-+.++|++|+|||+||+.+.+.
T Consensus       121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~  179 (364)
T TIGR01242       121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE  179 (364)
T ss_pred             HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            34688999999999887632   1        123456889999999999999999986

Many proteins may score above the trusted cutoff because an internal

>PTZ00301 uridine kinase; Provisional

Probab=97.23  E-value=0.00029  Score=56.95  Aligned_cols=23  Identities=22%  Similarity=0.377  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ..+|+|.|.+|+||||||+.|.+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            57999999999999999987754

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.22  E-value=0.00027  Score=46.51  Aligned_cols=22  Identities=36%  Similarity=0.495  Sum_probs=20.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +|+|.|..|+||||+++.+-+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999886

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.

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

Probab=97.21  E-value=0.00049  Score=57.34  Aligned_cols=47  Identities=26%  Similarity=0.286  Sum_probs=39.7

Q ss_pred             CCcccchHHHHHHHHHHhc---CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV---GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.++-+++|.-.+..   .+..+..+-++|++|.||||||.-|-|.
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            3689999988888777753   2456899999999999999999999985

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.21  E-value=0.00041  Score=54.26  Aligned_cols=37  Identities=22%  Similarity=0.335  Sum_probs=28.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      ...+|.++|+.|+||||+|+.+++.  ....+...+++.
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            4569999999999999999999986  333444445553

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.19  E-value=0.00058  Score=58.51  Aligned_cols=46  Identities=15%  Similarity=0.109  Sum_probs=39.3

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+...+.+..++..+. -..++-++|++|+||||||+.+++.
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            467999999999999987643 4578888999999999999999885

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.19  E-value=0.00045  Score=66.81  Aligned_cols=45  Identities=24%  Similarity=0.327  Sum_probs=37.9

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++||+.+++.++++|....  ..-+-++|.+|||||++|+.+...
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~--~~n~lL~G~pGvGKTal~~~la~~  223 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRT--KNNPILIGEPGVGKTAIAEGLAQR  223 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccc--cCCeEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999997643  334469999999999999998775

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.17  E-value=0.00051  Score=57.38  Aligned_cols=46  Identities=17%  Similarity=0.270  Sum_probs=33.6

Q ss_pred             CcccchHHHHHHHHH---Hhc----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDL---LIV----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~---L~~----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|+++.++.|.++   +..          ..+....+-++|++|+||||+|+.+.+.
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~   65 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKL   65 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHH
Confidence            478988887776544   211          1234567889999999999999999763

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.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=97.14  E-value=0.00045  Score=55.65  Aligned_cols=28  Identities=32%  Similarity=0.357  Sum_probs=24.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      .+..+|||.|.+|+||||+|+.+++...
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~~~   33 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQLG   33 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            3568999999999999999999998743

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.13  E-value=0.00044  Score=55.72  Aligned_cols=32  Identities=22%  Similarity=0.272  Sum_probs=26.7

Q ss_pred             HHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          175 LLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       175 ~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      |+.++.....+|.|+|++|+|||||++.+.+.
T Consensus         5 ~~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          5 WLFNKPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             cccCCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            44455567899999999999999999999764

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.12  E-value=0.0016  Score=52.27  Aligned_cols=50  Identities=20%  Similarity=0.066  Sum_probs=37.3

Q ss_pred             CCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCHHHHHH
Q 042580          179 GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYLHKVLD  230 (241)
Q Consensus       179 ~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~~~il~  230 (241)
                      +=..-+++-|+|.+|+|||+|+.++..+  ....-..++|++ ..++...+.+
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            3355789999999999999999998776  333456788999 4466655544

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

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.11  E-value=0.0028  Score=60.77  Aligned_cols=78  Identities=17%  Similarity=0.065  Sum_probs=54.9

Q ss_pred             CCcccchHHHHHHHHHHhc---CCCCeEEEEEEcCCCccHHHHHHHHHhcccc---ccCCC--eeEEEe--CCCCHHHHH
Q 042580          160 RNIMGLEDEIEELLDLLIV---GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYA---KNYFD--CRAWVG--CEYYLHKVL  229 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v---~~~F~--~~~wV~--~~~~~~~il  229 (241)
                      ..++||+++++.|...|..   +...-.++-|+|++|.|||+.++.|.+....   ...+.  ..+.|.  .-.+...+.
T Consensus       755 D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIY  834 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAY  834 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHH
Confidence            4688999999999998854   3333467889999999999999999875321   11222  134554  335677788


Q ss_pred             HHHHHHhC
Q 042580          230 DSIIKSVM  237 (241)
Q Consensus       230 ~~Il~~l~  237 (241)
                      ..|.++|.
T Consensus       835 qvI~qqL~  842 (1164)
T PTZ00112        835 QVLYKQLF  842 (1164)
T ss_pred             HHHHHHHc
Confidence            88887774

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.10  E-value=0.002  Score=55.04  Aligned_cols=44  Identities=23%  Similarity=0.237  Sum_probs=37.5

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|++..++.|..++..+.  ...+-++|..|+||||+++.+.+.
T Consensus        18 ~~~g~~~~~~~l~~~i~~~~--~~~~ll~G~~G~GKt~~~~~l~~~   61 (319)
T PRK00440         18 EIVGQEEIVERLKSYVKEKN--MPHLLFAGPPGTGKTTAALALARE   61 (319)
T ss_pred             HhcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999986643  445799999999999999999885

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=97.10  E-value=0.00056  Score=53.41  Aligned_cols=25  Identities=24%  Similarity=0.219  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+++|+|..|+|||||++.+...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHH
Confidence            5679999999999999999999865

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.10  E-value=0.00068  Score=65.61  Aligned_cols=45  Identities=22%  Similarity=0.368  Sum_probs=38.2

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|++.++..+++.|....  ..-+-++|.+|+||||||+.+...
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            368999999999999987643  445569999999999999999885

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.

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

Probab=97.09  E-value=0.00068  Score=64.31  Aligned_cols=44  Identities=18%  Similarity=0.217  Sum_probs=33.6

Q ss_pred             CcccchHHHH---HHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIE---ELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~---~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|.+..+.   .|...+..+  ++..+-++|++|+||||||+.+.+.
T Consensus        29 d~vGQe~ii~~~~~L~~~i~~~--~~~slLL~GPpGtGKTTLA~aIA~~   75 (725)
T PRK13341         29 EFVGQDHILGEGRLLRRAIKAD--RVGSLILYGPPGVGKTTLARIIANH   75 (725)
T ss_pred             HhcCcHHHhhhhHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHH
Confidence            5788887664   455555443  4666789999999999999999986

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.08  E-value=0.00047  Score=54.22  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +..+|.|+|++|+||||+++.+.+
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999873

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=97.08  E-value=0.00049  Score=54.65  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+|.|+|++|+||||+++.+.+.-
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999986654

>PF13173 AAA_14: AAA domain

Probab=97.07  E-value=0.00047  Score=51.05  Aligned_cols=35  Identities=14%  Similarity=0.174  Sum_probs=26.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      -+++.|.|+.|+|||||+++++.+..   .....+++.
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~   36 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYIN   36 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeec
Confidence            46899999999999999999998633   223445555

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

Probab=97.06  E-value=0.00077  Score=64.40  Aligned_cols=44  Identities=27%  Similarity=0.333  Sum_probs=37.6

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|++.+++.+++.|....  ..-+-++|.+|+|||++|+.+...
T Consensus       183 ~~igr~~ei~~~~~~L~~~~--~~n~lL~G~pG~GKT~l~~~la~~  226 (731)
T TIGR02639       183 PLIGREDELERTIQVLCRRK--KNNPLLVGEPGVGKTAIAEGLALR  226 (731)
T ss_pred             cccCcHHHHHHHHHHHhcCC--CCceEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999886643  444569999999999999999885

>PLN03025 replication factor C subunit; Provisional

Probab=97.06  E-value=0.00083  Score=57.77  Aligned_cols=44  Identities=23%  Similarity=0.253  Sum_probs=35.4

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|.+..+..|..++..+.  ...+-++|++|+||||+|+.+.+.
T Consensus        14 ~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~G~GKTtla~~la~~   57 (319)
T PLN03025         14 DIVGNEDAVSRLQVIARDGN--MPNLILSGPPGTGKTTSILALAHE   57 (319)
T ss_pred             HhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence            57898888888888776543  444669999999999999998875

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

Probab=97.05  E-value=0.0004  Score=57.54  Aligned_cols=27  Identities=26%  Similarity=0.342  Sum_probs=24.2

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+..+|-|+||+|+||||++|.++.+.
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl   43 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHL   43 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHH
Confidence            567888999999999999999999973

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.05  E-value=0.00051  Score=50.38  Aligned_cols=25  Identities=28%  Similarity=0.248  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...+.|+|++|+||||+++.+....
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~   26 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALAREL   26 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhcc
Confidence            3578999999999999999998873

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.

>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=97.04  E-value=0.0033  Score=48.96  Aligned_cols=70  Identities=17%  Similarity=0.106  Sum_probs=41.7

Q ss_pred             cccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCHHHHHHHHH
Q 042580          162 IMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYLHKVLDSII  233 (241)
Q Consensus       162 ~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~~~il~~Il  233 (241)
                      ++|....+.++++.+..-.....-|-|+|..|+||+.+|+.|++.-  ...-..-+-|+ ..++.+.+-..++
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s--~r~~~pfi~vnc~~~~~~~~e~~LF   71 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS--PRKNGPFISVNCAALPEELLESELF   71 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS--TTTTS-EEEEETTTS-HHHHHHHHH
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh--hcccCCeEEEehhhhhcchhhhhhh
Confidence            4677888888888775422223445599999999999999999952  22212224444 5565554444443

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 ....

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=97.03  E-value=0.0011  Score=56.15  Aligned_cols=25  Identities=20%  Similarity=0.247  Sum_probs=21.9

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ....+|||.|..|+||||||+.+..
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~   84 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQA   84 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999999987643

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.02  E-value=0.00082  Score=59.46  Aligned_cols=47  Identities=26%  Similarity=0.273  Sum_probs=37.6

Q ss_pred             CCcccchHHHHHHHHHHhc---C--------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV---G--------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---~--------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.|++..+++|.+.+..   .        -...+-|-++|++|+|||+||+.+.+.
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~  188 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE  188 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHH
Confidence            4688999999999887632   1        133566889999999999999999985

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

Probab=97.00  E-value=0.00064  Score=51.32  Aligned_cols=36  Identities=17%  Similarity=0.152  Sum_probs=25.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      .+|+|||..|+|||||++.+.+... +..+...+..+
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~-~~g~~v~~ik~   36 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELK-RRGYRVAVIKH   36 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHH-HTT--EEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh-HcCCceEEEEE
Confidence            4899999999999999999999732 23344444444

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.00  E-value=0.0013  Score=57.56  Aligned_cols=46  Identities=22%  Similarity=0.299  Sum_probs=38.5

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+.+..+. -.+.+-++|+.|+||||||+.+.+.
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            368999999999998886643 3567789999999999999998774

>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=96.99  E-value=0.00065  Score=49.16  Aligned_cols=24  Identities=21%  Similarity=0.535  Sum_probs=20.4

Q ss_pred             EEEEcCCCccHHHHHHHHHhcccc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNNYA  209 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~~v  209 (241)
                      |.|+|..|+|||||.+.+.+.+..
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            789999999999999999986543

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.98  E-value=0.00098  Score=64.64  Aligned_cols=45  Identities=18%  Similarity=0.292  Sum_probs=38.0

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|++.++..+++.|....  ...+-++|.+|+||||||+.+-..
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            358999999999999997743  444559999999999999998886

>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=96.96  E-value=0.00054  Score=51.52  Aligned_cols=22  Identities=32%  Similarity=0.354  Sum_probs=20.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ||.|+|+.|+||||+|+.+-..
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~   22 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKK   22 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998875

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.94  E-value=0.0017  Score=48.41  Aligned_cols=41  Identities=12%  Similarity=0.081  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          167 DEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       167 ~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ++..++-+.|...=..-.+|.+.|.-|+|||||+|.+.+.-
T Consensus         6 ~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         6 KAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34455555554321235689999999999999999999864

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.

>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=96.93  E-value=0.00069  Score=49.77  Aligned_cols=21  Identities=24%  Similarity=0.300  Sum_probs=19.6

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |-|+|+.|+||||||+.+.++
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            568999999999999999998

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 ....

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

Probab=96.92  E-value=0.003  Score=55.98  Aligned_cols=75  Identities=16%  Similarity=0.239  Sum_probs=50.7

Q ss_pred             CCcccchHHHHHHHHHHhcC------------CCCeEEEEEEcCCCccHHHHHHHHHhccccccCC---CeeEEEe---C
Q 042580          160 RNIMGLEDEIEELLDLLIVG------------EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYF---DCRAWVG---C  221 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~------------~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F---~~~~wV~---~  221 (241)
                      ..++|.+..++.+..++...            +.....|-++|+.|+||||||+.+-..  ....|   +..-|..   .
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~--l~~~fi~vD~t~f~e~Gyv   92 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKL--ANAPFIKVEATKFTEVGYV   92 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHH--hCChheeecchhhccCCcc
Confidence            35889999999988877431            112467899999999999999999886  33333   3332222   3


Q ss_pred             CCCHHHHHHHHHHHh
Q 042580          222 EYYLHKVLDSIIKSV  236 (241)
Q Consensus       222 ~~~~~~il~~Il~~l  236 (241)
                      ..+...+++.+++..
T Consensus        93 G~d~e~~ir~L~~~A  107 (443)
T PRK05201         93 GRDVESIIRDLVEIA  107 (443)
T ss_pred             cCCHHHHHHHHHHHH
Confidence            446667776665543

>PRK05439 pantothenate kinase; Provisional

Probab=96.91  E-value=0.0018  Score=55.34  Aligned_cols=26  Identities=23%  Similarity=0.285  Sum_probs=23.4

Q ss_pred             CCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          180 EPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       180 ~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .....+|+|.|.+|+||||||+.+..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~  108 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQA  108 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999999999876

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.90  E-value=0.0013  Score=59.99  Aligned_cols=46  Identities=26%  Similarity=0.172  Sum_probs=38.4

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +++|.+...+.|..++..+. -.+.+-++|+.|+||||+|+.+.+.-
T Consensus        15 dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l   60 (504)
T PRK14963         15 EVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAV   60 (504)
T ss_pred             HhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            58999998888888887643 34677999999999999999998753

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.90  E-value=0.0023  Score=59.92  Aligned_cols=74  Identities=14%  Similarity=0.042  Sum_probs=57.4

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCHHHHHHHHHHHhCC
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYLHKVLDSIIKSVMP  238 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~~~il~~Il~~l~~  238 (241)
                      +.++|.+..++.|...+...    +.+-++|.+|+||||||+.+.+.- -..+|+...|.. ..-+...+++.++.+++.
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            35789888888777766543    368899999999999999998752 233467788988 777888888888877654

>PHA00729 NTP-binding motif containing protein

Probab=96.89  E-value=0.0017  Score=52.82  Aligned_cols=24  Identities=25%  Similarity=0.376  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|.|+|.+|+||||||..|.+.
T Consensus        17 f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         17 FVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHH
Confidence            567889999999999999999886

>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=96.88  E-value=0.022  Score=43.29  Aligned_cols=107  Identities=8%  Similarity=0.091  Sum_probs=81.2

Q ss_pred             cchHHHHHHHHHHHHhhccccCchhHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCccchHHHHHHHHHHHHH
Q 042580            2 DINFRLFSERLRRLIEGEEGTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDF   81 (241)
Q Consensus         2 ~avv~~~~~kl~~~l~~~~~~~~~~~~~~~~~L~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~v~~Wl~~vr~~   81 (241)
                      .|+++.+++.|...+... .+....++.-+++|...++.+..++++.+..  +.+      -+    ..-+.=++++.+.
T Consensus         8 gaalG~~~~eLlk~v~~~-~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~--~~e------ld----~~~~ee~e~L~~~   74 (147)
T PF05659_consen    8 GAALGAVFGELLKAVIDA-SKKSLSFKSILKRLESTLESIIPIIKEIDKL--NVE------LD----RPRQEEIERLKEL   74 (147)
T ss_pred             HHHHHHHHHHHHHHHHHH-HHHHHhhhhHHHHHHHHHHHhhhHHHHHHHH--hhh------cC----CchhHHHHHHHHH
Confidence            477888889999888887 8888899999999999999999999999987  431      22    2225667889999


Q ss_pred             HHhhHHHHHHHHHHHhhhcCCCCC-chHHHHHHHHHHHHHHHHHH
Q 042580           82 VHESEKVIYTFMISRITQQISGSS-SKDLFDALLGLQSQIIDIKQ  125 (241)
Q Consensus        82 ~~~~ed~ld~~~~~~~~~~~~~~~-~~~~~~~i~~l~~~i~~i~~  125 (241)
                      ..+++++++.|..-..    ..++ .++++++|+++.+.+....+
T Consensus        75 L~~g~~LV~k~sk~~r----~n~~kk~~y~~Ki~~le~~l~~f~~  115 (147)
T PF05659_consen   75 LEKGKELVEKCSKVRR----WNLYKKPRYARKIEELEESLRRFIQ  115 (147)
T ss_pred             HHHHHHHHHHhccccH----HHHHhhHhHHHHHHHHHHHHHHHhc
Confidence            9999999998843210    1111 17788888888888876644

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 [].

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.88  E-value=0.00081  Score=53.83  Aligned_cols=24  Identities=17%  Similarity=0.333  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+|+|+|+.|+|||||++.+...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999876

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.88  E-value=0.0026  Score=51.87  Aligned_cols=43  Identities=14%  Similarity=0.173  Sum_probs=29.4

Q ss_pred             ccchHH-HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          163 MGLEDE-IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       163 vG~~~~-~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .|.+.. ...+.++... ......+.|+|..|+|||+||+.+++.
T Consensus        22 ~~~~~~~~~~l~~~~~~-~~~~~~~~l~G~~G~GKT~La~ai~~~   65 (227)
T PRK08903         22 AGENAELVARLRELAAG-PVADRFFYLWGEAGSGRSHLLQALVAD   65 (227)
T ss_pred             cCCcHHHHHHHHHHHhc-cCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            354333 3444444432 234567889999999999999999985

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.87  E-value=0.0034  Score=51.29  Aligned_cols=51  Identities=14%  Similarity=0.105  Sum_probs=36.3

Q ss_pred             CCCCeEEEEEEcCCCccHHHHHHHHHhcccccc----CCCeeEEEe--CCCCHHHHH
Q 042580          179 GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKN----YFDCRAWVG--CEYYLHKVL  229 (241)
Q Consensus       179 ~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~----~F~~~~wV~--~~~~~~~il  229 (241)
                      +=..-.++.|+|.+|+|||||+.++.-+.....    .-..++|++  .+|+...+.
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~   71 (235)
T cd01123          15 GIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV   71 (235)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH
Confidence            335568999999999999999999974422222    135788999  666665443

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 .

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

Probab=96.87  E-value=0.0014  Score=54.82  Aligned_cols=50  Identities=16%  Similarity=0.137  Sum_probs=37.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCCe-eEEEe---CCCCHHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDC-RAWVG---CEYYLHKVLDSIIK  234 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~-~~wV~---~~~~~~~il~~Il~  234 (241)
                      =.-++|+|..|+|||||++.++++  ++.+|+. ++++-   +.-.+.++...+..
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~~--i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~  122 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELINN--IAKAHGGYSVFAGVGERTREGNDLYHEMKE  122 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHHh
Confidence            456899999999999999999998  5545543 34443   66677777777654

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.

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

Probab=96.86  E-value=0.0017  Score=53.80  Aligned_cols=25  Identities=20%  Similarity=0.115  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .=.+++|+|+.|+|||||.|.++.-
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g~   51 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAGL   51 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcc
Confidence            3578999999999999999999984

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.86  E-value=0.00096  Score=51.66  Aligned_cols=25  Identities=12%  Similarity=0.032  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...|.++|++|+||||+|+.+.+.-
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999998863

>PLN02318 phosphoribulokinase/uridine kinase

Probab=96.85  E-value=0.0016  Score=59.95  Aligned_cols=35  Identities=29%  Similarity=0.398  Sum_probs=27.9

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          172 LLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       172 l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+.|........+|+|.|..|+||||||+.|...
T Consensus        54 a~qlL~~~~~~riIIGIaGpSGSGKTTLAk~Lagl   88 (656)
T PLN02318         54 ACQLLAQKNDGIILVGVAGPSGAGKTVFTEKVLNF   88 (656)
T ss_pred             HHHHHHhcCCCeEEEEEECCCCCcHHHHHHHHHhh
Confidence            33444444456899999999999999999999875

>PRK00625 shikimate kinase; Provisional

Probab=96.85  E-value=0.00086  Score=52.51  Aligned_cols=22  Identities=18%  Similarity=0.185  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .|.++||.|+||||+++.+-+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~   23 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKF   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3889999999999999999664

>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=96.84  E-value=0.0015  Score=53.72  Aligned_cols=36  Identities=25%  Similarity=0.323  Sum_probs=31.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      ..-++|+|..|+|||||++.+..+  ....|.+..+++
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            567899999999999999999987  677887777776

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

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

Probab=96.83  E-value=0.0014  Score=57.11  Aligned_cols=31  Identities=23%  Similarity=0.290  Sum_probs=25.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCC
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFD  214 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~  214 (241)
                      ++...-.||++|+||||||+.|-..  .+..|.
T Consensus        47 ~l~SmIl~GPPG~GKTTlA~liA~~--~~~~f~   77 (436)
T COG2256          47 HLHSMILWGPPGTGKTTLARLIAGT--TNAAFE   77 (436)
T ss_pred             CCceeEEECCCCCCHHHHHHHHHHh--hCCceE
Confidence            4777779999999999999999885  444453

>PRK04841 transcriptional regulator MalT; Provisional

Probab=96.81  E-value=0.0036  Score=61.08  Aligned_cols=62  Identities=16%  Similarity=0.232  Sum_probs=45.4

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe---CCCCHHHHHHHHHHHhC
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG---CEYYLHKVLDSIIKSVM  237 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~---~~~~~~~il~~Il~~l~  237 (241)
                      +..|.+.|... ...+++.|.|++|.|||||+.....+      ++.++|++   .+-+...++..++..+.
T Consensus        19 R~rl~~~l~~~-~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l~   83 (903)
T PRK04841         19 RERLLAKLSGA-NNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAALQ   83 (903)
T ss_pred             chHHHHHHhcc-cCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHHH
Confidence            44566666433 45889999999999999999997753      33689999   44466677777776663

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.81  E-value=0.0016  Score=63.22  Aligned_cols=45  Identities=18%  Similarity=0.293  Sum_probs=37.6

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|++.++..++..|....  ..-+-++|.+|+|||+||+.+...
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~--~~n~lL~G~pGvGKT~l~~~la~~  217 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRT--KNNPVLIGEPGVGKTAIVEGLAQR  217 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHHH
Confidence            358999999999999997643  344458999999999999998875

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.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.79  E-value=0.00097  Score=50.10  Aligned_cols=22  Identities=18%  Similarity=0.431  Sum_probs=20.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +|.|+|+.|+|||||++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            4789999999999999999986

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.

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

Probab=96.79  E-value=0.00095  Score=50.64  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=20.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +|.++|++|+||||+|+.+.+..
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998863

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

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.79  E-value=0.0013  Score=52.45  Aligned_cols=26  Identities=23%  Similarity=0.229  Sum_probs=23.5

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+..+|.|+|++|+||||||+.+...
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~   47 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEA   47 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999874

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.78  E-value=0.0023  Score=57.99  Aligned_cols=46  Identities=15%  Similarity=0.169  Sum_probs=36.3

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++++|.+.....|...+..+. -.+.+-++|++|+||||+|+.+.+.
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            358999888777777765543 2366889999999999999999764

>PRK13975 thymidylate kinase; Provisional

Probab=96.77  E-value=0.0013  Score=52.30  Aligned_cols=25  Identities=20%  Similarity=0.058  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhccc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      .+|.|.|+.|+||||+++.+.+.-.
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~   27 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLN   27 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999998644

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.77  E-value=0.0012  Score=52.24  Aligned_cols=24  Identities=17%  Similarity=0.272  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+|.|+|+.|+|||||++.+....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997753

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.77  E-value=0.0011  Score=51.79  Aligned_cols=23  Identities=22%  Similarity=0.218  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++|.+.|++|+||||+|+.+.+.
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999875

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

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.77  E-value=0.0042  Score=58.04  Aligned_cols=73  Identities=12%  Similarity=0.031  Sum_probs=52.7

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcccccc-CCCeeEEEe-CCCCHHHHHHHHHHHhC
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKN-YFDCRAWVG-CEYYLHKVLDSIIKSVM  237 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~-~F~~~~wV~-~~~~~~~il~~Il~~l~  237 (241)
                      +.++|.+...+.+...+...   . .+-++|+.|+|||||++.+.+.  +.. .|...+.+. ...+..++++.+...++
T Consensus        18 ~~viG~~~a~~~l~~a~~~~---~-~~ll~G~pG~GKT~la~~la~~--l~~~~~~~~~~~~n~~~~~~~~~~~v~~~~g   91 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQK---R-NVLLIGEPGVGKSMLAKAMAEL--LPDEELEDILVYPNPEDPNMPRIVEVPAGEG   91 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcC---C-CEEEECCCCCCHHHHHHHHHHH--cCchhheeEEEEeCCCCCchHHHHHHHHhhc
Confidence            45789888777777766543   2 4449999999999999999975  333 344445555 55677788888888776


Q ss_pred             C
Q 042580          238 P  238 (241)
Q Consensus       238 ~  238 (241)
                      .
T Consensus        92 ~   92 (608)
T TIGR00764        92 R   92 (608)
T ss_pred             h
Confidence            4

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

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.76  E-value=0.0015  Score=51.04  Aligned_cols=25  Identities=28%  Similarity=0.135  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -.+|.|+|++|+||||+|+.+....
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999988753

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.76  E-value=0.0063  Score=58.55  Aligned_cols=46  Identities=17%  Similarity=0.208  Sum_probs=38.2

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+.-+..|.+++..+. -.+.+-++|+.|+||||+|+.+.+.
T Consensus        16 ddIIGQe~Iv~~LknaI~~~r-l~HAyLFtGPpGtGKTTLARiLAk~   61 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQR-LHHAYLFTGTRGVGKTSLARLFAKG   61 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            368999999999999886643 2455689999999999999999875

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=96.73  E-value=0.0015  Score=49.78  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|+++|.+|+|||||++.+.++.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998754

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

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.72  E-value=0.0075  Score=54.03  Aligned_cols=53  Identities=17%  Similarity=0.096  Sum_probs=34.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCH--HHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYL--HKVLDSIIKSV  236 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~--~~il~~Il~~l  236 (241)
                      ...+|.++|..|+||||++.++.....- ..+ .++-|+ .++..  .+.+..+..++
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~-~g~-kV~lV~~D~~R~aa~eQL~~la~~~  149 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKK-KGL-KVGLVAADTYRPAAYDQLKQLAEKI  149 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHH-cCC-eEEEecCCCCCHHHHHHHHHHHHHc
Confidence            4789999999999999999999875322 222 334455 44433  44455555554

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.72  E-value=0.0063  Score=53.89  Aligned_cols=73  Identities=15%  Similarity=0.146  Sum_probs=49.0

Q ss_pred             CcccchHHHHHHHHHHhcC------------CCCeEEEEEEcCCCccHHHHHHHHHhccccccCC---Cee-EEEe--CC
Q 042580          161 NIMGLEDEIEELLDLLIVG------------EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYF---DCR-AWVG--CE  222 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~------------~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F---~~~-~wV~--~~  222 (241)
                      .++|.++.++.+...+...            +...+-|-++|++|+||||||+.+...  ..-.|   +.. .|-.  ..
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~--l~~~fi~vdat~~~e~g~vG   90 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKL--ANAPFIKVEATKFTEVGYVG   90 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHH--hCCeEEEeecceeecCCccc
Confidence            4789998888887665431            223477889999999999999999886  33332   332 2322  34


Q ss_pred             CCHHHHHHHHHHH
Q 042580          223 YYLHKVLDSIIKS  235 (241)
Q Consensus       223 ~~~~~il~~Il~~  235 (241)
                      .+...+++.+++.
T Consensus        91 ~dvE~i~r~l~e~  103 (441)
T TIGR00390        91 RDVESMVRDLTDA  103 (441)
T ss_pred             CCHHHHHHHHHHH
Confidence            4677777766554

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.

>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=96.71  E-value=0.0013  Score=48.97  Aligned_cols=23  Identities=35%  Similarity=0.330  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|..|+|||||.+.+...
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            58999999999999999999885

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 ....

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.71  E-value=0.0029  Score=58.57  Aligned_cols=46  Identities=20%  Similarity=0.213  Sum_probs=38.0

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+..|.+.+..+. -.+.+-++|+.|+||||+|+.+-+.
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            468999999999999886643 3467889999999999999998664

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.70  E-value=0.0027  Score=58.34  Aligned_cols=45  Identities=16%  Similarity=0.232  Sum_probs=37.3

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+++|.+..+..|...+..+. -.+.+-++|+.|+||||||+.+.+
T Consensus        16 ~diiGq~~~v~~L~~~i~~~r-l~ha~Lf~Gp~GvGKTTlAr~lAk   60 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQK-VHHAYLFTGTRGVGKTTLGRLLAK   60 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence            368999999999998886543 345677899999999999999877

>PRK13949 shikimate kinase; Provisional

Probab=96.69  E-value=0.0014  Score=51.13  Aligned_cols=22  Identities=23%  Similarity=0.277  Sum_probs=20.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.|+|+.|+|||||++.+.+.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999998875

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.69  E-value=0.0013  Score=50.59  Aligned_cols=22  Identities=23%  Similarity=0.317  Sum_probs=20.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ||+|+|+.|+|||||+..+...
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~   22 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKA   22 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999885

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

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

Probab=96.67  E-value=0.0012  Score=47.44  Aligned_cols=21  Identities=29%  Similarity=0.444  Sum_probs=17.8

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |-|+|.+|+|||+||+.+..+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~   21 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKD   21 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999996643

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

>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=96.67  E-value=0.0015  Score=49.62  Aligned_cols=34  Identities=15%  Similarity=0.171  Sum_probs=24.7

Q ss_pred             EEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      |.|+|++|+||||+|+.+...... ..|+.-.|+.
T Consensus         2 i~l~G~~GsGKstla~~la~~l~~-~~~~~d~~~~   35 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALGL-PFVDLDELIE   35 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCC-CEEEchHHHH
Confidence            789999999999999999875321 1344445554

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.

>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=96.67  E-value=0.003  Score=48.69  Aligned_cols=35  Identities=29%  Similarity=0.412  Sum_probs=29.2

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          168 EIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       168 ~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+++|.++|.    . +++.++|..||||+||++.+..+.
T Consensus        25 g~~~l~~~l~----~-k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   25 GIEELKELLK----G-KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             THHHHHHHHT----T-SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CHHHHHHHhc----C-CEEEEECCCCCCHHHHHHHHHhhc
Confidence            4677777772    3 689999999999999999999974

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.

>PRK10536 hypothetical protein; Provisional

Probab=96.67  E-value=0.0053  Score=50.92  Aligned_cols=57  Identities=12%  Similarity=0.112  Sum_probs=41.2

Q ss_pred             ccCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEE
Q 042580          158 KKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAW  218 (241)
Q Consensus       158 ~~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~w  218 (241)
                      +-..+.++......++.+|.+    ..++.+.|.+|+|||+||..+.-+.-..+.|+..+-
T Consensus        53 ~~~~i~p~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI  109 (262)
T PRK10536         53 DTSPILARNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIV  109 (262)
T ss_pred             CCccccCCCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEE
Confidence            334567788888888888865    249999999999999999998775332344554333

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.66  E-value=0.0034  Score=58.57  Aligned_cols=46  Identities=20%  Similarity=0.184  Sum_probs=38.5

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+...+.|..++..+. -.+.+-++|+.|+||||+|+.+-+.
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            468999999999999987653 3477789999999999999988664

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.65  E-value=0.0018  Score=50.79  Aligned_cols=25  Identities=16%  Similarity=0.406  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -.++.|.|++|+||+||++.++++.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4688999999999999999999985

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

Probab=96.65  E-value=0.0016  Score=52.40  Aligned_cols=25  Identities=20%  Similarity=0.575  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhccc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      .-|.|+|.+|+|||||+..+..+..
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~   30 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEF   30 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcC
Confidence            5689999999999999999998653

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

Probab=96.64  E-value=0.0016  Score=53.39  Aligned_cols=23  Identities=30%  Similarity=0.258  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =-.++|+|++|+|||||.+.|--
T Consensus        29 GEfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          29 GEFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999875

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

Probab=96.64  E-value=0.0022  Score=49.25  Aligned_cols=25  Identities=28%  Similarity=0.282  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+|=++|.+|+||||||+.+...-
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L   26 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRL   26 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4688899999999999999999863

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 ....

>PLN02348 phosphoribulokinase

Probab=96.64  E-value=0.0041  Score=54.58  Aligned_cols=27  Identities=15%  Similarity=0.348  Sum_probs=24.3

Q ss_pred             CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          180 EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       180 ~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+..+|+|.|.+|+||||||+.|.+.
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~~   72 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTSV   72 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            356899999999999999999999885

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

Probab=96.63  E-value=0.0017  Score=52.10  Aligned_cols=27  Identities=22%  Similarity=0.154  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      .-.|++|+|++|+|||||.|-++.=+.
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE~   53 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLEE   53 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCcC
Confidence            357999999999999999999988543

>PRK13947 shikimate kinase; Provisional

Probab=96.63  E-value=0.0015  Score=50.68  Aligned_cols=22  Identities=18%  Similarity=0.273  Sum_probs=20.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.|+|++|+||||+++.+-+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~   24 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATT   24 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Confidence            4889999999999999999885

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.62  E-value=0.002  Score=51.83  Aligned_cols=26  Identities=19%  Similarity=0.362  Sum_probs=23.9

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+++|+++|..|+|||||.+.+...
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999999875

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

>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=96.62  E-value=0.002  Score=46.18  Aligned_cols=22  Identities=41%  Similarity=0.406  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      -..++|+|..|+|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4688999999999999999976

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

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.61  E-value=0.0013  Score=50.67  Aligned_cols=22  Identities=18%  Similarity=0.276  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|+.|+||||+|+.+-+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            5689999999999999988753

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.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.61  E-value=0.0033  Score=56.69  Aligned_cols=46  Identities=22%  Similarity=0.230  Sum_probs=38.0

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+..|..++..+. -.+.+-++|+.|+||||+|+.+.+.
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            368999999999988887653 2356889999999999999999774

>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=96.60  E-value=0.0038  Score=51.57  Aligned_cols=40  Identities=23%  Similarity=0.285  Sum_probs=30.8

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          168 EIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       168 ~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...+|++.|.....+..+|+|.|.+|+||+||+-.+-..-
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~   53 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIREL   53 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHH
Confidence            4567777776655578999999999999999999887753

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.

>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=96.60  E-value=0.0019  Score=46.70  Aligned_cols=21  Identities=24%  Similarity=0.409  Sum_probs=19.8

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |+|+|+.|+|||||.+.+.+.
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 ....

>CHL00181 cbbX CbbX; Provisional

Probab=96.59  E-value=0.0046  Score=52.41  Aligned_cols=46  Identities=17%  Similarity=0.307  Sum_probs=32.2

Q ss_pred             CcccchHHHHHHHHHH---hc-------C---CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLL---IV-------G---EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L---~~-------~---~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|.+..+++|.++.   .-       +   ......+-++|.+|+||||+|+.+.+.
T Consensus        24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~   82 (287)
T CHL00181         24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADI   82 (287)
T ss_pred             hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            5789888777665543   11       1   112345788999999999999999663

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.59  E-value=0.0022  Score=50.80  Aligned_cols=25  Identities=16%  Similarity=0.102  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.|+|++|+|||||++.+.+.
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            4678999999999999999999886

>PLN02796 D-glycerate 3-kinase

Probab=96.58  E-value=0.0022  Score=55.41  Aligned_cols=27  Identities=15%  Similarity=0.079  Sum_probs=24.0

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-+|+|.|..|+|||||++.+....
T Consensus        98 ~~pliIGI~G~sGSGKSTLa~~L~~lL  124 (347)
T PLN02796         98 IPPLVIGISAPQGCGKTTLVFALVYLF  124 (347)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHh
Confidence            367899999999999999999999853

>TIGR00763 lon ATP-dependent protease La

Probab=96.58  E-value=0.0033  Score=60.51  Aligned_cols=46  Identities=28%  Similarity=0.411  Sum_probs=37.4

Q ss_pred             CcccchHHHHHHHHHHhc----CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIV----GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~----~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..++.+.+++..    +..+-.++.++|++|+||||||+.+.+.
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~  370 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKA  370 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            478999999998887632    2333458999999999999999999986

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.58  E-value=0.0092  Score=50.18  Aligned_cols=43  Identities=14%  Similarity=0.051  Sum_probs=29.1

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYL  225 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~  225 (241)
                      ...++|.++|++|+||||++.++...-.  ..-..+++++ .+|..
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~--~~g~~V~li~~D~~r~  113 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLK--KQGKSVLLAAGDTFRA  113 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH--hcCCEEEEEeCCCCCH
Confidence            4578999999999999998888876432  2212345555 44433

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=96.58  E-value=0.0022  Score=52.47  Aligned_cols=24  Identities=17%  Similarity=0.120  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -..+-+||++|+|||+|++.+.+.
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~   62 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNH   62 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999999986

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.58  E-value=0.0035  Score=55.60  Aligned_cols=46  Identities=20%  Similarity=0.104  Sum_probs=36.9

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|..++..+. -.+-+-++|+.|+||||+|+.+.+.
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~   61 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKA   61 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHH
Confidence            468899998888888886643 3455889999999999999887663

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

Probab=96.57  E-value=0.0029  Score=60.41  Aligned_cols=45  Identities=27%  Similarity=0.296  Sum_probs=37.1

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|++.++..+++.|....  ..-+-++|.+|+|||+||+.+...
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~--~~n~LLvGppGvGKT~lae~la~~  230 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWR  230 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHHH
Confidence            358999999999999887743  233357999999999999999875

>PRK14530 adenylate kinase; Provisional

Probab=96.57  E-value=0.0019  Score=52.33  Aligned_cols=22  Identities=14%  Similarity=0.244  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .|.|+|++|+||||+++.+...
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~   26 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEE   26 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999653

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

Probab=96.57  E-value=0.0018  Score=49.98  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|++|+|+.|+|||||+..+-..
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~   25 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRK   25 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHH
Confidence            579999999999999999999553

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

Probab=96.57  E-value=0.0016  Score=49.63  Aligned_cols=23  Identities=22%  Similarity=0.255  Sum_probs=20.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +|.|+|.+|+||||||+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999988753

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

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.56  E-value=0.0019  Score=51.66  Aligned_cols=26  Identities=19%  Similarity=0.208  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      ..+|+|-||=|+||||||+.+-++-.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            57899999999999999999988643

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.54  E-value=0.0041  Score=56.92  Aligned_cols=56  Identities=21%  Similarity=0.326  Sum_probs=42.5

Q ss_pred             CcccchHHHHHHHHHHhc---CCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          161 NIMGLEDEIEELLDLLIV---GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~---~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      ++.-..+-++++..||..   +....+++-+.|++|+||||.++.+.+.    -.|+.+-|..
T Consensus        20 eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~e----lg~~v~Ew~n   78 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKE----LGFEVQEWIN   78 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHH----hCCeeEEecC
Confidence            344456668889999865   3334679999999999999999999986    2466677765

>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=96.54  E-value=0.002  Score=50.20  Aligned_cols=22  Identities=23%  Similarity=0.350  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|.|..|+|||||++.+.+.-
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            6799999999999999998865

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.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.54  E-value=0.011  Score=56.10  Aligned_cols=46  Identities=20%  Similarity=0.221  Sum_probs=36.9

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++++|.+..++.|.+++..+. -.+.+-++|..|+||||+|+.+-+.
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            468999999999999986643 2455569999999999999876663

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

Probab=96.53  E-value=0.002  Score=52.55  Aligned_cols=23  Identities=30%  Similarity=0.251  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+--
T Consensus        33 Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          33 GETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhc
Confidence            46899999999999999999865

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=96.53  E-value=0.0025  Score=48.73  Aligned_cols=23  Identities=13%  Similarity=0.327  Sum_probs=20.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|.+|+|||||++.+.+..
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~   24 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGH   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            37899999999999999997643

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

>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=96.52  E-value=0.0026  Score=49.11  Aligned_cols=23  Identities=26%  Similarity=0.340  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|+|+|..|+|||||+..+...
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~   24 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPA   24 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999985

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.

>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=96.51  E-value=0.0022  Score=47.99  Aligned_cols=21  Identities=38%  Similarity=0.406  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |-++|..|+|||+||+.+...
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            568999999999999999875

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=96.51  E-value=0.0026  Score=48.56  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=19.8

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|.+|+|||||++.+.+..
T Consensus         3 i~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999988754

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.51  E-value=0.0067  Score=53.15  Aligned_cols=41  Identities=17%  Similarity=0.083  Sum_probs=28.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCC
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEY  223 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~  223 (241)
                      -.++.++|+.|+||||++.++-...........+..++ .+|
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~  178 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSY  178 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccc
Confidence            57999999999999999999987632121123455666 444

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.51  E-value=0.0026  Score=50.89  Aligned_cols=25  Identities=28%  Similarity=0.248  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+|.|.|++|+||||+|+.+.+..
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999998854

>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=96.50  E-value=0.0023  Score=51.79  Aligned_cols=24  Identities=33%  Similarity=0.191  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.49  E-value=0.0043  Score=53.56  Aligned_cols=38  Identities=26%  Similarity=0.359  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|++.+.....+..+|+|.|.+|+|||||+..+...
T Consensus        42 ~~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~   79 (332)
T PRK09435         42 AQELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMH   79 (332)
T ss_pred             HHHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            34555555443456899999999999999999987664

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.49  E-value=0.0023  Score=50.02  Aligned_cols=24  Identities=17%  Similarity=0.182  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|.|+|+.|+|||||++.+-+.
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~   27 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQ   27 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHH
Confidence            446999999999999999999875

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.49  E-value=0.0021  Score=49.52  Aligned_cols=21  Identities=19%  Similarity=0.257  Sum_probs=17.8

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |+|+|..|+|||||++.+...
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            799999999999999999886

>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=96.48  E-value=0.0082  Score=51.45  Aligned_cols=72  Identities=13%  Similarity=0.214  Sum_probs=48.1

Q ss_pred             hHHHHHHHHHHhcCC-CCeEEEEEEcCCCccHHHHHHHHHhccccc--cC---CCeeEEEe-C-CCCHHHHHHHHHHHhC
Q 042580          166 EDEIEELLDLLIVGE-PSLFIVAIVGNSGFDKTNFAGEAYNNNYAK--NY---FDCRAWVG-C-EYYLHKVLDSIIKSVM  237 (241)
Q Consensus       166 ~~~~~~l~~~L~~~~-~~~~vI~IvG~gGvGKTTLak~v~~~~~v~--~~---F~~~~wV~-~-~~~~~~il~~Il~~l~  237 (241)
                      +.-.+.|.+.|.+.+ ....+|+|.|.=|+||||+.+.+.+.-.-.  ..   +...+|-+ . +--...++..|..++.
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            344567777776643 678999999999999999999999874433  11   13345555 2 2334566666666654

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 [].

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

Probab=96.47  E-value=0.0024  Score=51.36  Aligned_cols=24  Identities=25%  Similarity=0.138  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.47  E-value=0.011  Score=48.12  Aligned_cols=48  Identities=17%  Similarity=0.036  Sum_probs=35.2

Q ss_pred             CCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCHHHH
Q 042580          179 GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYLHKV  228 (241)
Q Consensus       179 ~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~~~i  228 (241)
                      +=..-.++-|+|.+|+|||+|+.++..+..  ..-..++|++ ..++...+
T Consensus        19 Gi~~g~i~~i~G~~GsGKT~l~~~la~~~~--~~~~~v~yi~~e~~~~~r~   67 (225)
T PRK09361         19 GFERGTITQIYGPPGSGKTNICLQLAVEAA--KNGKKVIYIDTEGLSPERF   67 (225)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHH--HCCCeEEEEECCCCCHHHH
Confidence            334568999999999999999999987632  2335678888 65555443

>cd00879 Sar1 Sar1 subfamily

Probab=96.47  E-value=0.0057  Score=48.09  Aligned_cols=36  Identities=14%  Similarity=0.034  Sum_probs=25.4

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          170 EELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       170 ~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+++.|.-. .+..-|+|+|.+|+|||||++.+.++
T Consensus         7 ~~~~~~~~~~-~~~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879           7 YNVLSSLGLY-NKEAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             HHHHHHhhcc-cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3344544222 23455599999999999999999874

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.

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

Probab=96.47  E-value=0.0043  Score=54.98  Aligned_cols=47  Identities=23%  Similarity=0.251  Sum_probs=36.8

Q ss_pred             CCcccchHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV-----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.|.+..++.|.+.+.-           +-...+-+-++|++|+|||+||+.+.+.
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            3578999888888876531           1134577889999999999999999885

>cd04159 Arl10_like Arl10-like subfamily

Probab=96.47  E-value=0.0025  Score=47.87  Aligned_cols=22  Identities=18%  Similarity=0.255  Sum_probs=20.2

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |+|+|..|+|||||.+.+.+..
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~   23 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQ   23 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCC
Confidence            7899999999999999998863

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.

>cd01862 Rab7 Rab7 subfamily

Probab=96.46  E-value=0.0024  Score=49.08  Aligned_cols=22  Identities=36%  Similarity=0.537  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|+|+|.+|+|||||++.+.++
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-

>cd04155 Arl3 Arl3 subfamily

Probab=96.46  E-value=0.0023  Score=49.45  Aligned_cols=25  Identities=16%  Similarity=0.085  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +..-|+|+|.+|+|||||++.+.+.
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcC
Confidence            3556999999999999999999985

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.

>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=96.46  E-value=0.0016  Score=48.06  Aligned_cols=27  Identities=26%  Similarity=0.277  Sum_probs=18.4

Q ss_pred             EEEEcCCCccHHHHHHHHHhccccccCCC
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNNYAKNYFD  214 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~~v~~~F~  214 (241)
                      +-++|.+|+||||||+.+-..  +...|.
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            568999999999999999886  555664

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.

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

Probab=96.46  E-value=0.0042  Score=55.67  Aligned_cols=46  Identities=30%  Similarity=0.356  Sum_probs=35.3

Q ss_pred             CcccchHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIV-----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~-----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++.|.+..+++|.+.+.-           +-....-+.++|++|+|||+||+.|.+.
T Consensus       184 DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~e  240 (438)
T PTZ00361        184 DIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANE  240 (438)
T ss_pred             HhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            467888888888876631           1123456779999999999999999996

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

Probab=96.45  E-value=0.0027  Score=48.92  Aligned_cols=24  Identities=29%  Similarity=0.308  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++.|+|.+|+||||+.+.+-.-
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~   27 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKE   27 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHH
Confidence            689999999999999998877654

>PRK14527 adenylate kinase; Provisional

Probab=96.45  E-value=0.0027  Score=50.39  Aligned_cols=25  Identities=20%  Similarity=0.175  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +..+|.|+|++|+||||+|+.+.+.
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~   29 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQE   29 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999999998754

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

Probab=96.45  E-value=0.0025  Score=51.49  Aligned_cols=24  Identities=29%  Similarity=0.277  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (216)
T TIGR00960        29 GEMVFLVGHSGAGKSTFLKLILGI   52 (216)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.45  E-value=0.0037  Score=54.33  Aligned_cols=47  Identities=26%  Similarity=0.275  Sum_probs=38.1

Q ss_pred             cccCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          157 FKKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       157 ~~~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ++-+.+||.++.+..|+..+.+  +.++-+-|.|..|+||||+|+.+++
T Consensus        14 ~pf~~ivGq~~~k~al~~~~~~--p~~~~vli~G~~GtGKs~~ar~~~~   60 (350)
T CHL00081         14 FPFTAIVGQEEMKLALILNVID--PKIGGVMIMGDRGTGKSTTIRALVD   60 (350)
T ss_pred             CCHHHHhChHHHHHHHHHhccC--CCCCeEEEEcCCCCCHHHHHHHHHH
Confidence            3556789999988888776655  3466666999999999999999976

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.44  E-value=0.0085  Score=50.63  Aligned_cols=26  Identities=19%  Similarity=0.312  Sum_probs=24.2

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+..+|.|+|..|+|||||+..+.+.
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~  127 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMR  127 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            56999999999999999999999886

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.44  E-value=0.0027  Score=53.73  Aligned_cols=26  Identities=23%  Similarity=0.225  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...+|+++|+.|+||||++.++....
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~  218 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARF  218 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999988763

>TIGR00750 lao LAO/AO transport system ATPase

Probab=96.44  E-value=0.0044  Score=52.90  Aligned_cols=38  Identities=21%  Similarity=0.231  Sum_probs=28.9

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+++-+........+|+|+|.+|+|||||+..+...
T Consensus        20 ~~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~   57 (300)
T TIGR00750        20 AKQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGME   57 (300)
T ss_pred             HHHHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            34455544434456899999999999999999998774

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.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.43  E-value=0.0026  Score=50.29  Aligned_cols=24  Identities=17%  Similarity=0.169  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
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.

>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=96.43  E-value=0.0026  Score=49.91  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -.+++|+|..|+|||||.+.+..
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhh
Confidence            46899999999999999999964

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.

>PRK08727 hypothetical protein; Validated

Probab=96.43  E-value=0.008  Score=49.34  Aligned_cols=54  Identities=19%  Similarity=0.107  Sum_probs=34.1

Q ss_pred             ccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          163 MGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       163 vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      +|-.+....+..+...  ....-+.|+|..|+|||.|++.+++.  ...+....++++
T Consensus        23 ~~~~n~~~~~~~~~~~--~~~~~l~l~G~~G~GKThL~~a~~~~--~~~~~~~~~y~~   76 (233)
T PRK08727         23 AAPDGLLAQLQALAAG--QSSDWLYLSGPAGTGKTHLALALCAA--AEQAGRSSAYLP   76 (233)
T ss_pred             CCcHHHHHHHHHHHhc--cCCCeEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEe
Confidence            3444444444444332  23456999999999999999999886  223323445555

>PRK06761 hypothetical protein; Provisional

Probab=96.42  E-value=0.0049  Score=51.93  Aligned_cols=25  Identities=24%  Similarity=0.220  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+|.|.|++|+||||+++.+.+..
T Consensus         3 ~~lIvI~G~~GsGKTTla~~L~~~L   27 (282)
T PRK06761          3 TKLIIIEGLPGFGKSTTAKMLNDIL   27 (282)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhc
Confidence            3589999999999999999999874

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.42  E-value=0.0051  Score=53.29  Aligned_cols=44  Identities=20%  Similarity=0.175  Sum_probs=36.4

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +.++|.+..+..|+-.+.+.  ...-+.|.|..|+|||||++.+..
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            56899999988887776653  366677999999999999999964

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.

>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=96.42  E-value=0.0072  Score=48.43  Aligned_cols=42  Identities=21%  Similarity=0.180  Sum_probs=32.8

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ++++|.+..+..|.-....    .+-+-++|..|+|||+||+.+-.
T Consensus         3 ~dI~GQe~aKrAL~iAAaG----~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG----GHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC----C--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcC----CCCeEEECCCCCCHHHHHHHHHH
Confidence            5789999888887776654    36889999999999999999876

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.

>cd04163 Era Era subfamily

Probab=96.42  E-value=0.0034  Score=47.47  Aligned_cols=25  Identities=24%  Similarity=0.279  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+|+++|..|+|||||++.+....
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~   27 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQK   27 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCc
Confidence            5679999999999999999987653

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.

>PRK00698 tmk thymidylate kinase; Validated

Probab=96.41  E-value=0.003  Score=50.35  Aligned_cols=24  Identities=17%  Similarity=0.079  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+|+|.|+.|+||||+++.+.+.
T Consensus         3 ~~~I~ieG~~gsGKsT~~~~L~~~   26 (205)
T PRK00698          3 GMFITIEGIDGAGKSTQIELLKEL   26 (205)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999999874

>cd04113 Rab4 Rab4 subfamily

Probab=96.41  E-value=0.0028  Score=48.32  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=19.8

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|.+|+|||||++.+.+..
T Consensus         3 i~v~G~~~vGKTsli~~l~~~~   24 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVENK   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999997754

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

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.41  E-value=0.0056  Score=55.22  Aligned_cols=43  Identities=19%  Similarity=0.162  Sum_probs=36.4

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|+++.++.+...++.+    .-+-++|++|+|||+||+.+...
T Consensus        20 ~~i~gre~vI~lll~aalag----~hVLL~GpPGTGKT~LAraLa~~   62 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFA   62 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC----CCEEEECCCChhHHHHHHHHHHH
Confidence            35789999999998888664    34779999999999999999985

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

Probab=96.41  E-value=0.0032  Score=47.73  Aligned_cols=22  Identities=23%  Similarity=0.454  Sum_probs=19.6

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|.+|+|||||++.+.++.
T Consensus         4 i~iiG~~~vGKTsl~~~~~~~~   25 (162)
T cd04138           4 LVVVGAGGVGKSALTIQLIQNH   25 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999988754

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.

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.41  E-value=0.0052  Score=56.21  Aligned_cols=46  Identities=15%  Similarity=0.143  Sum_probs=38.0

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++||.+..+..|.+++..+. -.+.+-++|+.|+||||+|+.+-+.
T Consensus        16 ~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk~   61 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAKC   61 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999996643 2456789999999999999888773

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.41  E-value=0.0074  Score=52.70  Aligned_cols=67  Identities=13%  Similarity=-0.094  Sum_probs=46.0

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCe-eEEEe---CCCCHHHHHHHHHHHhC
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDC-RAWVG---CEYYLHKVLDSIIKSVM  237 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~-~~wV~---~~~~~~~il~~Il~~l~  237 (241)
                      ...+++.+..-. +-.-+.|+|..|+|||||++.+.+..... +=+. ++|+.   ++-.+.++++.+...+.
T Consensus       120 ~~RvID~l~PiG-kGQR~LIvG~pGtGKTTLl~~la~~i~~~-~~dv~~vv~lIgER~~EV~df~~~i~~~Vv  190 (380)
T PRK12608        120 SMRVVDLVAPIG-KGQRGLIVAPPRAGKTVLLQQIAAAVAAN-HPEVHLMVLLIDERPEEVTDMRRSVKGEVY  190 (380)
T ss_pred             hHhhhhheeecC-CCceEEEECCCCCCHHHHHHHHHHHHHhc-CCCceEEEEEecCCCCCHHHHHHHHhhhEE
Confidence            345777775422 23455999999999999999988863221 2233 35555   88899999999877554

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.40  E-value=0.0035  Score=47.54  Aligned_cols=34  Identities=21%  Similarity=0.154  Sum_probs=24.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      ++.|+|.+|+|||||++.+.....  ..-..++|+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~   34 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIA--TKGGKVVYVD   34 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHH--hcCCEEEEEE
Confidence            478999999999999999977532  2223445554

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.

>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=96.40  E-value=0.0029  Score=49.56  Aligned_cols=24  Identities=29%  Similarity=0.200  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.-.
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (178)
T cd03229          26 GEIVALLGPSGSGKSTLLRCIAGL   49 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999863

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.

>PRK08084 DNA replication initiation factor; Provisional

Probab=96.40  E-value=0.0063  Score=50.03  Aligned_cols=24  Identities=8%  Similarity=0.081  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+-|+|+.|+|||+|++.+++.
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~   68 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAE   68 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            467899999999999999999885

>cd00876 Ras Ras family

Probab=96.39  E-value=0.0033  Score=47.53  Aligned_cols=21  Identities=19%  Similarity=0.365  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.|+|..|+|||||++.+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998764

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

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.39  E-value=0.003  Score=49.66  Aligned_cols=24  Identities=25%  Similarity=0.207  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl   48 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQ   48 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcC
Confidence            469999999999999999999874

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=96.39  E-value=0.008  Score=55.38  Aligned_cols=44  Identities=30%  Similarity=0.284  Sum_probs=35.8

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|.+..++.+...+....  ..-+-|+|..|+||||+|+.+++.
T Consensus        66 ~iiGqs~~i~~l~~al~~~~--~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCGPN--PQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HeeCcHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999988775533  445578999999999999999863

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.

>PRK08356 hypothetical protein; Provisional

Probab=96.38  E-value=0.0028  Score=50.44  Aligned_cols=23  Identities=30%  Similarity=0.254  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ..+|.|+|++|+||||+|+.+-+
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l~~   27 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFFEE   27 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999954

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

Probab=96.38  E-value=0.0053  Score=59.00  Aligned_cols=47  Identities=26%  Similarity=0.362  Sum_probs=38.7

Q ss_pred             CCcccchHHHHHHHHHHhc----CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV----GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~----~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+.+|.++.++.++++|.-    +...-.++.++|++|+||||+++.+...
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~  372 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKA  372 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            3478999999999988852    2234568999999999999999999874

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=96.38  E-value=0.003  Score=47.15  Aligned_cols=23  Identities=22%  Similarity=0.420  Sum_probs=21.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|+++|.+|+|||||+..+....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999999876

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.

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

Probab=96.38  E-value=0.003  Score=51.34  Aligned_cols=23  Identities=35%  Similarity=0.241  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =..++|+|+.|+|||||...+.-
T Consensus        31 Ge~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          31 GEFVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999986

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=96.38  E-value=0.0069  Score=52.63  Aligned_cols=46  Identities=20%  Similarity=0.246  Sum_probs=37.7

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+++..+. -.+.+-++|+.|+||||+|+.+...
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            367999999999999886643 3467789999999999999887654

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.

>cd00154 Rab Rab family

Probab=96.37  E-value=0.0031  Score=47.31  Aligned_cols=22  Identities=23%  Similarity=0.460  Sum_probs=20.0

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|.+|+|||||++.+.+..
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            7899999999999999998764

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

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.37  E-value=0.016  Score=49.63  Aligned_cols=61  Identities=15%  Similarity=0.158  Sum_probs=40.9

Q ss_pred             HHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcccccc----CCCeeEEEe--CCCCHHHHHHHHHHHh
Q 042580          175 LLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKN----YFDCRAWVG--CEYYLHKVLDSIIKSV  236 (241)
Q Consensus       175 ~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~----~F~~~~wV~--~~~~~~~il~~Il~~l  236 (241)
                      +|..+=..-.++-|+|.+|+|||||+-++.-+.....    .=..++||+  .+|+...+.+ +++.+
T Consensus        87 ~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~-~~~~~  153 (310)
T TIGR02236        87 LLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQ-MAEAR  153 (310)
T ss_pred             HhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHH-HHHHc
Confidence            3333435578899999999999999999876532211    113689999  7788876543 34433

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.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=96.37  E-value=0.0029  Score=52.00  Aligned_cols=24  Identities=29%  Similarity=0.210  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        28 Ge~~~l~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        28 GEFVAIIGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999864

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.

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=96.37  E-value=0.0032  Score=50.45  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|+|+|+.|+||||.|+.+-+-
T Consensus         2 ~~iIglTG~igsGKStva~~~~~~   25 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAEL   25 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHHc
Confidence            568999999999999999987664

>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=96.36  E-value=0.003  Score=51.18  Aligned_cols=24  Identities=29%  Similarity=0.213  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        30 G~~~~i~G~nGsGKSTLl~~l~Gl   53 (220)
T cd03293          30 GEFVALVGPSGCGKSTLLRIIAGL   53 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999885

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.

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

Probab=96.36  E-value=0.0029  Score=47.77  Aligned_cols=24  Identities=25%  Similarity=0.329  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +-|.++|..|+|||||++.+...+
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            357899999999999999999865

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

>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=96.36  E-value=0.003  Score=51.76  Aligned_cols=24  Identities=29%  Similarity=0.231  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (235)
T cd03261          26 GEILAIIGPSGSGKSTLLRLIVGL   49 (235)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999874

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.

>PLN02200 adenylate kinase family protein

Probab=96.36  E-value=0.0037  Score=51.40  Aligned_cols=26  Identities=19%  Similarity=0.308  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....+|.|+|++|+||||+++.+.+.
T Consensus        41 ~~~~ii~I~G~PGSGKsT~a~~La~~   66 (234)
T PLN02200         41 KTPFITFVLGGPGSGKGTQCEKIVET   66 (234)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999999998764

>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=96.36  E-value=0.0034  Score=50.65  Aligned_cols=25  Identities=20%  Similarity=0.167  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .. .+++|+|..|+|||||++.+..-
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.

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

Probab=96.36  E-value=0.0031  Score=51.08  Aligned_cols=24  Identities=21%  Similarity=0.167  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
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.

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.35  E-value=0.0033  Score=49.30  Aligned_cols=24  Identities=17%  Similarity=0.040  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .++.|+|..|+|||||++.+....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l   27 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALF   27 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            478999999999999999998743

>PRK13695 putative NTPase; Provisional

Probab=96.35  E-value=0.0031  Score=49.24  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .|+|+|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998654

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

Probab=96.35  E-value=0.0032  Score=50.63  Aligned_cols=24  Identities=21%  Similarity=0.126  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.-.
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.

>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=96.34  E-value=0.0093  Score=51.53  Aligned_cols=49  Identities=22%  Similarity=0.289  Sum_probs=42.4

Q ss_pred             ccCCcccchHHHHHHHHHHhc----CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          158 KKRNIMGLEDEIEELLDLLIV----GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       158 ~~~~~vG~~~~~~~l~~~L~~----~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+..++|+++.++++++.+..    -+.+-+|+-.+|+.|.|||||+..+.+-
T Consensus        59 f~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~  111 (358)
T PF08298_consen   59 FEDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRG  111 (358)
T ss_pred             ccccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHH
Confidence            345789999999999999865    2466899999999999999999998874

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.34  E-value=0.0032  Score=50.75  Aligned_cols=24  Identities=25%  Similarity=0.239  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        28 G~~~~l~G~nGsGKSTLl~~i~Gl   51 (214)
T TIGR02673        28 GEFLFLTGPSGAGKTTLLKLLYGA   51 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999874

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.

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

Probab=96.34  E-value=0.0097  Score=49.12  Aligned_cols=23  Identities=22%  Similarity=0.148  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -..+.++|++|+||||+.|.|+.
T Consensus        27 gef~vliGpSGsGKTTtLkMINr   49 (309)
T COG1125          27 GEFLVLIGPSGSGKTTTLKMINR   49 (309)
T ss_pred             CeEEEEECCCCCcHHHHHHHHhc
Confidence            56788999999999999999988

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

Probab=96.34  E-value=0.014  Score=47.42  Aligned_cols=52  Identities=15%  Similarity=0.139  Sum_probs=35.0

Q ss_pred             cCCCCeEEEEEEcCCCccHHHHHHHHHhcccccc----CCCeeEEEe--CCCCHHHHH
Q 042580          178 VGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKN----YFDCRAWVG--CEYYLHKVL  229 (241)
Q Consensus       178 ~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~----~F~~~~wV~--~~~~~~~il  229 (241)
                      .+=..-.++.|+|.+|+|||+|+..+.-.....+    .=..++|++  ..++...+.
T Consensus        14 GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          14 GGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHH
Confidence            3435568999999999999999999876522111    003467888  556665443

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.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=96.33  E-value=0.0032  Score=51.71  Aligned_cols=24  Identities=25%  Similarity=0.189  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (241)
T cd03256          27 GEFVALIGPSGAGKSTLLRCLNGL   50 (241)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999864

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.

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=96.32  E-value=0.0073  Score=55.98  Aligned_cols=49  Identities=18%  Similarity=0.124  Sum_probs=34.3

Q ss_pred             cCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          159 KRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+..+.+.+-.+.|.++.-....+-.+|.++|+.|+||||+|+.+...-
T Consensus       368 pP~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L  416 (568)
T PRK05537        368 IPEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKL  416 (568)
T ss_pred             CChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHh
Confidence            3344555555555555543334456799999999999999999998853

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=96.32  E-value=0.0034  Score=50.61  Aligned_cols=24  Identities=25%  Similarity=0.181  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~   49 (213)
T cd03259          26 GEFLALLGPSGCGKTTLLRLIAGL   49 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>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=96.31  E-value=0.0034  Score=51.10  Aligned_cols=24  Identities=25%  Similarity=0.206  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G~   49 (227)
T cd03260          26 GEITALIGPSGCGKSTLLRLLNRL   49 (227)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999864

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).

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.31  E-value=0.006  Score=56.89  Aligned_cols=46  Identities=17%  Similarity=0.203  Sum_probs=37.9

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++||.+..++.|.+++..+. -.+.+-++|..|+||||||+.+-+.
T Consensus        16 ddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAka   61 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKS   61 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999987653 3466789999999999999988663

>TIGR03689 pup_AAA proteasome ATPase

Probab=96.31  E-value=0.0052  Score=56.03  Aligned_cols=47  Identities=28%  Similarity=0.302  Sum_probs=37.0

Q ss_pred             CCcccchHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV-----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.|.+..+++|.+.+..           +-...+-|-++|++|+|||++|+.+++.
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~e  239 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANS  239 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHh
Confidence            3577899999888887532           1123566889999999999999999996

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.31  E-value=0.0033  Score=55.31  Aligned_cols=25  Identities=20%  Similarity=0.307  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|+++|.+|+||||++.++...
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~  264 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQ  264 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHH
Confidence            4589999999999999999999764

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

Probab=96.31  E-value=0.004  Score=49.21  Aligned_cols=35  Identities=20%  Similarity=0.131  Sum_probs=26.3

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          168 EIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       168 ~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +..+++......   -..+.|+|..|+|||||++.+..
T Consensus        13 ~~~~~l~~~v~~---g~~i~I~G~tGSGKTTll~aL~~   47 (186)
T cd01130          13 LQAAYLWLAVEA---RKNILISGGTGSGKTTLLNALLA   47 (186)
T ss_pred             HHHHHHHHHHhC---CCEEEEECCCCCCHHHHHHHHHh
Confidence            444455544432   46899999999999999999886

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=96.30  E-value=0.012  Score=50.95  Aligned_cols=53  Identities=17%  Similarity=0.145  Sum_probs=33.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCHH--HHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYLH--KVLDSIIKSV  236 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~~--~il~~Il~~l  236 (241)
                      +..+|.++|+.|+||||++.++...-. ...+ .++.+. .+|...  +-++.....+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~-~~g~-~V~li~~Dt~R~~a~eqL~~~a~~l  194 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK-KNGF-SVVIAAGDTFRAGAIEQLEEHAERL  194 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCC-eEEEecCCcCcHHHHHHHHHHHHHc
Confidence            478999999999999998888776422 2223 334465 555442  2244444444

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=96.30  E-value=0.0037  Score=48.25  Aligned_cols=22  Identities=32%  Similarity=0.363  Sum_probs=20.2

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +|.|.|+.|+||||+|+.+-+.
T Consensus         2 iI~i~G~~GSGKstia~~la~~   23 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEK   23 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999764

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=96.29  E-value=0.0076  Score=51.01  Aligned_cols=45  Identities=22%  Similarity=0.360  Sum_probs=30.5

Q ss_pred             CcccchHHHHHHHHHHh---c-------C---CCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          161 NIMGLEDEIEELLDLLI---V-------G---EPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~---~-------~---~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .++|.+..+++|.++..   -       +   .....-+-++|++|+||||+|+.+..
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            47898888777665421   1       1   01123577999999999999966554

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.

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

Probab=96.29  E-value=0.0058  Score=51.40  Aligned_cols=61  Identities=16%  Similarity=0.117  Sum_probs=41.6

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHH
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVL  229 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il  229 (241)
                      -.+|+..|.....+..+|+|.|.+|+||+||.-.+-....-.+|=--++=|.  ++|+--.||
T Consensus        37 a~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiL   99 (323)
T COG1703          37 ARELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSIL   99 (323)
T ss_pred             HHHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccc
Confidence            4567777766666799999999999999999988877643333322233444  666554444

>smart00175 RAB Rab subfamily of small GTPases

Probab=96.29  E-value=0.0035  Score=47.69  Aligned_cols=22  Identities=18%  Similarity=0.492  Sum_probs=19.9

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|.+|+|||||++.+.+..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999998754

Rab GTPases are implicated in vesicle trafficking.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.29  E-value=0.0036  Score=49.78  Aligned_cols=24  Identities=21%  Similarity=0.152  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (195)
T PRK13541         26 SAITYIKGANGCGKSSLLRMIAGI   49 (195)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999885

>TIGR00602 rad24 checkpoint protein rad24

Probab=96.29  E-value=0.0063  Score=56.91  Aligned_cols=47  Identities=21%  Similarity=0.177  Sum_probs=38.9

Q ss_pred             CCcccchHHHHHHHHHHhcCC---CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGE---PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~---~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+++|..||....   ..-+++.++|+.|+||||+++.+.+.
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~  133 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKE  133 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            458899999999999986532   23467999999999999999999875

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

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

Probab=96.29  E-value=0.013  Score=48.78  Aligned_cols=53  Identities=25%  Similarity=0.200  Sum_probs=40.0

Q ss_pred             CCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEeCCCCHHHHHHHHH
Q 042580          179 GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSII  233 (241)
Q Consensus       179 ~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~~~~~~~~il~~Il  233 (241)
                      +=+.-+++.|+|.+|+|||+++.+.-..  ...+...++||+-.-+..+|+....
T Consensus        19 G~p~g~~~lI~G~pGsGKT~f~~qfl~~--~~~~ge~vlyvs~~e~~~~l~~~~~   71 (260)
T COG0467          19 GLPRGSVVLITGPPGTGKTIFALQFLYE--GAREGEPVLYVSTEESPEELLENAR   71 (260)
T ss_pred             CCcCCcEEEEEcCCCCcHHHHHHHHHHH--HHhcCCcEEEEEecCCHHHHHHHHH
Confidence            3366899999999999999999887776  4455888999993334455555443

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=96.28  E-value=0.0034  Score=50.56  Aligned_cols=24  Identities=25%  Similarity=0.235  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
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.

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

Probab=96.28  E-value=0.0036  Score=51.00  Aligned_cols=24  Identities=21%  Similarity=0.195  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
T Consensus        36 Ge~~~i~G~nGsGKSTLl~~i~Gl   59 (228)
T PRK10584         36 GETIALIGESGSGKSTLLAILAGL   59 (228)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            469999999999999999999974

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=96.28  E-value=0.0031  Score=47.85  Aligned_cols=20  Identities=25%  Similarity=0.405  Sum_probs=18.7

Q ss_pred             EEEEcCCCccHHHHHHHHHh
Q 042580          186 VAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~  205 (241)
                      |+++|..|+|||||.+.+.+
T Consensus         2 i~l~G~~g~GKTtL~~~l~~   21 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTN   21 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhc
Confidence            78999999999999999993

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.

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

Probab=96.28  E-value=0.0043  Score=47.28  Aligned_cols=22  Identities=32%  Similarity=0.596  Sum_probs=20.0

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|.+|+|||||++.+.+..
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~   23 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE   23 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            7899999999999999988864

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 ....

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

Probab=96.28  E-value=0.0036  Score=50.15  Aligned_cols=24  Identities=29%  Similarity=0.245  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.28  E-value=0.0039  Score=53.62  Aligned_cols=26  Identities=27%  Similarity=0.470  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...+|+++|++|+||||++.++....
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            57899999999999999999997753

>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=96.27  E-value=0.0037  Score=50.36  Aligned_cols=24  Identities=29%  Similarity=0.322  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.-.
T Consensus        27 G~~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          27 GEFVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999885

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

>PRK06620 hypothetical protein; Validated

Probab=96.27  E-value=0.0037  Score=50.68  Aligned_cols=24  Identities=29%  Similarity=0.202  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +.+-|||++|+|||+|++.+.+..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            678999999999999999988764

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

Probab=96.27  E-value=0.0036  Score=51.30  Aligned_cols=24  Identities=21%  Similarity=0.152  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.-.
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~   50 (236)
T TIGR03864        27 GEFVALLGPNGAGKSTLFSLLTRL   50 (236)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            569999999999999999999864

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.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=96.27  E-value=0.0037  Score=50.65  Aligned_cols=24  Identities=38%  Similarity=0.231  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
T Consensus        31 G~~~~i~G~nGsGKSTLl~~i~G~   54 (221)
T TIGR02211        31 GEIVAIVGSSGSGKSTLLHLLGGL   54 (221)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999874

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.

>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=96.27  E-value=0.0037  Score=50.65  Aligned_cols=24  Identities=21%  Similarity=0.091  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.27  E-value=0.01  Score=53.76  Aligned_cols=43  Identities=16%  Similarity=0.120  Sum_probs=30.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYL  225 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~  225 (241)
                      -.||+++|+.|+||||++.++......+..-..+..|+ .+|.+
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~Ri  299 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRI  299 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccch
Confidence            47999999999999999999997633222222345666 44533

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

Probab=96.27  E-value=0.0036  Score=51.42  Aligned_cols=24  Identities=29%  Similarity=0.200  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (239)
T cd03296          28 GELVALLGPSGSGKTTLLRLIAGL   51 (239)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999884

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.

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.27  E-value=0.0041  Score=49.26  Aligned_cols=26  Identities=23%  Similarity=0.130  Sum_probs=22.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcccc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNNYA  209 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~~v  209 (241)
                      .+|+|.|..|+||||+++.+.+....
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57999999999999999999986544

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.

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

Probab=96.26  E-value=0.0033  Score=50.55  Aligned_cols=22  Identities=18%  Similarity=0.235  Sum_probs=20.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|+|..|+|||||++.+..-
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCC
Confidence            8999999999999999999963

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.25  E-value=0.017  Score=49.58  Aligned_cols=56  Identities=16%  Similarity=0.098  Sum_probs=39.0

Q ss_pred             HHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCC----CeeEEEe--CCCCHHHHHH
Q 042580          175 LLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYF----DCRAWVG--CEYYLHKVLD  230 (241)
Q Consensus       175 ~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F----~~~~wV~--~~~~~~~il~  230 (241)
                      +|..+=..-.++-|+|.+|+|||+|+-++.-+......+    ..++||+  .+|+...|.+
T Consensus        94 ~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~  155 (317)
T PRK04301         94 LLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ  155 (317)
T ss_pred             HhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH
Confidence            333343567889999999999999999987653221111    3688999  7788776653

>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=96.25  E-value=0.0039  Score=50.50  Aligned_cols=24  Identities=29%  Similarity=0.286  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          26 GEIVALLGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCC
Confidence            469999999999999999999864

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.24  E-value=0.015  Score=51.95  Aligned_cols=25  Identities=20%  Similarity=0.154  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.++|..|+||||++.++...
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~  123 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYY  123 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999988764

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.

>PRK09087 hypothetical protein; Validated

Probab=96.24  E-value=0.004  Score=50.93  Aligned_cols=24  Identities=25%  Similarity=0.245  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -..+.|||..|+|||+|++.++++
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~   67 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREK   67 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh
Confidence            456899999999999999998865

>PRK13946 shikimate kinase; Provisional

Probab=96.23  E-value=0.0038  Score=49.27  Aligned_cols=24  Identities=21%  Similarity=0.148  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|.++|+.|+||||+++.+-+.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~   33 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATM   33 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999999886

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

Probab=96.23  E-value=0.0035  Score=55.58  Aligned_cols=26  Identities=23%  Similarity=0.187  Sum_probs=23.4

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+.|+|+|..|+|||||++.+.+.
T Consensus       217 ~~~~~IvI~G~~gsGKTTL~~~La~~  242 (399)
T PRK08099        217 FFVRTVAILGGESSGKSTLVNKLANI  242 (399)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            34789999999999999999999875

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=96.23  E-value=0.0069  Score=56.91  Aligned_cols=46  Identities=22%  Similarity=0.289  Sum_probs=38.2

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+..|..++..+. -.+.+-++|..|+||||+|+.+.+.
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            468999999999999987643 3467889999999999999988663

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.21  E-value=0.0079  Score=56.12  Aligned_cols=45  Identities=18%  Similarity=0.226  Sum_probs=36.7

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ++++|.+..+..|.+++..+. -.+.+-++|..|+||||+|+.+-+
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            368999998888888887653 346778999999999999998833

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.21  E-value=0.012  Score=51.63  Aligned_cols=54  Identities=11%  Similarity=0.147  Sum_probs=35.1

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCH--HHHHHHHHHHh
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYL--HKVLDSIIKSV  236 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~--~~il~~Il~~l  236 (241)
                      ....+|+++|+.|+||||++.++......++  ..+.+|+ .+|..  .+-++...+.+
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~~l~~~g--~~V~lItaDtyR~gAveQLk~yae~l  260 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGWQLLKQN--RTVGFITTDTFRSGAVEQFQGYADKL  260 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCCccCccHHHHHHHHhhcC
Confidence            3468999999999999999999886532222  2456676 55544  33444444433

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

Probab=96.21  E-value=0.004  Score=50.63  Aligned_cols=24  Identities=25%  Similarity=0.257  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+...
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.

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.21  E-value=0.0065  Score=55.14  Aligned_cols=45  Identities=20%  Similarity=0.246  Sum_probs=36.4

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+++|.+...+.|.+.+..+. -.+-+-++|+.|+||||+|+.+-.
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            468999998888888776543 245788999999999999988865

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=96.20  E-value=0.0075  Score=55.06  Aligned_cols=46  Identities=17%  Similarity=0.050  Sum_probs=37.7

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+.-+..|...+..+. -.+-+-++|+.|+||||+|+.+.+.
T Consensus        21 ~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~   66 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKA   66 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHH
Confidence            367999998888888776542 3467889999999999999999874

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=96.20  E-value=0.0053  Score=54.36  Aligned_cols=26  Identities=12%  Similarity=0.061  Sum_probs=23.1

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...-||+|.|..|+|||||++.+..-
T Consensus       210 ~~PlIIGIsG~qGSGKSTLa~~L~~l  235 (460)
T PLN03046        210 IPPLVIGFSAPQGCGKTTLVFALDYL  235 (460)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            46789999999999999999999653

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=96.20  E-value=0.0043  Score=49.65  Aligned_cols=24  Identities=25%  Similarity=0.137  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~   47 (206)
T TIGR03608        24 GKMYAIIGESGSGKSTLLNIIGLL   47 (206)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999999874

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=96.20  E-value=0.0039  Score=47.77  Aligned_cols=20  Identities=30%  Similarity=0.341  Sum_probs=18.1

Q ss_pred             EEEEcCCCccHHHHHHHHHh
Q 042580          186 VAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~  205 (241)
                      |.|+|..|+|||||.+.+..
T Consensus         2 i~~vG~~~~GKstLi~~l~~   21 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKT   21 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhh
Confidence            78999999999999999854

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.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=96.20  E-value=0.0041  Score=51.72  Aligned_cols=24  Identities=21%  Similarity=0.196  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (255)
T PRK11248         27 GELLVVLGPSGCGKTTLLNLIAGF   50 (255)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

>cd01878 HflX HflX subfamily

Probab=96.20  E-value=0.0044  Score=49.44  Aligned_cols=26  Identities=19%  Similarity=0.261  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ....|+|+|.+|+|||||.+.+.+..
T Consensus        40 ~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          40 GIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhcch
Confidence            46789999999999999999998864

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.

>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=96.19  E-value=0.0042  Score=50.77  Aligned_cols=24  Identities=25%  Similarity=0.203  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
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.

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.19  E-value=0.0086  Score=49.58  Aligned_cols=50  Identities=22%  Similarity=0.259  Sum_probs=39.2

Q ss_pred             cCCcccchHHHHH---HHHHHhc----CCCCeEEEEEEcCCCccHHHHHHHHHhccc
Q 042580          159 KRNIMGLEDEIEE---LLDLLIV----GEPSLFIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       159 ~~~~vG~~~~~~~---l~~~L~~----~~~~~~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      -++++|.+..+.+   |+++|.+    ++...+-|-.+|++|.|||.+|+.+-|..+
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~k  176 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAK  176 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccC
Confidence            3468998876654   6667755    245688899999999999999999999653

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=96.19  E-value=0.0042  Score=50.80  Aligned_cols=24  Identities=29%  Similarity=0.185  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        35 Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         35 GEMMAIVGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999874

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.19  E-value=0.0043  Score=49.73  Aligned_cols=24  Identities=25%  Similarity=0.120  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~l~G~   50 (204)
T PRK13538         27 GELVQIEGPNGAGKTSLLRILAGL   50 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

>cd01864 Rab19 Rab19 subfamily

Probab=96.19  E-value=0.0049  Score=47.24  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..-|.|+|.+|+|||||+..+..+
T Consensus         3 ~~kv~vvG~~~~GKTsli~~l~~~   26 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKSG   26 (165)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhhC
Confidence            456889999999999999998654

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.

>cd04136 Rap_like Rap-like subfamily

Probab=96.19  E-value=0.0049  Score=46.88  Aligned_cols=22  Identities=18%  Similarity=0.366  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.|+|.+|+|||||+..+.++
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~   24 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQG   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999887754

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.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.19  E-value=0.0084  Score=55.16  Aligned_cols=46  Identities=20%  Similarity=0.229  Sum_probs=37.3

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+..|..++..+. -.+.+-++|+.|+||||+|+.+-+.
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            368999999999999887643 2355679999999999999988654

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

Probab=96.19  E-value=0.0039  Score=51.75  Aligned_cols=26  Identities=19%  Similarity=0.198  Sum_probs=22.9

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+-.++++||..|+|||||++.|..=
T Consensus        37 ~~ge~~glVGESG~GKSTlgr~i~~L   62 (268)
T COG4608          37 KEGETLGLVGESGCGKSTLGRLILGL   62 (268)
T ss_pred             cCCCEEEEEecCCCCHHHHHHHHHcC
Confidence            34678999999999999999999883

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

Probab=96.18  E-value=0.0041  Score=47.20  Aligned_cols=22  Identities=23%  Similarity=0.220  Sum_probs=20.1

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |+|+|.+|+|||||++.+.+..
T Consensus         2 i~iiG~~~~GKssli~~~~~~~   23 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGE   23 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            7899999999999999998864

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=96.18  E-value=0.0041  Score=46.43  Aligned_cols=23  Identities=17%  Similarity=0.343  Sum_probs=20.2

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|+|+|.+|+|||||++.+....
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~   24 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEE   24 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCc
Confidence            37899999999999999987753

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.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=96.18  E-value=0.0043  Score=51.40  Aligned_cols=24  Identities=25%  Similarity=0.347  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        25 Ge~~~i~G~NGsGKSTLlk~L~G~   48 (246)
T cd03237          25 SEVIGILGPNGIGKTTFIKMLAGV   48 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999885

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.

>cd00157 Rho Rho (Ras homology) family

Probab=96.18  E-value=0.0044  Score=47.57  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=19.9

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|.+|+|||||++.+.+..
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

>cd04123 Rab21 Rab21 subfamily

Probab=96.17  E-value=0.0045  Score=46.86  Aligned_cols=22  Identities=23%  Similarity=0.336  Sum_probs=19.9

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |+|+|.+|+|||||.+.+.+..
T Consensus         3 i~i~G~~~~GKStli~~l~~~~   24 (162)
T cd04123           3 VVLLGEGRVGKTSLVLRYVENK   24 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999988754

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

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.17  E-value=0.0099  Score=52.10  Aligned_cols=46  Identities=17%  Similarity=0.193  Sum_probs=38.5

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+...+.+.+++..+. -.+.+-++|+.|+||||+|+.+.+.
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            367899999999999987643 3468889999999999999998774

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

Probab=96.17  E-value=0.0044  Score=50.10  Aligned_cols=24  Identities=17%  Similarity=0.094  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        13 Ge~~~l~G~NGsGKSTLlk~i~Gl   36 (213)
T PRK15177         13 HEHIGILAAPGSGKTTLTRLLCGL   36 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999974

>cd04124 RabL2 RabL2 subfamily

Probab=96.17  E-value=0.0045  Score=47.42  Aligned_cols=21  Identities=14%  Similarity=0.374  Sum_probs=18.4

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.|+|.+|+|||||++.+.++
T Consensus         3 i~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999887654

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

>PRK15453 phosphoribulokinase; Provisional

Probab=96.17  E-value=0.005  Score=51.74  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +..+|+|.|-+|+||||+++.+.+
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~   27 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEK   27 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999998865

>cd01858 NGP_1 NGP-1

Probab=96.17  E-value=0.012  Score=45.09  Aligned_cols=45  Identities=13%  Similarity=0.191  Sum_probs=29.3

Q ss_pred             cchHHHHHHHHHHhc-CCCCeEEEEEEcCCCccHHHHHHHHHhccc
Q 042580          164 GLEDEIEELLDLLIV-GEPSLFIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       164 G~~~~~~~l~~~L~~-~~~~~~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      |.+.-++.|.+++.. ....-..|+++|++|+||+||.+.+..+..
T Consensus        82 ~~~~L~~~l~~~~~~~~~~~~~~v~~~G~~nvGKStliN~l~~~~~  127 (157)
T cd01858          82 GKGSLIQLLRQFSKLHSDKKQISVGFIGYPNVGKSSIINTLRSKKV  127 (157)
T ss_pred             cHHHHHHHHHHHHhhhccccceEEEEEeCCCCChHHHHHHHhcCCc
Confidence            334444555444321 112245678999999999999999988643

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.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=96.17  E-value=0.0045  Score=50.42  Aligned_cols=24  Identities=21%  Similarity=0.080  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~   56 (225)
T PRK10247         33 GEFKLITGPSGCGKSTLLKIVASL   56 (225)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999874

>PRK13948 shikimate kinase; Provisional

Probab=96.16  E-value=0.0048  Score=48.69  Aligned_cols=26  Identities=23%  Similarity=0.202  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+.|.++||.|+||||+++.+-+.
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~   33 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRA   33 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            34688999999999999999999875

>cd01394 radB RadB

Probab=96.16  E-value=0.022  Score=46.03  Aligned_cols=40  Identities=20%  Similarity=0.131  Sum_probs=28.8

Q ss_pred             CCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          179 GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       179 ~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      +=..-.++-|.|.+|+|||||+.++.....  ..=..++|++
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~~a~~~~--~~g~~v~yi~   54 (218)
T cd01394          15 GVERGTVTQVYGPPGTGKTNIAIQLAVETA--GQGKKVAYID   54 (218)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEE
Confidence            335578999999999999999999876531  2223456666

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

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=96.15  E-value=0.0046  Score=50.58  Aligned_cols=24  Identities=17%  Similarity=0.238  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.15  E-value=0.009  Score=53.18  Aligned_cols=44  Identities=18%  Similarity=0.163  Sum_probs=28.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCH
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYL  225 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~  225 (241)
                      .-.+|+++|..|+||||++.++-........-+....++ .++..
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~ri  234 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRI  234 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcch
Confidence            357999999999999999998865321111123345555 44443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=96.14  E-value=0.009  Score=55.98  Aligned_cols=46  Identities=22%  Similarity=0.275  Sum_probs=37.4

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+..|.+.+..+. -.+.+-++|..|+||||+|+.+.+.
T Consensus        16 ~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~   61 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKG   61 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999988886643 2355679999999999999988664

>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=96.14  E-value=0.0043  Score=50.81  Aligned_cols=24  Identities=21%  Similarity=0.130  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~Gl   49 (236)
T cd03219          26 GEIHGLIGPNGAGKTTLFNLISGF   49 (236)
T ss_pred             CcEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999874

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).

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=96.14  E-value=0.0045  Score=50.58  Aligned_cols=24  Identities=25%  Similarity=0.155  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
T Consensus        12 Ge~~~i~G~nGsGKSTLl~~l~Gl   35 (230)
T TIGR02770        12 GEVLALVGESGSGKSLTCLAILGL   35 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999985

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.

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

Probab=96.14  E-value=0.0095  Score=57.04  Aligned_cols=47  Identities=19%  Similarity=0.318  Sum_probs=37.3

Q ss_pred             CCcccchHHHHHHHHHHhcC-------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVG-------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~-------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..++.|.+.+...       +....++-++|+.|+|||+||+.+.+.
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~  507 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEA  507 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHH
Confidence            45789998888888877531       123457889999999999999999885

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

Probab=96.14  E-value=0.0042  Score=42.67  Aligned_cols=22  Identities=23%  Similarity=0.486  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +|.+.|.+|+||||++..+...
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~   22 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAA   22 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998875

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

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

Probab=96.13  E-value=0.0039  Score=47.46  Aligned_cols=22  Identities=18%  Similarity=0.375  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +|+++|.+|+||||+++.+...
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~   22 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITA   22 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHH
Confidence            4789999999999999998775

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.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=96.13  E-value=0.0044  Score=48.09  Aligned_cols=23  Identities=22%  Similarity=0.187  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..|.|+|+.|+||||+++.+-+.
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~   25 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQA   25 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35889999999999999999885

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=96.13  E-value=0.0044  Score=52.03  Aligned_cols=21  Identities=24%  Similarity=0.341  Sum_probs=17.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEA  203 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v  203 (241)
                      .++|+|+|-|||||||++-.+
T Consensus         2 ~~vIav~~KGGVGKTT~a~nL   22 (275)
T PRK13233          2 TRKIAIYGKGGIGKSTTTQNT   22 (275)
T ss_pred             ceEEEEEcCCCCcHHHHHHHH
Confidence            368999999999999987743

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=96.13  E-value=0.0046  Score=50.83  Aligned_cols=24  Identities=25%  Similarity=0.250  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+...
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        26 GEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999875

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.

>cd04177 RSR1 RSR1 subgroup

Probab=96.13  E-value=0.0055  Score=47.20  Aligned_cols=22  Identities=18%  Similarity=0.394  Sum_probs=19.6

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|.+|+|||||++.+.++.
T Consensus         4 i~liG~~~~GKTsli~~~~~~~   25 (168)
T cd04177           4 IVVLGAGGVGKSALTVQFVQNV   25 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999987654

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

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=96.13  E-value=0.0047  Score=50.80  Aligned_cols=24  Identities=17%  Similarity=0.069  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.-.
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G~   51 (242)
T PRK11124         28 GETLVLLGPSGAGKSSLLRVLNLL   51 (242)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999875

>PRK13768 GTPase; Provisional

Probab=96.13  E-value=0.005  Score=51.19  Aligned_cols=23  Identities=26%  Similarity=0.504  Sum_probs=19.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ..+|.|+|.+|+||||++..+..
T Consensus         2 ~~~i~v~G~~G~GKTt~~~~~~~   24 (253)
T PRK13768          2 MYIVFFLGTAGSGKTTLTKALSD   24 (253)
T ss_pred             cEEEEEECCCCccHHHHHHHHHH
Confidence            46899999999999998776654

>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=96.13  E-value=0.0045  Score=49.45  Aligned_cols=21  Identities=33%  Similarity=0.384  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHH
Q 042580          184 FIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~  204 (241)
                      .+++|+|..|+|||||++.++
T Consensus        23 g~~~i~G~nGsGKStll~al~   43 (197)
T cd03278          23 GLTAIVGPNGSGKSNIIDAIR   43 (197)
T ss_pred             CcEEEECCCCCCHHHHHHHHH
Confidence            388999999999999999987

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

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

Probab=96.12  E-value=0.012  Score=47.47  Aligned_cols=50  Identities=18%  Similarity=0.112  Sum_probs=31.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHhccc-----cccCCC-eeEEEe-CCCCHHHHHHHHHH
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNNY-----AKNYFD-CRAWVG-CEYYLHKVLDSIIK  234 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~~-----v~~~F~-~~~wV~-~~~~~~~il~~Il~  234 (241)
                      +..|+|++|.||||++..+-....     ....-+ ..++++ .+-.+..++..+.+
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            788999999999987766666531     112233 355666 77777777777766

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=96.12  E-value=0.0049  Score=49.59  Aligned_cols=24  Identities=25%  Similarity=0.124  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03301          26 GEFVVLLGPSGCGKTTTLRMIAGL   49 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999985

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=96.12  E-value=0.0049  Score=46.91  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=20.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|.+|+|||||++.+.++.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKNE   25 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999998864

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

>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=96.12  E-value=0.0048  Score=50.35  Aligned_cols=24  Identities=25%  Similarity=0.091  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~Gl   49 (232)
T cd03218          26 GEIVGLLGPNGAGKTTTFYMIVGL   49 (232)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=96.12  E-value=0.012  Score=43.31  Aligned_cols=47  Identities=15%  Similarity=0.222  Sum_probs=36.0

Q ss_pred             CCcccchHHHHHHHHHHhc-----CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV-----GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~-----~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|..-..+.+++.|.+     ...+.-|++..|..|+|||.+++.|-++
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            4578877666666666543     3567899999999999999988777665

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

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.11  E-value=0.0047  Score=51.07  Aligned_cols=23  Identities=22%  Similarity=0.284  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -.+++|+|+.|.|||||+|.+..
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            37899999999999999999998

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

Probab=96.11  E-value=0.01  Score=46.69  Aligned_cols=37  Identities=16%  Similarity=0.035  Sum_probs=26.6

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +..+..++ ..-.+..-|.|+|.+|+|||||++.+..+
T Consensus         4 ~~~~~~~~-~~~~~~~~i~ivG~~~~GKTsli~~l~~~   40 (184)
T smart00178        4 FYDILASL-GLWNKHAKILFLGLDNAGKTTLLHMLKND   40 (184)
T ss_pred             HHHHHHHh-ccccccCEEEEECCCCCCHHHHHHHHhcC
Confidence            45566644 21123466789999999999999998875

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

>PRK10908 cell division protein FtsE; Provisional

Probab=96.10  E-value=0.005  Score=49.95  Aligned_cols=25  Identities=16%  Similarity=0.109  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .=.+++|+|..|+|||||++.+.--
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~   51 (222)
T PRK10908         27 PGEMAFLTGHSGAGKSTLLKLICGI   51 (222)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3578999999999999999999874

>cd01898 Obg Obg subfamily

Probab=96.09  E-value=0.0047  Score=47.39  Aligned_cols=21  Identities=24%  Similarity=0.311  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |+|+|..|+|||||++.+.+.
T Consensus         3 v~ivG~~~~GKStl~~~l~~~   23 (170)
T cd01898           3 VGLVGLPNAGKSTLLSAISNA   23 (170)
T ss_pred             eEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999999853

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.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=96.09  E-value=0.0052  Score=49.32  Aligned_cols=24  Identities=21%  Similarity=0.072  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~Gl   49 (208)
T cd03268          26 GEIYGFLGPNGAGKTTTMKIILGL   49 (208)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999864

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.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=96.09  E-value=0.0052  Score=49.45  Aligned_cols=24  Identities=25%  Similarity=0.155  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
T Consensus        26 G~~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03262          26 GEVVVIIGPSGSGKSTLLRCINLL   49 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999874

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

>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=96.09  E-value=0.0051  Score=50.62  Aligned_cols=24  Identities=21%  Similarity=0.108  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.-.
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.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=96.09  E-value=0.0051  Score=51.29  Aligned_cols=24  Identities=29%  Similarity=0.245  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        38 Ge~~~I~G~NGsGKSTLlk~l~Gl   61 (257)
T PRK11247         38 GQFVAVVGRSGCGKSTLLRLLAGL   61 (257)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999874

>cd04171 SelB SelB subfamily

Probab=96.08  E-value=0.0052  Score=46.67  Aligned_cols=21  Identities=19%  Similarity=0.268  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHh
Q 042580          185 IVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +|+|+|..|+|||||.+.+.+
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~   22 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTG   22 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhC
Confidence            689999999999999999875

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

>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=96.08  E-value=0.0052  Score=49.66  Aligned_cols=24  Identities=17%  Similarity=0.068  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=96.08  E-value=0.0058  Score=46.81  Aligned_cols=20  Identities=25%  Similarity=0.459  Sum_probs=17.6

Q ss_pred             EEEEcCCCccHHHHHHHHHh
Q 042580          186 VAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~  205 (241)
                      |.|+|.+|+|||||+....+
T Consensus         2 i~vvG~~~~GKtsli~~~~~   21 (165)
T cd04146           2 IAVLGASGVGKSALVVRFLT   21 (165)
T ss_pred             EEEECCCCCcHHHHHHHHHh
Confidence            78999999999999977654

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

>PRK12377 putative replication protein; Provisional

Probab=96.08  E-value=0.0099  Score=49.26  Aligned_cols=36  Identities=17%  Similarity=-0.006  Sum_probs=27.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      ...+.++|..|+|||+||..|.+..  ....-.+++++
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            4678999999999999999999973  33333356665

>smart00072 GuKc Guanylate kinase homologues

Probab=96.08  E-value=0.0058  Score=48.17  Aligned_cols=24  Identities=21%  Similarity=0.264  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.|+|+.|+|||||++.+...
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~   25 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQE   25 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999886

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.07  E-value=0.012  Score=52.25  Aligned_cols=25  Identities=24%  Similarity=0.212  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.++|++|+||||++.++...
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~~  246 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAK  246 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999864

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=96.07  E-value=0.0053  Score=50.86  Aligned_cols=23  Identities=26%  Similarity=0.354  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+..
T Consensus        32 Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14242         32 NQVTALIGPSGCGKSTFLRCLNR   54 (253)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999984

>PRK13236 nitrogenase reductase; Reviewed

Probab=96.07  E-value=0.0059  Score=52.01  Aligned_cols=25  Identities=16%  Similarity=0.312  Sum_probs=20.6

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+.++|++.|-|||||||.+-.+--
T Consensus         4 ~~~~~~~~~GKGGVGKTt~a~NLA~   28 (296)
T PRK13236          4 ENIRQIAFYGKGGIGKSTTSQNTLA   28 (296)
T ss_pred             cCceEEEEECCCcCCHHHHHHHHHH
Confidence            3579999999999999997666544

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.06  E-value=0.022  Score=49.02  Aligned_cols=60  Identities=13%  Similarity=0.002  Sum_probs=39.8

Q ss_pred             HhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccc---c-CCCeeEEEe--CCCCHHHHHHHHHHHh
Q 042580          176 LIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAK---N-YFDCRAWVG--CEYYLHKVLDSIIKSV  236 (241)
Q Consensus       176 L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~---~-~F~~~~wV~--~~~~~~~il~~Il~~l  236 (241)
                      |..+=..-.++-|+|.+|+|||||+..+.-+....   . .-..++|++  ..|+...+ ..+++.+
T Consensus        89 l~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~  154 (316)
T TIGR02239        89 LGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERY  154 (316)
T ss_pred             hcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHc
Confidence            43443567899999999999999999887542221   1 223578998  65777664 3344443

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).

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.06  E-value=0.01  Score=55.04  Aligned_cols=46  Identities=24%  Similarity=0.196  Sum_probs=38.1

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+...+.|..++..+. -.+.+-++|+.|+||||+|+.+.+.
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r-~~ha~Lf~Gp~G~GKTt~A~~lAk~   58 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGR-INHAYLFSGPRGCGKTSSARILARS   58 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999987643 3456789999999999999988764

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.06  E-value=0.0054  Score=48.67  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+...
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          33 GTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            469999999999999999999963

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=96.06  E-value=0.0056  Score=48.79  Aligned_cols=24  Identities=17%  Similarity=0.102  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~   49 (198)
T TIGR01189        26 GEALQVTGPNGIGKTTLLRILAGL   49 (198)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            578999999999999999999885

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.

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=96.06  E-value=0.0052  Score=50.76  Aligned_cols=23  Identities=22%  Similarity=0.328  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+.-
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.

>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=96.05  E-value=0.0058  Score=47.62  Aligned_cols=24  Identities=29%  Similarity=0.216  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~   51 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGL   51 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            458999999999999999999874

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

>PRK06851 hypothetical protein; Provisional

Probab=96.05  E-value=0.12  Score=45.38  Aligned_cols=40  Identities=15%  Similarity=0.091  Sum_probs=30.2

Q ss_pred             ccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccc
Q 042580          163 MGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       163 vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      -|.-...+.|.+      .--+++.|.|.+|+|||||++++.....
T Consensus       200 ~G~~s~~~~l~~------~~~~~~~i~G~pG~GKstl~~~i~~~a~  239 (367)
T PRK06851        200 KGAVDFVPSLTE------GVKNRYFLKGRPGTGKSTMLKKIAKAAE  239 (367)
T ss_pred             CcHHhhHHhHhc------ccceEEEEeCCCCCcHHHHHHHHHHHHH
Confidence            355555555542      2368899999999999999999999743

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.04  E-value=0.0057  Score=48.84  Aligned_cols=25  Identities=16%  Similarity=0.092  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+++|+|..|+|||||++.+...
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i~G~   50 (200)
T PRK13540         26 AGGLLHLKGSNGAGKTTLLKLIAGL   50 (200)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3568999999999999999999885

>PRK07429 phosphoribulokinase; Provisional

Probab=96.04  E-value=0.0064  Score=52.46  Aligned_cols=26  Identities=23%  Similarity=0.362  Sum_probs=23.5

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+.-+|+|.|..|+|||||++.+..-
T Consensus         6 ~~~~IIgI~G~SGSGKSTla~~L~~l   31 (327)
T PRK07429          6 DRPVLLGVAGDSGCGKTTFLRGLADL   31 (327)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHhH
Confidence            46789999999999999999999875

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

Probab=96.04  E-value=0.006  Score=47.44  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++.++|++|+||||++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~   23 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALY   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7889999999999998887653

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.

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=96.04  E-value=0.0055  Score=51.10  Aligned_cols=23  Identities=22%  Similarity=0.328  Sum_probs=19.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .++|+|+|-|||||||++..+-.
T Consensus         2 ~~~iav~~KGGvGKTT~a~nLA~   24 (264)
T PRK13231          2 MKKIAIYGKGGIGKSTTVSNMAA   24 (264)
T ss_pred             ceEEEEECCCCCcHHHHHHHHhc
Confidence            36899999999999998887655

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=96.03  E-value=0.0059  Score=46.20  Aligned_cols=24  Identities=17%  Similarity=0.156  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999885

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.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.03  E-value=0.0057  Score=49.12  Aligned_cols=25  Identities=16%  Similarity=0.066  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .=.+++|+|..|+|||||++.+...
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~   51 (207)
T PRK13539         27 AGEALVLTGPNGSGKTTLLRLIAGL   51 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999999885

>cd04140 ARHI_like ARHI subfamily

Probab=96.03  E-value=0.0065  Score=46.64  Aligned_cols=22  Identities=18%  Similarity=0.294  Sum_probs=19.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.++|.+|+|||||.+.+.+.
T Consensus         3 kv~~vG~~~vGKTsli~~~~~~   24 (165)
T cd04140           3 RVVVFGAGGVGKSSLVLRFVKG   24 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999988764

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

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=96.03  E-value=0.0056  Score=49.70  Aligned_cols=24  Identities=33%  Similarity=0.358  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
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.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.03  E-value=0.0055  Score=50.65  Aligned_cols=24  Identities=25%  Similarity=0.198  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.-.
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14247         29 NTITALMGPSGSGKSTLLRVFNRL   52 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999864

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=96.02  E-value=0.012  Score=52.12  Aligned_cols=46  Identities=15%  Similarity=0.128  Sum_probs=37.2

Q ss_pred             CCcccchHHHHHHHHHHhcCCC--------CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          160 RNIMGLEDEIEELLDLLIVGEP--------SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~--------~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ++++|.+..++.|...+..+..        -.+-+-++|+.|+||||+|+.+..
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            3688999999999999866421        356688999999999999998754

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.02  E-value=0.011  Score=55.10  Aligned_cols=46  Identities=20%  Similarity=0.252  Sum_probs=37.9

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|..++..+. -.+.+-++|..|+||||+|+.+.+.
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~   61 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKA   61 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999988887643 3456779999999999999988764

>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=96.02  E-value=0.006  Score=47.87  Aligned_cols=24  Identities=25%  Similarity=0.213  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.-.
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~   48 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGL   48 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999985

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=96.02  E-value=0.0058  Score=46.63  Aligned_cols=21  Identities=33%  Similarity=0.453  Sum_probs=18.7

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.|+|.+|+|||||++.+.++
T Consensus         3 i~vvG~~~~GKtsl~~~l~~~   23 (164)
T cd04101           3 CAVVGDPAVGKTAFVQMFHSN   23 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999988653

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.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.02  E-value=0.0073  Score=47.50  Aligned_cols=25  Identities=20%  Similarity=0.232  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.|+|.+|+||||||+.+...
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~~   41 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEKK   41 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4679999999999999999999875

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

>TIGR00017 cmk cytidylate kinase

Probab=96.02  E-value=0.0057  Score=49.67  Aligned_cols=22  Identities=36%  Similarity=0.454  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+|+|.|+.|+||||+++.+..
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~   24 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAE   24 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999985

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.

>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=96.01  E-value=0.0061  Score=47.23  Aligned_cols=24  Identities=21%  Similarity=0.058  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999985

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

>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=96.01  E-value=0.0061  Score=47.50  Aligned_cols=24  Identities=21%  Similarity=0.153  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+...
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGL   49 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999884

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.

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

Probab=96.01  E-value=0.0054  Score=48.27  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.|+|+.|+|||||++.+...
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~   25 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQE   25 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999874

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 ....

>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=96.01  E-value=0.0058  Score=50.07  Aligned_cols=24  Identities=29%  Similarity=0.248  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
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.

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.00  E-value=0.0057  Score=48.98  Aligned_cols=24  Identities=17%  Similarity=0.170  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~   56 (202)
T cd03233          33 GEMVLVLGRPGSGCSTLLKALANR   56 (202)
T ss_pred             CcEEEEECCCCCCHHHHHHHhccc
Confidence            469999999999999999999885

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=96.00  E-value=0.006  Score=46.75  Aligned_cols=24  Identities=21%  Similarity=0.408  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .-|.|+|.+|+|||||...+.+..
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~~   26 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADDT   26 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            347899999999999999998753

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

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.00  E-value=0.011  Score=55.17  Aligned_cols=45  Identities=18%  Similarity=0.061  Sum_probs=36.3

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+++|.+..+..|.+.+..+. -.+-+-++|+.|+||||+|+.+-+
T Consensus        16 ~eivGQe~i~~~L~~~i~~~r-i~ha~Lf~Gp~GvGKttlA~~lAk   60 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDR-VGHGYIFSGLRGVGKTTAARVFAK   60 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHH
Confidence            368999998998888886542 345688999999999999977665

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=95.99  E-value=0.012  Score=52.43  Aligned_cols=46  Identities=20%  Similarity=0.182  Sum_probs=34.2

Q ss_pred             CcccchHHHHHHHHHHhc-------C-----C--CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIV-------G-----E--PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~-------~-----~--~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..++.|...+..       .     +  ....-|-++|+.|+|||+||+.+.+.
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~  131 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARI  131 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHH
Confidence            489999988887655421       1     0  12356889999999999999999763

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.99  E-value=0.012  Score=57.32  Aligned_cols=47  Identities=15%  Similarity=0.275  Sum_probs=37.1

Q ss_pred             CCcccchHHHHHHHHHHhcC-------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVG-------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~-------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..+..|...+...       +....++.++|+.|+|||+||+.+.+.
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~  621 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANF  621 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            35889999988888877531       222467889999999999999999874

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=95.99  E-value=0.0062  Score=51.74  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|-++|.+|+||||+|+.+.+.
T Consensus         2 ~~liil~G~pGSGKSTla~~L~~~   25 (300)
T PHA02530          2 MKIILTVGVPGSGKSTWAREFAAK   25 (300)
T ss_pred             cEEEEEEcCCCCCHHHHHHHHHHH
Confidence            357889999999999999998754

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=95.99  E-value=0.006  Score=50.65  Aligned_cols=24  Identities=17%  Similarity=0.227  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        30 Ge~~~I~G~NGsGKSTLl~~i~Gl   53 (251)
T PRK09544         30 GKILTLLGPNGAGKSTLVRVVLGL   53 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            568999999999999999999974

>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=95.99  E-value=0.006  Score=50.07  Aligned_cols=24  Identities=25%  Similarity=0.113  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        47 Ge~~~i~G~NGsGKSTLl~~i~Gl   70 (236)
T cd03267          47 GEIVGFIGPNGAGKTTTLKILSGL   70 (236)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=95.98  E-value=0.0061  Score=50.71  Aligned_cols=24  Identities=21%  Similarity=0.237  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.-.
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~laGl   53 (258)
T PRK14241         30 RSVTAFIGPSGCGKSTVLRTLNRM   53 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999964

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=95.98  E-value=0.0062  Score=49.10  Aligned_cols=24  Identities=33%  Similarity=0.242  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.++-.
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~   47 (213)
T TIGR01277        24 GEIVAIMGPSGAGKSTLLNLIAGF   47 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            568999999999999999999985

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.

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=95.98  E-value=0.0056  Score=53.07  Aligned_cols=22  Identities=27%  Similarity=0.318  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .++++.|++|+|||||.+.|--
T Consensus        32 ef~~lLGPSGcGKTTlLR~IAG   53 (352)
T COG3842          32 EFVTLLGPSGCGKTTLLRMIAG   53 (352)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999865

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=95.98  E-value=0.0067  Score=46.74  Aligned_cols=21  Identities=19%  Similarity=0.322  Sum_probs=19.3

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.|+|.+|+|||||.+.+.+.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~   22 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSE   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999999875

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.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.98  E-value=0.0066  Score=46.90  Aligned_cols=24  Identities=17%  Similarity=0.135  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||.+.+.-.
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~   49 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGL   49 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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.

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.97  E-value=0.0061  Score=50.41  Aligned_cols=22  Identities=32%  Similarity=0.386  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      -.+++|+|..|.|||||++.+.
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~   50 (250)
T PRK14245         29 KSVVAFIGPSGCGKSTFLRLFN   50 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            4689999999999999999995

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.97  E-value=0.0062  Score=50.68  Aligned_cols=23  Identities=30%  Similarity=0.351  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -.+++|+|..|+|||||++.|.-
T Consensus        38 Ge~~~l~G~nGsGKSTLl~~l~G   60 (259)
T PRK14274         38 NEVTAIIGPSGCGKSTFIKTLNL   60 (259)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999974

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=95.97  E-value=0.0061  Score=50.43  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+.-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G   53 (252)
T PRK14239         31 NEITALIGPSGSGKSTLLRSINR   53 (252)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999964

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.96  E-value=0.0098  Score=56.98  Aligned_cols=47  Identities=23%  Similarity=0.258  Sum_probs=36.5

Q ss_pred             CCcccchHHHHHHHHHHhc---C--------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV---G--------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---~--------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++.|.+..++.|.+++..   .        -...+-|-++|++|+||||||+.+.+.
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~  235 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANE  235 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHH
Confidence            3578999999888887632   1        123456889999999999999999885

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.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=95.96  E-value=0.0057  Score=51.15  Aligned_cols=24  Identities=13%  Similarity=0.191  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        37 Ge~~~i~G~nGsGKSTLl~~l~Gl   60 (265)
T PRK10575         37 GKVTGLIGHNGSGKSTLLKMLGRH   60 (265)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            469999999999999999999974

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.96  E-value=0.0063  Score=50.41  Aligned_cols=24  Identities=25%  Similarity=0.277  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~l~Gl   53 (252)
T PRK14256         30 NSVTAIIGPSGCGKSTVLRSINRM   53 (252)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            458999999999999999999864

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=95.96  E-value=0.0063  Score=50.28  Aligned_cols=24  Identities=33%  Similarity=0.200  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~G~   52 (250)
T PRK11264         29 GEVVAIIGPSGSGKTTLLRCINLL   52 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999864

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=95.96  E-value=0.0064  Score=50.40  Aligned_cols=24  Identities=25%  Similarity=0.217  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (255)
T PRK11300         31 QEIVSLIGPNGAGKTTVFNCLTGF   54 (255)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCC
Confidence            578999999999999999999974

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=95.96  E-value=0.012  Score=54.94  Aligned_cols=46  Identities=20%  Similarity=0.241  Sum_probs=38.3

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+..|.+++..+. -..-+-++|+.|+||||+|+.+.+.
T Consensus        24 ~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~   69 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARA   69 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999887653 3456889999999999999998763

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.96  E-value=0.0064  Score=47.79  Aligned_cols=24  Identities=29%  Similarity=0.275  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (182)
T cd03215          26 GEIVGIAGLVGNGQTELAEALFGL   49 (182)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999984

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.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.96  E-value=0.0063  Score=50.09  Aligned_cols=24  Identities=29%  Similarity=0.198  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (241)
T PRK14250         29 GAIYTIVGPSGAGKSTLIKLINRL   52 (241)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999874

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

Probab=95.95  E-value=0.0068  Score=53.25  Aligned_cols=25  Identities=28%  Similarity=0.324  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.-+|+|+|..|+|||||+..+...
T Consensus         4 ~~~~i~i~G~~gsGKTTl~~~l~~~   28 (369)
T PRK14490          4 HPFEIAFCGYSGSGKTTLITALVRR   28 (369)
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHH
Confidence            4679999999999999999999975

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=95.95  E-value=0.0061  Score=50.10  Aligned_cols=24  Identities=25%  Similarity=0.106  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        29 Ge~~~l~G~nGsGKSTLl~~l~G~   52 (241)
T PRK10895         29 GEIVGLLGPNGAGKTTTFYMVVGI   52 (241)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999985

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=95.95  E-value=0.0093  Score=54.50  Aligned_cols=48  Identities=25%  Similarity=0.371  Sum_probs=34.9

Q ss_pred             CCcccchHHHHHHHHHHh---c-------CCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          160 RNIMGLEDEIEELLDLLI---V-------GEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~---~-------~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+++|.+..++++.+++.   .       +....+-+-++|++|+|||+||+.+.+..
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            467898887777666543   1       11234457899999999999999998853

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.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=95.95  E-value=0.0069  Score=47.11  Aligned_cols=24  Identities=33%  Similarity=0.180  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|.|||||++.+..-
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G~   51 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLRL   51 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            468999999999999999999884

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.

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=95.94  E-value=0.0064  Score=49.93  Aligned_cols=24  Identities=25%  Similarity=0.207  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~l~G~   50 (240)
T PRK09493         27 GEVVVIIGPSGSGKSTLLRCINKL   50 (240)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

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

Probab=95.94  E-value=0.0062  Score=46.65  Aligned_cols=23  Identities=13%  Similarity=0.271  Sum_probs=20.9

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .|.|+|..|+|||||++.+.+..
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~   24 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAK   24 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998854

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.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=95.94  E-value=0.0064  Score=49.59  Aligned_cols=25  Identities=16%  Similarity=0.224  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .=.+++|+|..|+|||||++.+..-
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~   49 (230)
T TIGR03410        25 KGEVTCVLGRNGVGKTTLLKTLMGL   49 (230)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3569999999999999999999874

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=95.94  E-value=0.0065  Score=46.93  Aligned_cols=21  Identities=19%  Similarity=0.205  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.++|.+|+|||||++.+.+.
T Consensus         2 i~~~G~~~~GKTsl~~~l~~~   22 (167)
T cd04161           2 LLTVGLDNAGKTTLVSALQGE   22 (167)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998764

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.

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=95.93  E-value=0.0064  Score=50.96  Aligned_cols=24  Identities=25%  Similarity=0.117  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
T Consensus        50 Ge~~~l~G~nGsGKSTLl~~L~Gl   73 (269)
T cd03294          50 GEIFVIMGLSGSGKSTLLRCINRL   73 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            469999999999999999999874

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=95.93  E-value=0.0069  Score=47.41  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.-.
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            458999999999999999999885

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.93  E-value=0.013  Score=53.42  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|+|+|..|+||||++.++...
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~  373 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQR  373 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3589999999999999999888764

>PRK05642 DNA replication initiation factor; Validated

Probab=95.93  E-value=0.021  Score=46.96  Aligned_cols=24  Identities=13%  Similarity=0.243  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+.|||..|+|||.|++.+.+.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~   68 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLR   68 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            467899999999999999999875

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=95.93  E-value=0.0059  Score=55.58  Aligned_cols=23  Identities=26%  Similarity=0.235  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|||..|+||||||+.+-.
T Consensus       317 GE~lglVGeSGsGKSTlar~i~g  339 (539)
T COG1123         317 GETLGLVGESGSGKSTLARILAG  339 (539)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999987

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=95.93  E-value=0.0077  Score=46.50  Aligned_cols=24  Identities=21%  Similarity=0.355  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .-|.++|.+|+|||||...+....
T Consensus         3 ~ki~vvG~~~vGKTsli~~~~~~~   26 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCAGR   26 (170)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            458999999999999999986643

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

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=95.93  E-value=0.0056  Score=46.33  Aligned_cols=24  Identities=17%  Similarity=0.220  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..-|-|.|.+|+|||||+..|-.-
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~   30 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEK   30 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHH
Confidence            456789999999999999999864

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.92  E-value=0.0061  Score=49.94  Aligned_cols=21  Identities=24%  Similarity=0.423  Sum_probs=19.5

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.|+|++|+||||+|+.+-+.
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            889999999999999999775

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

Probab=95.92  E-value=0.012  Score=48.08  Aligned_cols=44  Identities=27%  Similarity=0.268  Sum_probs=34.8

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .++||-++.++.|.-...+++  ..-+-|.||+|+||||=+..+.+
T Consensus        27 ~dIVGNe~tv~rl~via~~gn--mP~liisGpPG~GKTTsi~~LAr   70 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGN--MPNLIISGPPGTGKTTSILCLAR   70 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCC--CCceEeeCCCCCchhhHHHHHHH
Confidence            468999998888877666654  77888999999999996655544

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=95.91  E-value=0.0066  Score=50.28  Aligned_cols=24  Identities=25%  Similarity=0.148  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~   49 (252)
T TIGR03005        26 GEKVALIGPSGSGKSTILRILMTL   49 (252)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999884

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.

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.91  E-value=0.0063  Score=51.06  Aligned_cols=24  Identities=17%  Similarity=0.191  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.-.
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (271)
T PRK13638         27 SPVTGLVGANGCGKSTLFMNLSGL   50 (271)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            458999999999999999999863

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.91  E-value=0.007  Score=49.29  Aligned_cols=24  Identities=29%  Similarity=0.315  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .--.|+|+|..|+|||||.|.++.
T Consensus        29 ~GE~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          29 QGEMVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhc
Confidence            356899999999999999999987

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=95.91  E-value=0.0066  Score=51.81  Aligned_cols=24  Identities=17%  Similarity=0.055  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        19 Ge~~~l~G~NGaGKSTLl~~l~Gl   42 (302)
T TIGR01188        19 GEVFGFLGPNGAGKTTTIRMLTTL   42 (302)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999874

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.

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=95.91  E-value=0.0068  Score=50.51  Aligned_cols=24  Identities=21%  Similarity=0.239  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        39 Ge~~~i~G~nGsGKSTLl~~l~Gl   62 (260)
T PRK10744         39 NQVTAFIGPSGCGKSTLLRTFNRM   62 (260)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999854

>cd04175 Rap1 Rap1 subgroup

Probab=95.91  E-value=0.0079  Score=45.97  Aligned_cols=22  Identities=14%  Similarity=0.342  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         3 ki~~~G~~~~GKTsli~~~~~~   24 (164)
T cd04175           3 KLVVLGSGGVGKSALTVQFVQG   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999887654

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

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=95.91  E-value=0.0069  Score=48.99  Aligned_cols=25  Identities=24%  Similarity=0.129  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+++|+|..|+|||||++.+..-
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.

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.91  E-value=0.0065  Score=51.18  Aligned_cols=24  Identities=17%  Similarity=0.117  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~i~Gl   56 (280)
T PRK13649         33 GSYTAFIGHTGSGKSTIMQLLNGL   56 (280)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999874

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=95.90  E-value=0.0071  Score=48.33  Aligned_cols=24  Identities=17%  Similarity=0.050  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||.+.+..-
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.

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=95.90  E-value=0.0067  Score=52.39  Aligned_cols=24  Identities=29%  Similarity=0.176  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        33 Ge~~~lvG~sGsGKSTL~~~l~Gl   56 (326)
T PRK11022         33 GEVVGIVGESGSGKSVSSLAIMGL   56 (326)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcC
Confidence            468999999999999999999884

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.90  E-value=0.01  Score=51.67  Aligned_cols=24  Identities=13%  Similarity=0.188  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+|.|+|+.|+||||+++.+.+.
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~  145 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDY  145 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHh
Confidence            578999999999999999998874

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=95.89  E-value=0.0067  Score=50.84  Aligned_cols=24  Identities=33%  Similarity=0.271  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~Gl   56 (269)
T PRK11831         33 GKITAIMGPSGIGKTTLLRLIGGQ   56 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999874

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=95.89  E-value=0.0068  Score=50.89  Aligned_cols=24  Identities=25%  Similarity=0.202  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~Gl   56 (272)
T PRK15056         33 GSIAALVGVNGSGKSTLFKALMGF   56 (272)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

>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=95.89  E-value=0.0072  Score=48.61  Aligned_cols=24  Identities=33%  Similarity=0.213  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
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.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=95.89  E-value=0.0071  Score=49.42  Aligned_cols=24  Identities=29%  Similarity=0.184  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
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.

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=95.89  E-value=0.007  Score=50.30  Aligned_cols=25  Identities=24%  Similarity=0.254  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .=.+++|+|..|+|||||++.+...
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~i~G~   54 (257)
T PRK10619         30 AGDVISIIGSSGSGKSTFLRCINFL   54 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999999985

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.89  E-value=0.0068  Score=51.34  Aligned_cols=24  Identities=13%  Similarity=0.207  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        37 Ge~~~l~G~nGsGKSTLl~~l~Gl   60 (289)
T PRK13645         37 NKVTCVIGTTGSGKSTMIQLTNGL   60 (289)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999874

>TIGR01817 nifA Nif-specific regulatory protein

Probab=95.88  E-value=0.25  Score=45.64  Aligned_cols=48  Identities=23%  Similarity=0.187  Sum_probs=38.7

Q ss_pred             cCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          159 KRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...++|....+.++.+.+..-...-.-|-|+|..|+|||++|+.|++.
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~  242 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYL  242 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHh
Confidence            457899999999998887553233445679999999999999999986

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>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=95.88  E-value=0.0076  Score=49.05  Aligned_cols=24  Identities=29%  Similarity=0.343  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        33 Ge~~~l~G~nGsGKSTLlk~l~G~   56 (226)
T cd03234          33 GQVMAILGSSGSGKTTLLDAISGR   56 (226)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCc
Confidence            468999999999999999999874

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

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.88  E-value=0.023  Score=46.50  Aligned_cols=48  Identities=15%  Similarity=0.183  Sum_probs=29.9

Q ss_pred             CeEEEEEEcCCCccHHHHH-HHHHhccccccCCCeeEEEeCCCCHHHHHHHH
Q 042580          182 SLFIVAIVGNSGFDKTNFA-GEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSI  232 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLa-k~v~~~~~v~~~F~~~~wV~~~~~~~~il~~I  232 (241)
                      .-.++.|.|..|+|||||+ +.+++-  .++. ..+++++..-+..++++.+
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~--~~~g-~~~~yi~~e~~~~~~~~~~   71 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGF--LQNG-YSVSYVSTQLTTTEFIKQM   71 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH--HhCC-CcEEEEeCCCCHHHHHHHH
Confidence            3569999999999999997 555542  2222 2346666222345555554

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=95.88  E-value=0.0084  Score=50.10  Aligned_cols=34  Identities=26%  Similarity=0.305  Sum_probs=24.3

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          168 EIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       168 ~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -++.+..++..+    .-|-++|.+|+|||+||+.+.+
T Consensus        10 l~~~~l~~l~~g----~~vLL~G~~GtGKT~lA~~la~   43 (262)
T TIGR02640        10 VTSRALRYLKSG----YPVHLRGPAGTGKTTLAMHVAR   43 (262)
T ss_pred             HHHHHHHHHhcC----CeEEEEcCCCCCHHHHHHHHHH
Confidence            344555555432    2344899999999999999986

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).

>PRK00089 era GTPase Era; Reviewed

Probab=95.87  E-value=0.008  Score=50.90  Aligned_cols=25  Identities=24%  Similarity=0.270  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +...|+|+|.+|+|||||.+.+...
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~   28 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQ   28 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999998764

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=95.87  E-value=0.0073  Score=49.42  Aligned_cols=24  Identities=33%  Similarity=0.245  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
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.

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.87  E-value=0.0072  Score=49.95  Aligned_cols=23  Identities=35%  Similarity=0.378  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+.-
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14262         29 NQITAIIGPSGCGKTTLLRSINR   51 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999994

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=95.86  E-value=0.0073  Score=50.23  Aligned_cols=24  Identities=29%  Similarity=0.313  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        32 Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (258)
T PRK11701         32 GEVLGIVGESGSGKTTLLNALSAR   55 (258)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999985

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.86  E-value=0.0073  Score=50.03  Aligned_cols=24  Identities=21%  Similarity=0.198  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        30 Ge~~~l~G~nGsGKSTLl~~l~G~   53 (253)
T PRK14267         30 NGVFALMGPSGCGKSTLLRTFNRL   53 (253)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            458999999999999999999864

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=95.86  E-value=0.0075  Score=48.77  Aligned_cols=24  Identities=21%  Similarity=0.241  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.++.-
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.

>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=95.86  E-value=0.0073  Score=49.50  Aligned_cols=24  Identities=29%  Similarity=0.219  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        29 Ge~~~l~G~nGsGKSTLl~~i~G~   52 (238)
T cd03249          29 GKTVALVGSSGCGKSTVVSLLERF   52 (238)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHhcc
Confidence            579999999999999999999975

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.

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=95.86  E-value=0.0077  Score=48.82  Aligned_cols=27  Identities=26%  Similarity=0.203  Sum_probs=23.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      .=.+++++|..|+|||||.+.|..-..
T Consensus        28 ~Geiv~llG~NGaGKTTlLkti~Gl~~   54 (237)
T COG0410          28 RGEIVALLGRNGAGKTTLLKTIMGLVR   54 (237)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            356899999999999999999998643

>cd01870 RhoA_like RhoA-like subfamily

Probab=95.85  E-value=0.0085  Score=46.27  Aligned_cols=24  Identities=21%  Similarity=0.151  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .-|.|+|..|+|||||++.+.++.
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~   25 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQ   25 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            348899999999999999998854

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=95.85  E-value=0.0074  Score=50.64  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.-.
T Consensus        50 Ge~~~I~G~nGsGKSTLl~~i~Gl   73 (271)
T PRK14238         50 NEVTAIIGPSGCGKSTYIKTLNRM   73 (271)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            469999999999999999999763

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=95.85  E-value=0.0073  Score=49.17  Aligned_cols=24  Identities=13%  Similarity=0.105  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+...
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.

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.85  E-value=0.0075  Score=50.01  Aligned_cols=24  Identities=29%  Similarity=0.358  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~Gl   56 (254)
T PRK14273         33 NSITALIGPSGCGKSTFLRTLNRM   56 (254)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            469999999999999999999863

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=95.85  E-value=0.013  Score=45.58  Aligned_cols=35  Identities=23%  Similarity=0.190  Sum_probs=25.1

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          170 EELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       170 ~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+.+++...  ....|.++|.+|+|||||+..+...
T Consensus         4 ~~~~~~~~~~--~~~kv~~~G~~~~GKTsl~~~l~~~   38 (174)
T cd04153           4 SSLWSLFFPR--KEYKVIIVGLDNAGKTTILYQFLLG   38 (174)
T ss_pred             hHHHHHhcCC--CccEEEEECCCCCCHHHHHHHHccC
Confidence            3445544332  2456789999999999999999753

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

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=95.85  E-value=0.0082  Score=50.85  Aligned_cols=24  Identities=21%  Similarity=0.210  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ...+|.|.|+.|+||||+++.+-.
T Consensus         5 ~~~~i~i~G~~GsGKtt~~~~l~~   28 (288)
T PRK05416          5 PMRLVIVTGLSGAGKSVALRALED   28 (288)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHH
Confidence            357899999999999999998853

>cd04135 Tc10 TC10 subfamily

Probab=95.85  E-value=0.0087  Score=46.16  Aligned_cols=21  Identities=24%  Similarity=0.311  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.|+|.+|+|||||++.+.++
T Consensus         3 i~i~G~~~~GKTsl~~~~~~~   23 (174)
T cd04135           3 CVVVGDGAVGKTCLLMSYAND   23 (174)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999887654

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

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=95.85  E-value=0.0052  Score=46.07  Aligned_cols=46  Identities=22%  Similarity=0.103  Sum_probs=31.7

Q ss_pred             ccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccc
Q 042580          163 MGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       163 vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      ||....+.++.+.+..-.....-|-|+|..|+||+++|+.++....
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~   46 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSG   46 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcC
Confidence            4555666677666644222355678999999999999999999643

>PRK14531 adenylate kinase; Provisional

Probab=95.84  E-value=0.0081  Score=47.30  Aligned_cols=24  Identities=17%  Similarity=0.156  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..|.|+|++|+||||+++.+.+..
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999986643

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=95.84  E-value=0.0076  Score=50.45  Aligned_cols=24  Identities=25%  Similarity=0.302  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        45 Ge~~~i~G~nGsGKSTLl~~l~Gl   68 (267)
T PRK14235         45 KTVTAFIGPSGCGKSTFLRCLNRM   68 (267)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999863

>cd04127 Rab27A Rab27a subfamily

Probab=95.83  E-value=0.0087  Score=46.48  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      --|.|+|.+|+|||||++.+.+.
T Consensus         5 ~ki~ivG~~~vGKTsli~~~~~~   27 (180)
T cd04127           5 IKFLALGDSGVGKTSFLYQYTDN   27 (180)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34689999999999999998764

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.83  E-value=0.0076  Score=50.53  Aligned_cols=24  Identities=21%  Similarity=0.228  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+...
T Consensus        39 Ge~~~l~G~nGsGKSTLl~~l~Gl   62 (269)
T PRK14259         39 GKVTALIGPSGCGKSTVLRSLNRM   62 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            458999999999999999999764

>COG3899 Predicted ATPase [General function prediction only]

Probab=95.83  E-value=0.017  Score=56.21  Aligned_cols=46  Identities=24%  Similarity=0.336  Sum_probs=39.5

Q ss_pred             CcccchHHHHHHHHHHhc-CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIV-GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~-~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++||+.+.+.|...+.. ......++.|.|..|+|||+|++.|...
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            368999999999998865 2345779999999999999999999986

>PLN02165 adenylate isopentenyltransferase

Probab=95.82  E-value=0.0083  Score=51.64  Aligned_cols=25  Identities=20%  Similarity=0.290  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|+|+|+.|+||||||..+...
T Consensus        42 ~g~iivIiGPTGSGKStLA~~LA~~   66 (334)
T PLN02165         42 KDKVVVIMGATGSGKSRLSVDLATR   66 (334)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHH
Confidence            4569999999999999999998876

>cd01868 Rab11_like Rab11-like

Probab=95.82  E-value=0.0079  Score=45.97  Aligned_cols=24  Identities=29%  Similarity=0.594  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      --|+|+|.+|+|||||.+.+.++.
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~~~   27 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTRNE   27 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999997654

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

>cd01866 Rab2 Rab2 subfamily

Probab=95.82  E-value=0.0079  Score=46.33  Aligned_cols=23  Identities=22%  Similarity=0.392  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      --|.|+|.+|+|||||+..+.+.
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~   27 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDK   27 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999875

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

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

Probab=95.82  E-value=0.0081  Score=46.34  Aligned_cols=22  Identities=27%  Similarity=0.492  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.|+|..|+|||||++.+.+.
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~   23 (166)
T cd00877           2 KLVLVGDGGTGKTTFVKRHLTG   23 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999998653

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

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=95.81  E-value=0.0079  Score=50.26  Aligned_cols=23  Identities=26%  Similarity=0.238  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+.-
T Consensus        36 Ge~~~i~G~nGsGKSTLl~~l~G   58 (264)
T PRK14243         36 NQITAFIGPSGCGKSTILRCFNR   58 (264)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999984

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.81  E-value=0.0078  Score=50.85  Aligned_cols=24  Identities=17%  Similarity=0.148  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
T Consensus        33 Ge~~~I~G~nGaGKSTLl~~l~G~   56 (282)
T PRK13640         33 GSWTALIGHNGSGKSTISKLINGL   56 (282)
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcc
Confidence            469999999999999999999974

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=95.81  E-value=0.0078  Score=46.67  Aligned_cols=23  Identities=26%  Similarity=0.268  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.|+|.|+.|+||+||.|.|++=
T Consensus        30 e~iaitGPSG~GKStllk~va~L   52 (223)
T COG4619          30 EFIAITGPSGCGKSTLLKIVASL   52 (223)
T ss_pred             ceEEEeCCCCccHHHHHHHHHhc
Confidence            46899999999999999999984

>PRK12338 hypothetical protein; Provisional

Probab=95.81  E-value=0.0085  Score=51.32  Aligned_cols=25  Identities=24%  Similarity=0.341  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+|.|.|.+|+||||+|+.+-...
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l   28 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTL   28 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHC
Confidence            5799999999999999999997754

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.81  E-value=0.0078  Score=50.51  Aligned_cols=24  Identities=25%  Similarity=0.182  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        35 Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (271)
T PRK13632         35 GEYVAILGHNGSGKSTISKILTGL   58 (271)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999875

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=95.81  E-value=0.0075  Score=49.88  Aligned_cols=24  Identities=25%  Similarity=0.225  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+...
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~i~Gl   56 (252)
T CHL00131         33 GEIHAIMGPNGSGKSTLSKVIAGH   56 (252)
T ss_pred             CcEEEEECCCCCCHHHHHHHHcCC
Confidence            469999999999999999999873

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=95.81  E-value=0.0079  Score=45.66  Aligned_cols=22  Identities=14%  Similarity=0.166  Sum_probs=19.7

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|.+|+|||||++.+....
T Consensus         2 i~i~G~~~~GKTsl~~~~~~~~   23 (160)
T cd04156           2 VLLLGLDSAGKSTLLYKLKHAE   23 (160)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            6899999999999999998754

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

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=95.81  E-value=0.008  Score=50.30  Aligned_cols=24  Identities=25%  Similarity=0.302  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.-.
T Consensus        46 Ge~~~I~G~nGsGKSTLl~~l~Gl   69 (267)
T PRK14237         46 NKITALIGPSGSGKSTYLRSLNRM   69 (267)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999974

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.80  E-value=0.016  Score=48.51  Aligned_cols=41  Identities=27%  Similarity=0.306  Sum_probs=28.0

Q ss_pred             ccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          163 MGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       163 vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .|+.....+.+..+...  .-.+|.|.|..|+||||+++.+.+
T Consensus        62 lg~~~~~~~~l~~~~~~--~~GlilisG~tGSGKTT~l~all~  102 (264)
T cd01129          62 LGLKPENLEIFRKLLEK--PHGIILVTGPTGSGKTTTLYSALS  102 (264)
T ss_pred             cCCCHHHHHHHHHHHhc--CCCEEEEECCCCCcHHHHHHHHHh
Confidence            35544444444444332  256899999999999999998754

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.80  E-value=0.0082  Score=48.49  Aligned_cols=24  Identities=17%  Similarity=0.076  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.-.
T Consensus        37 Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         37 GEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            468999999999999999999874

>cd04106 Rab23_lke Rab23-like subfamily

Probab=95.80  E-value=0.0094  Score=45.29  Aligned_cols=21  Identities=24%  Similarity=0.384  Sum_probs=19.5

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.|+|.+|+|||||...+.++
T Consensus         3 v~~vG~~~~GKTsl~~~~~~~   23 (162)
T cd04106           3 VIVVGNGNVGKSSMIQRFVKG   23 (162)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999999874

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>cd01855 YqeH YqeH

Probab=95.80  E-value=0.011  Score=46.76  Aligned_cols=40  Identities=20%  Similarity=0.259  Sum_probs=29.5

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          164 GLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       164 G~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.+.-++.|.+++-    ....+.++|.+|+|||||.+.+.+..
T Consensus       112 gi~eL~~~l~~~l~----~~~~~~~~G~~nvGKStliN~l~~~~  151 (190)
T cd01855         112 GVEELINAIKKLAK----KGGDVYVVGATNVGKSTLINALLKKD  151 (190)
T ss_pred             CHHHHHHHHHHHhh----cCCcEEEEcCCCCCHHHHHHHHHHhc
Confidence            44555555555542    24578999999999999999999853

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=95.80  E-value=0.0078  Score=48.18  Aligned_cols=23  Identities=22%  Similarity=0.107  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|+.|.|||||+|.|.-.
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~   48 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVN   48 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHH
Confidence            79999999999999999998753

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

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=95.80  E-value=0.019  Score=50.13  Aligned_cols=48  Identities=19%  Similarity=0.216  Sum_probs=38.9

Q ss_pred             ccCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          158 KKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       158 ~~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....++|.+.....|...+..+. -.+-+-++|..|+||||||+.+-+.
T Consensus        21 ~~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~~   68 (351)
T PRK09112         21 ENTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLANH   68 (351)
T ss_pred             chhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHHH
Confidence            34568999999999999887653 3567889999999999999876663

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=95.79  E-value=0.0088  Score=47.14  Aligned_cols=25  Identities=20%  Similarity=0.190  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+.-|+|+|.+|+|||||++.+.+.
T Consensus        23 ~~~~v~ivG~~~~GKSsli~~l~~~   47 (196)
T PRK00454         23 DGPEIAFAGRSNVGKSSLINALTNR   47 (196)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            4677999999999999999999985

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.79  E-value=0.0077  Score=50.39  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+..
T Consensus        47 Ge~~~i~G~nGsGKSTLl~~l~G   69 (268)
T PRK14248         47 HAVTALIGPSGCGKSTFLRSINR   69 (268)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999965

>cd03273 ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=95.79  E-value=0.008  Score=49.83  Aligned_cols=22  Identities=27%  Similarity=0.241  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      ..+.+|+|..|+|||||+..|+
T Consensus        25 ~~~~~IvG~NGsGKStll~Ai~   46 (251)
T cd03273          25 PQFNAITGLNGSGKSNILDAIC   46 (251)
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            6789999999999999999998

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo

>cd04122 Rab14 Rab14 subfamily

Probab=95.79  E-value=0.0095  Score=45.71  Aligned_cols=22  Identities=18%  Similarity=0.286  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.|+|.+|+|||||.+.+.+.
T Consensus         4 ki~iiG~~~vGKTsli~~~~~~   25 (166)
T cd04122           4 KYIIIGDMGVGKSCLLHQFTEK   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3779999999999999998765

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

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=95.79  E-value=0.0078  Score=49.98  Aligned_cols=24  Identities=13%  Similarity=0.142  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
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.

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

Probab=95.79  E-value=0.033  Score=46.88  Aligned_cols=50  Identities=22%  Similarity=0.115  Sum_probs=39.4

Q ss_pred             cCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHH
Q 042580          178 VGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVL  229 (241)
Q Consensus       178 ~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il  229 (241)
                      .+=+.-+|+=|+|+.|+||||||-+++-+  ++..-...+|++  ..|++..+.
T Consensus        55 GGl~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~  106 (279)
T COG0468          55 GGLPRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAK  106 (279)
T ss_pred             CCcccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHH
Confidence            34355678889999999999999998876  555555889999  779886654

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=95.79  E-value=0.008  Score=50.04  Aligned_cols=24  Identities=25%  Similarity=0.288  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~i~G~   51 (258)
T PRK13548         28 GEVVAILGPNGAGKSTLLRALSGE   51 (258)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999884

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=95.79  E-value=0.0083  Score=49.97  Aligned_cols=24  Identities=17%  Similarity=0.205  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
T Consensus        26 Ge~~~IvG~nGsGKSTLlk~l~Gl   49 (255)
T cd03236          26 GQVLGLVGPNGIGKSTALKILAGK   49 (255)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            469999999999999999999884

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLIs have an N-terminal Fe-S domain and two nucleotide binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=95.79  E-value=0.01  Score=46.77  Aligned_cols=26  Identities=23%  Similarity=0.358  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +.+.|+|+|..|+|||||+..+-...
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~   27 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKA   27 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhc
Confidence            57899999999999999999987544

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=95.78  E-value=0.0081  Score=49.85  Aligned_cols=24  Identities=29%  Similarity=0.272  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.-.
T Consensus        29 Ge~~~l~G~nGsGKSTLl~~l~Gl   52 (254)
T PRK10418         29 GRVLALVGGSGSGKSLTCAAALGI   52 (254)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999864

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

Probab=95.78  E-value=0.0069  Score=52.05  Aligned_cols=20  Identities=35%  Similarity=0.439  Sum_probs=18.2

Q ss_pred             eEEEEEEcCCCccHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGE  202 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~  202 (241)
                      .+++-++|.|||||||.|-.
T Consensus         2 ~riv~f~GKGGVGKTT~aaA   21 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAA   21 (322)
T ss_pred             cEEEEEecCCcccHHHHHHH
Confidence            57899999999999999877

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=95.78  E-value=0.0081  Score=49.85  Aligned_cols=24  Identities=21%  Similarity=0.166  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.--
T Consensus        28 Ge~~~l~G~nGsGKSTLl~~l~Gl   51 (255)
T PRK11231         28 GKITALIGPNGCGKSTLLKCFARL   51 (255)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999874

>cd04103 Centaurin_gamma Centaurin gamma

Probab=95.78  E-value=0.0086  Score=45.93  Aligned_cols=19  Identities=26%  Similarity=0.310  Sum_probs=17.0

Q ss_pred             EEEEcCCCccHHHHHHHHH
Q 042580          186 VAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~  204 (241)
                      |+++|.+|+|||||++...
T Consensus         3 i~vvG~~gvGKTsli~~~~   21 (158)
T cd04103           3 LGIVGNLQSGKSALVHRYL   21 (158)
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            7899999999999998653

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.

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=95.78  E-value=0.0085  Score=48.49  Aligned_cols=24  Identities=25%  Similarity=0.229  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+.-.
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~l~G~   53 (221)
T cd03244          30 GEKVGIVGRTGSGKSSLLLALFRL   53 (221)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            468999999999999999999864

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.78  E-value=0.011  Score=51.04  Aligned_cols=46  Identities=17%  Similarity=0.133  Sum_probs=35.9

Q ss_pred             ccCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          158 KKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       158 ~~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +-+.++|.+..+..|.-.+.+.  ...-+-+.|..|+||||||+.+-+
T Consensus         6 ~f~~i~Gq~~~~~~l~~~~~~~--~~~~vLl~G~pG~gKT~lar~la~   51 (334)
T PRK13407          6 PFSAIVGQEEMKQAMVLTAIDP--GIGGVLVFGDRGTGKSTAVRALAA   51 (334)
T ss_pred             CHHHhCCHHHHHHHHHHHHhcc--CCCcEEEEcCCCCCHHHHHHHHHH
Confidence            3456899999888877655432  255688999999999999999855

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=95.78  E-value=0.017  Score=46.05  Aligned_cols=24  Identities=17%  Similarity=0.151  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -++..|.|.+|+||||+++.+.+.
T Consensus        18 ~~~~~l~G~aGtGKT~~l~~~~~~   41 (196)
T PF13604_consen   18 DRVSVLQGPAGTGKTTLLKALAEA   41 (196)
T ss_dssp             CSEEEEEESTTSTHHHHHHHHHHH
T ss_pred             CeEEEEEECCCCCHHHHHHHHHHH
Confidence            467888999999999999998875

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=95.78  E-value=0.0083  Score=49.59  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+.-
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14240         29 NQVTALIGPSGCGKSTFLRTLNR   51 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999975

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

Probab=95.77  E-value=0.0087  Score=45.53  Aligned_cols=22  Identities=18%  Similarity=0.354  Sum_probs=18.9

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|+|+|.+|+|||||+..+.++
T Consensus         4 ki~i~G~~~~GKtsl~~~~~~~   25 (164)
T cd04145           4 KLVVVGGGGVGKSALTIQFIQS   25 (164)
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            4789999999999999986553

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

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.77  E-value=0.0083  Score=50.45  Aligned_cols=23  Identities=26%  Similarity=0.300  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -.+++|+|..|+|||||++.+..
T Consensus        46 Ge~~~IiG~nGsGKSTLl~~l~G   68 (274)
T PRK14265         46 KKIIAFIGPSGCGKSTLLRCFNR   68 (274)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999984

>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.77  E-value=0.0082  Score=46.82  Aligned_cols=23  Identities=30%  Similarity=0.340  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .|++|||..|+|||||.+.+-..
T Consensus        33 eVLgiVGESGSGKtTLL~~is~r   55 (258)
T COG4107          33 EVLGIVGESGSGKTTLLKCISGR   55 (258)
T ss_pred             cEEEEEecCCCcHHhHHHHHhcc
Confidence            58999999999999999998775

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.77  E-value=0.0083  Score=49.71  Aligned_cols=23  Identities=22%  Similarity=0.257  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+..
T Consensus        32 Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14261         32 NRVTALIGPSGCGKSTLLRCFNR   54 (253)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999984

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=95.76  E-value=0.0082  Score=50.48  Aligned_cols=24  Identities=17%  Similarity=0.263  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.-.
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~laG~   50 (272)
T PRK13547         27 GRVTALLGRNGAGKSTLLKALAGD   50 (272)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999764

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=95.76  E-value=0.0082  Score=52.19  Aligned_cols=24  Identities=21%  Similarity=0.149  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        31 Gei~gIiG~sGaGKSTLlr~I~gl   54 (343)
T TIGR02314        31 GQIYGVIGASGAGKSTLIRCVNLL   54 (343)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999884

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=95.76  E-value=0.0083  Score=51.89  Aligned_cols=24  Identities=29%  Similarity=0.209  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.|..-
T Consensus        33 Ge~~~ivG~sGsGKSTLl~~i~Gl   56 (330)
T PRK15093         33 GEIRGLVGESGSGKSLIAKAICGV   56 (330)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcc
Confidence            458999999999999999999874

>cd01861 Rab6 Rab6 subfamily

Probab=95.75  E-value=0.0089  Score=45.39  Aligned_cols=22  Identities=14%  Similarity=0.292  Sum_probs=19.5

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|.+|+|||||.+.+.+..
T Consensus         3 i~liG~~~~GKSsli~~l~~~~   24 (161)
T cd01861           3 LVFLGDQSVGKTSIITRFMYDT   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999987643

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.75  E-value=0.0087  Score=49.39  Aligned_cols=24  Identities=29%  Similarity=0.304  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.-.
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (246)
T PRK14269         28 NKITALIGASGCGKSTFLRCFNRM   51 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999864

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=95.75  E-value=0.0079  Score=49.61  Aligned_cols=24  Identities=21%  Similarity=0.242  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+...
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (248)
T PRK09580         27 GEVHAIMGPNGSGKSTLSATLAGR   50 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999986

>PRK10867 signal recognition particle protein; Provisional

Probab=95.75  E-value=0.039  Score=49.45  Aligned_cols=25  Identities=28%  Similarity=0.355  Sum_probs=20.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ....+|.++|.+|+||||.+-++..
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~  122 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAK  122 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHH
Confidence            3478999999999999997666655

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

Probab=95.74  E-value=0.0097  Score=46.49  Aligned_cols=27  Identities=19%  Similarity=0.177  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+..-|+|+|..|+|||||++.+....
T Consensus        16 ~~~~~i~ivG~~~~GKStlin~l~~~~   42 (179)
T TIGR03598        16 DDGPEIAFAGRSNVGKSSLINALTNRK   42 (179)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            346678999999999999999998863

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

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

Probab=95.74  E-value=0.016  Score=55.43  Aligned_cols=46  Identities=17%  Similarity=0.253  Sum_probs=36.9

Q ss_pred             CcccchHHHHHHHHHHhc------C-CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIV------G-EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~------~-~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..++.|.+.+..      . +.....+-++|+.|+|||+||+.+-..
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~  511 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA  511 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHH
Confidence            478999999998888753      1 223567889999999999999998775

>PRK09183 transposase/IS protein; Provisional

Probab=95.74  E-value=0.0085  Score=50.02  Aligned_cols=23  Identities=26%  Similarity=0.247  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+.|+|+.|+|||+||..+.+.
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~  125 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYE  125 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHH
Confidence            45779999999999999999764

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.74  E-value=0.0086  Score=50.48  Aligned_cols=24  Identities=17%  Similarity=0.080  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~Gl   56 (279)
T PRK13650         33 GEWLSIIGHNGSGKSTTVRLIDGL   56 (279)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999874

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=95.74  E-value=0.0086  Score=48.94  Aligned_cols=24  Identities=29%  Similarity=0.156  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl   48 (232)
T PRK10771         25 GERVAILGPSGAGKSTLLNLIAGF   48 (232)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999763

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=95.74  E-value=0.0097  Score=51.87  Aligned_cols=27  Identities=19%  Similarity=0.218  Sum_probs=24.6

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +-..+++|||++|+|||.+|+.|++.-
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            567999999999999999999999964

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=95.74  E-value=0.0088  Score=48.64  Aligned_cols=24  Identities=17%  Similarity=0.210  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+...
T Consensus         6 Ge~~~l~G~nGsGKSTLl~~l~G~   29 (223)
T TIGR03771         6 GELLGLLGPNGAGKTTLLRAILGL   29 (223)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999984

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.74  E-value=0.018  Score=52.51  Aligned_cols=46  Identities=17%  Similarity=0.169  Sum_probs=37.5

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+.....|.+++..+. -.+.+-++|+.|+||||+|+.+...
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~   61 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKV   61 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            368899999999999986643 3456678999999999999987663

>cd03274 ABC_SMC4_euk Eukaryotic SMC4 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=95.73  E-value=0.0085  Score=48.46  Aligned_cols=22  Identities=32%  Similarity=0.347  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      ..+++|+|+.|.|||||.+.|.
T Consensus        25 ~~i~~ivGpNGaGKSTll~~i~   46 (212)
T cd03274          25 KSFSAIVGPNGSGKSNVIDSML   46 (212)
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            3799999999999999999987

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo

>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.73  E-value=0.009  Score=49.74  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -.+++|+|..|+|||||++.+..
T Consensus        33 Ge~~~l~G~nGsGKSTLlk~l~G   55 (259)
T PRK14260         33 NKVTAIIGPSGCGKSTFIKTLNR   55 (259)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999986

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=95.73  E-value=0.0087  Score=48.71  Aligned_cols=24  Identities=33%  Similarity=0.234  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        29 G~~~~i~G~nGsGKSTLl~~l~G~   52 (229)
T cd03254          29 GETVAIVGPTGAGKTTLINLLMRF   52 (229)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357999999999999999999874

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.73  E-value=0.06  Score=47.57  Aligned_cols=55  Identities=11%  Similarity=0.010  Sum_probs=34.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcccccc--CCCeeEEEe-CCCCHHHH--HHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKN--YFDCRAWVG-CEYYLHKV--LDSIIKSV  236 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~--~F~~~~wV~-~~~~~~~i--l~~Il~~l  236 (241)
                      ...+|.++|..|+||||.+.++........  +=..++-|+ .+|....+  ++...+.+
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~l  232 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIM  232 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcC
Confidence            468999999999999999998876532211  112345566 55554333  44444443

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=95.73  E-value=0.0092  Score=48.52  Aligned_cols=25  Identities=28%  Similarity=0.209  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+++|+|..|+|||||++.+.--
T Consensus        39 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   63 (226)
T cd03248          39 PGEVTALVGPSGSGKSTVVALLENF   63 (226)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3568999999999999999999874

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>cd04114 Rab30 Rab30 subfamily

Probab=95.72  E-value=0.011  Score=45.28  Aligned_cols=24  Identities=29%  Similarity=0.492  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ...-|+|+|.+|+|||||.+.+..
T Consensus         6 ~~~~v~v~G~~~~GKSsli~~l~~   29 (169)
T cd04114           6 FLFKIVLIGNAGVGKTCLVRRFTQ   29 (169)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHh
Confidence            357899999999999999999874

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.72  E-value=0.0089  Score=49.46  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -.+++|+|..|+|||||++.+.-
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~G   53 (252)
T PRK14255         31 NEITALIGPSGCGKSTYLRTLNR   53 (252)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999964

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

Probab=95.72  E-value=0.009  Score=49.97  Aligned_cols=23  Identities=17%  Similarity=0.401  Sum_probs=18.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .++|+|.|-|||||||++-.+-.
T Consensus         2 ~~iIav~~KGGVGKTT~~~nLA~   24 (270)
T PRK13185          2 ALVLAVYGKGGIGKSTTSSNLSA   24 (270)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999996655443

>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.72  E-value=0.0087  Score=49.52  Aligned_cols=24  Identities=29%  Similarity=0.311  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~l~G~   53 (251)
T PRK14270         30 NKITALIGPSGCGKSTFLRCLNRM   53 (251)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999963

>PTZ00035 Rad51 protein; Provisional

Probab=95.72  E-value=0.056  Score=46.94  Aligned_cols=60  Identities=12%  Similarity=0.050  Sum_probs=39.0

Q ss_pred             HhcCCCCeEEEEEEcCCCccHHHHHHHHHhcccc---cc-CCCeeEEEe--CCCCHHHHHHHHHHHh
Q 042580          176 LIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYA---KN-YFDCRAWVG--CEYYLHKVLDSIIKSV  236 (241)
Q Consensus       176 L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v---~~-~F~~~~wV~--~~~~~~~il~~Il~~l  236 (241)
                      |..+=..-.++-|+|..|+|||||+..+.-....   .. .=..++|++  ..|+.+.|. .+++++
T Consensus       111 LgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri~-~ia~~~  176 (337)
T PTZ00035        111 LGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIV-QIAERF  176 (337)
T ss_pred             hCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHHH-HHHHHh
Confidence            3344456789999999999999999988754221   11 113456888  667776643 334443

>cd01865 Rab3 Rab3 subfamily

Probab=95.71  E-value=0.0094  Score=45.73  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=20.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|.+|+|||||++.+.+..
T Consensus         3 ki~i~G~~~~GKSsli~~l~~~~   25 (165)
T cd01865           3 KLLIIGNSSVGKTSFLFRYADDS   25 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998764

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

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

Probab=95.71  E-value=0.081  Score=44.87  Aligned_cols=79  Identities=16%  Similarity=0.150  Sum_probs=52.2

Q ss_pred             CCcccch---HHHHHHHHHHhcC-CCCeEEEEEEcCCCccHHHHHHHHHhccccc-----cCCCeeEEEe--CCCCHHHH
Q 042580          160 RNIMGLE---DEIEELLDLLIVG-EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAK-----NYFDCRAWVG--CEYYLHKV  228 (241)
Q Consensus       160 ~~~vG~~---~~~~~l~~~L~~~-~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~-----~~F~~~~wV~--~~~~~~~i  228 (241)
                      +..+|..   .-++.|.++|... ..+..-+.|||-+|.|||+++++-....-..     ..+ .++-|.  ..++...+
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~-PVv~vq~P~~p~~~~~  112 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERI-PVVYVQMPPEPDERRF  112 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccc-cEEEEecCCCCChHHH
Confidence            3445543   3344555555432 3445678999999999999999988633221     112 233444  88999999


Q ss_pred             HHHHHHHhCCC
Q 042580          229 LDSIIKSVMPR  239 (241)
Q Consensus       229 l~~Il~~l~~~  239 (241)
                      ...|+..|+.+
T Consensus       113 Y~~IL~~lgaP  123 (302)
T PF05621_consen  113 YSAILEALGAP  123 (302)
T ss_pred             HHHHHHHhCcc
Confidence            99999999753

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

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=95.71  E-value=0.0088  Score=52.03  Aligned_cols=24  Identities=21%  Similarity=0.135  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        31 Gei~~iiG~nGsGKSTLlk~L~Gl   54 (343)
T PRK11153         31 GEIFGVIGASGAGKSTLIRCINLL   54 (343)
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            468999999999999999999874

>CHL00176 ftsH cell division protein; Validated

Probab=95.71  E-value=0.012  Score=55.30  Aligned_cols=47  Identities=28%  Similarity=0.299  Sum_probs=34.3

Q ss_pred             CCcccchHHHHHHHHHH---hcC-------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLL---IVG-------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L---~~~-------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.|.+..++++.+.+   ...       ....+-+-++|++|+|||+||+.+.+.
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e  239 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGE  239 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            45788887776666554   221       123456889999999999999999885

---

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	241
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-05
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	6e-06

>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 = 54.9 bits (131), Expect = 6e-09
 Identities = 36/187 (19%), Positives = 68/187 (36%), Gaps = 40/187 (21%)

Query: 62  GEEEFVFSEVQGILKE--MKDF----VHESEKVIYTFMISRITQQISGSSSKD-----LF 110
           GE ++ + ++  + ++  + +F    V +  K I +         I  S         LF
Sbjct: 12  GEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILS---KEEIDHIIMSKDAVSGTLRLF 68

Query: 111 DALLGLQSQIIDIKQQLQQF-----RPNNIGLWVELKS----------YFTEARNSSSTL 155
             LL  Q +++      Q+F     R N   L   +K+           + E R+     
Sbjct: 69  WTLLSKQEEMV------QKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYND 122

Query: 156 G--FKKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYF 213
              F K N+  L+    +L   L+   P+  ++ I G  G  KT  A +   +   +   
Sbjct: 123 NQVFAKYNVSRLQ-PYLKLRQALLELRPAKNVL-IDGVLGSGKTWVALDVCLSYKVQCKM 180

Query: 214 DCRA-WV 219
           D +  W+
Sbjct: 181 DFKIFWL 187

>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 = 42.9 bits (100), Expect = 7e-05
 Identities = 34/196 (17%), Positives = 72/196 (36%), Gaps = 54/196 (27%)

Query: 24  PDATKEQFQNLYTEIEI-VTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFV 82
           P+   E  Q L  +I+   TS   +  N   +I           + +E++ +LK  K + 
Sbjct: 195 PETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI---------HSIQAELRRLLKS-KPYE 244

Query: 83  H--------ESEKVIYTF-------MISR---ITQQISGSSSKDLF----------DALL 114
           +        ++ K    F       + +R   +T  +S +++  +           D + 
Sbjct: 245 NCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304

Query: 115 GLQSQIIDIK-----QQLQQFRPNNIGLWVELKSYFTEARNSSSTL-GFKKRNIMGLEDE 168
            L  + +D +     +++    P  + +  E        R+  +T   +K  N   L   
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESI------RDGLATWDNWKHVNCDKLTTI 358

Query: 169 IEELLDLLIVGEPSLF 184
           IE  L++L   EP+ +
Sbjct: 359 IESSLNVL---EPAEY 371

>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 = 46.0 bits (109), Expect = 6e-06
 Identities = 16/110 (14%), Positives = 33/110 (30%), Gaps = 6/110 (5%)

Query: 116 LQSQIIDIKQQLQ----QFRPNNIGLWVELKSYFTEARNSSSTLGFKKRNIMGLEDEIEE 171
           L     D+   L         ++    V   + +         +  +    +  +  +  
Sbjct: 76  LHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFVTRKKLVNA 135

Query: 172 LLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYA-KNYFDCR-AWV 219
           +   L   +     V I G +G  K+  A EA  ++   +  F     WV
Sbjct: 136 IQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWV 185

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	241
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.73
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.61
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.31
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.31
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.2
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.47
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.36
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.33
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.31
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.25
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.25
2fna_A	357	Conserved hypothetical protein; structural genomic	98.21
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.11
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.01
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.96
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.95
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.88
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.69
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.62
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.61
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.53
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.5
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.45
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.45
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.45
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.44
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.42
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.38
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.37
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.37
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.36
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.36
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.36
3co5_A	143	Putative two-component system transcriptional RES	97.36
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.35
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.35
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.34
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.33
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.32
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.31
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.29
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.28
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.28
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.28
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	97.27
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.27
3bos_A	242	Putative DNA replication factor; P-loop containing	97.27
3pvs_A	447	Replication-associated recombination protein A; ma	97.25
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.24
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.21
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.2
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.17
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.13
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.13
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.13
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.12
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	97.1
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.1
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.09
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.08
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.08
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.07
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.06
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.06
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.06
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.06
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.05
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.03
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.03
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.02
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.02
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.02
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.01
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.01
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.01
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.01
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.0
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.99
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.98
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.98
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.97
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.96
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.95
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.94
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.94
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.94
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.94
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.93
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.93
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.93
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.91
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.91
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.9
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.9
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.9
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.89
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.89
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.88
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.88
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.88
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.87
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.87
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.85
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.85
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.84
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.83
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.83
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.83
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.82
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.82
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.82
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.82
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.81
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.8
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.79
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.79
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.79
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.79
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.78
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.77
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.77
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.77
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.77
1via_A	175	Shikimate kinase; structural genomics, transferase	96.76
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.76
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.76
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.75
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.74
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.73
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.73
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.72
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.71
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.71
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.7
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.7
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.7
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.69
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.69
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.67
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.67
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.67
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.66
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.66
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.65
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.65
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.64
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.64
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.64
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.64
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.63
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.63
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.62
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.6
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.6
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.59
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.59
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.59
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.58
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.58
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.58
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.57
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.57
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.57
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.57
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.57
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.56
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.56
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.55
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.55
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.55
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.54
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.53
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.53
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.53
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.53
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.53
1g6h_A	257	High-affinity branched-chain amino acid transport	96.52
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.52
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.5
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.5
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.5
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.5
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.48
2og2_A	359	Putative signal recognition particle receptor; nuc	96.48
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.48
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.47
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.47
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.47
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.46
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.45
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.45
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.45
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.43
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.42
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.42
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.41
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.4
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.4
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.39
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.39
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.38
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.38
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.37
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	96.34
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	96.34
2wji_A	165	Ferrous iron transport protein B homolog; membrane	96.34
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.33
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.33
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.32
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.3
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	96.29
2xxa_A	433	Signal recognition particle protein; protein trans	96.29
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	96.27
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	96.27
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.27
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.26
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.26
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.26
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.26
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	96.24
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	96.24
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	96.24
2ged_A	193	SR-beta, signal recognition particle receptor beta	96.23
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.23
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.23
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.22
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.19
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.18
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.18
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	96.17
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.17
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	96.17
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.17
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	96.17
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	96.17
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.17
2qgz_A	308	Helicase loader, putative primosome component; str	96.16
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	96.15
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.15
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.15
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	96.14
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.14
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.13
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	96.13
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.12
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	96.12
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.12
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	96.11
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.11
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	96.08
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.08
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	96.08
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	96.07
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.07
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.07
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.06
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.05
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.05
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	96.04
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	96.04
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	96.04
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.03
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	96.03
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	96.02
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	96.02
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	96.01
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.01
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	96.01
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.0
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.0
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.99
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	95.99
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.98
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.97
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.97
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.96
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.96
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.95
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.95
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.95
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.94
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.94
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.94
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.93
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	95.93
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.93
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.93
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.92
3end_A	307	Light-independent protochlorophyllide reductase ir	95.92
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.91
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.91
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.91
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.9
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.9
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	95.89
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.89
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	95.89
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	95.89
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.89
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	95.88
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.88
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	95.88
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.88
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.88
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.88
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	95.87
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.86
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.86
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.85
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.85
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.85
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.83
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.83
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.83
3llu_A	196	RAS-related GTP-binding protein C; structural geno	95.82
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.82
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.82
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.81
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.81
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	95.81
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.81
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.79
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.79
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	95.79
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.79
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	95.77
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.77
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	95.77
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	95.76
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.76
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	95.75
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.74
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	95.74
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	95.74
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.74
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	95.73
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	95.73
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	95.71
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.69
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	95.68
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.67
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	95.67
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	95.67
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	95.67
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	95.67
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	95.66
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.66
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.66
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.65
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	95.64
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	95.64
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	95.64
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.62
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.62
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.62
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	95.61
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	95.6
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	95.6
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	95.6
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	95.59
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	95.59
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	95.59
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	95.58
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	95.56
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	95.54
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	95.53
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	95.52
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	95.52
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.52
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	95.5
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	95.48
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.48
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.48
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.47
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	95.47
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.47
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	95.46
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.46
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	95.46
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	95.45
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	95.45
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	95.43
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.42
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	95.41
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	95.41
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.41
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	95.41
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	95.4
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	95.4
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	95.4
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.4
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	95.39
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	95.39
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.38
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.37
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	95.37
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	95.36
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	95.36
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	95.35
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.34
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	95.34
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.33
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	95.31
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.29
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.27
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	95.23
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.23
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	95.23
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.23
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.21
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	95.2
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	95.18
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.17
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	95.14
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.13
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	95.12
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	95.12
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	95.1
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.09
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.09
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	95.08
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	95.06
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	95.06
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.06
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.05
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	95.04
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.04
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	95.03
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	95.02
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.98
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.97
3io5_A	333	Recombination and repair protein; storage dimer, i	94.95
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	94.93
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	94.93
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	94.91
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	94.9
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	94.89
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	94.88
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	94.87
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	94.87
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	94.85
1u94_A	356	RECA protein, recombinase A; homologous recombinat	94.84
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.83
2r6a_A	454	DNAB helicase, replicative helicase; replication,	94.81
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	94.8
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	94.8
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.79
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.79
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	94.78
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.77
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	94.68
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	94.68
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	94.64
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	94.6
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	94.57
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	94.55
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	94.48
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.48
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.47
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	94.47
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.47
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	94.44
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	94.43
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	94.43
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.42
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	94.42
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	94.41
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	94.4
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	94.39
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	94.38
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	94.38
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.4
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	94.36
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	94.34
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.33
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	94.33
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	94.3
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	94.29
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	94.29
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	94.21
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.18
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	94.17
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	94.16
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	94.08
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	94.08
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	94.06
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	94.04
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	94.03
1xp8_A	366	RECA protein, recombinase A; recombination, radior	94.0
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	93.96
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	93.91
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	93.82
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	93.82
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	93.81
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	93.79
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	93.79
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.77
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	93.76
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	93.76
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	93.73

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.73  E-value=3.9e-17  Score=118.33  Aligned_cols=85  Identities=16%  Similarity=0.152  Sum_probs=77.2

Q ss_pred             chHHHHHHHHHHHHhhccccCchhHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCccchHHHHHHHHHHHHHH
Q 042580            3 INFRLFSERLRRLIEGEEGTLPDATKEQFQNLYTEIEIVTSLLSNYENDMFQILFQSLGGEEEFVFSEVQGILKEMKDFV   82 (241)
Q Consensus         3 avv~~~~~kl~~~l~~~~~~~~~~~~~~~~~L~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~v~~Wl~~vr~~~   82 (241)
                      |+++++++||.+++.+| +.++.+++++++.|+++|+.|++||.+++.+..+.       .+    +.++.|+.+||+++
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 AAISNLIPKLGELLTEE-FKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQ-------LD----SQDKLWADEVRELS   68 (115)
T ss_dssp             CTTCSHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGG-------CC----HHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHH-HHHHhchHHHHHHHHHHHHHHHHHHHHHHHhcccc-------CC----HHHHHHHHHHHHHH
Confidence            67889999999999999 99999999999999999999999999998762133       67    89999999999999


Q ss_pred             HhhHHHHHHHHHHHhhh
Q 042580           83 HESEKVIYTFMISRITQ   99 (241)
Q Consensus        83 ~~~ed~ld~~~~~~~~~   99 (241)
                      ||+||+||+|.++....
T Consensus        69 YD~ED~iD~f~~~~~~~   85 (115)
T 3qfl_A           69 YVIEDVVDKFLVQVDGI   85 (115)
T ss_dssp             HHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhccc
Confidence            99999999999987653

>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=99.61  E-value=1.3e-15  Score=138.54  Aligned_cols=77  Identities=14%  Similarity=0.217  Sum_probs=69.0

Q ss_pred             ccchHHHHHHHHHHhcC-CCCeEEEEEEcCCCccHHHHHHHHHh--ccccccCCCeeEEEe--CC--CCHHHHHHHHHHH
Q 042580          163 MGLEDEIEELLDLLIVG-EPSLFIVAIVGNSGFDKTNFAGEAYN--NNYAKNYFDCRAWVG--CE--YYLHKVLDSIIKS  235 (241)
Q Consensus       163 vG~~~~~~~l~~~L~~~-~~~~~vI~IvG~gGvGKTTLak~v~~--~~~v~~~F~~~~wV~--~~--~~~~~il~~Il~~  235 (241)
                      +||+.++++|.++|..+ +...++|+||||||+||||||+.+|+  +..+..+|++++||+  +.  +++.+++..|+.+
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            69999999999999764 44689999999999999999999999  678999999999999  33  4899999999999


Q ss_pred             hCCC
Q 042580          236 VMPR  239 (241)
Q Consensus       236 l~~~  239 (241)
                      ++..
T Consensus       211 l~~~  214 (549)
T 2a5y_B          211 LKSE  214 (549)
T ss_dssp             HTTT
T ss_pred             HhcC
Confidence            9753

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.31  E-value=1.8e-12  Score=123.50  Aligned_cols=73  Identities=19%  Similarity=0.048  Sum_probs=65.0

Q ss_pred             cccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCe-eEEEe--CCCCHHHHHHHHHHH
Q 042580          162 IMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDC-RAWVG--CEYYLHKVLDSIIKS  235 (241)
Q Consensus       162 ~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~-~~wV~--~~~~~~~il~~Il~~  235 (241)
                      .+||+.++++|.++|...+ ..++|+|+||||+||||||+.+|++..+..+|++ ++||+  +.++...++..|++.
T Consensus       130 ~VGRe~eLeeL~elL~~~d-~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~l  205 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELR-PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL  205 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCC-SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccC-CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            4999999999999998643 3899999999999999999999998888999997 89999  778888888888774

>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=99.31  E-value=2.2e-12  Score=126.49  Aligned_cols=81  Identities=17%  Similarity=0.146  Sum_probs=62.9

Q ss_pred             ccCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcccc-ccCC-CeeEEEe-CCC---CHHHHHHH
Q 042580          158 KKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYA-KNYF-DCRAWVG-CEY---YLHKVLDS  231 (241)
Q Consensus       158 ~~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v-~~~F-~~~~wV~-~~~---~~~~il~~  231 (241)
                      +...++||+.++++|.++|...+...++|+|+||||+||||||+++|++..+ ..+| +.+.||+ ...   +....+..
T Consensus       122 ~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  201 (1249)
T 3sfz_A          122 RPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQN  201 (1249)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHH
T ss_pred             CCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHH
Confidence            4456899999999999999876667999999999999999999999998654 4455 5567999 332   23444666


Q ss_pred             HHHHhCC
Q 042580          232 IIKSVMP  238 (241)
Q Consensus       232 Il~~l~~  238 (241)
                      ++..+..
T Consensus       202 ~~~~l~~  208 (1249)
T 3sfz_A          202 LCMRLDQ  208 (1249)
T ss_dssp             HHHHHTT
T ss_pred             HHHHhhh
Confidence            6666643

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.20  E-value=3.2e-11  Score=110.26  Aligned_cols=74  Identities=18%  Similarity=0.149  Sum_probs=61.1

Q ss_pred             cCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcccc-ccCC-CeeEEEe-CCCCHHHHHHHH
Q 042580          159 KRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYA-KNYF-DCRAWVG-CEYYLHKVLDSI  232 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v-~~~F-~~~~wV~-~~~~~~~il~~I  232 (241)
                      .+.+|||+.+++.|.++|.......++|+|+||||+||||||+.+|++..+ ..+| +.++||+ ...+...++..+
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~~~~l  199 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKL  199 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHHHHHH
T ss_pred             CCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHHHHHH
Confidence            456899999999999999765456899999999999999999999998766 7889 5799999 555555555544

>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=98.47  E-value=3.4e-07  Score=79.48  Aligned_cols=79  Identities=19%  Similarity=0.153  Sum_probs=57.7

Q ss_pred             CCcccchHHHHHHHHHH-hc---C-CCCeEEEEE--EcCCCccHHHHHHHHHhccccc---cCCCe-eEEEe--CCCCHH
Q 042580          160 RNIMGLEDEIEELLDLL-IV---G-EPSLFIVAI--VGNSGFDKTNFAGEAYNNNYAK---NYFDC-RAWVG--CEYYLH  226 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L-~~---~-~~~~~vI~I--vG~gGvGKTTLak~v~~~~~v~---~~F~~-~~wV~--~~~~~~  226 (241)
                      ..++||+.+++.|..+| ..   + ......+.|  +|++|+|||||++.+++.....   ..|+. .+|+.  ...+..
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY  101 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHH
Confidence            57899999999999988 42   2 012344555  9999999999999999863221   12333 46777  567888


Q ss_pred             HHHHHHHHHhCC
Q 042580          227 KVLDSIIKSVMP  238 (241)
Q Consensus       227 ~il~~Il~~l~~  238 (241)
                      .++..|+.+++.
T Consensus       102 ~~~~~l~~~l~~  113 (412)
T 1w5s_A          102 TILSLIVRQTGY  113 (412)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHhCC
Confidence            999999988754

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.36  E-value=8.1e-07  Score=75.14  Aligned_cols=69  Identities=13%  Similarity=0.191  Sum_probs=53.6

Q ss_pred             ccCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CC-------CCHHHHH
Q 042580          158 KKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CE-------YYLHKVL  229 (241)
Q Consensus       158 ~~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~-------~~~~~il  229 (241)
                      ....++||+.+++.|.+++..+    +++.|+|++|+|||||++.+.+..      + .+|+. ..       .+...++
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~~~~~~   78 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHITREELI   78 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBCHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCCHHHHH
Confidence            3456899999999999998653    689999999999999999999863      2 56776 22       2667777


Q ss_pred             HHHHHHhC
Q 042580          230 DSIIKSVM  237 (241)
Q Consensus       230 ~~Il~~l~  237 (241)
                      ..+...+.
T Consensus        79 ~~l~~~l~   86 (350)
T 2qen_A           79 KELQSTIS   86 (350)
T ss_dssp             HHHHHHSC
T ss_pred             HHHHHHHH
Confidence            77766543

>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=98.33  E-value=9.8e-07  Score=75.87  Aligned_cols=77  Identities=18%  Similarity=0.062  Sum_probs=57.2

Q ss_pred             CCcccchHHHHHHHHHHhc--CCCCeEEEEEEcCCCccHHHHHHHHHhccccc----cC--CCeeEEEe--CCC-CHHHH
Q 042580          160 RNIMGLEDEIEELLDLLIV--GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAK----NY--FDCRAWVG--CEY-YLHKV  228 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~--~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~----~~--F~~~~wV~--~~~-~~~~i  228 (241)
                      ..++|++.+++.|..+|..  .....+.+.|+|++|+||||||+.+++...-.    ..  ....+|+.  ... +...+
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            5789999999999988854  23446789999999999999999999863111    11  23456777  444 77788


Q ss_pred             HHHHHHHh
Q 042580          229 LDSIIKSV  236 (241)
Q Consensus       229 l~~Il~~l  236 (241)
                      +..++.++
T Consensus       100 ~~~l~~~l  107 (384)
T 2qby_B          100 LSSLAGKL  107 (384)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            88877776

>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=98.31  E-value=6e-07  Score=76.91  Aligned_cols=75  Identities=19%  Similarity=0.173  Sum_probs=54.8

Q ss_pred             CCcccchHHHHHHHHHHhcC--CCCeEEEEEEcCCCccHHHHHHHHHhccccccCC---CeeEEEe--CCCCHHHHHHHH
Q 042580          160 RNIMGLEDEIEELLDLLIVG--EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYF---DCRAWVG--CEYYLHKVLDSI  232 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~--~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F---~~~~wV~--~~~~~~~il~~I  232 (241)
                      ..++|++.+++.|.+++...  ......+.|+|++|+|||||++.+.+.  ....|   -..+|+.  ...+...++..+
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~i~~~~~~~~~~~~~~i   97 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSK--LHKKFLGKFKHVYINTRQIDTPYRVLADL   97 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHH--HHHHTCSSCEEEEEEHHHHCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHH--HHHHhcCCceEEEEECCCCCCHHHHHHHH
Confidence            57899999999999988642  345678999999999999999999986  33322   1346666  444556666666


Q ss_pred             HHHh
Q 042580          233 IKSV  236 (241)
Q Consensus       233 l~~l  236 (241)
                      +.++
T Consensus        98 ~~~l  101 (386)
T 2qby_A           98 LESL  101 (386)
T ss_dssp             TTTT
T ss_pred             HHHh
Confidence            5544

>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=98.25  E-value=6.3e-06  Score=70.76  Aligned_cols=77  Identities=14%  Similarity=0.116  Sum_probs=57.0

Q ss_pred             CCcccchHHHHHHHHHHhc---C-CCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHHHHHH
Q 042580          160 RNIMGLEDEIEELLDLLIV---G-EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVLDSII  233 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---~-~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il~~Il  233 (241)
                      ..++|++.+++.|..++..   + ....+.+.|+|++|+|||||++.+.+.......+ ..+|+.  ...+...++..++
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~-~~~~i~~~~~~~~~~~~~~l~   95 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTA-RFVYINGFIYRNFTAIIGEIA   95 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCC-EEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCe-eEEEEeCccCCCHHHHHHHHH
Confidence            5689999999999998865   2 2233489999999999999999999863221112 345666  5556788888888


Q ss_pred             HHhC
Q 042580          234 KSVM  237 (241)
Q Consensus       234 ~~l~  237 (241)
                      ..++
T Consensus        96 ~~l~   99 (389)
T 1fnn_A           96 RSLN   99 (389)
T ss_dssp             HHTT
T ss_pred             HHhC
Confidence            8764

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.25  E-value=1.6e-06  Score=74.30  Aligned_cols=79  Identities=18%  Similarity=0.064  Sum_probs=57.7

Q ss_pred             CCcccchHHHHHHHHHHhcC--CCCeEEEEEEcCCCccHHHHHHHHHhcccccc---CCC-eeEEEe--CCCCHHHHHHH
Q 042580          160 RNIMGLEDEIEELLDLLIVG--EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKN---YFD-CRAWVG--CEYYLHKVLDS  231 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~--~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~---~F~-~~~wV~--~~~~~~~il~~  231 (241)
                      ..++|++.+++.|..+|..-  ......+.|+|++|+||||||+.+.+...-..   ..+ ..+|+.  ...+...++..
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   98 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASA   98 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHH
Confidence            57899999999999998542  34567899999999999999999998632110   112 346666  55677777777


Q ss_pred             HHHHhCC
Q 042580          232 IIKSVMP  238 (241)
Q Consensus       232 Il~~l~~  238 (241)
                      |+.+++.
T Consensus        99 l~~~l~~  105 (387)
T 2v1u_A           99 IAEAVGV  105 (387)
T ss_dssp             HHHHHSC
T ss_pred             HHHHhCC
Confidence            7777643

>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=98.21  E-value=3.4e-06  Score=71.37  Aligned_cols=67  Identities=18%  Similarity=0.175  Sum_probs=49.9

Q ss_pred             ccCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CC------CCHHHHHH
Q 042580          158 KKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CE------YYLHKVLD  230 (241)
Q Consensus       158 ~~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~------~~~~~il~  230 (241)
                      ....++||+.+++.|.+ +..     +++.|+|++|+|||||++.+.+...  .   ..+|+. ..      .+...++.
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            34568999999999999 643     5999999999999999999998632  2   247887 43      35566665


Q ss_pred             HHHHH
Q 042580          231 SIIKS  235 (241)
Q Consensus       231 ~Il~~  235 (241)
                      .+.+.
T Consensus        80 ~l~~~   84 (357)
T 2fna_A           80 ELQKE   84 (357)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.11  E-value=3.8e-06  Score=64.39  Aligned_cols=45  Identities=18%  Similarity=0.292  Sum_probs=38.7

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|++..++.+.+++....  ...+-|+|++|+||||||+.+.+.
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            457999999999999987643  556789999999999999999886

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.01  E-value=5.9e-06  Score=63.17  Aligned_cols=45  Identities=18%  Similarity=0.252  Sum_probs=38.4

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|++..++.+.+++....  ...+-|+|.+|+||||||+.+.+.
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            358999999999999986633  456689999999999999999885

>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=97.96  E-value=2e-05  Score=61.76  Aligned_cols=45  Identities=18%  Similarity=0.202  Sum_probs=38.5

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|++..++.|..++....  ...+.|+|++|+||||||+.+.+.
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            358999999999999997653  334899999999999999999885

>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=97.95  E-value=9e-06  Score=64.53  Aligned_cols=47  Identities=21%  Similarity=0.253  Sum_probs=39.7

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..++|++..++.|..++..+. ..+.+.|+|++|+||||||+.+.+..
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            358999999999999997643 24588999999999999999998753

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.88  E-value=1.6e-05  Score=67.14  Aligned_cols=77  Identities=5%  Similarity=0.005  Sum_probs=56.0

Q ss_pred             CcccchHHHHHHHHHHhc--CCCCeEEEEEEcCCCccHHHHHHHHHhcccccc------CCCeeEEEe--CCCCHHHHHH
Q 042580          161 NIMGLEDEIEELLDLLIV--GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKN------YFDCRAWVG--CEYYLHKVLD  230 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~--~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~------~F~~~~wV~--~~~~~~~il~  230 (241)
                      .+.||++++..|...|..  .......+-|+|++|+|||++++.|.+.-....      .| ..+.|.  .-.+...+..
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~-~~v~INc~~~~t~~~~~~   99 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIF-DYIHIDALELAGMDALYE   99 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCE-EEEEEETTCCC--HHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCce-EEEEEeccccCCHHHHHH
Confidence            378999999999988854  234678889999999999999999998742211      12 234555  4467788888


Q ss_pred             HHHHHhCC
Q 042580          231 SIIKSVMP  238 (241)
Q Consensus       231 ~Il~~l~~  238 (241)
                      .|++++..
T Consensus       100 ~I~~~L~g  107 (318)
T 3te6_A          100 KIWFAISK  107 (318)
T ss_dssp             HHHHHHSC
T ss_pred             HHHHHhcC
Confidence            88888854

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.69  E-value=2.8e-05  Score=57.78  Aligned_cols=46  Identities=15%  Similarity=0.058  Sum_probs=35.0

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|....+..+.+.+..-.....-|-|+|..|+|||+||+.+++.
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            4689999999998887542122334679999999999999999986

>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=97.62  E-value=6e-05  Score=62.87  Aligned_cols=45  Identities=22%  Similarity=0.301  Sum_probs=38.5

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|++..++.|..++..+.  ...+-++|++|+||||+|+.+.+.
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            358999999999999987654  333889999999999999999886

>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=97.61  E-value=7e-05  Score=62.58  Aligned_cols=45  Identities=22%  Similarity=0.286  Sum_probs=38.5

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|++..++.|..++..+.  ...+-++|++|+||||+|+.+.+.
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            358999999999999987753  444899999999999999999875

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.53  E-value=9.9e-05  Score=60.72  Aligned_cols=48  Identities=21%  Similarity=0.253  Sum_probs=38.7

Q ss_pred             cCCcccchHHHHHHHHHHhcC-----------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          159 KRNIMGLEDEIEELLDLLIVG-----------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~~~-----------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|.+..++.|.+++...           -....-+-|+|++|+||||||+.+.+.
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            356899999999998887431           123566889999999999999999886

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.50  E-value=0.00014  Score=56.68  Aligned_cols=51  Identities=18%  Similarity=0.033  Sum_probs=33.7

Q ss_pred             HHHHHHHHHhcCCC--CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          168 EIEELLDLLIVGEP--SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       168 ~~~~l~~~L~~~~~--~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      ..+.+..++.....  ....+.|+|.+|+||||||+.+++..  .......++++
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            44555566654321  12688899999999999999999863  23333445555

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.45  E-value=0.00012  Score=57.61  Aligned_cols=39  Identities=21%  Similarity=0.265  Sum_probs=29.5

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          168 EIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       168 ~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.++|.+.+......-.+|+|+|..|+|||||++.+..-
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            344555555433345789999999999999999998774

>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=97.45  E-value=0.00014  Score=60.60  Aligned_cols=47  Identities=34%  Similarity=0.334  Sum_probs=37.8

Q ss_pred             CCcccchHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV-----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+++..           +-...+.|.++|++|+||||||+.+.+.
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            4589999998888887642           1134567899999999999999999985

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.45  E-value=9.7e-05  Score=62.36  Aligned_cols=47  Identities=19%  Similarity=0.224  Sum_probs=39.0

Q ss_pred             CCcccchHHHHHHHHHHhcC---CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVG---EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~---~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.+..++...   ......+-|+|++|+||||||+.+.+.
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            46899999999999988642   334567899999999999999999875

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.44  E-value=0.00013  Score=64.70  Aligned_cols=45  Identities=20%  Similarity=0.324  Sum_probs=37.9

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|++..+..++..|....  ..-+-++|.+|+||||||+.+...
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            358999999999999997633  344579999999999999999886

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.42  E-value=0.0002  Score=56.08  Aligned_cols=42  Identities=24%  Similarity=0.279  Sum_probs=33.0

Q ss_pred             chHHHHHHHHHHhcC-CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          165 LEDEIEELLDLLIVG-EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       165 ~~~~~~~l~~~L~~~-~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++.++.|.+.+... .....+|+|+|..|+|||||++.+...
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~   45 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQT   45 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            345677788877653 245689999999999999999999863

>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=97.38  E-value=0.00018  Score=58.27  Aligned_cols=48  Identities=17%  Similarity=0.194  Sum_probs=36.1

Q ss_pred             cCCcccchHHHHHHHHHHh---cCC-------CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          159 KRNIMGLEDEIEELLDLLI---VGE-------PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~---~~~-------~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|.+..++.|.+++.   ..+       ....-+-++|++|+||||||+.+.+.
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~   62 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATE   62 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            3568999988888776652   111       23455779999999999999999885

>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=97.37  E-value=0.00014  Score=61.65  Aligned_cols=46  Identities=24%  Similarity=0.237  Sum_probs=35.6

Q ss_pred             CcccchHHHHHHHHHHhcC---CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVG---EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~---~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..++.|-..+..+   ...+..+.++|+.|+||||||+.+.+.
T Consensus        26 ~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           26 EFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHH
T ss_pred             HccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            5678887777776666432   234578999999999999999999885

>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=97.37  E-value=0.00011  Score=56.22  Aligned_cols=42  Identities=14%  Similarity=0.071  Sum_probs=29.6

Q ss_pred             hHHHHHHHHHHhcCC-CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          166 EDEIEELLDLLIVGE-PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       166 ~~~~~~l~~~L~~~~-~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ....+.+.+++.+-. ..-..+.|+|+.|+|||||++.+.+..
T Consensus        20 ~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           20 NRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             HHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            344445555553321 235789999999999999999998863

>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=97.36  E-value=0.00011  Score=62.19  Aligned_cols=45  Identities=16%  Similarity=0.123  Sum_probs=38.0

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..++.|..++..+.  ...+-++|++|+||||||+.+.+.
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            458999999999999987653  333889999999999999999876

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.36  E-value=0.00017  Score=59.76  Aligned_cols=47  Identities=19%  Similarity=0.245  Sum_probs=37.8

Q ss_pred             CCcccchHHHHHHHHHHhcC----------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVG----------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~----------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+++...          ......+-++|++|+||||||+.+.+.
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            46899999999998877321          123567889999999999999999885

>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=97.36  E-value=0.00022  Score=60.72  Aligned_cols=45  Identities=22%  Similarity=0.291  Sum_probs=38.3

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|++..++.|..++..+. ..+.+-|+|+.|+||||||+.+.+.
T Consensus        17 ~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~   61 (373)
T 1jr3_A           17 DVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKG   61 (373)
T ss_dssp             TSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHH
T ss_pred             hccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999987643 2457789999999999999999874

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.36  E-value=3.8e-05  Score=56.90  Aligned_cols=46  Identities=17%  Similarity=0.120  Sum_probs=33.0

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..+.++.+.+..-.....-|-|+|..|+|||+||+.+++.
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCT
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHh
Confidence            5789888888888887531111233669999999999999999875

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.35  E-value=0.00019  Score=59.67  Aligned_cols=46  Identities=20%  Similarity=0.280  Sum_probs=35.9

Q ss_pred             CcccchHHHHHHHHHHhc-------------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIV-------------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~-------------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..++.|.+++..             .......+-++|++|+|||+||+.+.+.
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            589999998888876531             1234567899999999999999877764

>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=97.35  E-value=0.00021  Score=60.13  Aligned_cols=47  Identities=21%  Similarity=0.277  Sum_probs=37.8

Q ss_pred             CCcccchHHHHHHHHHHh----------cCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLI----------VGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~----------~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+++.          ......+-+-++|++|+|||+||+.+.+.
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            468999999999988772          11223467889999999999999999885

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.34  E-value=0.00023  Score=60.68  Aligned_cols=48  Identities=21%  Similarity=0.197  Sum_probs=36.8

Q ss_pred             CCcccchHHHHHH---HHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          160 RNIMGLEDEIEEL---LDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       160 ~~~vG~~~~~~~l---~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ++++|.+..++.+   ...+..+....+.+-++|++|+|||+||+.+.+.-
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l   94 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL   94 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999887764   44444443334688999999999999999999863

>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=97.33  E-value=0.00018  Score=61.60  Aligned_cols=47  Identities=15%  Similarity=0.133  Sum_probs=38.0

Q ss_pred             CCcccchHHHHHHHHHHhc----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+.+..          .....+.|-++|++|+||||||+.+.+.
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            4589999999999887742          1123567889999999999999999875

>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=97.32  E-value=0.00031  Score=58.41  Aligned_cols=28  Identities=21%  Similarity=0.335  Sum_probs=24.4

Q ss_pred             CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          179 GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       179 ~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ......+|+|+|..|+|||||++.+...
T Consensus        27 ~~~~~~ii~I~G~sGsGKSTla~~L~~~   54 (290)
T 1odf_A           27 GNKCPLFIFFSGPQGSGKSFTSIQIYNH   54 (290)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3456789999999999999999998774

>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=97.31  E-value=0.00053  Score=55.81  Aligned_cols=47  Identities=23%  Similarity=0.220  Sum_probs=33.9

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..+..+.+.+..-.....-+-|+|..|+|||+||+.+.+.
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            35789999888888777542112345679999999999999999986

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.29  E-value=0.00025  Score=57.47  Aligned_cols=47  Identities=23%  Similarity=0.230  Sum_probs=34.5

Q ss_pred             CCcccchHHHHHHHHHHh---cC-------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLI---VG-------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~---~~-------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+++.   ..       .....-+.|+|+.|+||||||+.+.+.
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            468999988877766542   11       012334789999999999999999885

>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=97.28  E-value=0.00016  Score=59.88  Aligned_cols=47  Identities=21%  Similarity=0.222  Sum_probs=37.4

Q ss_pred             CCcccchHHHHHHHHHHhc------------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV------------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~------------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..++.|...+..            ......-+-++|.+|+|||+||+.+.+.
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            4589999999998887754            1123456779999999999999999885

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.28  E-value=0.00033  Score=59.09  Aligned_cols=47  Identities=23%  Similarity=0.367  Sum_probs=37.2

Q ss_pred             CCcccchHHHHHHHHHHhc---------C-CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV---------G-EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---------~-~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+.+..         + ....+-|-++|++|+|||+||+.+.+.
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            4689999999888877631         1 123467889999999999999999985

>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=97.28  E-value=0.0003  Score=63.23  Aligned_cols=47  Identities=17%  Similarity=0.174  Sum_probs=39.2

Q ss_pred             CCcccchHHHHHHHHHHhcC---------------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVG---------------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~---------------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|++..++.|..||...               ....+.+-|+|++|+||||||+.+.+.
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            46899999999999998641               013578899999999999999999886

>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=97.27  E-value=0.00015  Score=60.62  Aligned_cols=47  Identities=21%  Similarity=0.227  Sum_probs=37.8

Q ss_pred             CCcccchHHHHHHHHHHhc---CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV---GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|++..+..+..++..   .......+-|+|++|+||||||+.+.+.
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            4689999999988888753   1223467889999999999999999885

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.27  E-value=0.00017  Score=61.13  Aligned_cols=44  Identities=14%  Similarity=0.043  Sum_probs=35.9

Q ss_pred             CCcccchHHHHHHHHHH-hcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          160 RNIMGLEDEIEELLDLL-IVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L-~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+++|.+.....|..++ ..+. ... +.|+|+.|+|||||++.+..
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            35889999999998888 4433 234 89999999999999999877

>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=97.27  E-value=0.00043  Score=54.90  Aligned_cols=39  Identities=13%  Similarity=0.085  Sum_probs=29.6

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          166 EDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       166 ~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ......+..++...  ....+.|+|++|+||||||+.+.+.
T Consensus        37 ~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           37 DELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             HHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            35555666655443  4677889999999999999999875

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=97.25  E-value=0.00025  Score=62.59  Aligned_cols=45  Identities=20%  Similarity=0.258  Sum_probs=37.6

Q ss_pred             CCcccchHHH---HHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEI---EELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~---~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+   ..|...+..+.  +..+-++|++|+||||||+.+.+.
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            3589998888   67777776654  578899999999999999999986

>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=97.24  E-value=0.00019  Score=59.63  Aligned_cols=45  Identities=18%  Similarity=0.202  Sum_probs=37.7

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|++..++.|..++..+.  ...+-++|++|+||||+|+.+.+.
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            358999999999999886643  334889999999999999999875

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.21  E-value=0.00021  Score=55.07  Aligned_cols=24  Identities=25%  Similarity=0.227  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+|+|+|+.|+|||||++.+...
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            468999999999999999999875

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.20  E-value=0.00018  Score=55.26  Aligned_cols=24  Identities=8%  Similarity=0.242  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|+.|+|||||++.+...
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            358999999999999999999874

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.17  E-value=0.00029  Score=58.51  Aligned_cols=46  Identities=17%  Similarity=0.301  Sum_probs=37.0

Q ss_pred             CcccchHHHHHHHHHHhcC-------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVG-------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~-------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..++.|...+...       ......+.++|..|+||||||+.+.+.
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHH
Confidence            5689998888888877542       122468999999999999999999885

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.13  E-value=0.00029  Score=53.49  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ..+|.|+|++|+||||+|+.+..
T Consensus         2 ~~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            2 KKIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEecCCCCCHHHHHHHHHh
Confidence            35899999999999999999987

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.13  E-value=0.00043  Score=58.56  Aligned_cols=44  Identities=18%  Similarity=0.210  Sum_probs=36.2

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..+..|..++..+.  +..+.++|+.|+||||||+.+.+.
T Consensus        26 ~~~g~~~~~~~L~~~i~~g~--~~~~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           26 EVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             GCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence            47898888888888887654  333889999999999999998774

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.13  E-value=0.00025  Score=53.48  Aligned_cols=23  Identities=13%  Similarity=0.157  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|.|.|+.|+||||+++.+...
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            47999999999999999998754

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.12  E-value=0.00046  Score=64.87  Aligned_cols=45  Identities=20%  Similarity=0.324  Sum_probs=38.1

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|++..++.+...|....  ..-+-++|.+|+||||+|+.+.+.
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            368999999999999997633  334679999999999999999875

>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=97.10  E-value=0.00051  Score=58.72  Aligned_cols=46  Identities=20%  Similarity=0.126  Sum_probs=36.4

Q ss_pred             CcccchHHHHHHHHHHh-------------cCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLI-------------VGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~-------------~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..++.|...+.             ........+.++|++|+|||++|+.+.+.
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            47899999998888773             11123567889999999999999999875

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.10  E-value=0.00036  Score=58.39  Aligned_cols=47  Identities=26%  Similarity=0.292  Sum_probs=36.7

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.++|....+..+.+.+..-.....-|-|+|..|+|||++|+.+++.
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            35789999999998887552222345669999999999999999984

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.09  E-value=0.0003  Score=53.58  Aligned_cols=23  Identities=35%  Similarity=0.678  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -.+++|+|..|+|||||++.++.
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            46899999999999999997554

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.08  E-value=0.0003  Score=54.76  Aligned_cols=23  Identities=22%  Similarity=0.206  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|+|+|+.|+|||||++.+...
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECcCCCCHHHHHHHHHhh
Confidence            58999999999999999999874

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.08  E-value=0.00025  Score=53.75  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|+|+|+.|+|||||++.+...
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

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.07  E-value=0.00061  Score=56.07  Aligned_cols=46  Identities=30%  Similarity=0.288  Sum_probs=33.3

Q ss_pred             CCcccchHHHHHHHHHHhc---C---------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV---G---------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---~---------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.|.+..++.|.+.+..   .         ....+ +.++|++|+|||||++.+...
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            4578888888888765421   1         11223 999999999999999999885

>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=97.06  E-value=0.00063  Score=56.98  Aligned_cols=46  Identities=15%  Similarity=0.097  Sum_probs=38.8

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+..|..++..+. ..+++-+.|++|+||||+|+.+.+.
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            468999999999999997643 3467788899999999999999876

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.06  E-value=0.00031  Score=54.74  Aligned_cols=24  Identities=17%  Similarity=0.231  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|+|+.|+||||+++.+...
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            468999999999999999999864

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.06  E-value=0.00033  Score=53.29  Aligned_cols=23  Identities=13%  Similarity=0.112  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|.|+|++|+||||+++.+...
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            57899999999999999999873

>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=97.06  E-value=0.00043  Score=65.97  Aligned_cols=45  Identities=18%  Similarity=0.357  Sum_probs=38.3

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|++.++..+++.|....  ..-+.++|.+|+||||||+.+.+.
T Consensus       170 d~viGr~~~i~~l~~~l~~~~--~~~vlL~G~pG~GKT~la~~la~~  214 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRT--KNNPVLIGEPGVGKTAIVEGLAQR  214 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSS--CCCCEEEECTTSCHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHHH
Confidence            458999999999999997643  445689999999999999999885

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.05  E-value=0.00071  Score=54.65  Aligned_cols=46  Identities=26%  Similarity=0.384  Sum_probs=33.0

Q ss_pred             CCcccchHHHHHHHHHHhc--C---------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV--G---------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~--~---------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+.++.++...  .         ....+ +.|+|+.|+|||||++.+.+.
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            4678988777666654321  1         11123 899999999999999999885

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.03  E-value=0.00042  Score=54.06  Aligned_cols=25  Identities=20%  Similarity=0.186  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|+|+|+.|+|||||++.+...
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            4689999999999999999999875

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.03  E-value=0.00036  Score=53.73  Aligned_cols=23  Identities=17%  Similarity=0.219  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|+|+|+.|+|||||++.+...
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhcc
Confidence            57999999999999999999863

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.02  E-value=0.00041  Score=52.69  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+|+|+|+.|+|||||++.+...
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

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.02  E-value=0.00059  Score=58.94  Aligned_cols=47  Identities=19%  Similarity=0.237  Sum_probs=37.8

Q ss_pred             CCcccchHHHHHHHHHHhc----C------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV----G------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~----~------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|..++..    .      ....+-+-|+|..|+|||+||+.|.+.
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            4689999999999988732    0      122467889999999999999999875

>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=97.02  E-value=0.00057  Score=58.41  Aligned_cols=47  Identities=21%  Similarity=0.313  Sum_probs=36.7

Q ss_pred             CCcccchHHHHHHHHHHhc----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+.+..          .....+-|-++|++|+|||+||+.+.+.
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            4689999999999887631          1122345789999999999999999985

>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=97.01  E-value=0.00073  Score=63.44  Aligned_cols=45  Identities=27%  Similarity=0.296  Sum_probs=38.1

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|++..+..+++.|....  ..-+-++|.+|+||||||+.+.+.
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~--~~~vlL~G~~GtGKT~la~~la~~  230 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWR  230 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHhccC--CCCeEEEcCCCCCHHHHHHHHHHH
Confidence            358999999999999987643  445679999999999999999875

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.01  E-value=0.00069  Score=56.85  Aligned_cols=39  Identities=23%  Similarity=0.115  Sum_probs=28.9

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          168 EIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       168 ~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....+..++.........+-|+|++|+||||||+.+.+.
T Consensus        22 a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           22 AYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             HHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            344455555443334677899999999999999999985

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=97.01  E-value=0.0011  Score=54.24  Aligned_cols=47  Identities=21%  Similarity=0.244  Sum_probs=35.3

Q ss_pred             CCcccchHHHHHHHH-------HHhc-CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLD-------LLIV-GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~-------~L~~-~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.....++++.       .+.. ......-+-++|++|+|||+||+.+.+.
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            356787777666665       2321 2345788899999999999999999985

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.01  E-value=0.00042  Score=54.30  Aligned_cols=25  Identities=24%  Similarity=0.387  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|+|+|..|+|||||++.+..-
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            4579999999999999999999874

>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=97.00  E-value=0.00026  Score=57.69  Aligned_cols=47  Identities=26%  Similarity=0.336  Sum_probs=34.2

Q ss_pred             CCcccchHHHHHHHHHHhc----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+.+..          +.....-+-++|++|+||||||+.+.+.
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            4688988777777765531          1111233679999999999999999985

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.99  E-value=0.0004  Score=54.16  Aligned_cols=25  Identities=28%  Similarity=0.279  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|+|+|+.|+|||||++.+...
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            3579999999999999999999764

>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=96.98  E-value=0.00049  Score=52.92  Aligned_cols=25  Identities=12%  Similarity=0.235  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.|+|+.|+||||+++.+...
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~   28 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATG   28 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999764

>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=96.98  E-value=0.00075  Score=59.47  Aligned_cols=47  Identities=21%  Similarity=0.313  Sum_probs=37.7

Q ss_pred             CCcccchHHHHHHHHHHhc----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+.+..          .....+-|-++|++|+|||+||+.+.+.
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            4689999999999887631          1123467889999999999999999985

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.97  E-value=0.00043  Score=53.89  Aligned_cols=24  Identities=17%  Similarity=0.403  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+|+|+|+.|+|||||++.+...
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            458999999999999999999875

>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=96.96  E-value=0.00045  Score=52.95  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|.|.|+.|+||||+++.+.+.
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            57999999999999999999763

>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=96.95  E-value=0.00055  Score=53.54  Aligned_cols=26  Identities=27%  Similarity=0.385  Sum_probs=23.1

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....+|+|+|+.|+|||||++.+...
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            34679999999999999999999875

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.94  E-value=0.00074  Score=55.43  Aligned_cols=46  Identities=26%  Similarity=0.384  Sum_probs=33.6

Q ss_pred             CCcccchHHHHHHHHHHhc--C---------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV--G---------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~--~---------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+.++.++...  .         ..... +.|+|+.|+|||||++.+.+.
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~g-vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKG-VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCE-EEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCe-EEEECCCcChHHHHHHHHHHH
Confidence            4688988877776665421  1         11123 899999999999999999875

>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=96.94  E-value=0.0027  Score=53.66  Aligned_cols=26  Identities=23%  Similarity=0.288  Sum_probs=23.4

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....+|+|+|..|+|||||++.+...
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            35789999999999999999999875

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.94  E-value=0.00037  Score=54.35  Aligned_cols=24  Identities=17%  Similarity=0.170  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|+|+.|+|||||++.+...
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            468999999999999999999765

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.94  E-value=0.00035  Score=54.62  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -++++|+|+.|+|||||++.+..
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

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.93  E-value=0.001  Score=52.53  Aligned_cols=37  Identities=19%  Similarity=0.170  Sum_probs=28.0

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          168 EIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       168 ~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+.+...+..  .....|.|+|.+|+|||||+..+...
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            34445444433  35889999999999999999998875

>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=96.93  E-value=0.00051  Score=54.03  Aligned_cols=25  Identities=16%  Similarity=0.393  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|+|+|+.|+|||||++.+...
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhh
Confidence            3568999999999999999999875

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.93  E-value=0.00069  Score=53.28  Aligned_cols=43  Identities=19%  Similarity=0.133  Sum_probs=31.9

Q ss_pred             cccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          162 IMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       162 ~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +-+..+..+.+...+...  ...+|+|+|.+|+|||||+..+...
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            334455566666655433  4889999999999999999998765

>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=96.91  E-value=0.00051  Score=54.38  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+|+|+|+.|+||||+++.+..
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            5899999999999999999865

>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=96.91  E-value=0.0011  Score=58.67  Aligned_cols=47  Identities=19%  Similarity=0.140  Sum_probs=36.2

Q ss_pred             CCcccchHHHHHHHHHH---hcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLL---IVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L---~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..++.+..++   ..+....+-+-++|++|+|||+||+.+.+.
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            56899998887665544   334333456789999999999999999986

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.90  E-value=0.0012  Score=56.23  Aligned_cols=44  Identities=23%  Similarity=0.274  Sum_probs=32.1

Q ss_pred             ccchHHHHHHHHHHhc--CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          163 MGLEDEIEELLDLLIV--GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       163 vG~~~~~~~l~~~L~~--~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++.+.-.+.+++.|..  .......|.++|+.|+||||+++.+...
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            3445556666666632  2345678999999999999999988774

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.90  E-value=0.00049  Score=52.71  Aligned_cols=24  Identities=21%  Similarity=0.225  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|.++|+.|+||||+++.+...
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            457889999999999999999764

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.90  E-value=0.00039  Score=54.39  Aligned_cols=25  Identities=16%  Similarity=0.291  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.|+|+.|+|||||++.+...
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3568999999999999999999875

>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=96.89  E-value=0.00066  Score=52.61  Aligned_cols=26  Identities=27%  Similarity=0.280  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+..+|+|+|+.|+||||+++.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            45789999999999999999998653

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.89  E-value=0.00049  Score=51.35  Aligned_cols=26  Identities=12%  Similarity=0.110  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .-..+.|+|..|+|||||++.+++..
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            35689999999999999999999853

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.88  E-value=0.00063  Score=52.23  Aligned_cols=23  Identities=17%  Similarity=0.306  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ..+|.|+|+.|+||||+++.+.+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998865

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.88  E-value=0.00068  Score=52.74  Aligned_cols=26  Identities=12%  Similarity=0.267  Sum_probs=22.9

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....+|.|+|+.|+||||+++.+.+.
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~   38 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKD   38 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999999999864

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.88  E-value=0.0011  Score=55.89  Aligned_cols=26  Identities=15%  Similarity=0.190  Sum_probs=23.1

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....+|+|.|..|+|||||++.+..-
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~l  115 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKAL  115 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            55789999999999999999999764

>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=96.87  E-value=0.00056  Score=53.66  Aligned_cols=24  Identities=17%  Similarity=0.127  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|+.|+|||||++.+..-
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            468999999999999999999763

>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=96.87  E-value=0.00065  Score=55.03  Aligned_cols=26  Identities=12%  Similarity=0.281  Sum_probs=22.6

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+..+|+|.|+.|+||||+|+.+.+.
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            35689999999999999999999774

>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=96.85  E-value=0.0007  Score=56.88  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..-.+|+|+|..|+|||||++.+..-
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            45789999999999999999999874

>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=96.85  E-value=0.00059  Score=54.98  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ..+|+|+|+.|+|||||++.+.+
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            57999999999999999999984

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.84  E-value=0.0011  Score=55.77  Aligned_cols=42  Identities=21%  Similarity=0.192  Sum_probs=35.2

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..+..+...+..+    .-+-++|.+|+|||+||+.+.+.
T Consensus        28 ~i~g~~~~~~~l~~~l~~~----~~vll~G~pGtGKT~la~~la~~   69 (331)
T 2r44_A           28 VVVGQKYMINRLLIGICTG----GHILLEGVPGLAKTLSVNTLAKT   69 (331)
T ss_dssp             TCCSCHHHHHHHHHHHHHT----CCEEEESCCCHHHHHHHHHHHHH
T ss_pred             ceeCcHHHHHHHHHHHHcC----CeEEEECCCCCcHHHHHHHHHHH
Confidence            5789999898888887663    25778999999999999999873

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.83  E-value=0.0011  Score=58.03  Aligned_cols=47  Identities=21%  Similarity=0.247  Sum_probs=37.5

Q ss_pred             CCcccchHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV-----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.|.+..++.|.+.+.-           +-...+-|-++|++|+|||+||+.|.+.
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            4578999999888876531           2244667889999999999999999985

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.83  E-value=0.00073  Score=51.88  Aligned_cols=25  Identities=24%  Similarity=0.202  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|.|+|+.|+||||+++.+...
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            4578999999999999999999875

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.83  E-value=0.00064  Score=51.29  Aligned_cols=25  Identities=20%  Similarity=0.211  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.|.|+.|+||||+++.+.+.
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            4679999999999999999999774

>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=96.82  E-value=0.00052  Score=52.37  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|+|+.|+||||+++.+.+.
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            467889999999999999999864

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.82  E-value=0.0014  Score=54.28  Aligned_cols=39  Identities=23%  Similarity=0.342  Sum_probs=28.2

Q ss_pred             HHHHHHHHHhcC---CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          168 EIEELLDLLIVG---EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       168 ~~~~l~~~L~~~---~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -+++++.-++.+   .....+|.|+|++|+|||||++.+.+.
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            344444444432   245689999999999999999999764

>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=96.82  E-value=0.00074  Score=52.70  Aligned_cols=22  Identities=32%  Similarity=0.457  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+|+|+|+.|+||||+++.+..
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            5799999999999999999965

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.82  E-value=0.00069  Score=52.21  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|+|+.|+||||+++.+.+.
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            568999999999999999999764

>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=96.81  E-value=0.00077  Score=54.91  Aligned_cols=24  Identities=17%  Similarity=0.429  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|+|++|+||||+|+.+...
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            568999999999999999999874

>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=96.80  E-value=0.0016  Score=55.60  Aligned_cols=38  Identities=21%  Similarity=0.177  Sum_probs=29.4

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...++..+.....+..+|+|+|.+|+|||||+..+...
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~  102 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMH  102 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            44555555544456889999999999999999998653

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.79  E-value=0.00057  Score=54.24  Aligned_cols=24  Identities=25%  Similarity=0.463  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|+.|+|||||++.+..-
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            468999999999999999999764

>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=96.79  E-value=0.00084  Score=50.63  Aligned_cols=25  Identities=20%  Similarity=0.304  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+++++|..|+|||||++.+..-
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            3569999999999999999999874

>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=96.79  E-value=0.001  Score=51.01  Aligned_cols=25  Identities=16%  Similarity=0.236  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.|+|+.|+||||+++.+.+.
T Consensus         5 ~~~~I~l~G~~GsGKsT~~~~L~~~   29 (194)
T 1qf9_A            5 KPNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999764

>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=96.79  E-value=0.00074  Score=56.78  Aligned_cols=25  Identities=16%  Similarity=0.283  Sum_probs=20.9

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ...+||+|.|-|||||||.+-.+--
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~   70 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSA   70 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHH
Confidence            3589999999999999998876654

>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=96.78  E-value=0.0012  Score=58.89  Aligned_cols=47  Identities=17%  Similarity=0.214  Sum_probs=37.8

Q ss_pred             CCcccchHHHHHHHHHHhcC-----------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVG-----------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~-----------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..+..|.+++...           .....-+-|+|.+|+|||+||+.+.+.
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            35899999999998877421           233556889999999999999999875

>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=96.77  E-value=0.00076  Score=51.48  Aligned_cols=25  Identities=16%  Similarity=0.154  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|+|+|..|+|||||+..+...
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            4679999999999999999999875

>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=96.77  E-value=0.0014  Score=56.23  Aligned_cols=47  Identities=19%  Similarity=0.155  Sum_probs=35.9

Q ss_pred             CCcccchHHHHHHHHHHhc----------------------------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV----------------------------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~----------------------------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..++.|...+..                            .......+-++|++|+||||||+.+.+.
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            3578999888888877621                            0112456889999999999999999885

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.77  E-value=0.00085  Score=52.28  Aligned_cols=24  Identities=21%  Similarity=0.115  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|.|+.|+||||+++.+.+.
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

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.77  E-value=0.00088  Score=51.24  Aligned_cols=23  Identities=22%  Similarity=0.127  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -.+|.++|+.|+||||+++.+.+
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            45799999999999999999975

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.76  E-value=0.00065  Score=51.64  Aligned_cols=23  Identities=17%  Similarity=0.225  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|.|+|+.|+||||+++.+...
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~   27 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKD   27 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            36899999999999999999764

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.76  E-value=0.00092  Score=53.88  Aligned_cols=25  Identities=12%  Similarity=0.300  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|+|+|..|+|||||++.+...
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            3579999999999999999998773

>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=96.76  E-value=0.00076  Score=52.80  Aligned_cols=25  Identities=12%  Similarity=0.324  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-++|+|+|+.|+|||||++.+...
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            3578999999999999999999874

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.75  E-value=0.00082  Score=51.90  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|+|+.|+||||+++.+...
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

>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=96.74  E-value=0.00088  Score=51.48  Aligned_cols=25  Identities=24%  Similarity=0.231  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.|+|+.|+||||+++.+.+.
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            3568999999999999999999775

>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=96.73  E-value=0.00085  Score=53.40  Aligned_cols=24  Identities=13%  Similarity=0.120  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|+.|+|||||++.+...
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcc
Confidence            568999999999999999999875

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.73  E-value=0.0015  Score=53.01  Aligned_cols=41  Identities=20%  Similarity=0.219  Sum_probs=29.8

Q ss_pred             hHHHHHHHHHHhcC---CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          166 EDEIEELLDLLIVG---EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       166 ~~~~~~l~~~L~~~---~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +...+.++..++.+   .....+|.++|++|+||||+++.+...
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            34445555545432   244689999999999999999999774

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.72  E-value=0.0008  Score=54.58  Aligned_cols=22  Identities=18%  Similarity=0.228  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      -.+|+|+|+.|+|||||++.+.
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            4699999999999999999997

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.71  E-value=0.0014  Score=57.40  Aligned_cols=47  Identities=26%  Similarity=0.377  Sum_probs=37.6

Q ss_pred             CCcccchHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV-----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.|.+..++.|.+.+..           +-...+-|-++|++|+|||+||+.|.+.
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            4588999999998876421           2244677889999999999999999985

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.71  E-value=0.0015  Score=57.30  Aligned_cols=47  Identities=28%  Similarity=0.313  Sum_probs=37.1

Q ss_pred             CCcccchHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV-----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.|.+..++.|.+.+.-           +-...+=|-++|++|+|||+||+.|.+.
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            3578899988888776531           2234677889999999999999999885

>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=96.70  E-value=0.0022  Score=53.64  Aligned_cols=26  Identities=19%  Similarity=0.206  Sum_probs=23.1

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....+|+|+|..|+|||||++.+..-
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            34689999999999999999999874

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.70  E-value=0.00098  Score=50.07  Aligned_cols=22  Identities=9%  Similarity=0.052  Sum_probs=20.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .|.|.|+.|+||||+++.+.+.
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            5899999999999999999774

>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=96.70  E-value=0.0018  Score=52.14  Aligned_cols=39  Identities=13%  Similarity=-0.043  Sum_probs=27.8

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          168 EIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       168 ~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+.++...+........+|.|.|+.|+||||+++.+.+.
T Consensus        14 ~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~~   52 (243)
T 3tlx_A           14 LLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKKS   52 (243)
T ss_dssp             HHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            344444433332235778999999999999999999764

>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=96.69  E-value=0.00095  Score=55.85  Aligned_cols=25  Identities=24%  Similarity=0.202  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|+|+|.+|+|||||++.+..-
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            4679999999999999999999864

>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=96.67  E-value=0.00091  Score=53.77  Aligned_cols=23  Identities=26%  Similarity=0.166  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||++.+.-
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

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.67  E-value=0.00097  Score=53.84  Aligned_cols=25  Identities=16%  Similarity=0.117  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .. .+++|+|..|+|||||++.+.--
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCC
Confidence            35 79999999999999999999873

>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=96.67  E-value=0.001  Score=51.70  Aligned_cols=25  Identities=24%  Similarity=0.207  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.|+|+.|+||||+++.+...
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            3568999999999999999999764

>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=96.66  E-value=0.0021  Score=57.03  Aligned_cols=47  Identities=26%  Similarity=0.319  Sum_probs=34.8

Q ss_pred             CCcccchHHHHHHHHHHhc--C--------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV--G--------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~--~--------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+++|.+++..  .        -.-.+-|.++|++|+||||||+.|.+.
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            4689999888777776421  1        112234779999999999999999985

>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=96.66  E-value=0.00075  Score=51.62  Aligned_cols=23  Identities=17%  Similarity=0.170  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|.|+|+.|+||||+|+.+...
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            36899999999999999998663

>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=96.65  E-value=0.0011  Score=52.35  Aligned_cols=39  Identities=18%  Similarity=0.184  Sum_probs=28.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccc----cCCCeeEEEe
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAK----NYFDCRAWVG  220 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~----~~F~~~~wV~  220 (241)
                      .-.+++|+|..|+|||||++.+.......    ..-...+|+.
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            35799999999999999999997632111    1234577887

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.65  E-value=0.0009  Score=53.39  Aligned_cols=23  Identities=26%  Similarity=0.115  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+..
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            35899999999999999999986

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.64  E-value=0.0014  Score=56.87  Aligned_cols=47  Identities=23%  Similarity=0.294  Sum_probs=36.9

Q ss_pred             CCcccchHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV-----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++.|.+..+++|.+.+.-           +-...+-|-++|++|+|||.||+.|.+.
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            4578999998888876531           2234567889999999999999999885

>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=96.64  E-value=0.0011  Score=51.86  Aligned_cols=24  Identities=8%  Similarity=0.059  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|+|+.|+||||+++.+.+.
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            468999999999999999999875

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.64  E-value=0.0012  Score=55.10  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+++|+|..|+|||||++.+...
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            4579999999999999999999875

>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=96.64  E-value=0.00091  Score=50.47  Aligned_cols=23  Identities=22%  Similarity=0.199  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|.|+|+.|+||||+++.+.+.
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            46999999999999999999774

>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=96.63  E-value=0.0012  Score=54.52  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=22.1

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ....+|+|+|+.|+||||+++.+-.
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999999999873

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.62  E-value=0.00066  Score=51.91  Aligned_cols=24  Identities=29%  Similarity=0.321  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+++|+|..|+|||||++.+..-
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            368999999999999999999874

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.60  E-value=0.0011  Score=51.64  Aligned_cols=24  Identities=8%  Similarity=-0.094  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|.|+.|+||||+++.+.+.
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            468999999999999999999875

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.60  E-value=0.0022  Score=57.27  Aligned_cols=43  Identities=19%  Similarity=0.162  Sum_probs=35.7

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..++.+...+..+    .-+-++|++|+|||+||+.+.+.
T Consensus        22 ~~ivGq~~~i~~l~~al~~~----~~VLL~GpPGtGKT~LAraLa~~   64 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFA   64 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT----CEEEEECCSSSSHHHHHHHGGGG
T ss_pred             hhhHHHHHHHHHHHHHHhcC----CeeEeecCchHHHHHHHHHHHHH
Confidence            35789999888888877664    35779999999999999999875

>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=96.59  E-value=0.003  Score=49.44  Aligned_cols=43  Identities=14%  Similarity=0.035  Sum_probs=31.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHH
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVL  229 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il  229 (241)
                      .-.++.|+|.+|+|||||++.+.. .    .=..++|++  ..++...+.
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            356899999999999999999987 1    113567777  445655544

>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=96.59  E-value=0.0047  Score=49.03  Aligned_cols=47  Identities=9%  Similarity=-0.034  Sum_probs=32.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcccccc----CCCeeEEEe--CCCCHHHH
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKN----YFDCRAWVG--CEYYLHKV  228 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~----~F~~~~wV~--~~~~~~~i  228 (241)
                      .-.++.|+|.+|+|||||++.+........    .-..++|+.  ..++...+
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~   75 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL   75 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHH
Confidence            346999999999999999999987422211    124578888  44455444

>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=96.59  E-value=0.0015  Score=51.38  Aligned_cols=23  Identities=30%  Similarity=0.442  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ..+|+|+|+.|+||||+++.+..
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

>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=96.58  E-value=0.0014  Score=49.88  Aligned_cols=24  Identities=25%  Similarity=0.093  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+|.|+|+.|+||||+++.+...
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            468999999999999999999774

>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=96.58  E-value=0.0022  Score=57.01  Aligned_cols=25  Identities=28%  Similarity=0.499  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|+|+|..|+|||||++.+...
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgl  316 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQ  316 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHH
Confidence            4679999999999999999999874

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.58  E-value=0.00083  Score=51.18  Aligned_cols=24  Identities=29%  Similarity=0.176  Sum_probs=17.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|.|+.|+||||+++.+.+.
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            468999999999999999999753

>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=96.57  E-value=0.0044  Score=51.19  Aligned_cols=51  Identities=12%  Similarity=0.083  Sum_probs=33.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCC-eeEEEeCCCCHHHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFD-CRAWVGCEYYLHKVLDSIIKS  235 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~-~~~wV~~~~~~~~il~~Il~~  235 (241)
                      -.+++|+|.+|+|||||++.+.......  -. .++|+....+...+...++..
T Consensus        35 G~~~~i~G~~G~GKTTl~~~ia~~~~~~--~G~~v~~~~~e~~~~~~~~r~~~~   86 (296)
T 1cr0_A           35 GEVIMVTSGSGMGKSTFVRQQALQWGTA--MGKKVGLAMLEESVEETAEDLIGL   86 (296)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHHHHHT--SCCCEEEEESSSCHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHH--cCCeEEEEeCcCCHHHHHHHHHHH
Confidence            4689999999999999999998763322  22 455666223445555554443

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.57  E-value=0.0026  Score=53.55  Aligned_cols=26  Identities=31%  Similarity=0.291  Sum_probs=22.9

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....+|+|+|.+|+||||++..+...
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~  128 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANY  128 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34689999999999999999998764

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.57  E-value=0.00079  Score=53.67  Aligned_cols=22  Identities=27%  Similarity=0.306  Sum_probs=16.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      -.+|+|+|+.|+|||||++.+.
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

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.57  E-value=0.0018  Score=57.03  Aligned_cols=47  Identities=26%  Similarity=0.309  Sum_probs=37.3

Q ss_pred             CCcccchHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV-----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.|.+..++.|.+.+.-           +-...+-|-++|++|+|||+||+.|.+.
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            3588999999988876421           2244677889999999999999999885

>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=96.57  E-value=0.0013  Score=50.32  Aligned_cols=25  Identities=20%  Similarity=0.179  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+++|+|..|+|||||++.+...
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            4679999999999999999998875

>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=96.56  E-value=0.0016  Score=51.16  Aligned_cols=25  Identities=20%  Similarity=0.143  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|.|+|+.|+||||+++.+...
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~   48 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQ   48 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999998774

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.56  E-value=0.0012  Score=53.99  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||++.+.-
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

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.55  E-value=0.00097  Score=52.64  Aligned_cols=23  Identities=30%  Similarity=0.176  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|..|+|||||++.+.--
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            47999999999999999999864

>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=96.55  E-value=0.0014  Score=50.79  Aligned_cols=24  Identities=13%  Similarity=0.016  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|.|+.|+||||+++.+.+.
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            357999999999999999999885

>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=96.55  E-value=0.0012  Score=53.09  Aligned_cols=24  Identities=25%  Similarity=0.373  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
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            458999999999999999999874

>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=96.54  E-value=0.0015  Score=50.82  Aligned_cols=25  Identities=16%  Similarity=0.308  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|+|+|+.|+||||+++.+-+.
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHh
Confidence            4689999999999999999998774

>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=96.53  E-value=0.0013  Score=53.28  Aligned_cols=24  Identities=17%  Similarity=0.192  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999983

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.53  E-value=0.0013  Score=52.25  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|+|+.|+||||+++.+.+.
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            468999999999999999999764

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.53  E-value=0.0013  Score=54.58  Aligned_cols=26  Identities=19%  Similarity=0.248  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .....+-++|++|+|||+||+.|.+.
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34567889999999999999999986

>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=96.53  E-value=0.0012  Score=53.22  Aligned_cols=24  Identities=25%  Similarity=0.225  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
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

>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=96.53  E-value=0.0024  Score=56.16  Aligned_cols=45  Identities=20%  Similarity=0.199  Sum_probs=30.6

Q ss_pred             Ccc-cchHH--HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIM-GLEDE--IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~v-G~~~~--~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++ |....  ...+..+...... ...+.|+|++|+||||||+.+.+.
T Consensus       106 ~fv~g~~n~~a~~~~~~~a~~~~~-~~~lll~Gp~G~GKTtLa~aia~~  153 (440)
T 2z4s_A          106 NFVVGPGNSFAYHAALEVAKHPGR-YNPLFIYGGVGLGKTHLLQSIGNY  153 (440)
T ss_dssp             GCCCCTTTHHHHHHHHHHHHSTTS-SCCEEEECSSSSSHHHHHHHHHHH
T ss_pred             hcCCCCchHHHHHHHHHHHhCCCC-CCeEEEECCCCCCHHHHHHHHHHH
Confidence            344 64332  3334444433322 778999999999999999999986

>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=96.52  E-value=0.0012  Score=53.76  Aligned_cols=24  Identities=17%  Similarity=0.142  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999863

>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=96.52  E-value=0.0013  Score=54.17  Aligned_cols=23  Identities=22%  Similarity=0.280  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||++.+.-
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            35899999999999999999986

>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=96.50  E-value=0.0013  Score=52.62  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
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            358999999999999999999874

>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=96.50  E-value=0.0015  Score=53.64  Aligned_cols=24  Identities=21%  Similarity=0.242  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
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            458999999999999999999984

>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=96.50  E-value=0.0013  Score=53.83  Aligned_cols=24  Identities=25%  Similarity=0.206  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHcC
Confidence            468999999999999999999873

>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=96.50  E-value=0.0014  Score=52.83  Aligned_cols=24  Identities=25%  Similarity=0.127  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999863

>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=96.48  E-value=0.0014  Score=53.66  Aligned_cols=23  Identities=26%  Similarity=0.257  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+..
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            46899999999999999999986

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.48  E-value=0.0018  Score=55.47  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|+|+|..|+|||||++.+...
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            4679999999999999999999875

>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=96.48  E-value=0.0014  Score=55.31  Aligned_cols=45  Identities=22%  Similarity=0.133  Sum_probs=32.8

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..+..+...+....  ..-+-++|.+|+|||+||+.+.+.
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            358999886665544443322  233889999999999999999985

>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=96.47  E-value=0.0016  Score=51.40  Aligned_cols=24  Identities=17%  Similarity=0.205  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|.|+|+.|+||||+++.+.+.
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            457999999999999999999764

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.47  E-value=0.0019  Score=51.33  Aligned_cols=26  Identities=12%  Similarity=0.208  Sum_probs=23.8

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+.+||-|.|++|+||||.|+.+.+.
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            56899999999999999999999875

>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=96.47  E-value=0.0012  Score=52.44  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|..|+|||||++.+..-
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            57999999999999999999873

>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=96.46  E-value=0.0014  Score=53.07  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999999773

>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=96.45  E-value=0.0032  Score=55.37  Aligned_cols=47  Identities=21%  Similarity=0.222  Sum_probs=36.4

Q ss_pred             CCcccchHHHHHHHHHHhc------------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV------------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~------------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..++.|...+..            .+...+-|-++|++|+||||||+.+.+.
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            4589999988888776632            1123456889999999999999999885

>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=96.45  E-value=0.0018  Score=49.89  Aligned_cols=26  Identities=35%  Similarity=0.579  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ....|+|+|..|+|||||++.+....
T Consensus        28 ~~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           28 YLFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcCC
Confidence            35789999999999999999998753

>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=96.45  E-value=0.0015  Score=53.29  Aligned_cols=24  Identities=21%  Similarity=0.101  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999873

>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=96.43  E-value=0.0015  Score=54.47  Aligned_cols=25  Identities=16%  Similarity=0.151  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|+++|.+|+||||++..+...
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            4579999999999999999998865

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.42  E-value=0.0015  Score=53.32  Aligned_cols=24  Identities=29%  Similarity=0.322  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
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            458999999999999999999864

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.42  E-value=0.0015  Score=53.68  Aligned_cols=24  Identities=29%  Similarity=0.249  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999873

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.41  E-value=0.0015  Score=51.70  Aligned_cols=24  Identities=17%  Similarity=0.046  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|.|.|+.|+||||+++.+.+.
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            457999999999999999999875

>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=96.40  E-value=0.0016  Score=52.79  Aligned_cols=23  Identities=22%  Similarity=0.299  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|..|+|||||++.+.--
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            58999999999999999999874

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.40  E-value=0.0016  Score=53.74  Aligned_cols=24  Identities=17%  Similarity=-0.045  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
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

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.39  E-value=0.002  Score=52.61  Aligned_cols=24  Identities=13%  Similarity=0.283  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .-.+++|+|+.|+|||||++.+..
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            457999999999999999999876

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.39  E-value=0.0016  Score=53.29  Aligned_cols=24  Identities=17%  Similarity=0.111  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            458999999999999999999873

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.38  E-value=0.002  Score=50.05  Aligned_cols=21  Identities=33%  Similarity=0.317  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHh
Q 042580          185 IVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +|+|.|+.|+||||+++.+..
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            899999999999999999866

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.38  E-value=0.0023  Score=53.57  Aligned_cols=25  Identities=28%  Similarity=0.452  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|+|+|.+|+||||++..+...
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            4689999999999999999999875

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.37  E-value=0.0017  Score=52.78  Aligned_cols=24  Identities=21%  Similarity=0.252  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999874

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=96.34  E-value=0.0019  Score=52.98  Aligned_cols=22  Identities=23%  Similarity=0.569  Sum_probs=20.2

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|+|..|+|||||++.++.-
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            6899999999999999999973

>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=96.34  E-value=0.002  Score=49.80  Aligned_cols=24  Identities=38%  Similarity=0.641  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|+|+|..|+|||||++.+...
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            457899999999999999999875

>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=96.34  E-value=0.0027  Score=47.44  Aligned_cols=24  Identities=17%  Similarity=0.357  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|+|+|.+|+|||||.+.+...
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            357899999999999999999874

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.33  E-value=0.0048  Score=55.12  Aligned_cols=48  Identities=25%  Similarity=0.316  Sum_probs=34.7

Q ss_pred             cCCcccchHHHHHHHHHHhc--CC--------CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          159 KRNIMGLEDEIEELLDLLIV--GE--------PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~~--~~--------~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|.+..+.++.+++..  ..        .-.+-+.|+|++|+||||||+.|.+.
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            34689998887777765421  10        11223899999999999999999874

>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=96.33  E-value=0.0015  Score=52.06  Aligned_cols=25  Identities=32%  Similarity=0.353  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|+|.|..|+|||||++.+...
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            4579999999999999999998875

>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=96.32  E-value=0.0042  Score=56.09  Aligned_cols=47  Identities=26%  Similarity=0.319  Sum_probs=36.0

Q ss_pred             CCcccchHHHHHHHHHHh----cCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLI----VGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~----~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.++.++.+.+.+.    .......++.++|++|+||||||+.+...
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            347898888877766542    12234668999999999999999999875

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.30  E-value=0.0018  Score=52.59  Aligned_cols=24  Identities=21%  Similarity=0.064  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+|+|+|+.|+||||+++.+...
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~   71 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARS   71 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            347999999999999999999763

>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=96.29  E-value=0.003  Score=48.01  Aligned_cols=26  Identities=12%  Similarity=0.120  Sum_probs=22.9

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....-|.|+|.+|+|||||.+.+.+.
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            45678899999999999999999875

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.29  E-value=0.004  Score=54.60  Aligned_cols=39  Identities=21%  Similarity=0.135  Sum_probs=29.0

Q ss_pred             HHHHHHHHHhcC-------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          168 EIEELLDLLIVG-------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       168 ~~~~l~~~L~~~-------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.++|.++|...       ....++|.|+|.+|+||||++-++...
T Consensus        78 ~~~~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~LA~~  123 (433)
T 2xxa_A           78 VRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLGKF  123 (433)
T ss_dssp             HHHHHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            355566666432       135789999999999999999988754

>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=96.27  E-value=0.0027  Score=46.72  Aligned_cols=23  Identities=22%  Similarity=0.404  Sum_probs=20.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.++|.+|+|||||++.+..+.
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            48899999999999999998753

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=96.27  E-value=0.0032  Score=47.84  Aligned_cols=24  Identities=17%  Similarity=0.357  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|+|+|.+|+|||||++.+...
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            467999999999999999999874

>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=96.27  E-value=0.0048  Score=49.23  Aligned_cols=27  Identities=22%  Similarity=0.281  Sum_probs=23.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      .-.+|.|.|+.|+||||+++.+.+.-.
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            457899999999999999999998643

>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=96.26  E-value=0.0049  Score=53.07  Aligned_cols=37  Identities=16%  Similarity=0.126  Sum_probs=26.9

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          170 EELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       170 ~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+++-+.-+-..-.+|+|+|+.|+|||||++.+...
T Consensus       156 ~~~l~~~~~~i~~~~~i~l~G~~GsGKSTl~~~l~~~  192 (377)
T 1svm_A          156 YDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLEL  192 (377)
T ss_dssp             HHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHhcccccCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3444444323344679999999999999999999863

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.26  E-value=0.0031  Score=46.42  Aligned_cols=24  Identities=21%  Similarity=0.326  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .-|.|+|.+|+|||||++.+.+..
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            468999999999999999998753

>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=96.26  E-value=0.0028  Score=51.17  Aligned_cols=26  Identities=35%  Similarity=0.434  Sum_probs=22.6

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....++.+.|.||+|||||+..+...
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~   37 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRY   37 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHH
Confidence            45788899999999999999999754

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.26  E-value=0.0026  Score=53.95  Aligned_cols=23  Identities=30%  Similarity=0.489  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|+|+|+.|+||||||+.+...
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            58999999999999999998875

>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=96.24  E-value=0.0021  Score=49.00  Aligned_cols=22  Identities=32%  Similarity=0.453  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|+|+|.+|+|||||++.+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999873

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.24  E-value=0.0043  Score=54.17  Aligned_cols=47  Identities=30%  Similarity=0.341  Sum_probs=36.9

Q ss_pred             CCcccchHHHHHHHHHHhc-----------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV-----------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++.|.++.+++|.+.+.-           +-...+=|-++|++|+|||.||+.|.+.
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            3477899988888776521           1244677889999999999999999985

>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=96.24  E-value=0.0026  Score=47.17  Aligned_cols=25  Identities=16%  Similarity=0.254  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|.+|+|||||++.+.+..
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            4568899999999999999998753

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=96.23  E-value=0.0056  Score=46.73  Aligned_cols=27  Identities=15%  Similarity=0.068  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .....|.|+|.+|+|||||++.+.+..
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345688999999999999999998754

>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=96.23  E-value=0.0027  Score=50.98  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|+|.|+.|+||||+++.+...
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            468999999999999999999753

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.23  E-value=0.0023  Score=52.34  Aligned_cols=23  Identities=26%  Similarity=0.199  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|..|+|||||++.+..-
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            48999999999999999999864

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.22  E-value=0.0022  Score=50.57  Aligned_cols=23  Identities=13%  Similarity=0.135  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..|.|.|+.|+||||+++.+.+.
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

>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=96.19  E-value=0.0043  Score=54.37  Aligned_cols=25  Identities=36%  Similarity=0.401  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.++|.+|+||||++..+...
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            4789999999999999999998764

>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=96.18  E-value=0.012  Score=48.86  Aligned_cols=24  Identities=29%  Similarity=0.416  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|+++|.+|+||||++..+...
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

>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=96.18  E-value=0.0022  Score=53.70  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+..
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

>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=96.17  E-value=0.0034  Score=46.37  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..-|.|+|.+|+|||||++.+.+..
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCc
Confidence            3568899999999999999998754

>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=96.17  E-value=0.0027  Score=53.04  Aligned_cols=25  Identities=12%  Similarity=0.113  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+++|+|+.|+|||||++.+..-
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhh
Confidence            4578999999999999999998753

>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=96.17  E-value=0.0032  Score=54.89  Aligned_cols=25  Identities=28%  Similarity=0.466  Sum_probs=22.9

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ....+++|+|..|+|||||.+.+..
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

>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=96.17  E-value=0.0031  Score=52.12  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|.|+|++|+||||+++.+...
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            68999999999999999999863

>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=96.17  E-value=0.0034  Score=46.42  Aligned_cols=24  Identities=13%  Similarity=0.346  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      --|+|+|.+|+|||||.+.+.+..
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            358899999999999999998753

>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=96.17  E-value=0.0038  Score=46.36  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|.+|+|||||++.+.++.
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            4568999999999999999998753

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.17  E-value=0.0029  Score=49.77  Aligned_cols=24  Identities=29%  Similarity=0.401  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|.+|+|||||++.+...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999864

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.16  E-value=0.005  Score=51.47  Aligned_cols=40  Identities=13%  Similarity=0.137  Sum_probs=28.8

Q ss_pred             HHHHHHHHHhcCCC-CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          168 EIEELLDLLIVGEP-SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       168 ~~~~l~~~L~~~~~-~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ....+.+++..-.. ....+-++|..|+|||+||+.+.+..
T Consensus       136 ~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          136 AFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            34455566654221 24678899999999999999999863

>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=96.15  E-value=0.003  Score=47.21  Aligned_cols=25  Identities=28%  Similarity=0.492  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|+|+|.+|+|||||++.+.+..
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEEECCCCccHHHHHHHHhcCC
Confidence            4568999999999999999998754

>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=96.15  E-value=0.0084  Score=51.02  Aligned_cols=54  Identities=15%  Similarity=0.167  Sum_probs=34.9

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCC----CeeEEEe--CCCCHHHHHHHHHHH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYF----DCRAWVG--CEYYLHKVLDSIIKS  235 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F----~~~~wV~--~~~~~~~il~~Il~~  235 (241)
                      ..-.++.|+|..|+|||||++.+.-........    ..++|++  ..+....| ..+++.
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~  188 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQN  188 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHH
Confidence            346899999999999999999998752111111    2458888  44444443 334443

>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=96.15  E-value=0.0027  Score=53.31  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++.+++|+|+.|+|||||++.+...
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            4789999999999999999999965

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=96.14  E-value=0.0035  Score=50.16  Aligned_cols=25  Identities=20%  Similarity=0.157  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...|.|.|..|+||||+++.+.+.-
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998754

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.14  E-value=0.0055  Score=56.01  Aligned_cols=43  Identities=16%  Similarity=0.210  Sum_probs=35.9

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..++.+...+..+    ..+.|+|..|+||||||+.+..-
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            35889988887777777554    48899999999999999999885

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.13  E-value=0.0052  Score=57.68  Aligned_cols=47  Identities=13%  Similarity=0.258  Sum_probs=37.6

Q ss_pred             CCcccchHHHHHHHHHHhcC-------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVG-------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~-------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..++.+...+...       ......+-++|++|+|||+||+.+.+.
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            45899999998888887531       122347899999999999999999875

>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=96.13  E-value=0.003  Score=48.10  Aligned_cols=24  Identities=21%  Similarity=0.458  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      --|.|+|.+|+|||||++.+..+.
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            468899999999999999998754

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.12  E-value=0.012  Score=50.97  Aligned_cols=54  Identities=9%  Similarity=0.017  Sum_probs=34.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcccc----ccCCCeeEEEe--CCCCHHHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYA----KNYFDCRAWVG--CEYYLHKVLDSIIKSV  236 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v----~~~F~~~~wV~--~~~~~~~il~~Il~~l  236 (241)
                      .-.++.|+|.+|+|||||+..+.-....    ...-..++|++  ..++...+. .+++++
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~  236 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRF  236 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHT
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHc
Confidence            3579999999999999999977532111    11234578888  446655443 344444

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=96.12  E-value=0.0048  Score=46.23  Aligned_cols=25  Identities=20%  Similarity=0.267  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +...|.|+|.+|+|||||++.+.+.
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            4677899999999999999999764

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.12  E-value=0.0033  Score=50.20  Aligned_cols=25  Identities=20%  Similarity=0.113  Sum_probs=22.3

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ....+|+|+|+.|+||||+++.+..
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            4567899999999999999999876

>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=96.11  E-value=0.0031  Score=48.05  Aligned_cols=24  Identities=21%  Similarity=0.106  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .--|.|+|.+|+|||||++.+.+.
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            456889999999999999988763

>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=96.11  E-value=0.0027  Score=52.69  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+..-
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            468999999999999999999874

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=96.08  E-value=0.0091  Score=48.65  Aligned_cols=39  Identities=18%  Similarity=0.299  Sum_probs=28.5

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +.+++..+.........|.++|..|+|||||.+.+....
T Consensus        25 l~~~~~~~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           25 LLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHhhcCCCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            334444444444456788999999999999999998754

>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=96.08  E-value=0.0031  Score=53.87  Aligned_cols=23  Identities=30%  Similarity=0.244  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||.+.|.-
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            45899999999999999999987

>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=96.08  E-value=0.0041  Score=45.86  Aligned_cols=24  Identities=17%  Similarity=0.411  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      --|+|+|..|+|||||++.+.+..
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            458999999999999999987653

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=96.07  E-value=0.0036  Score=46.47  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      --|.|+|.+|+|||||++.+.+.
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            45789999999999999999874

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.07  E-value=0.0016  Score=54.03  Aligned_cols=25  Identities=16%  Similarity=0.174  Sum_probs=19.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +..+|+|.|..|+||||+++.+.+.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~   28 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQI   28 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999998774

>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=96.07  E-value=0.0045  Score=58.34  Aligned_cols=47  Identities=19%  Similarity=0.245  Sum_probs=36.4

Q ss_pred             CCcccchHHHHHHHHHHh----c-------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLI----V-------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~----~-------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.|.++.+++|.+++.    .       +-...+-|-++|++|+|||+||+.|.+.
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~e  261 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE  261 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTT
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            457888888888777652    1       1134567889999999999999999986

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.06  E-value=0.007  Score=51.25  Aligned_cols=34  Identities=21%  Similarity=0.248  Sum_probs=25.9

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          172 LLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       172 l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +++-+.-.-..-.+++|+|..|+|||||.+.+..
T Consensus        44 ~l~~i~~~~~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           44 LIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             HHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHhCCcccCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4444432234578999999999999999999974

>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=96.05  E-value=0.0037  Score=49.84  Aligned_cols=24  Identities=21%  Similarity=0.166  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|.|.|+.|+||||+++.+.+.
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            457999999999999999999764

>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=96.05  E-value=0.0034  Score=53.73  Aligned_cols=24  Identities=21%  Similarity=0.149  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|+.|+|||||++.+.--
T Consensus        54 Gei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           54 GQIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEEcCCCchHHHHHHHHhcC
Confidence            468999999999999999999873

>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=96.04  E-value=0.0036  Score=47.26  Aligned_cols=23  Identities=17%  Similarity=0.244  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..|+|+|.+|+|||||.+.+...
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            46889999999999999999875

>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=96.04  E-value=0.0037  Score=46.35  Aligned_cols=23  Identities=13%  Similarity=0.290  Sum_probs=20.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|..|+|||||++.+.++.
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            47899999999999999988754

>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=96.04  E-value=0.0037  Score=46.36  Aligned_cols=25  Identities=16%  Similarity=0.343  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|..|+|||||++.+.+..
T Consensus         6 ~~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            6 ELKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3468899999999999999998754

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.03  E-value=0.014  Score=48.81  Aligned_cols=53  Identities=19%  Similarity=0.141  Sum_probs=38.3

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEeCCCCHHHHHHHHHHH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIKS  235 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~~~~~~~~il~~Il~~  235 (241)
                      ..-.++-|.|.+|+|||||+..+..+...++  ..++|++-.-+..++...++..
T Consensus        66 ~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE~s~~~l~~R~~~~  118 (315)
T 3bh0_A           66 KRRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLEMGKKENIKRLIVT  118 (315)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESSSCHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECCCCHHHHHHHHHHH
Confidence            3457899999999999999999887643333  5678888335566666666554

>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=96.03  E-value=0.0084  Score=50.78  Aligned_cols=35  Identities=20%  Similarity=0.252  Sum_probs=26.0

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          171 ELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       171 ~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .++.-+.-...+..+|+|+|.+|+|||||++.+..
T Consensus        44 ~~~~~l~~~~~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           44 QLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             HHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             HHHHhCCcccCCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            34443332234588999999999999999999864

>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=96.02  E-value=0.0043  Score=46.85  Aligned_cols=26  Identities=15%  Similarity=0.414  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|.+|+|||||++.+.++.
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCC
Confidence            45678999999999999999998753

>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=96.02  E-value=0.0044  Score=46.89  Aligned_cols=25  Identities=20%  Similarity=0.404  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|..|+|||||++.+.++.
T Consensus         4 ~~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            4 EYKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHhCC
Confidence            3458899999999999999998754

>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=96.01  E-value=0.0043  Score=47.16  Aligned_cols=26  Identities=19%  Similarity=0.164  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|.+|+|||||++.+.++.
T Consensus         6 ~~~ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            6 VKCKIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEEECCCCCCHHHHHHHHhcCC
Confidence            35568899999999999999998753

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=96.01  E-value=0.0035  Score=54.95  Aligned_cols=25  Identities=24%  Similarity=0.243  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|+|+|.+|+||||++..+...
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~  122 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARY  122 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999988774

>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=96.01  E-value=0.0043  Score=51.54  Aligned_cols=25  Identities=24%  Similarity=0.100  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|+|+|.+|+||||++..+...
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            3679999999999999999999875

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.00  E-value=0.0037  Score=53.40  Aligned_cols=23  Identities=26%  Similarity=0.206  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||.+.|.-
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            46899999999999999999986

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.00  E-value=0.0042  Score=52.27  Aligned_cols=24  Identities=17%  Similarity=0.156  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|+|+.|+|||||++.+...
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999875

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.99  E-value=0.0064  Score=54.31  Aligned_cols=25  Identities=20%  Similarity=0.171  Sum_probs=21.0

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ....+|+|+|.+|+||||++.++..
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~  123 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAY  123 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999999999884

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=95.99  E-value=0.011  Score=47.95  Aligned_cols=39  Identities=15%  Similarity=0.267  Sum_probs=28.7

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +.++...+.....+...|+|+|..|+|||||+..+....
T Consensus        22 l~~~~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           22 LIEFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            334444444443456789999999999999999998754

>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=95.98  E-value=0.016  Score=48.46  Aligned_cols=54  Identities=11%  Similarity=0.136  Sum_probs=37.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcccccc---------CC-----CeeEEEe--CCCCHHHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKN---------YF-----DCRAWVG--CEYYLHKVLDSIIKSV  236 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~---------~F-----~~~~wV~--~~~~~~~il~~Il~~l  236 (241)
                      .-.++-|+|.+|+||||||..+.-+.....         ..     ..++|++  ..|+...+.. +++.+
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~  166 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHA  166 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHc
Confidence            457999999999999999999886522211         11     3678888  6677776653 34444

>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=95.97  E-value=0.0037  Score=54.50  Aligned_cols=26  Identities=31%  Similarity=0.408  Sum_probs=23.1

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....+|.|+|++|+||||+|+.+...
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999999998764

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.97  E-value=0.0051  Score=52.06  Aligned_cols=25  Identities=12%  Similarity=0.258  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +..+|.|+|+.|+|||||+..+...
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            3569999999999999999999885

>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=95.96  E-value=0.0041  Score=46.22  Aligned_cols=23  Identities=39%  Similarity=0.613  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +--|.|+|.+|+|||||++.+..
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHh
Confidence            34589999999999999999864

>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=95.96  E-value=0.0043  Score=46.51  Aligned_cols=25  Identities=28%  Similarity=0.555  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            4568999999999999999998643

>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=95.95  E-value=0.0033  Score=46.60  Aligned_cols=22  Identities=23%  Similarity=0.232  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.|+|.+|+|||||.+.+.+.
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

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.95  E-value=0.0041  Score=53.28  Aligned_cols=23  Identities=22%  Similarity=0.182  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||.+.|.-
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

>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=95.95  E-value=0.0049  Score=46.11  Aligned_cols=26  Identities=19%  Similarity=0.354  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|..|+|||||++.+.+..
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            45678999999999999999998754

>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=95.94  E-value=0.004  Score=53.23  Aligned_cols=23  Identities=30%  Similarity=0.151  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||.+.|.-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHC
Confidence            45899999999999999999987

>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=95.94  E-value=0.0052  Score=51.52  Aligned_cols=24  Identities=29%  Similarity=0.219  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|.|+|+.|+|||||+..+...
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            468999999999999999999764

>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=95.94  E-value=0.007  Score=45.35  Aligned_cols=26  Identities=15%  Similarity=0.267  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|..|+|||||++.+.+..
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCc
Confidence            45679999999999999999998753

>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=95.93  E-value=0.0042  Score=53.53  Aligned_cols=23  Identities=26%  Similarity=0.216  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||++.|.-
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHc
Confidence            45899999999999999999987

>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=95.93  E-value=0.0049  Score=46.46  Aligned_cols=26  Identities=15%  Similarity=0.176  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|..|+|||||++.+.++.
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~~~   30 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVEGQ   30 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCC
Confidence            35678999999999999999998643

>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=95.93  E-value=0.0046  Score=47.05  Aligned_cols=22  Identities=32%  Similarity=0.348  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+.+|+|..|+|||||+..|+-
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            4889999999999999999964

>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=95.93  E-value=0.0044  Score=45.98  Aligned_cols=25  Identities=16%  Similarity=0.391  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|..|+|||||.+.+.++.
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            3 IMKILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            3468999999999999999998653

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.92  E-value=0.005  Score=46.17  Aligned_cols=25  Identities=12%  Similarity=0.216  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|.+|+|||||++.+.++.
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhCc
Confidence            4568899999999999999987653

>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=95.91  E-value=0.0037  Score=53.26  Aligned_cols=24  Identities=25%  Similarity=0.110  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|+.|+|||||.+.|.--
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCccHHHHHHHHHcC
Confidence            358999999999999999999873

>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=95.91  E-value=0.0052  Score=46.33  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..-|.|+|..|+|||||++.+.++.
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            5668899999999999999998754

>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=95.91  E-value=0.0046  Score=45.80  Aligned_cols=24  Identities=17%  Similarity=0.303  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .--|.|+|..|+|||||++.+...
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            6 QFKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            356889999999999999999864

>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=95.90  E-value=0.0043  Score=53.33  Aligned_cols=23  Identities=22%  Similarity=0.134  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||.+.|.-
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

>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=95.90  E-value=0.0063  Score=45.65  Aligned_cols=26  Identities=31%  Similarity=0.516  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|..|+|||||++.+.++.
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCc
Confidence            46678999999999999999987754

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=95.89  E-value=0.0038  Score=46.85  Aligned_cols=27  Identities=30%  Similarity=0.469  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...--|.|+|..|+|||||++.+.++.
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~~   33 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADNT   33 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSCC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCC
Confidence            345678999999999999999997653

>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=95.89  E-value=0.0044  Score=53.22  Aligned_cols=23  Identities=22%  Similarity=0.150  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||.+.|.-
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

>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=95.89  E-value=0.0047  Score=47.15  Aligned_cols=25  Identities=24%  Similarity=0.255  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..--|.|+|.+|+|||||++.+.+.
T Consensus        19 ~~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           19 PELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3567899999999999999877664

>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=95.89  E-value=0.011  Score=44.93  Aligned_cols=35  Identities=23%  Similarity=0.130  Sum_probs=26.4

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+.+ +..  .+..-|.|+|..|+|||||.+.+.+.
T Consensus         5 ~~~~~~-~~~--~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            5 FTRIWR-LFN--HQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHHH-HHT--TSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHH-hcC--CCccEEEEECCCCCCHHHHHHHHhcC
Confidence            344555 333  34678899999999999999999854

>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=95.89  E-value=0.012  Score=55.07  Aligned_cols=47  Identities=17%  Similarity=0.249  Sum_probs=37.0

Q ss_pred             CCcccchHHHHHHHHHHhcC-------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVG-------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~-------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..++.+...+...       ......+-++|++|+|||+||+.+.+.
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            45889999888888776431       123457899999999999999999874

>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=95.88  E-value=0.0055  Score=46.82  Aligned_cols=26  Identities=19%  Similarity=0.229  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|.+|+|||||++.+.++.
T Consensus        20 ~~~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           20 LEVNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHhCC
Confidence            35668899999999999998887653

>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=95.88  E-value=0.0084  Score=52.62  Aligned_cols=25  Identities=24%  Similarity=0.206  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.++|.+|+||||++.++...
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            4789999999999999999888764

>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=95.88  E-value=0.0034  Score=52.29  Aligned_cols=23  Identities=22%  Similarity=0.511  Sum_probs=19.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.| +|+|..|+|||||++.++..
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            444 99999999999999998763

>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=95.88  E-value=0.0043  Score=45.85  Aligned_cols=21  Identities=19%  Similarity=0.121  Sum_probs=19.1

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.|+|.+|+|||||++.+.++
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            789999999999999999764

>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=95.88  E-value=0.01  Score=51.75  Aligned_cols=25  Identities=16%  Similarity=0.179  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-.+|+|+|+.|+|||||++.+...
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhh
Confidence            4679999999999999999998773

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.88  E-value=0.012  Score=46.67  Aligned_cols=47  Identities=21%  Similarity=0.160  Sum_probs=30.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEeCCCCHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDS  231 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~~~~~~~~il~~  231 (241)
                      -.++.|+|.+|+|||||+.++.....  ..=..++|++......++...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~--~~~~~v~~~~~e~~~~~~~~~   69 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGL--KMGEPGIYVALEEHPVQVRQN   69 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHH--HTTCCEEEEESSSCHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEEccCCHHHHHHH
Confidence            46899999999999999887765422  111356777722234444433

>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=95.87  E-value=0.0055  Score=46.19  Aligned_cols=25  Identities=20%  Similarity=0.195  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|.+|+|||||++.+.++.
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCC
Confidence            3468999999999999999987653

>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=95.86  E-value=0.0049  Score=47.06  Aligned_cols=26  Identities=27%  Similarity=0.404  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|..|+|||||++.+.+..
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            46778999999999999999998754

>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=95.86  E-value=0.0048  Score=46.69  Aligned_cols=26  Identities=23%  Similarity=0.395  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|..|+|||||++.+.++.
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCC
Confidence            35678999999999999999998654

>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=95.85  E-value=0.0047  Score=50.63  Aligned_cols=24  Identities=21%  Similarity=0.104  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.++.|+|.+|+|||||+..+...
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            468999999999999999998864

>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=95.85  E-value=0.016  Score=48.60  Aligned_cols=54  Identities=11%  Similarity=0.143  Sum_probs=36.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccC----CCeeEEEe--CCCCHHHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNY----FDCRAWVG--CEYYLHKVLDSIIKSV  236 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~----F~~~~wV~--~~~~~~~il~~Il~~l  236 (241)
                      .-.++.|+|.+|+|||||+..+..+......    =..++|++  ..|+...+.. +++.+
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~  165 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKAL  165 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHT
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHh
Confidence            3568999999999999999998875221110    23678888  5577766553 34444

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.85  E-value=0.0055  Score=52.14  Aligned_cols=25  Identities=28%  Similarity=0.368  Sum_probs=22.6

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ....+|+|+|.+|+|||||.+.+..
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            3478999999999999999999986

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.83  E-value=0.0032  Score=51.14  Aligned_cols=25  Identities=20%  Similarity=0.199  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +...|.|.|..|+||||+++.+.+.
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            4689999999999999999998875

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=95.83  E-value=0.0051  Score=52.56  Aligned_cols=24  Identities=21%  Similarity=0.165  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -..++|+|..|+|||||++.+..-
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            478999999999999999998763

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.83  E-value=0.0046  Score=47.03  Aligned_cols=26  Identities=27%  Similarity=0.302  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ....|.|+|..|+|||||++.+.+..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCc
Confidence            34578899999999999999998864

>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=95.82  E-value=0.0049  Score=47.43  Aligned_cols=25  Identities=12%  Similarity=0.142  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...-|.|+|.+|+|||||++.+.+.
T Consensus        19 ~~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           19 SKPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             -CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhc
Confidence            3556899999999999999988774

>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=95.82  E-value=0.0051  Score=47.01  Aligned_cols=26  Identities=35%  Similarity=0.535  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|+|+|..|+|||||++.+.+..
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           24 FVFKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcCC
Confidence            45678999999999999999988753

>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=95.82  E-value=0.0057  Score=47.74  Aligned_cols=27  Identities=15%  Similarity=0.068  Sum_probs=23.1

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .....|.|+|.+|+|||||++.+.+..
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            346678999999999999999998754

>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=95.81  E-value=0.0059  Score=46.99  Aligned_cols=26  Identities=23%  Similarity=0.381  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|..|+|||||++.+..+.
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            45678999999999999999997654

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=95.81  E-value=0.0033  Score=53.70  Aligned_cols=23  Identities=30%  Similarity=0.208  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||.+.|.-
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999999986

>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=95.81  E-value=0.0051  Score=47.17  Aligned_cols=24  Identities=17%  Similarity=0.041  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..-|+|+|.+|+|||||++.+.++
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999999874

>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=95.81  E-value=0.0054  Score=46.10  Aligned_cols=25  Identities=12%  Similarity=0.206  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..-|.|+|.+|+|||||++.+..+.
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            4568899999999999999998753

>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=95.79  E-value=0.0053  Score=45.94  Aligned_cols=23  Identities=17%  Similarity=0.339  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      --|.|+|..|+|||||++.+.++
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            56889999999999999999864

>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=95.79  E-value=0.0053  Score=46.55  Aligned_cols=26  Identities=23%  Similarity=0.273  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|..|+|||||++.+.+..
T Consensus        10 ~~~ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           10 YLIKFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhcCC
Confidence            35678899999999999999998743

>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=95.79  E-value=0.0028  Score=49.18  Aligned_cols=26  Identities=23%  Similarity=0.184  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .-..|+|+|..|+|||||.+.+....
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            35689999999999999999987643

>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=95.79  E-value=0.014  Score=49.89  Aligned_cols=38  Identities=26%  Similarity=0.271  Sum_probs=27.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      ..-.++.|+|.+|+|||||+..+.......+  ..++|++
T Consensus        59 ~~G~i~~I~GppGsGKSTLal~la~~~~~~g--g~VlyId   96 (356)
T 3hr8_A           59 PRGRIVEIFGQESSGKTTLALHAIAEAQKMG--GVAAFID   96 (356)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEE
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEe
Confidence            3457999999999999999999987532111  2355666

>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=95.77  E-value=0.0055  Score=46.92  Aligned_cols=26  Identities=15%  Similarity=0.364  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|+|+|..|+|||||++.+.++.
T Consensus        22 ~~~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           22 RELKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             CceEEEEECcCCCCHHHHHHHHhcCC
Confidence            35678999999999999999998754

>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=95.77  E-value=0.0069  Score=50.66  Aligned_cols=26  Identities=19%  Similarity=0.079  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....+|.|+|+.|+||||||..+...
T Consensus         8 ~~~~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A            8 SLPKAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCccCHHHHHHHHHHh
Confidence            34679999999999999999999874

>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=95.77  E-value=0.0056  Score=46.07  Aligned_cols=25  Identities=20%  Similarity=0.205  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|.+|+|||||++.+.++.
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3458899999999999999998653

>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=95.76  E-value=0.0057  Score=46.96  Aligned_cols=25  Identities=20%  Similarity=0.284  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|.+|+|||||++.+.++.
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~~   52 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTKR   52 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4568899999999999999998753

>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=95.76  E-value=0.0057  Score=52.55  Aligned_cols=24  Identities=13%  Similarity=0.283  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .-.+|+|+|..|+|||||++.+..
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

>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=95.75  E-value=0.0079  Score=44.64  Aligned_cols=24  Identities=21%  Similarity=0.145  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..-|.|+|..|+|||||++.+.++
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            456899999999999999999764

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.74  E-value=0.0058  Score=46.65  Aligned_cols=25  Identities=12%  Similarity=0.255  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|+|+|..|+|||||++.+....
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            4568899999999999999998763

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=95.74  E-value=0.0073  Score=46.06  Aligned_cols=26  Identities=23%  Similarity=0.404  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|..|+|||||++.+.++.
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            45678999999999999999998754

>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=95.74  E-value=0.006  Score=50.75  Aligned_cols=26  Identities=19%  Similarity=0.277  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +...|+|+|.+|+|||||.+.+....
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~   32 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQK   32 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCC
Confidence            46789999999999999999998753

>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=95.74  E-value=0.0066  Score=47.21  Aligned_cols=26  Identities=23%  Similarity=0.056  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ....|.|+|.+|+|||||++.+.++.
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35678999999999999999998754

>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=95.73  E-value=0.0038  Score=48.27  Aligned_cols=24  Identities=13%  Similarity=0.045  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..-|+|+|.+|+|||||++.+.++
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999999763

>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=95.73  E-value=0.0045  Score=46.51  Aligned_cols=24  Identities=8%  Similarity=0.205  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .--|.|+|.+|+|||||++.+.++
T Consensus         7 ~~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            7 ELRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEEECCGGGCHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999998875

>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=95.71  E-value=0.0061  Score=45.77  Aligned_cols=26  Identities=31%  Similarity=0.374  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|..|+|||||++.+.+..
T Consensus         9 ~~~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A            9 VAFKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCC
Confidence            34568999999999999999988654

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.69  E-value=0.006  Score=51.94  Aligned_cols=25  Identities=24%  Similarity=0.287  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      =.+++|+|..|+|||||++.+.+..
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            4689999999999999999999963

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=95.68  E-value=0.007  Score=46.66  Aligned_cols=26  Identities=23%  Similarity=0.221  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|.+|+|||||++.+.+..
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            46678999999999999999998754

>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=95.67  E-value=0.0066  Score=51.83  Aligned_cols=23  Identities=17%  Similarity=0.228  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -.+|+|+|+.|+|||||++.+..
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            45999999999999999998865

>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=95.67  E-value=0.007  Score=47.13  Aligned_cols=26  Identities=19%  Similarity=0.164  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|.+|+|||||++.+.++.
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678899999999999999998753

>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=95.67  E-value=0.0064  Score=45.81  Aligned_cols=25  Identities=20%  Similarity=0.138  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...-|.|+|..|+|||||.+.+.+.
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            4677889999999999999998753

>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=95.67  E-value=0.0064  Score=46.84  Aligned_cols=25  Identities=32%  Similarity=0.513  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..-|.|+|.+|+|||||++.+.+..
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            4568999999999999999998754

>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=95.67  E-value=0.0064  Score=46.37  Aligned_cols=25  Identities=20%  Similarity=0.170  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|..|+|||||++.+.+..
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcCC
Confidence            4568899999999999999998643

>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=95.66  E-value=0.0086  Score=46.12  Aligned_cols=26  Identities=35%  Similarity=0.529  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|.+|+|||||++.+.+..
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            46678999999999999999987754

>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=95.66  E-value=0.0085  Score=46.44  Aligned_cols=25  Identities=20%  Similarity=0.195  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|..|+|||||++.+.++.
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhCC
Confidence            5567899999999999999888754

>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=95.66  E-value=0.006  Score=52.74  Aligned_cols=23  Identities=17%  Similarity=0.231  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||++.|.-
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

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.65  E-value=0.011  Score=46.57  Aligned_cols=37  Identities=16%  Similarity=0.154  Sum_probs=27.1

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|..++.. -++.+-|-|+|++|+||||+|..+.+.
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            5555565543 333456999999999999998888764

>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=95.64  E-value=0.0066  Score=46.24  Aligned_cols=25  Identities=28%  Similarity=0.479  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..-|.|+|..|+|||||++.+.++.
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            5678999999999999999998754

>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=95.64  E-value=0.0048  Score=47.59  Aligned_cols=23  Identities=39%  Similarity=0.628  Sum_probs=20.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHH
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      ...-|.|+|.+|+|||||++.+.
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            46789999999999999999984

>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=95.64  E-value=0.0076  Score=46.08  Aligned_cols=26  Identities=15%  Similarity=0.215  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|.+|+|||||++.+.+..
T Consensus        22 ~~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           22 KALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcCC
Confidence            45678899999999999999998764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.62  E-value=0.0051  Score=52.58  Aligned_cols=24  Identities=17%  Similarity=0.321  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|..|+|||||++.+..-
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            358999999999999999999873

>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=95.62  E-value=0.043  Score=46.42  Aligned_cols=50  Identities=12%  Similarity=0.052  Sum_probs=35.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcccccc----CCCeeEEEe--CCCCHHHHHH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKN----YFDCRAWVG--CEYYLHKVLD  230 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~----~F~~~~wV~--~~~~~~~il~  230 (241)
                      ..-.++.|+|.+|+|||||+..+..+.....    .=..++|++  ..|+...+..
T Consensus       120 ~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~  175 (343)
T 1v5w_A          120 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD  175 (343)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH
Confidence            4467999999999999999999887532211    124678888  6677766543

>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=95.62  E-value=0.006  Score=46.62  Aligned_cols=25  Identities=32%  Similarity=0.490  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|..|+|||||++.+.++.
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            4568899999999999999998754

>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=95.61  E-value=0.0066  Score=47.15  Aligned_cols=25  Identities=28%  Similarity=0.478  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...-|+|+|..|+|||||++.+.+.
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            4567899999999999999998764

>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=95.60  E-value=0.007  Score=46.24  Aligned_cols=25  Identities=24%  Similarity=0.418  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|..|+|||||++.+.+..
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4568899999999999999998754

>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=95.60  E-value=0.0072  Score=46.03  Aligned_cols=26  Identities=19%  Similarity=0.362  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|..|+|||||++.+.++.
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcCC
Confidence            35678999999999999999997643

>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=95.60  E-value=0.0064  Score=46.08  Aligned_cols=26  Identities=12%  Similarity=0.126  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|.+|+|||||++.+.++.
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            46778999999999999999998654

>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=95.59  E-value=0.0065  Score=46.92  Aligned_cols=26  Identities=23%  Similarity=0.396  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|..|+|||||++.+.++.
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~~   49 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIENK   49 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC--
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCC
Confidence            45678899999999999999987643

>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=95.59  E-value=0.0071  Score=46.03  Aligned_cols=25  Identities=20%  Similarity=0.364  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|..|+|||||++.+.+..
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            4568899999999999999998753

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=95.59  E-value=0.0067  Score=46.64  Aligned_cols=26  Identities=19%  Similarity=0.204  Sum_probs=20.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|.+|+|||||++.+.+..
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~~   44 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTNG   44 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC--
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCC
Confidence            35568899999999999999988653

>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=95.58  E-value=0.0072  Score=46.21  Aligned_cols=25  Identities=16%  Similarity=0.286  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...-|.|+|.+|+|||||++.+.+.
T Consensus         7 ~~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            7 NDYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHcC
Confidence            3456899999999999999999874

>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=95.56  E-value=0.0073  Score=46.49  Aligned_cols=26  Identities=15%  Similarity=0.395  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|..|+|||||++.+.++.
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhCC
Confidence            46788999999999999999997653

>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=95.54  E-value=0.0089  Score=48.74  Aligned_cols=25  Identities=32%  Similarity=0.313  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...|+++|.+|+|||||.+.+....
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~   27 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLR   27 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCC
Confidence            4678999999999999999998753

>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=95.53  E-value=0.0062  Score=53.20  Aligned_cols=24  Identities=25%  Similarity=0.546  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..-++|+|..|+|||||++.++.-
T Consensus        42 i~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           42 CFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCc
Confidence            334999999999999999999874

>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=95.52  E-value=0.009  Score=45.62  Aligned_cols=25  Identities=20%  Similarity=0.294  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..-|.|+|..|+|||||++.+.++.
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            4578999999999999999998753

>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=95.52  E-value=0.0094  Score=47.05  Aligned_cols=27  Identities=19%  Similarity=0.303  Sum_probs=23.2

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ....-|.|+|.+|+|||||++.+.+..
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~   53 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRAN   53 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            346789999999999999999998753

>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=95.52  E-value=0.027  Score=44.38  Aligned_cols=25  Identities=16%  Similarity=0.102  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -..|.|.|+.|+||||+++.+.+.-
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l   30 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERL   30 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998863

>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=95.50  E-value=0.0074  Score=47.17  Aligned_cols=25  Identities=24%  Similarity=0.276  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..--|.|+|.+|+|||||++.+.++
T Consensus        33 ~~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           33 RSVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcC
Confidence            3567889999999999999999864

>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=95.48  E-value=0.008  Score=46.62  Aligned_cols=25  Identities=16%  Similarity=0.106  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..-|.|+|..|+|||||++.+.++.
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKDE   49 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcCC
Confidence            4568999999999999999998753

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.48  E-value=0.0096  Score=47.52  Aligned_cols=25  Identities=16%  Similarity=0.017  Sum_probs=19.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -..|.|.|+.|+||||+++.+.+.-
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999863

>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=95.48  E-value=0.021  Score=45.81  Aligned_cols=50  Identities=16%  Similarity=0.102  Sum_probs=32.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVLDSII  233 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il~~Il  233 (241)
                      -.+|.|.|+.|+||||+++.+.+.-. ...+...+...  ....+-+.++.++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~-~~~~~~~~~~rep~~t~~g~~ir~~l   78 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQ-QNGIDHITRTREPGGTLLAEKLRALV   78 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHH-HTTCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-hcCCCeeeeecCCCCCHHHHHHHHHH
Confidence            46899999999999999999988632 23455444444  2223344455554

>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=95.47  E-value=0.011  Score=47.14  Aligned_cols=26  Identities=19%  Similarity=0.346  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|+|+|..|+|||||++.+....
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            46789999999999999999998754

>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=95.47  E-value=0.008  Score=46.44  Aligned_cols=26  Identities=27%  Similarity=0.428  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|.+|+|||||++.+.+..
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            7 YLFKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCC
Confidence            35678999999999999999998643

>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=95.47  E-value=0.0065  Score=46.63  Aligned_cols=25  Identities=16%  Similarity=0.072  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.--|.|+|.+|+|||||++.+.++
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             CccEEEEECCCCCCHHHHHHHHHhC
Confidence            3556999999999999999999654

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=95.46  E-value=0.0092  Score=45.58  Aligned_cols=27  Identities=15%  Similarity=0.159  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ....-|.|+|..|+|||||++.+.+..
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            357789999999999999999988754

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.46  E-value=0.021  Score=45.00  Aligned_cols=50  Identities=16%  Similarity=0.022  Sum_probs=33.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHHHHHHH
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVLDSIIK  234 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il~~Il~  234 (241)
                      ..|.+.|..|+||||+++.+.+.-.. ..+..++...  ....+.+.+++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~-~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQ-LGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHH-TTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH-cCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            47899999999999999999986332 2343333333  33345566677665

>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=95.46  E-value=0.0092  Score=50.20  Aligned_cols=24  Identities=17%  Similarity=0.104  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -+++-|+|++|+||||||.++...
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            456789999999999999999875

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=95.45  E-value=0.0085  Score=49.24  Aligned_cols=23  Identities=22%  Similarity=0.283  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .++|+|.|-||+||||+|-.+-.
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~   24 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVA   24 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHH
Confidence            47899999999999999887764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=95.45  E-value=0.0066  Score=46.53  Aligned_cols=25  Identities=24%  Similarity=0.401  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|..|+|||||++.+.++.
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            4568899999999999999998654

>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=95.43  E-value=0.0073  Score=45.70  Aligned_cols=24  Identities=29%  Similarity=0.119  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..-|.|+|..|+|||||.+.+.+.
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            456889999999999999999864

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.42  E-value=0.0074  Score=47.30  Aligned_cols=22  Identities=18%  Similarity=0.235  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+|+|+|+.|+||||+++.+..
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

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=95.41  E-value=0.0087  Score=51.09  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+++|+|..|+|||||++.+....
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CEEEEECCCCccHHHHHHHHhccc
Confidence            478999999999999999998743

>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=95.41  E-value=0.011  Score=49.38  Aligned_cols=27  Identities=22%  Similarity=0.285  Sum_probs=24.0

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .....|+|+|.+|+|||||.+.+....
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            457899999999999999999998754

>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=95.41  E-value=0.014  Score=55.44  Aligned_cols=46  Identities=17%  Similarity=0.301  Sum_probs=36.7

Q ss_pred             CcccchHHHHHHHHHHhcC-------CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVG-------EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~-------~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..+..+...+...       +.....+-++|..|+|||+||+.+.+.
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~  611 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT  611 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            5789999888888877431       122468899999999999999999874

>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=95.41  E-value=0.0087  Score=46.01  Aligned_cols=23  Identities=22%  Similarity=0.433  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .--|.|+|.+|||||||.+.+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            45689999999999999998864

>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=95.40  E-value=0.0089  Score=46.22  Aligned_cols=26  Identities=23%  Similarity=0.314  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|.|+|.+|+|||||++.+.++.
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHhhCC
Confidence            46779999999999999999997653

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=95.40  E-value=0.0067  Score=53.62  Aligned_cols=24  Identities=29%  Similarity=0.180  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||+|.+..-
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            468999999999999999999884

>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=95.40  E-value=0.01  Score=46.43  Aligned_cols=25  Identities=16%  Similarity=0.133  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|.+|+|||||++.+.++.
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            4567899999999999999987753

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=95.40  E-value=0.0084  Score=49.94  Aligned_cols=31  Identities=35%  Similarity=0.523  Sum_probs=25.1

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHH
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      +++|.+.+.     -.+++++|..|+|||||++.+.
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            556666553     2478999999999999999998

>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=95.39  E-value=0.009  Score=46.25  Aligned_cols=25  Identities=16%  Similarity=0.391  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~~   44 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVEDK   44 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            5678999999999999999998653

>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=95.39  E-value=0.01  Score=45.78  Aligned_cols=25  Identities=20%  Similarity=0.115  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..-|+|+|..|+|||||++.+.++.
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            4568899999999999999998753

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.38  E-value=0.0076  Score=54.48  Aligned_cols=25  Identities=28%  Similarity=0.264  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +-.+|+|+|+.|+|||||++.+...
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHh
Confidence            3478999999999999999999875

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.37  E-value=0.0086  Score=54.00  Aligned_cols=23  Identities=30%  Similarity=0.429  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|..|+|||||++.++--
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

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=95.37  E-value=0.011  Score=44.88  Aligned_cols=35  Identities=17%  Similarity=-0.006  Sum_probs=25.2

Q ss_pred             HHHHHhcCC-CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          172 LLDLLIVGE-PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       172 l~~~L~~~~-~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.++|.--. .+.--|.|+|.+|+|||||++.+.++
T Consensus        10 ~~~~l~~f~~~~~~~i~v~G~~~~GKssli~~l~~~   45 (189)
T 2x77_A           10 LKQTLGLLPADRKIRVLMLGLDNAGKTSILYRLHLG   45 (189)
T ss_dssp             HHHHHHTSCTTSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             HHHHhhhccCCCceEEEEECCCCCCHHHHHHHHHcC
Confidence            455442222 34566999999999999999998653

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=95.36  E-value=0.01  Score=45.97  Aligned_cols=26  Identities=19%  Similarity=0.156  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|.+|+|||||++.+.++.
T Consensus         8 ~~~ki~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A            8 KFIKCVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCC
Confidence            34568999999999999999988653

>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=95.36  E-value=0.0093  Score=46.46  Aligned_cols=25  Identities=32%  Similarity=0.410  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..--|.|+|..|+|||||++.+.+.
T Consensus        24 ~~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           24 YLIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eeEEEEEECcCCCCHHHHHHHHhcC
Confidence            4567899999999999999999875

>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=95.35  E-value=0.0066  Score=46.26  Aligned_cols=25  Identities=20%  Similarity=0.113  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|..|+|||||.+.+.+..
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            4568899999999999999998764

>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=95.34  E-value=0.0099  Score=51.94  Aligned_cols=25  Identities=24%  Similarity=0.100  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|+|+|.+|+||||++..+...
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            4689999999999999999999875

>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=95.34  E-value=0.0063  Score=51.39  Aligned_cols=23  Identities=22%  Similarity=0.268  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|..|+|||||++.+..-
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            48999999999999999999874

>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=95.33  E-value=0.01  Score=51.46  Aligned_cols=23  Identities=17%  Similarity=0.382  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|.|+|+.|+|||||+..+...
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

>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=95.31  E-value=0.0055  Score=46.28  Aligned_cols=25  Identities=28%  Similarity=0.377  Sum_probs=11.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...-|.|+|..|+|||||++.+.++
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            7 YLFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEEECCCCC------------
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3567899999999999999998764

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.29  E-value=0.0085  Score=54.02  Aligned_cols=23  Identities=35%  Similarity=0.504  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|..|+|||||++.++--
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            47999999999999999999974

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.27  E-value=0.0097  Score=53.65  Aligned_cols=23  Identities=26%  Similarity=0.276  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+.-
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            36899999999999999999986

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=95.23  E-value=0.02  Score=51.22  Aligned_cols=45  Identities=4%  Similarity=-0.011  Sum_probs=30.4

Q ss_pred             ccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          163 MGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       163 vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+.+..+.|.+..-....+..+|.+.|+.|+||||+++.+...-
T Consensus       375 f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          375 FSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             TSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             ccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHH
Confidence            334444444444331112346899999999999999999998863

>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=95.23  E-value=0.01  Score=52.65  Aligned_cols=22  Identities=14%  Similarity=0.288  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+++|+|+.|+|||||++.+.-
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            8999999999999999999986

>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=95.23  E-value=0.014  Score=48.60  Aligned_cols=26  Identities=23%  Similarity=0.239  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +...|+|+|.+|+|||||++.+....
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~   31 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVK   31 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45779999999999999999998753

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.23  E-value=0.01  Score=52.08  Aligned_cols=25  Identities=16%  Similarity=0.134  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      =.+++|+|..|+|||||++.|.+..
T Consensus       157 Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          157 GQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccc
Confidence            4689999999999999999998853

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.21  E-value=0.01  Score=53.55  Aligned_cols=25  Identities=20%  Similarity=0.284  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .=.+++|+|+.|+|||||+|.+..-
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3479999999999999999999873

>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=95.20  E-value=0.026  Score=49.44  Aligned_cols=44  Identities=23%  Similarity=0.308  Sum_probs=33.0

Q ss_pred             cchHHHHHHHHHHhcC---------CCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          164 GLEDEIEELLDLLIVG---------EPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       164 G~~~~~~~l~~~L~~~---------~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++-++.|.+.+...         +....-|+|+|.+|+|||||.+.+....
T Consensus       152 gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~~  204 (439)
T 1mky_A          152 NLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNKE  204 (439)
T ss_dssp             SHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCCc
Confidence            5566777777766421         1235689999999999999999998753

>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=95.18  E-value=0.0094  Score=52.02  Aligned_cols=21  Identities=24%  Similarity=0.547  Sum_probs=19.3

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |+|+|..|+|||||++.++..
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

>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=95.17  E-value=0.027  Score=49.62  Aligned_cols=35  Identities=14%  Similarity=0.155  Sum_probs=25.8

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+...+..++   +.+.|.|.+|+||||++..+...
T Consensus        34 v~~~~~~i~~~~---~~~li~G~aGTGKT~ll~~~~~~   68 (459)
T 3upu_A           34 FNIVMKAIKEKK---HHVTINGPAGTGATTLTKFIIEA   68 (459)
T ss_dssp             HHHHHHHHHSSS---CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCC---CEEEEEeCCCCCHHHHHHHHHHH
Confidence            344444444433   38899999999999999998875

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=95.14  E-value=0.011  Score=49.10  Aligned_cols=33  Identities=30%  Similarity=0.345  Sum_probs=26.1

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++++..++..     .+++|+|+.|+|||||.+.+...
T Consensus       160 v~~lf~~l~g-----eiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          160 IEELKEYLKG-----KISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             HHHHHHHHSS-----SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HHHHHHHhcC-----CeEEEECCCCCcHHHHHHHhccc
Confidence            4556666532     47899999999999999999864

>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=95.13  E-value=0.011  Score=54.01  Aligned_cols=23  Identities=30%  Similarity=0.429  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|..|+|||||++.+.--
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            48999999999999999999984

>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=95.12  E-value=0.024  Score=46.26  Aligned_cols=37  Identities=16%  Similarity=0.044  Sum_probs=28.1

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          170 EELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       170 ~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-+..||.....+..-|-++|++|.|||+||..|.+.
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            3456666554244567999999999999999999874

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=95.12  E-value=0.0097  Score=48.63  Aligned_cols=24  Identities=25%  Similarity=0.528  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .--|+|+|.+|+|||||...++..
T Consensus         8 ~~~I~vvG~~g~GKSTLin~L~~~   31 (274)
T 3t5d_A            8 EFTLMVVGESGLGKSTLINSLFLT   31 (274)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHSSS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhCC
Confidence            345889999999999999998763

>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=95.10  E-value=0.016  Score=46.77  Aligned_cols=26  Identities=19%  Similarity=0.323  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...-|+|+|.+|+|||||...+....
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            45678999999999999999997653

>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=95.09  E-value=0.014  Score=52.31  Aligned_cols=25  Identities=20%  Similarity=0.183  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.++|+.|+||||+|+.+...
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~   58 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRY   58 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3678999999999999999999654

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.09  E-value=0.017  Score=46.03  Aligned_cols=53  Identities=9%  Similarity=-0.007  Sum_probs=33.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHHHHHHHHH
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHKVLDSIIK  234 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~il~~Il~  234 (241)
                      .-.+|.|.|+.|+||||+++.+.+.-.....+++.....  .....-+.+++++.
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~~t~~g~~ir~~l~   74 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPGGTLLNESVRNLLF   74 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSCSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCCCChHHHHHHHHHh
Confidence            467899999999999999999998633212344333122  22233444555554

>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=95.08  E-value=0.011  Score=49.10  Aligned_cols=27  Identities=15%  Similarity=0.214  Sum_probs=23.8

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+..|+|+|..|+|||||...+....
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~~   48 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGRD   48 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSC
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCCC
Confidence            457889999999999999999997754

>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=95.06  E-value=0.014  Score=45.63  Aligned_cols=25  Identities=8%  Similarity=0.077  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...||+|+||.|+||+|.|+.+-+.
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~   34 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSR   34 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHH
Confidence            3579999999999999999998763

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=95.06  E-value=0.0059  Score=51.05  Aligned_cols=23  Identities=17%  Similarity=0.258  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|..|+|||||++.+...
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            48999999999999999999763

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=95.06  E-value=0.017  Score=49.05  Aligned_cols=37  Identities=22%  Similarity=0.113  Sum_probs=26.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      .-.++.|+|.+|+|||||+..+.....  ..=..++|++
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~--~~g~~vlyi~   96 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQ--AAGGIAAFID   96 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH--HTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--hCCCeEEEEE
Confidence            457899999999999999999876422  1112456666

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.05  E-value=0.012  Score=53.78  Aligned_cols=23  Identities=22%  Similarity=0.280  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|..|+|||||++.+.--
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

>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=95.04  E-value=0.013  Score=46.06  Aligned_cols=24  Identities=21%  Similarity=0.436  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ...-|.|+|.+|||||||++.+..
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            356699999999999999999874

>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=95.04  E-value=0.017  Score=42.80  Aligned_cols=23  Identities=22%  Similarity=0.223  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ..+..|+|..|+|||||...|+-
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            46889999999999999999863

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=95.03  E-value=0.0084  Score=46.89  Aligned_cols=26  Identities=19%  Similarity=0.118  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ....|+|+|..|+|||||++.+....
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

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=95.02  E-value=0.014  Score=45.87  Aligned_cols=26  Identities=31%  Similarity=0.579  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|.|+|..|+|||||++.+.+..
T Consensus        12 ~~~ki~v~G~~~vGKSsli~~l~~~~   37 (223)
T 3cpj_B           12 LLFKIVLIGDSGVGKSNLLSRFTKNE   37 (223)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHHCC
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcCC
Confidence            35678999999999999999988753

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.98  E-value=0.014  Score=46.65  Aligned_cols=22  Identities=18%  Similarity=0.184  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -++|.|++|+||||+++.+.+.
T Consensus        10 ~~~~~G~pGsGKsT~a~~L~~~   31 (230)
T 3gmt_A           10 RLILLGAPGAGKGTQANFIKEK   31 (230)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             ceeeECCCCCCHHHHHHHHHHH
Confidence            4799999999999999998764

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.97  E-value=0.013  Score=53.54  Aligned_cols=24  Identities=17%  Similarity=0.224  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|+.|+|||||++.+.--
T Consensus       103 Gei~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          103 GQVLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcC
Confidence            459999999999999999999863

>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=94.95  E-value=0.064  Score=45.02  Aligned_cols=42  Identities=12%  Similarity=-0.036  Sum_probs=29.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCH
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYL  225 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~  225 (241)
                      .++-|+|.+|+|||||+-++.....-...=..++||+  ..++.
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~   72 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITP   72 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhH
Confidence            4789999999999999887766522110123578888  55554

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=94.93  E-value=0.016  Score=45.99  Aligned_cols=25  Identities=12%  Similarity=0.031  Sum_probs=20.9

Q ss_pred             CeEEEEEEcC-CCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGN-SGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~-gGvGKTTLak~v~~~  206 (241)
                      ..++|+|++. ||+||||++-.+-..
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~   28 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFA   28 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHH
Confidence            4689999965 899999999888664

>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=94.93  E-value=0.011  Score=50.56  Aligned_cols=46  Identities=15%  Similarity=0.273  Sum_probs=25.6

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|+..--..........+. .--|+|+|..|+|||||++.++..
T Consensus        15 ~~~v~~~~l~~~~~~k~~~~~~-~~~I~vvG~~g~GKSTLln~L~~~   60 (361)
T 2qag_A           15 PGYVGFANLPNQVHRKSVKKGF-EFTLMVVGESGLGKSTLINSLFLT   60 (361)
T ss_dssp             ------CCHHHHHHTHHHHHCC-EECEEECCCTTSCHHHHHHHHTTC
T ss_pred             CceEEeccchHHhCCeeecCCC-CEEEEEEcCCCCCHHHHHHHHhCC
Confidence            3456655443333332221121 344699999999999999998764

>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=94.91  E-value=0.018  Score=47.22  Aligned_cols=24  Identities=21%  Similarity=0.288  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|+++|.+|+|||||.+.+...
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            457999999999999999999874

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=94.90  E-value=0.018  Score=45.07  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-|+|-|..|+||||+++.+.+.
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~   25 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHR   25 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHH
Confidence            46889999999999999888874

>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=94.87  E-value=0.019  Score=46.58  Aligned_cols=25  Identities=20%  Similarity=0.263  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +...|+++|.+|+|||||.+.+...
T Consensus         4 ~~~kI~lvG~~nvGKTsL~n~l~g~   28 (258)
T 3a1s_A            4 HMVKVALAGCPNVGKTSLFNALTGT   28 (258)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHTT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCC
Confidence            3467899999999999999999874

>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=94.87  E-value=0.017  Score=51.02  Aligned_cols=25  Identities=16%  Similarity=0.151  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.++|+.|+||||+++.+...
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999999765

>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=94.85  E-value=0.014  Score=49.97  Aligned_cols=26  Identities=19%  Similarity=0.197  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+.+|+|+|.+|+|||||.+.+....
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            46779999999999999999998754

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=94.84  E-value=0.022  Score=48.57  Aligned_cols=41  Identities=17%  Similarity=0.097  Sum_probs=29.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCC
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYY  224 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~  224 (241)
                      .-.++-|+|.+|+||||||..+.......+  ..++|++  ..++
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~~g--~~vlyid~E~s~~  104 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALD  104 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCcc
Confidence            356899999999999999998876532111  2466777  4444

>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=94.83  E-value=0.019  Score=44.87  Aligned_cols=24  Identities=33%  Similarity=0.290  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -..|.|+|..|+||||||..+...
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            366889999999999999999775

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=94.81  E-value=0.054  Score=47.61  Aligned_cols=51  Identities=16%  Similarity=0.145  Sum_probs=35.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEeCCCCHHHHHHHHH
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSII  233 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~~~~~~~~il~~Il  233 (241)
                      .-.++.|.|.+|+|||||+..+..+...... ..++|++-..+...+...++
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g-~~Vl~~s~E~s~~~l~~r~~  252 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNVATKTN-ENVAIFSLEMSAQQLVMRML  252 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHHHHHSS-CCEEEEESSSCHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhCC-CcEEEEECCCCHHHHHHHHH
Confidence            3568999999999999999999887433211 25677773334456665554

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=94.80  E-value=0.011  Score=53.99  Aligned_cols=45  Identities=24%  Similarity=0.229  Sum_probs=30.1

Q ss_pred             cccchHHHHHHHHHHhcCCCC---------eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          162 IMGLEDEIEELLDLLIVGEPS---------LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       162 ~vG~~~~~~~l~~~L~~~~~~---------~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++|.+..+..+.-.|..+...         -.-+-++|.+|+|||+||+.+.+.
T Consensus       297 I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~  350 (595)
T 3f9v_A          297 IYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRV  350 (595)
T ss_dssp             TSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTT
T ss_pred             hcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHh
Confidence            567776555554444333100         014789999999999999999874

>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=94.80  E-value=0.018  Score=45.49  Aligned_cols=22  Identities=14%  Similarity=0.249  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.|+|-+|||||+|++...++
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            4779999999999999987654

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=94.79  E-value=0.015  Score=52.89  Aligned_cols=23  Identities=35%  Similarity=0.277  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+..
T Consensus       369 G~~~~ivG~sGsGKSTll~~l~g  391 (582)
T 3b5x_A          369 GKTVALVGRSGSGKSTIANLFTR  391 (582)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999986

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=94.79  E-value=0.015  Score=52.94  Aligned_cols=23  Identities=35%  Similarity=0.299  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+..
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

>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=94.78  E-value=0.016  Score=46.95  Aligned_cols=28  Identities=18%  Similarity=-0.030  Sum_probs=22.0

Q ss_pred             CCeEEEEEEcC-CCccHHHHHHHHHhccc
Q 042580          181 PSLFIVAIVGN-SGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       181 ~~~~vI~IvG~-gGvGKTTLak~v~~~~~  208 (241)
                      ...++|+|++. ||+||||+|-.+-.--.
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            45789999855 89999999988876533

>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=94.77  E-value=0.015  Score=53.15  Aligned_cols=24  Identities=29%  Similarity=0.288  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.+.--
T Consensus       117 Ge~~~LiG~NGsGKSTLlkiL~Gl  140 (607)
T 3bk7_A          117 GMVVGIVGPNGTGKTTAVKILAGQ  140 (607)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhCC
Confidence            368999999999999999999863

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=94.68  E-value=0.0068  Score=46.63  Aligned_cols=24  Identities=21%  Similarity=0.230  Sum_probs=5.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .--|.|+|..|+|||||++.+..+
T Consensus        20 ~~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           20 RCKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEEC-----------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999988776

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=94.68  E-value=0.039  Score=45.17  Aligned_cols=39  Identities=18%  Similarity=0.273  Sum_probs=28.7

Q ss_pred             HHHHHHHHhc----CCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          169 IEELLDLLIV----GEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       169 ~~~l~~~L~~----~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .++|.+.|..    ......-|+|+|.+|+|||||...+....
T Consensus         8 ~~~l~~~l~~~~~~~~~~~~~i~vvG~~~~GKSSLln~l~g~~   50 (299)
T 2aka_B            8 VNRLQDAFSAIGQNADLDLPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             HHHHHHHHTTSCCCTTCCCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             HHHHHHHHHhcCCCCCCCCCeEEEEeCCCCCHHHHHHHHHCCC
Confidence            3455555543    12346789999999999999999998754

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=94.64  E-value=0.021  Score=44.54  Aligned_cols=23  Identities=22%  Similarity=0.134  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|+|.|+.|+||||+++.+-+.
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~   29 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEH   29 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHH
Confidence            58999999999999999998774

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=94.60  E-value=0.015  Score=52.08  Aligned_cols=22  Identities=18%  Similarity=0.119  Sum_probs=20.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +|+|+|..|+|||||++.+..-
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~  283 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMF  283 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999999873

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=94.57  E-value=0.095  Score=45.87  Aligned_cols=54  Identities=17%  Similarity=-0.015  Sum_probs=36.9

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEeCCCCHHHHHHHHHHH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIKS  235 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~~~~~~~~il~~Il~~  235 (241)
                      ..-.++-|.|.+|+|||||+..+..+...... ..++|++-.-+...+...++..
T Consensus       198 ~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g-~~vl~~slE~~~~~l~~R~~~~  251 (444)
T 2q6t_A          198 GPGSLNIIAARPAMGKTAFALTIAQNAALKEG-VGVGIYSLEMPAAQLTLRMMCS  251 (444)
T ss_dssp             CTTCEEEEEECTTSCHHHHHHHHHHHHHHTTC-CCEEEEESSSCHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCC-CeEEEEECCCCHHHHHHHHHHH
Confidence            34568999999999999999998886432211 2567777334455666665543

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=94.55  E-value=0.038  Score=46.02  Aligned_cols=70  Identities=14%  Similarity=0.044  Sum_probs=42.6

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccc-cc-cCCCeeEEEe-C--CCCHHHHHHHHHHHhC
Q 042580          164 GLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNY-AK-NYFDCRAWVG-C--EYYLHKVLDSIIKSVM  237 (241)
Q Consensus       164 G~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~-v~-~~F~~~~wV~-~--~~~~~~il~~Il~~l~  237 (241)
                      |.+...+.|...+..+.  ....-++|+.|+||||+|+.+.+... .. .|.+. .++. .  ...+.+ .+++++.+.
T Consensus         1 g~~~~~~~L~~~i~~~~--~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id~-ir~li~~~~   75 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDD-IRTIKDFLN   75 (305)
T ss_dssp             ---CHHHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHH-HHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHCCC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHH-HHHHHHHHh
Confidence            34455666777776554  77888999999999999999976411 11 23343 4555 3  344433 355666553

>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=94.48  E-value=0.023  Score=45.49  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=18.9

Q ss_pred             eEEEEEEcC-CCccHHHHHHHHHh
Q 042580          183 LFIVAIVGN-SGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~-gGvGKTTLak~v~~  205 (241)
                      .++|+|++. ||+||||+|-.+-.
T Consensus         2 ~~vi~v~s~kgGvGKTt~a~~LA~   25 (260)
T 3q9l_A            2 ARIIVVTSGKGGVGKTTSSAAIAT   25 (260)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHH
Confidence            368999865 89999999987765

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=94.48  E-value=0.024  Score=51.98  Aligned_cols=25  Identities=24%  Similarity=0.086  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +..+|.++|+.|+||||+|+.+...
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~   75 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEY   75 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            4678999999999999999999775

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.47  E-value=0.024  Score=44.88  Aligned_cols=25  Identities=20%  Similarity=0.097  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -..|.+-|+.|+||||+++.+.+.-
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l   29 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKL   29 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999999864

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=94.47  E-value=0.022  Score=48.42  Aligned_cols=27  Identities=15%  Similarity=0.193  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .....|+|+|.+|+|||||.+.+....
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~  191 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAK  191 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            356789999999999999999998753

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.47  E-value=0.022  Score=43.71  Aligned_cols=20  Identities=20%  Similarity=-0.067  Sum_probs=16.8

Q ss_pred             EEEEEEcCCCccHHHHHHHH
Q 042580          184 FIVAIVGNSGFDKTNFAGEA  203 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v  203 (241)
                      .++.|+|+.|+||||++-.+
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~   23 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSF   23 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47789999999999998443

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=94.44  E-value=0.026  Score=51.30  Aligned_cols=25  Identities=16%  Similarity=0.109  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +..+|.|.|+.|+||||+|+.+.+.
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~  419 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVT  419 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999775

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=94.43  E-value=0.022  Score=47.38  Aligned_cols=23  Identities=22%  Similarity=0.384  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-|+++|.+|+|||||.+.++++
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            45889999999999999998775

>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=94.43  E-value=0.0084  Score=46.75  Aligned_cols=25  Identities=16%  Similarity=0.522  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..--|+|+|..|+|||||++.+.+.
T Consensus        10 ~~~ki~vvG~~~~GKSsli~~l~~~   34 (218)
T 4djt_A           10 LTYKICLIGDGGVGKTTYINRVLDG   34 (218)
T ss_dssp             CEEEEEEECCTTSSHHHHHCBCTTC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3556889999999999999998853

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.42  E-value=0.047  Score=43.23  Aligned_cols=50  Identities=22%  Similarity=0.247  Sum_probs=31.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEeCCCCHHHHHHHH
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSI  232 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~~~~~~~~il~~I  232 (241)
                      .-.++-|.|.+|+||||||.++.-+. ..+.-..+++++-..+...+...+
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~-~~~~~~~v~~~s~E~~~~~~~~~~   78 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKG-AEEYGEPGVFVTLEERARDLRREM   78 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHH-HHHHCCCEEEEESSSCHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-HHhcCCCceeecccCCHHHHHHHH
Confidence            34688899999999999998865432 112223455666334455555544

>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=94.42  E-value=0.028  Score=48.06  Aligned_cols=26  Identities=12%  Similarity=0.096  Sum_probs=21.9

Q ss_pred             CCeEEEEEEc-CCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVG-NSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG-~gGvGKTTLak~v~~~  206 (241)
                      ...++|+|+| -||+||||+|-.+-..
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~  167 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIA  167 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHH
Confidence            5689999996 7999999998877653

>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=94.41  E-value=0.023  Score=49.15  Aligned_cols=25  Identities=20%  Similarity=0.255  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-..++|+|.+|+|||||.+.+...
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            3468999999999999999999884

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=94.39  E-value=0.11  Score=43.97  Aligned_cols=52  Identities=12%  Similarity=0.012  Sum_probs=37.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEeCCCCHHHHHHHHHHH
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIKS  235 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~~~~~~~~il~~Il~~  235 (241)
                      .-.++.|.|.+|+||||||..+..+....+  ..++|++-.-+...+...++..
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~a~~g--~~Vl~fSlEms~~ql~~Rlls~   96 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSALNDD--RGVAVFSLEMSAEQLALRALSD   96 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHHTT--CEEEEEESSSCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCCCCHHHHHHHHHHH
Confidence            356889999999999999999987643322  3567777445566776666554

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=94.38  E-value=0.024  Score=46.40  Aligned_cols=25  Identities=16%  Similarity=0.319  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...|+++|.+|+|||||.+.+....
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~   27 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSR   27 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCC
Confidence            3568999999999999999998743

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=94.38  E-value=0.05  Score=47.56  Aligned_cols=44  Identities=11%  Similarity=0.284  Sum_probs=32.6

Q ss_pred             cchHHHHHHHHHHhcC-----CCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          164 GLEDEIEELLDLLIVG-----EPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       164 G~~~~~~~l~~~L~~~-----~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++-++.|.+.+...     +....-|+|+|.+|+|||||.+.+....
T Consensus       151 gv~~L~~~i~~~l~~~~~~~~~~~~~ki~lvG~~nvGKSSLin~l~~~~  199 (436)
T 2hjg_A          151 GLGDLLDAVAEHFKNIPETKYNEEVIQFCLIGRPNVGKSSLVNAMLGEE  199 (436)
T ss_dssp             THHHHHHHHHHTGGGCCSSCCCTTCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             ChHHHHHHHHHhcCccccccccccCcEEEEEcCCCCCHHHHHHHHhCCC
Confidence            4566666666666421     2346789999999999999999998754

>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=93.40  E-value=0.0073  Score=46.64  Aligned_cols=25  Identities=20%  Similarity=0.202  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.--|.|+|.+|+|||||++.+.++
T Consensus        29 ~~~ki~v~G~~~~GKSsli~~l~~~   53 (204)
T 3th5_A           29 QAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
Confidence            3566899999999999999887754

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.36  E-value=0.024  Score=51.65  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+..
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            46899999999999999999877

>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=94.34  E-value=0.043  Score=48.46  Aligned_cols=63  Identities=24%  Similarity=0.212  Sum_probs=42.6

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe---CCCCHHHHHHHHHHH
Q 042580          171 ELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG---CEYYLHKVLDSIIKS  235 (241)
Q Consensus       171 ~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~---~~~~~~~il~~Il~~  235 (241)
                      ++++.|..= .+=.-++|+|.+|+|||||++.+-++. .+.+-++++++-   +.-.+.++++++...
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            455655431 124568999999999999999998862 123345566655   666778888877654

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.33  E-value=0.025  Score=45.03  Aligned_cols=23  Identities=22%  Similarity=0.112  Sum_probs=18.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.|-+.|.||+||||+|-.+...
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~   29 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHA   29 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHH
Confidence            34778899999999998777765

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=94.33  E-value=0.052  Score=49.00  Aligned_cols=25  Identities=20%  Similarity=0.057  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|.++|+.|+||||+++.+...
T Consensus       371 ~~~~I~l~G~~GsGKSTia~~La~~  395 (546)
T 2gks_A          371 QGFCVWLTGLPCAGKSTIAEILATM  395 (546)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEccCCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999775

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.30  E-value=0.017  Score=52.73  Aligned_cols=24  Identities=29%  Similarity=0.254  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .-.+++|+|..|+|||||++.+..
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            356899999999999999999987

>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=94.29  E-value=0.049  Score=48.27  Aligned_cols=62  Identities=21%  Similarity=0.118  Sum_probs=42.7

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe---CCCCHHHHHHHHHHH
Q 042580          172 LLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG---CEYYLHKVLDSIIKS  235 (241)
Q Consensus       172 l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~---~~~~~~~il~~Il~~  235 (241)
                      +++.|..= .+=.-++|.|.+|+|||+|++.+-++. .+.|-++++++-   +.-.+.++.+++...
T Consensus       155 vID~l~pi-gkGqr~gIfgg~GvGKT~L~~~l~~~~-a~~~~~v~V~~~iGER~rEv~e~~~~~~~~  219 (498)
T 1fx0_B          155 VVNLLAPY-RRGGKIGLFGGAGVGKTVLIMELINNI-AKAHGGVSVFGGVGERTREGNDLYMEMKES  219 (498)
T ss_dssp             THHHHSCC-CTTCCEEEEECSSSSHHHHHHHHHHHT-TTTCSSCEEEEEESCCSHHHHHHHHHHHHT
T ss_pred             Eeeeeccc-ccCCeEEeecCCCCCchHHHHHHHHHH-HhhCCCEEEEEEcccCcHHHHHHHHhhhcc
Confidence            45555431 124568999999999999999998862 123446666666   666778888887653

>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=94.29  E-value=0.048  Score=46.94  Aligned_cols=27  Identities=15%  Similarity=0.106  Sum_probs=21.8

Q ss_pred             CCCeEEEEEE-cCCCccHHHHHHHHHhc
Q 042580          180 EPSLFIVAIV-GNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       180 ~~~~~vI~Iv-G~gGvGKTTLak~v~~~  206 (241)
                      ....++|+|+ |-||+||||++-.+-.-
T Consensus       105 ~~~~~vIav~s~KGGvGKTT~a~nLA~~  132 (398)
T 3ez2_A          105 YSEAYVIFISNLKGGVSKTVSTVSLAHA  132 (398)
T ss_dssp             CCSCEEEEECCSSSSSSHHHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCccHHHHHHHHHHH
Confidence            4568999999 66999999988877653

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=94.21  E-value=0.047  Score=45.22  Aligned_cols=27  Identities=22%  Similarity=0.240  Sum_probs=22.5

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ...--|.|+|.+|+|||||++.+.++.
T Consensus       153 ~~~~~i~i~G~~~~GKssli~~~~~~~  179 (332)
T 2wkq_A          153 KELIKCVVVGDGAVGKTCLLISYTTNA  179 (332)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             cceeEEEEECCCCCChHHHHHHHHhCC
Confidence            345678899999999999999887654

>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=94.18  E-value=0.026  Score=50.66  Aligned_cols=21  Identities=29%  Similarity=0.177  Sum_probs=19.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEA  203 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v  203 (241)
                      =.+++|+|..|+|||||++.+
T Consensus        39 Ge~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           39 GRSTLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             TSEEEEEESTTSSHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHH
Confidence            568999999999999999995

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=94.17  E-value=0.014  Score=52.98  Aligned_cols=24  Identities=29%  Similarity=0.140  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .-.+++|+|+.|+|||||++.+..
T Consensus       366 ~G~~~~ivG~sGsGKSTll~~l~g  389 (578)
T 4a82_A          366 KGETVAFVGMSGGGKSTLINLIPR  389 (578)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            356899999999999999999876

>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=94.16  E-value=0.018  Score=44.96  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=18.9

Q ss_pred             CeEEEEEEcCCCccHHHHHHHH
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEA  203 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v  203 (241)
                      ..--|.|+|.+|+|||||++.+
T Consensus        14 ~~~ki~v~G~~~~GKSsli~~~   35 (221)
T 3gj0_A           14 VQFKLVLVGDGGTGKTTFVKRH   35 (221)
T ss_dssp             CEEEEEEEECTTSSHHHHHTTB
T ss_pred             cceEEEEECCCCCCHHHHHHHH
Confidence            3456889999999999999983

>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=94.08  E-value=0.05  Score=49.52  Aligned_cols=33  Identities=21%  Similarity=0.237  Sum_probs=26.6

Q ss_pred             HHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          175 LLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       175 ~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .|..-+....+|+|+|.+|+||+||...+....
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            333334568999999999999999999998754

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=94.08  E-value=0.065  Score=45.02  Aligned_cols=40  Identities=13%  Similarity=0.143  Sum_probs=29.8

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          166 EDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       166 ~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.....|...+..+. -.+.+-++|+.|+||||+|+.+.+.
T Consensus         8 ~~~~~~l~~~i~~~~-~~~a~L~~G~~G~GKt~~a~~la~~   47 (334)
T 1a5t_A            8 RPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRY   47 (334)
T ss_dssp             HHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCC-cceeEEEECCCCchHHHHHHHHHHH
Confidence            445666666665542 3567889999999999999988764

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=94.06  E-value=0.066  Score=44.01  Aligned_cols=26  Identities=15%  Similarity=0.222  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ....|+++|.+|+|||||.+.+....
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~~~  144 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAKKN  144 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCceEEEEecCCCchHHHHHHHhcCc
Confidence            34578999999999999999998754

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=94.04  E-value=0.034  Score=43.92  Aligned_cols=24  Identities=25%  Similarity=0.230  Sum_probs=19.3

Q ss_pred             eEEEEEEcC-CCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGN-SGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~-gGvGKTTLak~v~~~  206 (241)
                      .++|+|++. ||+||||++-.+-..
T Consensus         2 ~~~i~v~s~kgGvGKTt~a~~LA~~   26 (237)
T 1g3q_A            2 GRIISIVSGKGGTGKTTVTANLSVA   26 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHHH
Confidence            368898865 899999998887763

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=94.03  E-value=0.036  Score=47.33  Aligned_cols=23  Identities=35%  Similarity=0.407  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .++.+|+|..|+|||||...|+-
T Consensus        26 ~g~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           26 EGVTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCChhHHHHHHHH
Confidence            45999999999999999999994

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=94.00  E-value=0.043  Score=46.93  Aligned_cols=37  Identities=19%  Similarity=0.029  Sum_probs=26.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      .-.++-|+|.+|+||||||..+..+..  ..=..++|++
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~--~~g~~vlyi~  109 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQ--KAGGTCAFID  109 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH--HTTCCEEEEE
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHH--HCCCeEEEEE
Confidence            346888899999999999988876532  1113567777

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=93.96  E-value=0.04  Score=42.95  Aligned_cols=22  Identities=23%  Similarity=0.267  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      ..+..|+|..|+||||+...|+
T Consensus        23 ~~~~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           23 EGINLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCHHHHHHHHH
Confidence            4788999999999999999886

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=93.91  E-value=0.033  Score=50.93  Aligned_cols=26  Identities=15%  Similarity=0.199  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+..|+|+|..|+|||||++.+.--
T Consensus        43 l~lp~iaIvG~nGsGKSTLL~~I~Gl   68 (608)
T 3szr_A           43 LALPAIAVIGDQSSGKSSVLEALSGV   68 (608)
T ss_dssp             CCCCCEECCCCTTSCHHHHHHHHHSC
T ss_pred             ccCCeEEEECCCCChHHHHHHHHhCC
Confidence            45677999999999999999999874

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=93.82  E-value=0.0056  Score=48.92  Aligned_cols=21  Identities=14%  Similarity=0.283  Sum_probs=18.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHh
Q 042580          185 IVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +++|+|+.|+|||||++.|.-
T Consensus        29 ~~~i~GpnGsGKSTll~~i~g   49 (227)
T 1qhl_A           29 VTTLSGGNGAGKSTTMAAFVT   49 (227)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            457899999999999999876

>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=93.82  E-value=0.048  Score=48.14  Aligned_cols=48  Identities=15%  Similarity=0.146  Sum_probs=32.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe---CCCCHHHHHHHHH
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG---CEYYLHKVLDSII  233 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~---~~~~~~~il~~Il  233 (241)
                      .++|+|..|+|||||++.+..+.... +-++++++-   ++-...++..++.
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~~~~-~~~i~V~~~iGerttev~el~~~l~  203 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNIAQE-HGGISVFAGVGERTREGNDLYHEMK  203 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHHHHH-TCCCEEEEEESSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCccHHHHHHHhhhhhc-cCcEEEEeeeccCchHHHHHHHHhh
Confidence            58899999999999999998873322 223445544   5455566665543

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=93.81  E-value=0.12  Score=45.43  Aligned_cols=52  Identities=19%  Similarity=0.134  Sum_probs=34.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEeCCCCHHHHHHHHHH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIK  234 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~~~~~~~~il~~Il~  234 (241)
                      ..-.++-|.|.+|+||||||-++..+...++  ..++|++-.-+..++...++.
T Consensus       195 ~~G~liiIaG~pG~GKTtlal~ia~~~a~~g--~~vl~fSlEms~~ql~~R~~~  246 (444)
T 3bgw_A          195 KRRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLEMGKKENIKRLIV  246 (444)
T ss_dssp             CSSCEEEEEECSSSSHHHHHHHHHHHHHHTT--CEEEEECSSSCTTHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCChHHHHHHHHHHHHHcC--CEEEEEECCCCHHHHHHHHHH
Confidence            3457899999999999999999988743332  256777722233344444443

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=93.79  E-value=0.036  Score=44.78  Aligned_cols=25  Identities=12%  Similarity=0.118  Sum_probs=19.8

Q ss_pred             CeEEEEEEc-CCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVG-NSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG-~gGvGKTTLak~v~~~  206 (241)
                      ..++|+|++ -||+||||+|-.+-.-
T Consensus        17 ~~~vI~v~s~kGGvGKTT~a~nLA~~   42 (262)
T 2ph1_A           17 IKSRIAVMSGKGGVGKSTVTALLAVH   42 (262)
T ss_dssp             CSCEEEEECSSSCTTHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCCHHHHHHHHHHH
Confidence            357899885 5899999998887653

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=93.79  E-value=0.033  Score=53.55  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -.+++|+|..|+|||||++.+..
T Consensus       461 Ge~v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          461 ARRYGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35799999999999999999984

>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=93.77  E-value=0.035  Score=49.78  Aligned_cols=25  Identities=24%  Similarity=0.236  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .=.+++|+|..|+|||||++.+...
T Consensus       280 ~G~i~~i~G~~GsGKSTLl~~l~g~  304 (525)
T 1tf7_A          280 KDSIILATGATGTGKTLLVSRFVEN  304 (525)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            3469999999999999999999875

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=93.76  E-value=0.036  Score=47.37  Aligned_cols=23  Identities=17%  Similarity=0.198  Sum_probs=20.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .|+|+|.+|+|||||.+.+.+..
T Consensus         4 kI~IVG~pnvGKSTL~n~Lt~~~   26 (363)
T 1jal_A            4 KCGIVGLPNVGKSTLFNALTKAG   26 (363)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            48999999999999999998743

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=93.76  E-value=0.033  Score=45.68  Aligned_cols=24  Identities=13%  Similarity=0.158  Sum_probs=20.1

Q ss_pred             eEEEEEEc-CCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVG-NSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG-~gGvGKTTLak~v~~~  206 (241)
                      .++|+|++ -||+||||++-.+-.-
T Consensus         4 ~kvI~v~s~KGGvGKTT~a~nLA~~   28 (286)
T 2xj4_A            4 TRVIVVGNEKGGAGKSTIAVHLVTA   28 (286)
T ss_dssp             CEEEEECCSSSCTTHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCCHHHHHHHHHHH
Confidence            46899985 5899999999998764

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=93.73  E-value=0.042  Score=43.62  Aligned_cols=24  Identities=13%  Similarity=0.081  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+|+|.|+.|+||||+++.+-+.
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~   37 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEE   37 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHH
Confidence            469999999999999999998763

---

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	241
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-06

>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 = 46.0 bits (108), Expect = 1e-06
 Identities = 12/85 (14%), Positives = 29/85 (34%), Gaps = 5/85 (5%)

Query: 158 KKRNIMGLEDEIEELLDLLI-VGEPSLFIVAIVGNSGFDKTNFAGEAYNNN--YAKNYFD 214
           K+      E  ++ ++  L  + +   F + + G +G  K+  A +A + +       +D
Sbjct: 18  KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYD 77

Query: 215 CRAWV--GCEYYLHKVLDSIIKSVM 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	241
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.65
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.54
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.25
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.07
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.06
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.95
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.92
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.91
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.91
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.9
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.89
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.88
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.85
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.84
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.82
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.78
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.75
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.74
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.69
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.62
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.59
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.57
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.5
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.48
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.46
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.44
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.44
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.41
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.41
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.37
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.37
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.35
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.34
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.31
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.29
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.28
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.27
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.25
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.25
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.24
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.23
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.18
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	97.11
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.09
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	97.08
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.05
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.99
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.98
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.97
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.93
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.88
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.86
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.84
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.78
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.78
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.77
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.76
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.75
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.75
d1okkd2	207	GTPase domain of the signal recognition particle r	96.71
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.71
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.71
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.69
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.68
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.67
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.67
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.66
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.66
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.65
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.64
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.61
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	96.6
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.6
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.59
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.59
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.58
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.58
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.58
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.56
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.55
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.55
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.54
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.54
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.53
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.53
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.52
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	96.52
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.51
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.51
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.47
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.46
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.46
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.45
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.44
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.43
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	96.41
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.4
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.39
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	96.39
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	96.34
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.32
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.32
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.32
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.31
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.31
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.31
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.29
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	96.25
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.24
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	96.24
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.24
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.23
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.21
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	96.19
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.19
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	96.19
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.17
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.15
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	96.15
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	96.14
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	96.13
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.12
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	96.12
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	96.11
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.1
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.1
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	96.09
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.08
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	96.08
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.08
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	96.07
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.06
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	96.06
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	96.06
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	96.02
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	96.01
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.99
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.99
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.99
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.97
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.95
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.87
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.86
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.83
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	95.83
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.81
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.81
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.8
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.79
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.78
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	95.78
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	95.76
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.74
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	95.74
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.73
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	95.73
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.67
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.67
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.67
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	95.66
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.65
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.65
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.59
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	95.56
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	95.53
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.52
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	95.52
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.48
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	95.46
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	95.42
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	95.37
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.36
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	95.32
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.31
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.24
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.24
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.2
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.18
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.99
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.95
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	94.94
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.94
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	94.93
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.91
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.89
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	94.83
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	94.71
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	94.64
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.58
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	94.56
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	94.53
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.42
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.24
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	94.19
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	94.18
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	94.06
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.8
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	93.8
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.62
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	93.44
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	93.25
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	93.2
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	93.15
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.08
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	92.79
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	92.66
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	92.6
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.53
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	92.49
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	92.46
d1tuea_	205	Replication protein E1 helicase domain {Human papi	92.36
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	92.3
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	92.11
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	92.06
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	91.88
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	91.86
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	91.79
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	91.51
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	91.21
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	90.83
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	90.72
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	90.32
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	89.79
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	89.51
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	89.32
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	88.88
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	88.54
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	88.42
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	87.46
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	87.26
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	87.01
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	86.51
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	85.55
d1o5za2	296	Folylpolyglutamate synthetase {Thermotoga maritima	81.13
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	80.62

>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=99.65  E-value=2.7e-16  Score=129.30  Aligned_cols=77  Identities=14%  Similarity=0.093  Sum_probs=64.7

Q ss_pred             ccCCcccchHHHHHHHHHHhc-CCCCeEEEEEEcCCCccHHHHHHHHHhccc--cccCCCeeEEEe--CCCCHHHHHHHH
Q 042580          158 KKRNIMGLEDEIEELLDLLIV-GEPSLFIVAIVGNSGFDKTNFAGEAYNNNY--AKNYFDCRAWVG--CEYYLHKVLDSI  232 (241)
Q Consensus       158 ~~~~~vG~~~~~~~l~~~L~~-~~~~~~vI~IvG~gGvGKTTLak~v~~~~~--v~~~F~~~~wV~--~~~~~~~il~~I  232 (241)
                      .+..++||+.++++|+++|.. .+...++|+|+||||+||||||+++|++..  ++.+|++++||+  +.++...+...+
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            455688999999999999965 455689999999999999999999998744  677899999999  778877776655


Q ss_pred             HH
Q 042580          233 IK  234 (241)
Q Consensus       233 l~  234 (241)
                      ..
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=98.54  E-value=2.5e-07  Score=73.46  Aligned_cols=77  Identities=14%  Similarity=0.121  Sum_probs=56.6

Q ss_pred             CCcccchHHHHHHHHHHhc----CCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCe-eEEEe--CCCCHHHHHHHH
Q 042580          160 RNIMGLEDEIEELLDLLIV----GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDC-RAWVG--CEYYLHKVLDSI  232 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~----~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~-~~wV~--~~~~~~~il~~I  232 (241)
                      ..++||+.+++.|.++|..    .....+.+-|+|++|+||||+|+.+.+.  ..+.+.. .+|+.  .......+...+
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~--l~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHH--HhcccCCcEEEecchhhhhhhhhhhhh
Confidence            3589999999999998853    2345678999999999999999999997  3333332 34554  556667777777


Q ss_pred             HHHhCC
Q 042580          233 IKSVMP  238 (241)
Q Consensus       233 l~~l~~  238 (241)
                      +..+..
T Consensus        94 ~~~~~~   99 (276)
T d1fnna2          94 ARSLNI   99 (276)
T ss_dssp             HHHTTC
T ss_pred             HHhhhh
Confidence            766543

>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=98.25  E-value=8.8e-07  Score=70.25  Aligned_cols=43  Identities=23%  Similarity=0.317  Sum_probs=36.1

Q ss_pred             ccCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          158 KKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       158 ~~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....++||+++++.|.+.      ..++|.|+|++|+|||||++.+.++
T Consensus        10 ~~~~f~GR~~el~~l~~~------~~~~i~i~G~~G~GKTsLl~~~~~~   52 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL------RAPITLVLGLRRTGKSSIIKIGINE   52 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT------CSSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             ChhhCCChHHHHHHHHhc------cCCEEEEEcCCCCcHHHHHHHHHHH
Confidence            346789999999998763      2467889999999999999998876

>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=98.07  E-value=6.8e-06  Score=65.20  Aligned_cols=78  Identities=19%  Similarity=0.208  Sum_probs=49.2

Q ss_pred             cCCcccchHHHHHHHHHHhc----CC---CCeEEEEEEcCCCccHHHHHHHHHhcccc----ccCCCeeEEEe--CCCCH
Q 042580          159 KRNIMGLEDEIEELLDLLIV----GE---PSLFIVAIVGNSGFDKTNFAGEAYNNNYA----KNYFDCRAWVG--CEYYL  225 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~~----~~---~~~~vI~IvG~gGvGKTTLak~v~~~~~v----~~~F~~~~wV~--~~~~~  225 (241)
                      .+.++||+.+.+.|.+++..    +.   ....++.++|++|+||||+++.+.+.-..    .......+++.  .....
T Consensus        15 P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   94 (287)
T d1w5sa2          15 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL   94 (287)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccch
Confidence            45688999999999887632    21   22345667899999999999999986311    11112334454  44445


Q ss_pred             HHHHHHHHHHh
Q 042580          226 HKVLDSIIKSV  236 (241)
Q Consensus       226 ~~il~~Il~~l  236 (241)
                      ..+...+...+
T Consensus        95 ~~~~~~~~~~~  105 (287)
T d1w5sa2          95 YTILSLIVRQT  105 (287)
T ss_dssp             HHHHHHHHHHH
T ss_pred             hhHHHHHhhhc
Confidence            55555555444

>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=98.06  E-value=9.6e-06  Score=61.53  Aligned_cols=74  Identities=15%  Similarity=0.263  Sum_probs=51.9

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc----cccccCCCeeEEEe--------CCC--CHH
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN----NYAKNYFDCRAWVG--------CEY--YLH  226 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~----~~v~~~F~~~~wV~--------~~~--~~~  226 (241)
                      .++||++++++++..|....  -.-+-+||.+|||||+++..+...    .-.....+.++|.-        ..+  ..+
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~--k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~E  100 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFE  100 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHH
T ss_pred             CCcCcHHHHHHHHHHHhccC--CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHHH
Confidence            57899999999999997643  345679999999999998766653    22233456777754        222  355


Q ss_pred             HHHHHHHHHh
Q 042580          227 KVLDSIIKSV  236 (241)
Q Consensus       227 ~il~~Il~~l  236 (241)
                      +-+..|++.+
T Consensus       101 ~rl~~il~e~  110 (195)
T d1jbka_         101 ERLKGVLNDL  110 (195)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5666777665

>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=97.95  E-value=5e-06  Score=64.69  Aligned_cols=45  Identities=22%  Similarity=0.286  Sum_probs=38.4

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|..|+..+.  ...+-++|+.|+||||||+.+.+.
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            468999999999999997754  555779999999999999998763

>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=97.92  E-value=4.5e-06  Score=65.29  Aligned_cols=46  Identities=22%  Similarity=0.234  Sum_probs=37.3

Q ss_pred             CcccchHHHHHHHHHHhc---CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIV---GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~---~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|.+..++.|..++..   ....+.-+-++|++|+||||||+.+.+.
T Consensus        10 divGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          10 EYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             GSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            589999999999888853   2223555669999999999999999885

>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=97.91  E-value=3.8e-06  Score=65.63  Aligned_cols=47  Identities=23%  Similarity=0.219  Sum_probs=37.9

Q ss_pred             CCcccchHHHHHHHHHHhc---CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV---GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|..|+..   ......-+-++|++|+||||||+.+.+.
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            3589999999999998853   1233455669999999999999999885

>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=97.91  E-value=3.3e-05  Score=61.57  Aligned_cols=75  Identities=21%  Similarity=0.251  Sum_probs=53.4

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc----ccccCCCeeEEEe----------CCCCHH
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN----YAKNYFDCRAWVG----------CEYYLH  226 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~----~v~~~F~~~~wV~----------~~~~~~  226 (241)
                      .++||+++.++|+..|....  -+-+-+||.+|||||+|+..+...-    -.....+.++|.-          ..-..+
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~--k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e   96 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFE   96 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHH
T ss_pred             cccChHHHHHHHHHHHhcCc--cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHH
Confidence            57999999999999997654  3445599999999998877766532    1122345667764          123667


Q ss_pred             HHHHHHHHHhC
Q 042580          227 KVLDSIIKSVM  237 (241)
Q Consensus       227 ~il~~Il~~l~  237 (241)
                      +.++.|+..+.
T Consensus        97 ~r~~~i~~~~~  107 (268)
T d1r6bx2          97 KRFKALLKQLE  107 (268)
T ss_dssp             HHHHHHHHHHS
T ss_pred             HHHHHHHHHhh
Confidence            77888888764

>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=97.90  E-value=6.1e-06  Score=64.88  Aligned_cols=47  Identities=19%  Similarity=0.249  Sum_probs=39.3

Q ss_pred             CCcccchHHHHHHHHHHhc---------------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV---------------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~---------------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..+++|.+||..               +....+.+-++|++|+||||+|+.+.+.
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            4689999999999999843               1234568889999999999999999986

>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=97.89  E-value=1.6e-05  Score=66.84  Aligned_cols=74  Identities=18%  Similarity=0.317  Sum_probs=51.9

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHH----HHHHhccccccCCCeeEEEe--------CCC--CHH
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFA----GEAYNNNYAKNYFDCRAWVG--------CEY--YLH  226 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLa----k~v~~~~~v~~~F~~~~wV~--------~~~--~~~  226 (241)
                      .++||+.+++.+++.|....  -.-+-+||.+|||||+|+    +.|.+..-.....+.++|.-        ..+  ..+
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~--k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~e  100 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRT--KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFE  100 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSS--CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHH
T ss_pred             CCcCcHHHHHHHHHHHhcCC--CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhHH
Confidence            57899999999999997643  333467899999999966    55656543444567777775        222  556


Q ss_pred             HHHHHHHHHh
Q 042580          227 KVLDSIIKSV  236 (241)
Q Consensus       227 ~il~~Il~~l  236 (241)
                      .-+..|+..+
T Consensus       101 ~r~~~i~~~~  110 (387)
T d1qvra2         101 ERLKAVIQEV  110 (387)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            6677777766

>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=97.88  E-value=5.5e-06  Score=64.19  Aligned_cols=45  Identities=22%  Similarity=0.301  Sum_probs=37.7

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|..|+..+.  ...+-++|+.|+||||+|+.+.+.
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            468999999999999997754  444668999999999999988764

>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=97.85  E-value=7.1e-06  Score=63.54  Aligned_cols=44  Identities=18%  Similarity=0.210  Sum_probs=37.3

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|.+..++.|..|+..+.  +..+-++|+.|+||||||+.+.+.
T Consensus        15 divg~~~~~~~L~~~i~~~~--~~~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          15 EVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             GCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHHH
T ss_pred             HccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChhHHHHHHHHH
Confidence            58999999999999997654  433559999999999999999875

>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=97.84  E-value=4.5e-06  Score=65.59  Aligned_cols=45  Identities=16%  Similarity=0.036  Sum_probs=36.4

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|.++....|..++.... ...-+-++|++|+||||+|+.+.+.
T Consensus        12 diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          12 ALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             GCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             HccCcHHHHHHHHHHHHcCC-CCCeEEEECCCCCCHHHHHHHHHHh
Confidence            58999998888888876543 2334569999999999999999875

>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=97.82  E-value=1.7e-05  Score=59.50  Aligned_cols=39  Identities=21%  Similarity=0.252  Sum_probs=29.5

Q ss_pred             HHHHHHHHHhc-CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          168 EIEELLDLLIV-GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       168 ~~~~l~~~L~~-~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.|.+.+.. .....-||+|.|..|+||||||+.+.+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~~   45 (198)
T d1rz3a_           6 RIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQT   45 (198)
T ss_dssp             HHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34455554433 3456789999999999999999999875

>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=97.78  E-value=6.8e-06  Score=63.88  Aligned_cols=44  Identities=16%  Similarity=0.128  Sum_probs=37.2

Q ss_pred             CcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +++|.+...+.|..|+..+.  ...+-++|++|+||||||+.+.+.
T Consensus        13 diig~~~~~~~l~~~i~~~~--~~~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          13 EVTAQDHAVTVLKKTLKSAN--LPHMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             TCCSCCTTHHHHHHHTTCTT--CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             HccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChHHHHHHHHHH
Confidence            58999998999999986643  445779999999999999999875

>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=97.75  E-value=7.3e-06  Score=60.72  Aligned_cols=24  Identities=21%  Similarity=0.165  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+.|.|.|+.|+||||||+.+.+.
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            688999999999999999999875

>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=97.74  E-value=6.9e-06  Score=60.21  Aligned_cols=24  Identities=21%  Similarity=0.206  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.||+|+|..|+|||||++.+-+.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            579999999999999999999764

>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=97.69  E-value=1e-05  Score=58.37  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|.|+|++|+||||||+.+...
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

>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=97.62  E-value=1.4e-05  Score=58.49  Aligned_cols=24  Identities=17%  Similarity=0.181  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -++|.|+|++|+||||+|+.+...
T Consensus         2 ~klI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           2 KKLYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999999764

>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=97.59  E-value=1.2e-05  Score=58.15  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.|.++|++|+||||+||.+.+.
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            46888899999999999999875

>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=97.57  E-value=1.9e-05  Score=58.07  Aligned_cols=25  Identities=16%  Similarity=0.109  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +-.+|.++|++|+||||+|+.+...
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            4578999999999999999999876

>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=97.50  E-value=2.3e-05  Score=57.34  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..|.|+|++|+||||+|+.+.+.
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            34779999999999999999764

>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=97.48  E-value=2.4e-05  Score=58.53  Aligned_cols=25  Identities=24%  Similarity=0.086  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +-.+|-++|++|+||||+|+.+...
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~   42 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEY   42 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3578899999999999999999775

>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=97.46  E-value=2.7e-05  Score=57.21  Aligned_cols=23  Identities=17%  Similarity=0.111  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +||+|+|..|+|||||+..+-..
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            68999999999999999998764

>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=97.44  E-value=3.6e-05  Score=57.89  Aligned_cols=26  Identities=15%  Similarity=0.233  Sum_probs=23.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++.+|.|+|++|+||||+|+.+.+.
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            46789999999999999999999875

>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=97.44  E-value=3.8e-05  Score=58.17  Aligned_cols=24  Identities=17%  Similarity=0.156  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.+|.++|.+|+||||||+++.+.
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            578999999999999999998863

>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=97.41  E-value=4.3e-05  Score=56.00  Aligned_cols=26  Identities=27%  Similarity=0.319  Sum_probs=22.6

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++.-.|.|.|++|+||||+++.+.+.
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            34567999999999999999999875

>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=97.41  E-value=9.3e-05  Score=58.17  Aligned_cols=40  Identities=20%  Similarity=0.301  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHhc---CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          167 DEIEELLDLLIV---GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       167 ~~~~~l~~~L~~---~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.....++.|..   +...++.|-++|++|+||||||+.+.+.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          13 NRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             HHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            334444444533   2345778889999999999999999986

>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=97.37  E-value=6e-05  Score=55.09  Aligned_cols=26  Identities=27%  Similarity=0.335  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...++|.|+|++|+||||+|+.+...
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            35789999999999999999999875

>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=97.37  E-value=5.6e-05  Score=56.95  Aligned_cols=26  Identities=12%  Similarity=0.267  Sum_probs=23.9

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++..||.|.|++|+||||+|+.+.+.
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            46899999999999999999999885

>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=97.35  E-value=4.9e-05  Score=55.61  Aligned_cols=24  Identities=13%  Similarity=0.090  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.|.|..|+||||+|+.+.+.
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=97.34  E-value=6.1e-05  Score=55.18  Aligned_cols=24  Identities=25%  Similarity=0.227  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -++|.|.|++|+||||+|+.+.+.
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999999875

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.31  E-value=5.1e-05  Score=55.58  Aligned_cols=21  Identities=19%  Similarity=0.343  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.++||+|+||||+++.+...
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            778899999999999999876

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.29  E-value=5e-05  Score=55.70  Aligned_cols=21  Identities=19%  Similarity=0.279  Sum_probs=18.2

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.++||+|+||||+++.+.+.
T Consensus         4 IvliG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            446699999999999999876

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.28  E-value=7.5e-05  Score=57.00  Aligned_cols=24  Identities=13%  Similarity=0.324  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +-||||.|..|+||||||+.+.+.
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            679999999999999999988664

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=97.27  E-value=7.8e-05  Score=60.58  Aligned_cols=47  Identities=21%  Similarity=0.222  Sum_probs=35.5

Q ss_pred             CCcccchHHHHHHHHHHhc------------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLIV------------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~------------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.++.++.|...+..            .+...+.|-.+|++|+|||.|||.+.+.
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            3578999988888765521            1123566778999999999999999875

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.25  E-value=0.00019  Score=56.26  Aligned_cols=48  Identities=21%  Similarity=0.187  Sum_probs=35.1

Q ss_pred             cCCcccchHHHHHHHHHHh-------c-CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          159 KRNIMGLEDEIEELLDLLI-------V-GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       159 ~~~~vG~~~~~~~l~~~L~-------~-~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...++|..++.+.+++-+.       . ....++-|-++|++|+|||+||+.|.+.
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            3457887777766665432       1 2234666889999999999999999986

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.25  E-value=7.1e-05  Score=55.51  Aligned_cols=26  Identities=31%  Similarity=0.408  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +...+|-++|++|+||||+|+.+...
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            45789999999999999999998764

>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=97.24  E-value=0.00017  Score=56.96  Aligned_cols=46  Identities=17%  Similarity=0.246  Sum_probs=36.5

Q ss_pred             CcccchHHHHHHHHHHh----c-------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLI----V-------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~----~-------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++.|.+..+++|.+.+.    .       +-...+-|-++|++|+|||+||+.+.+.
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHH
Confidence            58899999988888642    1       2233566789999999999999999985

>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=97.23  E-value=0.00019  Score=55.84  Aligned_cols=45  Identities=22%  Similarity=0.284  Sum_probs=37.4

Q ss_pred             CCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          160 RNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+++|.+..++.|..++..+. -.+.+-++|+.|+||||+|+.+.+
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHH
Confidence            368999999999999997653 245567999999999999999765

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=97.18  E-value=0.00019  Score=56.65  Aligned_cols=47  Identities=26%  Similarity=0.290  Sum_probs=35.5

Q ss_pred             CCcccchHHHHHHHHHH---hc-------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLL---IV-------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L---~~-------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.++.+++|.+.+   ..       +....+-|-++|++|+|||+||+.+.+.
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            46899998888886643   21       1233566779999999999999999985

>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=97.11  E-value=0.00014  Score=54.35  Aligned_cols=24  Identities=29%  Similarity=0.361  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+-||||+|+.|+||||+|+.+-+
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999998755

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.09  E-value=0.00013  Score=53.73  Aligned_cols=23  Identities=22%  Similarity=0.199  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..|.++|++|+||||+++.+.+.
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~   25 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARA   25 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHH
Confidence            34668899999999999999875

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=97.08  E-value=0.00013  Score=54.82  Aligned_cols=27  Identities=30%  Similarity=0.319  Sum_probs=23.5

Q ss_pred             CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          180 EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       180 ~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.+.-+|+|-|..|+|||||++.+.+.
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            356779999999999999999998764

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=97.05  E-value=0.0005  Score=53.83  Aligned_cols=47  Identities=28%  Similarity=0.381  Sum_probs=35.4

Q ss_pred             CCcccchHHHHHHHHHH---hc-------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLL---IV-------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L---~~-------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.+..++.|.+.+   ..       +-...+-|-++|++|+|||+||+.+.+.
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            36899998887766543   21       1233566889999999999999999985

>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=96.99  E-value=0.00055  Score=55.55  Aligned_cols=47  Identities=17%  Similarity=0.215  Sum_probs=37.1

Q ss_pred             CCcccchHHHHHHHHHHh-------cCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLI-------VGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~-------~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..++|.+..++.|...+.       +.+....++..+|+.|+|||.||+.+-.-
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~   75 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA   75 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhh
Confidence            357899999998877653       12334668899999999999999998773

>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=96.98  E-value=0.00018  Score=54.75  Aligned_cols=26  Identities=19%  Similarity=0.158  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhccc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      ..||+|-|++|+||||+|+.|-++-.
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35999999999999999999988654

>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=96.97  E-value=0.0004  Score=56.60  Aligned_cols=39  Identities=18%  Similarity=0.244  Sum_probs=31.3

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          168 EIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       168 ~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...+|++.+.....+..+|+|.|.+|+|||||.-.+...
T Consensus        36 ~~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~   74 (323)
T d2qm8a1          36 AVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSL   74 (323)
T ss_dssp             HHHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHH
Confidence            355566666655667999999999999999999998764

>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=96.93  E-value=0.0007  Score=55.21  Aligned_cols=38  Identities=18%  Similarity=0.190  Sum_probs=30.5

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+|+..+.....+..+|+|+|.+|+|||||...+-..
T Consensus        40 ~~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~   77 (327)
T d2p67a1          40 STQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGML   77 (327)
T ss_dssp             HHHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHH
Confidence            45566666555567999999999999999999988654

>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=96.88  E-value=0.00023  Score=52.89  Aligned_cols=23  Identities=17%  Similarity=0.196  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ++|.|+|++|+|||||++.+.++
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            47889999999999999999764

>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=96.86  E-value=0.00026  Score=54.04  Aligned_cols=25  Identities=20%  Similarity=0.096  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhccc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      -+|+|-|++|+||||+|+.|-.+-.
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3689999999999999999988553

>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=96.84  E-value=0.00034  Score=52.14  Aligned_cols=25  Identities=24%  Similarity=0.226  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..++| |+|++|+||||+|+.+.+.-
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            46677 78999999999999998644

>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=96.78  E-value=0.0018  Score=49.17  Aligned_cols=53  Identities=17%  Similarity=-0.058  Sum_probs=34.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCHHHH--HHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYLHKV--LDSIIKSV  236 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~~~i--l~~Il~~l  236 (241)
                      +.+||.++|+.|+||||.+-++-.... ++. ..++.++ .+|..-.+  ++...+.+
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~-~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l   64 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK-GKG-RRPLLVAADTQRPAAREQLRLLGEKV   64 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH-HTT-CCEEEEECCSSCHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-HCC-CcEEEEecccccchHHHHHHHHHHhc
Confidence            468999999999999988777766532 222 3456666 66666433  44444444

>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=96.78  E-value=0.00029  Score=52.53  Aligned_cols=25  Identities=16%  Similarity=0.033  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhccc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      -.|.|.|++|+||||+|+.+.+.-.
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHC
Confidence            3577999999999999999987543

>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=96.77  E-value=0.00054  Score=53.78  Aligned_cols=24  Identities=29%  Similarity=0.288  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .=.+++|+|..|+|||||++.+..
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            356899999999999999999987

>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=96.76  E-value=0.00045  Score=52.67  Aligned_cols=26  Identities=19%  Similarity=0.135  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+-.||-+.|++|+||||||+.+...
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~   47 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQ   47 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999864

>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=96.75  E-value=0.00043  Score=55.95  Aligned_cols=27  Identities=19%  Similarity=0.219  Sum_probs=24.0

Q ss_pred             CCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          180 EPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       180 ~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+.+-||||.|..|+||||+|+.+...
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~l  103 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHHH
Confidence            356899999999999999999999764

>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=96.75  E-value=0.00033  Score=52.48  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      --|.|.|++|+||||+|+.+...-
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHH
Confidence            345578999999999999998853

>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=96.71  E-value=0.0018  Score=49.08  Aligned_cols=55  Identities=16%  Similarity=0.063  Sum_probs=36.3

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCH--HHHHHHHHHHhC
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYL--HKVLDSIIKSVM  237 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~--~~il~~Il~~l~  237 (241)
                      .+.+||.++|+.|+||||.+-++.....-. . ..++.|+ .+|..  .+-|+...+.++
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~-g-~kV~lit~Dt~R~gA~eQL~~~a~~l~   61 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNL-G-KKVMFCAGDTFRAAGGTQLSEWGKRLS   61 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTT-T-CCEEEECCCCSSTTHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC-C-CcEEEEEeccccccchhhHhhcccccC
Confidence            357899999999999999888877653322 2 2466777 55443  444555555443

>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=96.71  E-value=0.00081  Score=52.41  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =..++|+|..|+|||||++.+..-
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            467999999999999999999873

>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=96.71  E-value=0.0012  Score=50.98  Aligned_cols=23  Identities=26%  Similarity=0.166  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+.-
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            45899999999999999999887

>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=96.69  E-value=0.00032  Score=53.19  Aligned_cols=24  Identities=21%  Similarity=0.199  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|+.|+|||||.+.+..-
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcc
Confidence            458999999999999999999873

>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=96.68  E-value=0.00045  Score=49.70  Aligned_cols=23  Identities=22%  Similarity=0.200  Sum_probs=20.4

Q ss_pred             EEEEcCCCccHHHHHHHHHhccc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      |+|+|.+|+|||||.+.+.++..
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~~   30 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGEV   30 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            77999999999999999987653

>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=96.67  E-value=0.00046  Score=53.78  Aligned_cols=24  Identities=21%  Similarity=0.087  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|+.|+|||||++.++--
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcC
Confidence            458999999999999999999873

>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=96.67  E-value=0.00047  Score=53.42  Aligned_cols=23  Identities=26%  Similarity=0.216  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||++.+.-
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45899999999999999999976

>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=96.66  E-value=0.00033  Score=55.45  Aligned_cols=47  Identities=34%  Similarity=0.328  Sum_probs=34.2

Q ss_pred             CCcccchHHHHHHHHHHh----c-------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          160 RNIMGLEDEIEELLDLLI----V-------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~----~-------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|.++.++.|.+.+.    .       +-...+-|-++|++|+|||+||+.+.+.
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            347787777666665542    1       2234566779999999999999999886

>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=96.66  E-value=0.0027  Score=48.29  Aligned_cols=55  Identities=15%  Similarity=0.109  Sum_probs=35.6

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCHHH--HHHHHHHHhC
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYLHK--VLDSIIKSVM  237 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~~~--il~~Il~~l~  237 (241)
                      ..+.||.+||+.|+||||-+-++-.... +.. ..+.-++ .+|..-.  -|+...+.++
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~   64 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFE-QQG-KSVMLAAGDTFRAAAVEQLQVWGQRNN   64 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHH-TTT-CCEEEECCCTTCHHHHHHHHHHHHHTT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC-CcEEEEecccccccchhhhhhhhhhcC
Confidence            4589999999999999998777766532 222 1344444 7777733  3445555443

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.65  E-value=0.00044  Score=51.34  Aligned_cols=24  Identities=8%  Similarity=0.242  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+.|.|+|+.|+|||||++.+..+
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999999999999854

>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=96.64  E-value=0.0011  Score=52.92  Aligned_cols=28  Identities=21%  Similarity=0.335  Sum_probs=24.1

Q ss_pred             CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          179 GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       179 ~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +...+-+|||.|..|+|||||++.|...
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            4566889999999999999999988654

>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=96.61  E-value=0.00054  Score=51.25  Aligned_cols=25  Identities=20%  Similarity=0.239  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +..+|.|.|++|+||||+|+.+.+.
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            3689999999999999999999775

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.60  E-value=0.00035  Score=53.81  Aligned_cols=25  Identities=20%  Similarity=0.178  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+.|+|-|+.|+||||+++.+.+.-
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999998854

>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=96.60  E-value=0.0026  Score=48.46  Aligned_cols=55  Identities=16%  Similarity=0.167  Sum_probs=37.6

Q ss_pred             CCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCHHHH--HHHHHHHh
Q 042580          180 EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYLHKV--LDSIIKSV  236 (241)
Q Consensus       180 ~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~~~i--l~~Il~~l  236 (241)
                      ...+.||.+||+.|+||||-+-++.... .+++ ..++.|+ .+|..-.+  |+...+.+
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~-~~~~-~kV~lit~Dt~R~gA~eQL~~~a~~l   65 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMF-VDEG-KSVVLAAADTFRAAAIEQLKIWGERV   65 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHH-HHTT-CCEEEEEECTTCHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH-HHCC-CceEEEeecccccchhHHHHHHhhhc
Confidence            3568999999999999999877777653 2222 3567777 77776443  44544444

>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=96.59  E-value=0.0005  Score=49.08  Aligned_cols=22  Identities=18%  Similarity=0.129  Sum_probs=19.5

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|.+|+|||||.+.+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5699999999999999988754

>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=96.59  E-value=0.00048  Score=53.63  Aligned_cols=24  Identities=21%  Similarity=0.149  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|..|+|||||++.++--
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

>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=96.58  E-value=0.00059  Score=53.07  Aligned_cols=23  Identities=22%  Similarity=0.150  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||++.+.-
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            45899999999999999999987

>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=96.58  E-value=0.00057  Score=54.47  Aligned_cols=21  Identities=24%  Similarity=0.332  Sum_probs=17.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEA  203 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v  203 (241)
                      .+.|+|.|-|||||||+|-.+
T Consensus         2 Mr~IaisgKGGVGKTT~a~NL   22 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNL   22 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHH
Confidence            468899999999999976665

>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=96.58  E-value=0.00053  Score=53.87  Aligned_cols=23  Identities=35%  Similarity=0.299  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||++.+..
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

>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=96.56  E-value=0.00058  Score=54.53  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .=.+++|+|+.|+|||||++.+.--
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            3568999999999999999999873

>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=96.55  E-value=0.0025  Score=48.43  Aligned_cols=46  Identities=24%  Similarity=0.243  Sum_probs=29.0

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe-CCCCHHHH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG-CEYYLHKV  228 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~-~~~~~~~i  228 (241)
                      +...||.+||+.|+||||.+-++..... +... .++.|+ .+|..-.+
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~-kV~lit~Dt~R~ga~   56 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK-KKGF-KVGLVGADVYRPAAL   56 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH-HTTC-CEEEEECCCSSHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCC-ceEEEEeeccccchh
Confidence            5689999999999999987766665433 2233 467777 77766544

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.55  E-value=0.00065  Score=52.38  Aligned_cols=25  Identities=20%  Similarity=0.157  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ++.|+|-|+-|+||||+++.+.+..
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH
Confidence            6799999999999999999998753

>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=96.54  E-value=0.00093  Score=48.76  Aligned_cols=35  Identities=14%  Similarity=0.120  Sum_probs=24.7

Q ss_pred             HHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          172 LLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       172 l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +.+++.-..+..+ |.++|.+|+|||||...+....
T Consensus         3 ~~~~~~~~~k~~k-I~lvG~~~vGKTsLl~~l~~~~   37 (186)
T d1f6ba_           3 VLQFLGLYKKTGK-LVFLGLDNAGKTTLLHMLKDDR   37 (186)
T ss_dssp             HHHHHTCTTCCEE-EEEEEETTSSHHHHHHHHSCC-
T ss_pred             hHHhccccCCCCE-EEEECCCCCCHHHHHHHHhCCC
Confidence            3455543443444 6799999999999999986643

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.54  E-value=0.00065  Score=52.80  Aligned_cols=23  Identities=17%  Similarity=0.153  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++|+|+.|+|||||++.+..-
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCChHHHHHHHHHcC
Confidence            47889999999999999999983

>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=96.53  E-value=0.00057  Score=53.84  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||++.+.-
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            45899999999999999999976

>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=96.53  E-value=0.00066  Score=50.64  Aligned_cols=26  Identities=27%  Similarity=0.373  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..+..|+|+|.+|+|||||.+.+.+.
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            34667999999999999999999864

>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=96.52  E-value=0.00069  Score=52.85  Aligned_cols=23  Identities=26%  Similarity=0.177  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =..++|+|+.|+|||||++.+..
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            57899999999999999999976

>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=96.52  E-value=0.00073  Score=49.82  Aligned_cols=37  Identities=24%  Similarity=0.214  Sum_probs=26.6

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          170 EELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       170 ~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+.+.|....+.++| .++|.+|+|||||.+.+.++.
T Consensus         5 ~~~~~~l~~~~k~~KI-~lvG~~~vGKTsLi~~l~~~~   41 (182)
T d1moza_           5 SSMFDKLWGSNKELRI-LILGLDGAGKTTILYRLQIGE   41 (182)
T ss_dssp             HHHHGGGTTCSSCEEE-EEEEETTSSHHHHHHHTCCSE
T ss_pred             HHHHHHHhCCCceEEE-EEECCCCCCHHHHHHHHhcCC
Confidence            4455555555555654 499999999999999986543

>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=96.51  E-value=0.0014  Score=54.20  Aligned_cols=45  Identities=13%  Similarity=0.152  Sum_probs=33.4

Q ss_pred             cccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          162 IMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       162 ~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.|.+...-...+.++.+.++.+.+.++|++|+|||++|+.+.+.
T Consensus       133 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         133 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             STTHHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHHH
Confidence            445444444444445556667789999999999999999999885

>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=96.51  E-value=0.00066  Score=50.13  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=19.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|| |.|++|+||||+|+.+.+.
T Consensus         3 mrIv-l~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           3 IRMV-LIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHH
T ss_pred             eEEE-EECCCCCCHHHHHHHHHHH
Confidence            4544 7799999999999999764

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.47  E-value=0.00075  Score=51.35  Aligned_cols=24  Identities=8%  Similarity=0.079  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..|+|.|+.|+||||+++.+.+.-
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999988754

>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=96.46  E-value=0.00068  Score=51.51  Aligned_cols=23  Identities=13%  Similarity=0.189  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+|.|+|++|+|||||++.+.+.
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            47889999999999999999763

>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=96.46  E-value=0.00066  Score=52.42  Aligned_cols=23  Identities=26%  Similarity=0.160  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||.+.+.-
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

>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=96.45  E-value=0.00092  Score=48.41  Aligned_cols=22  Identities=18%  Similarity=0.323  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|.+|||||||++.+.++.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~~   26 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKGI   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999877643

>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=96.44  E-value=0.0011  Score=48.70  Aligned_cols=25  Identities=24%  Similarity=0.238  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ....|+|+|..|+|||||++.+.+.
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999999875

>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=96.43  E-value=0.00079  Score=54.79  Aligned_cols=46  Identities=24%  Similarity=0.185  Sum_probs=34.0

Q ss_pred             cccCCcccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHH
Q 042580          157 FKKRNIMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       157 ~~~~~~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      .|-+.++|.+.-+..|+-.+...  ..+-+-++|.+|+||||||+.+-
T Consensus         4 ~~f~~I~Gq~~~kral~laa~~~--~~h~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_           4 FPFSAIVGQEDMKLALLLTAVDP--GIGGVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHCG--GGCCEEEECCGGGCTTHHHHHHH
T ss_pred             CChhhccCcHHHHHHHHHHHhcc--CCCeEEEECCCCccHHHHHHHHH
Confidence            35578999998777655444321  23457899999999999999885

>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=96.41  E-value=0.0011  Score=48.49  Aligned_cols=24  Identities=21%  Similarity=0.315  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ...|+|+|.+|||||||.+.+.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            577999999999999999999864

>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=96.40  E-value=0.0012  Score=48.24  Aligned_cols=25  Identities=12%  Similarity=0.134  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +---|.|+|.+|+|||||.+.+.++
T Consensus        15 ~~~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          15 QEVRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CEEEEEEECCCCCCHHHHHHHHhcC
Confidence            3345779999999999999998774

>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=96.39  E-value=0.0019  Score=49.14  Aligned_cols=57  Identities=21%  Similarity=0.100  Sum_probs=35.0

Q ss_pred             cccchHH--HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          162 IMGLEDE--IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       162 ~vG~~~~--~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      ++|-.+.  ..-+.++..........+-|||..|+|||-|++.+++..  .......++++
T Consensus        13 ~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~--~~~~~~~~~~~   71 (213)
T d1l8qa2          13 IVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA--KKRGYRVIYSS   71 (213)
T ss_dssp             CCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH--HHTTCCEEEEE
T ss_pred             cCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHh--ccCccceEEec
Confidence            4564332  333444443333334457899999999999999999973  33333444544

>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=96.39  E-value=0.0011  Score=47.99  Aligned_cols=23  Identities=17%  Similarity=0.270  Sum_probs=20.2

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.++|.+|+|||||++.+.++.
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47799999999999999988754

>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=96.34  E-value=0.0012  Score=47.97  Aligned_cols=22  Identities=18%  Similarity=0.433  Sum_probs=19.5

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|-+|||||||++.+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999988754

>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=96.32  E-value=0.00097  Score=51.84  Aligned_cols=24  Identities=21%  Similarity=0.101  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.+++|+|+.|+|||||.+.+..-
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            468999999999999999999874

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.32  E-value=0.0024  Score=51.58  Aligned_cols=46  Identities=17%  Similarity=0.286  Sum_probs=35.3

Q ss_pred             CcccchHHHHHHHHHHhc-------CCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          161 NIMGLEDEIEELLDLLIV-------GEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~-------~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++|.+..++.|...+..       .+....++..+|+.|+|||.||+.+-+.
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~   76 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT   76 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHH
Confidence            578998888888775531       2233568899999999999999988764

>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=96.32  E-value=0.0012  Score=47.96  Aligned_cols=22  Identities=23%  Similarity=0.372  Sum_probs=19.0

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|.+|||||||.+.+.++.
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5799999999999999877643

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.31  E-value=0.002  Score=50.69  Aligned_cols=35  Identities=20%  Similarity=0.301  Sum_probs=25.4

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +..+.+.+-.  +.-+||.+.|-|||||||++-.+-.
T Consensus         8 ~~~~~~~~~~--~~~~iii~sGKGGVGKTT~a~nLA~   42 (279)
T d1ihua2           8 LSALVDDIAR--NEHGLIMLMGKGGVGKTTMAAAIAV   42 (279)
T ss_dssp             HHHHHHHHHT--TSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhhc--CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3445555544  4589999999999999997665544

>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=96.31  E-value=0.00093  Score=48.29  Aligned_cols=22  Identities=14%  Similarity=0.200  Sum_probs=19.3

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|.+|+|||||.+.+.++.
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHcCCC
Confidence            6699999999999999987743

>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=96.31  E-value=0.00092  Score=52.04  Aligned_cols=24  Identities=25%  Similarity=0.225  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|+.|+|||||++.+.--
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            358999999999999999999874

>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=96.29  E-value=0.0025  Score=46.29  Aligned_cols=36  Identities=22%  Similarity=0.126  Sum_probs=25.8

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+++.++..  +..+ |.|+|.+|+|||||...+-.+.
T Consensus         4 ~~~~~~~~~~--k~~k-I~vvG~~~~GKSsLi~rl~~~~   39 (177)
T d1zj6a1           4 FTRIWRLFNH--QEHK-VIIVGLDNAGKTTILYQFSMNE   39 (177)
T ss_dssp             HHHHHHHHTT--SCEE-EEEEESTTSSHHHHHHHHHTTS
T ss_pred             HHHHHHHhCC--CeEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            3455555533  3354 6699999999999999988753

>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=96.25  E-value=0.0013  Score=47.89  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=20.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|.+|+|||||++.+.++.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988743

>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=96.24  E-value=0.0063  Score=47.25  Aligned_cols=45  Identities=20%  Similarity=0.090  Sum_probs=34.0

Q ss_pred             cccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          162 IMGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       162 ~vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +||....+..+.+.+..-...-.-|-|.|..|+|||++|+.++..
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence            578778888888877542222233688899999999999999874

>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=96.24  E-value=0.0014  Score=47.77  Aligned_cols=24  Identities=33%  Similarity=0.508  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      --|.|+|.+|||||||++.+.++.
T Consensus         3 ~Ki~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           3 LKVIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCcCHHHHHHHHHcCC
Confidence            348899999999999999977643

>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=96.24  E-value=0.0011  Score=52.53  Aligned_cols=25  Identities=16%  Similarity=0.108  Sum_probs=20.2

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ...++|.+.|-|||||||+|-.+-.
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~   30 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAI   30 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHH
Confidence            3478999999999999996666554

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=96.23  E-value=0.0012  Score=50.00  Aligned_cols=22  Identities=32%  Similarity=0.495  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .||||+|+.|+||||.++.+-.
T Consensus         4 ~iIgitG~igSGKStv~~~l~~   25 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFAD   25 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHHHH
Confidence            4899999999999999986643

>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=96.21  E-value=0.0014  Score=47.93  Aligned_cols=23  Identities=17%  Similarity=0.296  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|.+|+|||||++.+.++.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            37799999999999999977653

>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=96.19  E-value=0.0015  Score=47.13  Aligned_cols=22  Identities=14%  Similarity=0.294  Sum_probs=19.4

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|.+|||||||++.+.++.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999987644

>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=96.19  E-value=0.0011  Score=51.93  Aligned_cols=24  Identities=17%  Similarity=0.142  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      =.+++|+|+.|+|||||++.+.--
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            358999999999999999999884

>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=96.19  E-value=0.0014  Score=47.67  Aligned_cols=21  Identities=24%  Similarity=0.349  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHh
Q 042580          185 IVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .|+|+|..|+|||||++.+..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999975

>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=96.17  E-value=0.00088  Score=52.14  Aligned_cols=23  Identities=30%  Similarity=0.208  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|+.|+|||||++.+..
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

>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=96.15  E-value=0.0016  Score=47.09  Aligned_cols=22  Identities=18%  Similarity=0.286  Sum_probs=19.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.|+|.+|||||||++.+.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999887654

>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=96.15  E-value=0.0014  Score=47.64  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.++|.+|+|||||++.+.++
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999988764

>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=96.14  E-value=0.0017  Score=47.15  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.5

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|.+|||||+|.+...++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5789999999999999988754

>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=96.13  E-value=0.0016  Score=47.17  Aligned_cols=23  Identities=17%  Similarity=0.361  Sum_probs=20.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|.+|+|||||++.+.++.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999987754

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.12  E-value=0.00073  Score=53.95  Aligned_cols=24  Identities=17%  Similarity=0.220  Sum_probs=17.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHh
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +..||||.|..|+||||+++.+-+
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            355999999999999999997655

>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=96.12  E-value=0.0014  Score=48.40  Aligned_cols=23  Identities=30%  Similarity=0.413  Sum_probs=19.9

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|.+|||||||++.+.++.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~~   29 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDNK   29 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            37799999999999999988653

>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=96.11  E-value=0.0017  Score=48.45  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=20.1

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|.+|+|||||++.+.++.
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            47899999999999999988754

>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=96.10  E-value=0.0018  Score=47.14  Aligned_cols=23  Identities=17%  Similarity=0.315  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|.+|||||||.+.+.++.
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            48899999999999999877643

>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=96.10  E-value=0.0018  Score=46.90  Aligned_cols=22  Identities=23%  Similarity=0.454  Sum_probs=19.6

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|-+|||||||++.+.++.
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999988753

>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=96.09  E-value=0.0019  Score=46.79  Aligned_cols=23  Identities=22%  Similarity=0.286  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|-+|||||||++.+.++.
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999877643

>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=96.08  E-value=0.0012  Score=51.03  Aligned_cols=23  Identities=22%  Similarity=0.267  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =.+++|+|..|+|||||.+.+.-
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            45899999999999999999976

>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=96.08  E-value=0.0018  Score=46.83  Aligned_cols=24  Identities=17%  Similarity=0.180  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..-|.|+|-.|||||||++.+.++
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhC
Confidence            345789999999999999997654

>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=96.08  E-value=0.0017  Score=47.22  Aligned_cols=23  Identities=22%  Similarity=0.235  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.++|..|||||||++.+.+..
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEEECCCCcCHHHHHHHHhCCc
Confidence            37899999999999999987643

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=96.07  E-value=0.0016  Score=49.17  Aligned_cols=23  Identities=30%  Similarity=0.419  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .-+|||+|.-|+||||+++.+-+
T Consensus         2 ~~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           2 TYIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998643

>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=96.06  E-value=0.0019  Score=46.91  Aligned_cols=23  Identities=13%  Similarity=0.248  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|..|||||||++.+.++.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999988654

>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=96.06  E-value=0.0019  Score=47.12  Aligned_cols=22  Identities=18%  Similarity=0.330  Sum_probs=19.2

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.++|.+|||||||+..+.++
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3889999999999999987654

>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=96.06  E-value=0.002  Score=46.63  Aligned_cols=23  Identities=17%  Similarity=0.355  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.++|-+|||||||++.+.++.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999887753

>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=96.02  E-value=0.0018  Score=45.99  Aligned_cols=23  Identities=17%  Similarity=0.150  Sum_probs=20.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.++|.+|+|||||+..+-+..
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999988753

>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=96.01  E-value=0.0021  Score=46.92  Aligned_cols=25  Identities=16%  Similarity=0.275  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|.+|||||||++.+.++.
T Consensus         6 ~~Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           6 THKLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCC
Confidence            4457799999999999999877654

>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=95.99  E-value=0.002  Score=47.08  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.|+|..|+|||||++.+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999987664

>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=95.99  E-value=0.0066  Score=46.35  Aligned_cols=38  Identities=18%  Similarity=0.067  Sum_probs=32.0

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG  220 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~  220 (241)
                      +.-.++-|+|.+|+|||+|+.++..+  ...+...++|++
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            45789999999999999999999887  555666778887

>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=95.99  E-value=0.00096  Score=52.39  Aligned_cols=23  Identities=30%  Similarity=0.144  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =..++|+|..|+|||||++.+..
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            46899999999999999999875

>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=95.97  E-value=0.0023  Score=46.34  Aligned_cols=22  Identities=14%  Similarity=0.332  Sum_probs=19.3

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|-.|||||+|++.+.++.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6799999999999999987654

>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=95.95  E-value=0.0021  Score=48.00  Aligned_cols=22  Identities=18%  Similarity=0.173  Sum_probs=20.2

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .|+|+|.+|+|||||...+.++
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            6899999999999999999865

>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=95.87  E-value=0.0026  Score=46.15  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +.-|.|+|-+|||||||++.+.++.
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCC
Confidence            4567899999999999999976543

>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=95.86  E-value=0.0026  Score=46.92  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      --|.|+|.+|||||||++.+.++.
T Consensus        10 ~Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          10 LKCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhhCC
Confidence            348899999999999999877654

>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=95.83  E-value=0.0028  Score=46.60  Aligned_cols=23  Identities=35%  Similarity=0.525  Sum_probs=19.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.++|..|||||||++.+.+..
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37799999999999999888644

>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=95.83  E-value=0.0066  Score=47.37  Aligned_cols=41  Identities=17%  Similarity=0.294  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          167 DEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       167 ~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..+.++...+...+...--|.++|..|+|||||.+.|+...
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            44556666665554455668899999999999999999754

>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=95.81  E-value=0.0023  Score=48.65  Aligned_cols=25  Identities=20%  Similarity=0.097  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -..|+|-|+-|+||||+++.+.+.-
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHH
Confidence            3579999999999999999998653

>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=95.81  E-value=0.0024  Score=48.16  Aligned_cols=23  Identities=22%  Similarity=0.171  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.|+|-|+.|+||||+++.+.+.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~   25 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVET   25 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998874

>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=95.80  E-value=0.0036  Score=51.56  Aligned_cols=46  Identities=20%  Similarity=0.151  Sum_probs=34.0

Q ss_pred             CCcccchHHHHHHHHHHh----------------------------cCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          160 RNIMGLEDEIEELLDLLI----------------------------VGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       160 ~~~vG~~~~~~~l~~~L~----------------------------~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ..++|.++.++.+-..+.                            +.+.....|-.+|+.|||||.|||.+-.
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            357899988777654441                            1133466788899999999999999865

>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=95.79  E-value=0.0029  Score=46.20  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=19.2

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|.+|+|||||++.+-++.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7799999999999999876643

>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=95.78  E-value=0.003  Score=45.76  Aligned_cols=22  Identities=14%  Similarity=0.335  Sum_probs=18.9

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.|+|..|+|||||++.+.++.
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999877643

>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=95.78  E-value=0.0029  Score=46.17  Aligned_cols=23  Identities=22%  Similarity=0.234  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.|+|.+|||||||+..+.++.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999887754

>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=95.76  E-value=0.0029  Score=46.04  Aligned_cols=24  Identities=29%  Similarity=0.567  Sum_probs=19.7

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +--|.|+|-+|||||||++.+.++
T Consensus         6 ~~KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           6 LFKVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            334889999999999999877654

>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=95.74  E-value=0.0065  Score=45.77  Aligned_cols=41  Identities=15%  Similarity=0.151  Sum_probs=31.4

Q ss_pred             cchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          164 GLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       164 G~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ..+...++|.+.+..+. -.+.+-++|+.|+||||+|+.+.+
T Consensus         6 w~~~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             GGHHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCC-cCeEEEEECCCCCcHHHHHHHHHH
Confidence            34566788888776643 345688999999999999997765

>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=95.74  E-value=0.0032  Score=45.67  Aligned_cols=23  Identities=17%  Similarity=0.407  Sum_probs=19.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.++|-.|+|||||++.+.++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36688999999999999987754

>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=95.73  E-value=0.0028  Score=45.66  Aligned_cols=22  Identities=23%  Similarity=0.252  Sum_probs=18.7

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|.+|+|||||+..+..+.
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            5688999999999999886643

>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=95.73  E-value=0.0028  Score=46.51  Aligned_cols=22  Identities=32%  Similarity=0.427  Sum_probs=19.7

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|+|+|..|+|||||+..+.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4799999999999999999864

>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=95.67  E-value=0.0035  Score=45.40  Aligned_cols=23  Identities=35%  Similarity=0.459  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      --|.|+|.+|||||||++.+.++
T Consensus         7 fKi~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           7 FKVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34899999999999999987664

>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=95.67  E-value=0.0031  Score=47.97  Aligned_cols=23  Identities=30%  Similarity=0.339  Sum_probs=19.4

Q ss_pred             eEEEEEE-cCCCccHHHHHHHHHh
Q 042580          183 LFIVAIV-GNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~Iv-G~gGvGKTTLak~v~~  205 (241)
                      -+||+|+ +-||+||||+|-.+-.
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~   25 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSV   25 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHH
Confidence            3799999 5599999999988854

>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=95.67  E-value=0.0031  Score=45.07  Aligned_cols=21  Identities=19%  Similarity=0.275  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |+++|.+|+|||||.+.+...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999999753

>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=95.66  E-value=0.0034  Score=46.05  Aligned_cols=23  Identities=22%  Similarity=0.241  Sum_probs=19.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.++|..|||||+|++.+.++.
T Consensus         4 KivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36689999999999999887743

>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=95.65  E-value=0.0066  Score=51.27  Aligned_cols=72  Identities=17%  Similarity=0.223  Sum_probs=45.5

Q ss_pred             CcccchHHHHHHHHHHhc--------C----CCCeEEEEEEcCCCccHHHHHHHHHhccccccCC---CeeEEEe---CC
Q 042580          161 NIMGLEDEIEELLDLLIV--------G----EPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYF---DCRAWVG---CE  222 (241)
Q Consensus       161 ~~vG~~~~~~~l~~~L~~--------~----~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F---~~~~wV~---~~  222 (241)
                      -+||.++.++.|--.+.+        +    +-..+-|-++|+.|+|||.|||.+..-  +.-.|   |+.-+..   ..
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~--l~VPFv~~daT~fTeaGYvG   92 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL--ANAPFIKVEATKFTEVGYVG   92 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHH--TTCCEEEEEGGGGC----CC
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHH--hCCCEEEeecceeeecceee
Confidence            478998888776554421        1    223557889999999999999999874  32333   1111111   34


Q ss_pred             CCHHHHHHHHHH
Q 042580          223 YYLHKVLDSIIK  234 (241)
Q Consensus       223 ~~~~~il~~Il~  234 (241)
                      -|++.+++.+++
T Consensus        93 ~DVesii~~L~~  104 (443)
T d1g41a_          93 KEVDSIIRDLTD  104 (443)
T ss_dssp             CCTHHHHHHHHH
T ss_pred             cchhHHHHHHHH
Confidence            567777776654

>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=95.65  E-value=0.025  Score=42.89  Aligned_cols=47  Identities=13%  Similarity=0.026  Sum_probs=33.4

Q ss_pred             CCCCeEEEEEEcCCCccHHHHHHHHHhccc----cccCCCeeEEEe--CCCCH
Q 042580          179 GEPSLFIVAIVGNSGFDKTNFAGEAYNNNY----AKNYFDCRAWVG--CEYYL  225 (241)
Q Consensus       179 ~~~~~~vI~IvG~gGvGKTTLak~v~~~~~----v~~~F~~~~wV~--~~~~~  225 (241)
                      +=+.-+++-|+|.+|+|||+|+.++..+..    ....+....|+.  ..++.
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRP   85 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCH
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHH
Confidence            335568999999999999999998876432    223456677887  44443

>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=95.59  E-value=0.007  Score=45.90  Aligned_cols=40  Identities=8%  Similarity=-0.079  Sum_probs=28.6

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccC----CCeeEEEe
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNY----FDCRAWVG  220 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~----F~~~~wV~  220 (241)
                      +.-+++-|+|.+|+|||||+-++..+......    -...+|++
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            44679999999999999999887655322222    23567777

>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=95.56  E-value=0.0054  Score=44.95  Aligned_cols=25  Identities=20%  Similarity=0.195  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .--|.|+|-+|||||||++.+.++.
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCC
Confidence            3348899999999999998877654

>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=95.53  E-value=0.0018  Score=47.21  Aligned_cols=21  Identities=29%  Similarity=0.548  Sum_probs=17.5

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.|+|..|+|||||++.+.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788999999999999987654

>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=95.52  E-value=0.017  Score=46.58  Aligned_cols=49  Identities=16%  Similarity=0.247  Sum_probs=33.4

Q ss_pred             EEEEcCCCccHHHHHHHHHhccc-------cccC----CC-eeEEEe----CCCCHHHHHHHHHH
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNNY-------AKNY----FD-CRAWVG----CEYYLHKVLDSIIK  234 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~~-------v~~~----F~-~~~wV~----~~~~~~~il~~Il~  234 (241)
                      |-|+|..|+|||||++.+.+...       +.+.    +. ..-|+.    ..++..++++..++
T Consensus       169 ili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~lR  233 (323)
T d1g6oa_         169 VIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLR  233 (323)
T ss_dssp             EEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTT
T ss_pred             EEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHHHhc
Confidence            78899999999999999988321       1111    11 122333    67788888887765

>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=95.52  E-value=0.0034  Score=46.12  Aligned_cols=22  Identities=9%  Similarity=0.125  Sum_probs=18.8

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|-+|||||||++..-.+.
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            6789999999999999976543

>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=95.48  E-value=0.0041  Score=47.53  Aligned_cols=26  Identities=19%  Similarity=0.289  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .+.|+-|.|.-|+|||||.+.+.++.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            47899999999999999999998754

>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=95.46  E-value=0.0027  Score=46.29  Aligned_cols=25  Identities=24%  Similarity=0.181  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +..-|+|+|.+++|||||.+.+...
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            4677999999999999999998653

>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=95.42  E-value=0.0047  Score=45.70  Aligned_cols=22  Identities=23%  Similarity=0.273  Sum_probs=18.6

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      |.++|-+|||||+|+..+.++.
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999998776644

>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=95.37  E-value=0.0045  Score=45.02  Aligned_cols=22  Identities=23%  Similarity=0.452  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCccHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      --|.++|.+|||||||++.+..
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            4478999999999999998865

>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=95.36  E-value=0.0026  Score=46.34  Aligned_cols=26  Identities=12%  Similarity=0.077  Sum_probs=21.5

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..++ |.++|.+|+|||||.+.+.++.
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            3566 5599999999999999997654

>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=95.32  E-value=0.0049  Score=45.15  Aligned_cols=23  Identities=9%  Similarity=0.238  Sum_probs=19.6

Q ss_pred             EEEEEcCCCccHHHHHHHHHhcc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -|.++|..|||||||++...++.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999877644

>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=95.31  E-value=0.004  Score=46.18  Aligned_cols=26  Identities=15%  Similarity=0.028  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      .-.++-|.|.+|+|||||+.++..+.
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            35799999999999999999887654

>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=95.24  E-value=0.0046  Score=45.71  Aligned_cols=19  Identities=16%  Similarity=0.326  Sum_probs=17.4

Q ss_pred             EEEEEcCCCccHHHHHHHH
Q 042580          185 IVAIVGNSGFDKTNFAGEA  203 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v  203 (241)
                      -|.++|.+|+|||||++..
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999998

>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=95.24  E-value=0.018  Score=43.45  Aligned_cols=27  Identities=22%  Similarity=0.165  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..-.++-|+|.+|+|||||+.++..+.
T Consensus        32 ~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          32 ESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            345899999999999999999998654

>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=95.20  E-value=0.0092  Score=45.60  Aligned_cols=34  Identities=29%  Similarity=0.305  Sum_probs=26.4

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ++.|.++|.+     +...++|..|||||||.+.+..+.
T Consensus        86 ~~~L~~~l~~-----kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLKG-----KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHSS-----SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhcC-----CeEEEECCCCCCHHHHHHhhcchh
Confidence            5667776632     356789999999999999998654

>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=95.18  E-value=0.024  Score=43.06  Aligned_cols=45  Identities=16%  Similarity=0.149  Sum_probs=31.2

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccc----cCCCeeEEEe--CCCCH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAK----NYFDCRAWVG--CEYYL  225 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~----~~F~~~~wV~--~~~~~  225 (241)
                      +.-+++-|+|.+|+|||||+-++..+....    ......+|+.  ..++.
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRP   84 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCH
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHH
Confidence            456899999999999999999886643211    1234567777  44444

>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=94.99  E-value=0.0058  Score=44.93  Aligned_cols=21  Identities=14%  Similarity=0.210  Sum_probs=18.2

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |.++|-+|||||||++....+
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            678999999999999988553

>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=94.94  E-value=0.0021  Score=45.92  Aligned_cols=21  Identities=24%  Similarity=0.442  Sum_probs=19.3

Q ss_pred             EEEEcCCCccHHHHHHHHHhc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~  206 (241)
                      |+++|.+|+|||||++.+...
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

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=94.94  E-value=0.017  Score=41.48  Aligned_cols=27  Identities=19%  Similarity=0.198  Sum_probs=23.5

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhccc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNNY  208 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~~  208 (241)
                      .-.+|.+.|.=|+|||||+|.+.+.-.
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhcc
Confidence            457999999999999999999998543

>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=94.93  E-value=0.007  Score=47.82  Aligned_cols=26  Identities=15%  Similarity=0.045  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+++-|+|+|.+|.|||||+-.+...
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~   29 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYY   29 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHHh
Confidence            35889999999999999999998653

>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=94.91  E-value=0.004  Score=45.29  Aligned_cols=22  Identities=23%  Similarity=0.291  Sum_probs=8.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|.|+|-+|+|||||+..+.++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999866653

>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=94.89  E-value=0.0077  Score=48.59  Aligned_cols=24  Identities=17%  Similarity=0.104  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -.++-++|++|+|||.||+.+...
T Consensus       123 ~g~~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         123 SGMVIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             SEEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CceEEEECCCCccHHHHHHHHHHH
Confidence            355667899999999999999986

>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=94.83  E-value=0.014  Score=46.03  Aligned_cols=32  Identities=22%  Similarity=0.236  Sum_probs=26.4

Q ss_pred             HHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          175 LLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       175 ~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .|..-+..+.||+|+|.-+.||+||+..++..
T Consensus        24 ~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          24 ILSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHcCCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            44333446999999999999999999999974

>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=94.71  E-value=0.0093  Score=46.85  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCccHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      +|-|+|+|..|.|||||+-.+.
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            6789999999999999999884

>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=94.64  E-value=0.009  Score=45.58  Aligned_cols=22  Identities=23%  Similarity=0.332  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .+|+|+|-.++|||||+..+..
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            4699999999999999998865

>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=94.58  E-value=0.0085  Score=45.48  Aligned_cols=24  Identities=8%  Similarity=0.047  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      ..-|.++|.+|+|||||++....+
T Consensus         6 ~~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           6 THRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999997643

>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=94.56  E-value=0.0091  Score=43.63  Aligned_cols=21  Identities=19%  Similarity=0.221  Sum_probs=19.4

Q ss_pred             EEEEEcCCCccHHHHHHHHHh
Q 042580          185 IVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -|+|+|..++|||||.+.+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            599999999999999999975

>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=94.53  E-value=0.022  Score=44.65  Aligned_cols=47  Identities=21%  Similarity=0.143  Sum_probs=35.6

Q ss_pred             CCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHHH
Q 042580          179 GEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLHK  227 (241)
Q Consensus       179 ~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~~  227 (241)
                      +=+.-+++-|+|..|+|||||+-++..+.  +..=..++|+.  ..|+.+.
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~--q~~g~~~vyIDtE~~~~~e~  104 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANA--QAAGGVAAFIDAEHALDPDY  104 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHH--HHTTCEEEEEESSCCCCHHH
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHH--hcCCCEEEEEECCccCCHHH
Confidence            33567899999999999999998877763  33334689998  6687654

>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=94.42  E-value=0.025  Score=42.36  Aligned_cols=46  Identities=24%  Similarity=0.234  Sum_probs=28.2

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHH-HhccccccCCCeeEEEeCCCCHHHH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEA-YNNNYAKNYFDCRAWVGCEYYLHKV  228 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v-~~~~~v~~~F~~~~wV~~~~~~~~i  228 (241)
                      +.-.++-|+|.+|+|||+||.++ ++.. . ..=....|++-......+
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~~~~-~-~~~~~~~~~s~e~~~~~~   70 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLYNGI-I-EFDEPGVFVTFEETPQDI   70 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHH-H-HHCCCEEEEESSSCHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHH-H-hcCCCcccccccCCHHHH
Confidence            34678889999999999999664 4432 1 111235566633333343

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=94.24  E-value=0.046  Score=42.36  Aligned_cols=52  Identities=12%  Similarity=0.046  Sum_probs=33.7

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEeCCCCHHHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVLDSIIKSV  236 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~~~~~~~~il~~Il~~l  236 (241)
                      .++.|.|.+|+|||||+.++.-+......+. +.+++-..+..++...++...
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~-v~~~s~E~~~~~~~~r~~~~~   87 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGKK-VGLAMLEESVEETAEDLIGLH   87 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCCC-EEEEESSSCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhcccc-eeEeeeccchhhHHhHHHHHh
Confidence            5778999999999999998876532333332 344453345566666655543

>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=94.19  E-value=0.033  Score=43.59  Aligned_cols=44  Identities=18%  Similarity=0.066  Sum_probs=33.6

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLH  226 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~  226 (241)
                      +.-+++-|+|.+|+|||||+-++.-...-.+  ..++|++  ..|+..
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~  100 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV  100 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH
Confidence            3457999999999999999999888643222  3578988  677773

>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=94.18  E-value=0.024  Score=45.84  Aligned_cols=25  Identities=12%  Similarity=0.129  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      +-.|.|=|+-|+||||+++.+.+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHh
Confidence            5678888999999999999999973

>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=94.06  E-value=0.031  Score=43.58  Aligned_cols=44  Identities=18%  Similarity=0.049  Sum_probs=33.3

Q ss_pred             CCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe--CCCCHH
Q 042580          181 PSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG--CEYYLH  226 (241)
Q Consensus       181 ~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~--~~~~~~  226 (241)
                      +.-+++-|+|.+|+|||||+-++..+..  ..=..++|++  ..|+..
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~~q--~~g~~~vyidtE~~~~~~   97 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAAAQ--REGKTCAFIDAEHALDPI   97 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHH
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHH--cCCCEEEEEccccccCHH
Confidence            3457999999999999999999888743  3223578888  667663

>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=93.80  E-value=0.15  Score=37.73  Aligned_cols=65  Identities=11%  Similarity=-0.035  Sum_probs=41.3

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhcccc--ccCCCeeEEEe---CCCCHHHHHHHHHHHhC
Q 042580          169 IEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYA--KNYFDCRAWVG---CEYYLHKVLDSIIKSVM  237 (241)
Q Consensus       169 ~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v--~~~F~~~~wV~---~~~~~~~il~~Il~~l~  237 (241)
                      ++-|..++..+  ...-+-++|.+|+||||+|+.+-+....  ..|-| ..++.   ....+.+| ++|.+.+.
T Consensus         3 ~~~l~~~i~~~--~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~I-R~i~~~~~   72 (198)
T d2gnoa2           3 LETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLN   72 (198)
T ss_dssp             HHHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHT
T ss_pred             HHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHH-HHHHHHHh
Confidence            45555666543  4889999999999999999998874211  12333 34444   34456555 34665553

>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=93.62  E-value=0.02  Score=46.36  Aligned_cols=24  Identities=25%  Similarity=0.260  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhcc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      -.|+|=|.-|+||||+++.+.+..
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            347888999999999999998863

>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=93.44  E-value=0.02  Score=46.30  Aligned_cols=24  Identities=29%  Similarity=0.209  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +-.|+|=|.-|+||||+++.+.+.
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHH
Confidence            456899999999999999999664

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.25  E-value=0.026  Score=45.81  Aligned_cols=34  Identities=6%  Similarity=0.176  Sum_probs=26.0

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHH
Q 042580          170 EELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       170 ~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      +.+.+++. ...++|-|+|+|..|.|||||+-.+.
T Consensus         5 ~~~~~lm~-~~~~IRNI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2           5 DQMRSLMD-KVTNVRNMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             HHHHHHHH-CGGGEEEEEEECCGGGTHHHHHHHHH
T ss_pred             HHHHHHhc-CcccCcEEEEEeCCCCcHHHHHHHHH
Confidence            33444443 34569999999999999999998885

>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=93.20  E-value=0.023  Score=42.55  Aligned_cols=19  Identities=21%  Similarity=0.344  Sum_probs=17.8

Q ss_pred             EEEEcCCCccHHHHHHHHH
Q 042580          186 VAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~  204 (241)
                      |+|+|-.+.|||||+..+.
T Consensus         6 i~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHH
Confidence            8999999999999999884

>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=93.15  E-value=0.046  Score=42.85  Aligned_cols=63  Identities=22%  Similarity=0.187  Sum_probs=41.7

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe---CCCCHHHHHHHHHHH
Q 042580          171 ELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG---CEYYLHKVLDSIIKS  235 (241)
Q Consensus       171 ~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~---~~~~~~~il~~Il~~  235 (241)
                      +.++.|..-. +=.-++|.|..|+|||||+..+-++.. +.+=++++++-   +...+.++.+++.+.
T Consensus        57 raID~l~pig-kGQr~~If~~~g~GKt~l~~~i~~~~~-~~~~~v~V~~~iGer~~ev~~~~~~~~~~  122 (276)
T d2jdid3          57 KVVDLLAPYA-KGGKIGLFGGAGVGKTVLIMELINNVA-KAHGGYSVFAGVGERTREGNDLYHEMIES  122 (276)
T ss_dssp             HHHHHHSCEE-TTCEEEEEECTTSSHHHHHHHHHHHHT-TTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             eeeeeecccc-CCCEEEeeCCCCCCHHHHHHHHHHHHH-hhCCCeEEEEEeccChHHHHHHHHHHHhc
Confidence            5666664411 123489999999999999999887621 22224556555   556677888877763

>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=93.08  E-value=0.027  Score=43.65  Aligned_cols=23  Identities=22%  Similarity=0.172  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .++-|+|.+|+|||||+-.+.-.
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            46669999999999999887654

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=92.79  E-value=0.011  Score=43.05  Aligned_cols=22  Identities=14%  Similarity=0.300  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCccHHHHHHHHHh
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ++..|+|+.|+||||+..+|+-
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~   46 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVT   46 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3556889999999999999974

>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=92.66  E-value=0.029  Score=43.94  Aligned_cols=27  Identities=22%  Similarity=0.167  Sum_probs=20.0

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc-ccccc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN-NYAKN  211 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~-~~v~~  211 (241)
                      -|||||++.+|||||-+.+=+. +++.+
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~~~~~~   31 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAGIEAAN   31 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC-----
T ss_pred             eEEEECCCCCCHHHHHHHHHCCCCcccc
Confidence            5899999999999999998873 34444

>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=92.60  E-value=0.014  Score=44.73  Aligned_cols=22  Identities=18%  Similarity=0.283  Sum_probs=18.2

Q ss_pred             EEEEcCCCccHHHHHHHHHhcc
Q 042580          186 VAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..++|..|||||||.+.+..+.
T Consensus       100 ~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2         100 TVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEESHHHHHHHHHHHHCC--
T ss_pred             EEEECCCCccHHHHHHhhccHh
Confidence            3588999999999999998764

>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=92.53  E-value=0.038  Score=43.65  Aligned_cols=47  Identities=23%  Similarity=0.028  Sum_probs=32.7

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhccccccCCCeeEEE
Q 042580          171 ELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWV  219 (241)
Q Consensus       171 ~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV  219 (241)
                      ++++.|..=. +=.-++|.|..|+|||||+..+.++... ++-++++.+
T Consensus        32 r~ID~l~Pig-rGQr~~I~g~~g~GKT~l~~~i~~~~~~-~~~~~v~~~   78 (289)
T d1xpua3          32 RVLDLASPIG-RGQRGLIVAPPKAGKTMLLQNIAQSIAY-NHPDCVLMV   78 (289)
T ss_dssp             HHHHHHSCCB-TTCEEEEEECSSSSHHHHHHHHHHHHHH-HCTTSEEEE
T ss_pred             eeeeeccccc-CCCeeeEeCCCCCCHHHHHHHHHHHHhh-cCCCeEEEE
Confidence            6788775421 2456899999999999999999987432 333444444

>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=92.46  E-value=0.042  Score=45.50  Aligned_cols=23  Identities=26%  Similarity=0.469  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHh
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      .--|+|+|.+|+|||||.+.+..
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            45589999999999999999975

>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=92.36  E-value=0.058  Score=40.21  Aligned_cols=37  Identities=19%  Similarity=0.240  Sum_probs=29.4

Q ss_pred             HHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          168 EIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       168 ~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      =+..|..+| .+.++-.-|.++|+++.|||++|..+.+
T Consensus        39 Fl~~l~~~l-~~~PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          39 FLGALKSFL-KGTPKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             HHHHHHHHH-HTCTTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHH-cCCCCceEEEEECCCCccHHHHHHHHHH
Confidence            355666666 4456779999999999999999988776

>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=92.30  E-value=0.033  Score=44.07  Aligned_cols=22  Identities=23%  Similarity=0.291  Sum_probs=20.2

Q ss_pred             EEEEEcCCCccHHHHHHHHHhc
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      -|||+|.+.+|||||-+.+-+.
T Consensus        12 kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            3999999999999999999864

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=92.11  E-value=0.046  Score=39.90  Aligned_cols=23  Identities=35%  Similarity=0.367  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-|.|.|.+|+||||||-.+..+
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            45778999999999999987764

>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=92.06  E-value=0.044  Score=42.79  Aligned_cols=26  Identities=15%  Similarity=0.222  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCccHHHHHHHHHhcc
Q 042580          182 SLFIVAIVGNSGFDKTNFAGEAYNNN  207 (241)
Q Consensus       182 ~~~vI~IvG~gGvGKTTLak~v~~~~  207 (241)
                      ..--|+|+|++.|||+||+..+....
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEEecCccchhhhhhhhhccc
Confidence            44569999999999999999999864

>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=91.88  E-value=0.11  Score=42.93  Aligned_cols=42  Identities=17%  Similarity=0.221  Sum_probs=29.9

Q ss_pred             ccchHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          163 MGLEDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       163 vG~~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .|....-.+.++.+...  .-++|-|.|+.|+||||.+..+.+.
T Consensus       140 LG~~~~~~~~l~~l~~~--~~GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKR--PHGIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             SCCCHHHHHHHHHHHTS--SSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHhh--hhceEEEEcCCCCCccHHHHHHhhh
Confidence            46554444344444442  3799999999999999999988774

>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=91.86  E-value=0.094  Score=40.82  Aligned_cols=36  Identities=17%  Similarity=0.040  Sum_probs=28.8

Q ss_pred             HHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          170 EELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       170 ~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      ..+..+|....++-..+-++|+|+.||||++..|..
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            445556655556788899999999999999999876

>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=91.79  E-value=0.05  Score=39.72  Aligned_cols=23  Identities=30%  Similarity=0.372  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-+.|.|.+|+||||||-.+...
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            34678899999999999887763

>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=91.51  E-value=0.049  Score=44.43  Aligned_cols=35  Identities=20%  Similarity=0.071  Sum_probs=23.9

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHh
Q 042580          166 EDEIEELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       166 ~~~~~~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~  205 (241)
                      +..+..+...+.     -++..|.|.+|.||||++..+..
T Consensus       151 ~~Q~~A~~~al~-----~~~~vI~G~pGTGKTt~i~~~l~  185 (359)
T d1w36d1         151 NWQKVAAAVALT-----RRISVISGGPGTGKTTTVAKLLA  185 (359)
T ss_dssp             CHHHHHHHHHHT-----BSEEEEECCTTSTHHHHHHHHHH
T ss_pred             cHHHHHHHHHHc-----CCeEEEEcCCCCCceehHHHHHH
Confidence            344555554442     35788899999999998865543

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=91.21  E-value=0.063  Score=38.86  Aligned_cols=23  Identities=35%  Similarity=0.359  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCccHHHHHHHHHhc
Q 042580          184 FIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .-+.|.|.+|+||||||-.+...
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            34679999999999999887664

>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=90.83  E-value=0.064  Score=39.38  Aligned_cols=21  Identities=19%  Similarity=0.297  Sum_probs=18.5

Q ss_pred             EEEEEcCCCccHHHHHHHHHh
Q 042580          185 IVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -|+|+|-.+.|||||+..+-.
T Consensus         7 nIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEEeccCCcHHHHHHHHHh
Confidence            479999999999999999953

>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=90.72  E-value=0.067  Score=39.64  Aligned_cols=19  Identities=21%  Similarity=0.351  Sum_probs=17.6

Q ss_pred             EEEEcCCCccHHHHHHHHH
Q 042580          186 VAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       186 I~IvG~gGvGKTTLak~v~  204 (241)
                      |+|+|-.+.|||||+..+-
T Consensus         6 i~iiGHvd~GKSTL~~~l~   24 (196)
T d1d2ea3           6 VGTIGHVDHGKTTLTAAIT   24 (196)
T ss_dssp             EEEESSTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHH
Confidence            8999999999999999774

>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=90.32  E-value=0.081  Score=39.51  Aligned_cols=16  Identities=25%  Similarity=0.295  Sum_probs=13.5

Q ss_pred             cCCCccHHHHHHHHHh
Q 042580          190 GNSGFDKTNFAGEAYN  205 (241)
Q Consensus       190 G~gGvGKTTLak~v~~  205 (241)
                      |-||+||||+|..+-.
T Consensus         9 ~KGGvGKTtia~nlA~   24 (232)
T d1hyqa_           9 GKGGTGKTTITANLGV   24 (232)
T ss_dssp             SSSCSCHHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHH
Confidence            7799999999987654

>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=89.79  E-value=0.085  Score=39.76  Aligned_cols=20  Identities=15%  Similarity=0.408  Sum_probs=17.5

Q ss_pred             EEEEEcCCCccHHHHHHHHH
Q 042580          185 IVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~  204 (241)
                      -|+|+|-.+.|||||+..+.
T Consensus         5 Ni~viGHVd~GKTTL~~~Ll   24 (224)
T d1jnya3           5 NLIVIGHVDHGKSTLVGRLL   24 (224)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEecCCCCHHHHHHHHH
Confidence            38999999999999998763

>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=89.51  E-value=0.081  Score=41.44  Aligned_cols=46  Identities=17%  Similarity=0.140  Sum_probs=29.3

Q ss_pred             EEEEEcCCCccHHHHHHHHHhccccccCCCeeEEEe---CCCCHHHHHHHH
Q 042580          185 IVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVG---CEYYLHKVLDSI  232 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~~~~v~~~F~~~~wV~---~~~~~~~il~~I  232 (241)
                      -++|+|..|+|||+|+..+-.+  ...+-+.++++-   +.....++..++
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~--~~~~~~v~V~~~iGer~~Ev~e~~~~~  117 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILN--QQGQNVICVYVAIGQKASSVAQVVTNF  117 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHT--CCTTTCEEEEEEESCCHHHHHHHHHHT
T ss_pred             eEeeccCCCCChHHHHHHHHhh--hcccCceeeeeeecchhHHHHHHHHhh
Confidence            3788999999999999876554  223334556655   434444554443

>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=89.32  E-value=0.1  Score=38.65  Aligned_cols=21  Identities=19%  Similarity=0.306  Sum_probs=18.8

Q ss_pred             EEEEEcCCCccHHHHHHHHHh
Q 042580          185 IVAIVGNSGFDKTNFAGEAYN  205 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~~  205 (241)
                      -|+|+|-...|||||+..+-.
T Consensus        10 ni~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3          10 NIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             EEEEECSTTSSHHHHHHHHHS
T ss_pred             EEEEEEccCCcHHHHHHHHHh
Confidence            599999999999999999863

>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=88.88  E-value=0.076  Score=41.55  Aligned_cols=21  Identities=33%  Similarity=0.415  Sum_probs=18.5

Q ss_pred             EEEEEEcCCCccHHHHHHHHH
Q 042580          184 FIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       184 ~vI~IvG~gGvGKTTLak~v~  204 (241)
                      ++..|+|..|+||||+..++.
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHH
Confidence            477899999999999998883

>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=88.54  E-value=0.083  Score=41.13  Aligned_cols=15  Identities=20%  Similarity=0.333  Sum_probs=12.5

Q ss_pred             EEEEcCCCccHHHHH
Q 042580          186 VAIVGNSGFDKTNFA  200 (241)
Q Consensus       186 I~IvG~gGvGKTTLa  200 (241)
                      +-|.|.+|.||||.+
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

>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=88.42  E-value=0.17  Score=38.11  Aligned_cols=22  Identities=18%  Similarity=0.274  Sum_probs=19.0

Q ss_pred             eEEEEEEcCCCccHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      .--|+|+|-.+.|||||+..+.
T Consensus         9 ~~~i~viGHVd~GKSTL~~~Ll   30 (222)
T d1zunb3           9 MLRFLTCGNVDDGKSTLIGRLL   30 (222)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHH
T ss_pred             cceEEEEcCCCCCHHHHHHHHH
Confidence            4448999999999999999885

>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=87.46  E-value=0.12  Score=40.54  Aligned_cols=15  Identities=27%  Similarity=0.379  Sum_probs=12.4

Q ss_pred             EEEEcCCCccHHHHH
Q 042580          186 VAIVGNSGFDKTNFA  200 (241)
Q Consensus       186 I~IvG~gGvGKTTLa  200 (241)
                      +-|.|.+|+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            557799999999754

>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=87.26  E-value=0.17  Score=38.66  Aligned_cols=22  Identities=14%  Similarity=0.404  Sum_probs=18.7

Q ss_pred             eEE-EEEEcCCCccHHHHHHHHH
Q 042580          183 LFI-VAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       183 ~~v-I~IvG~gGvGKTTLak~v~  204 (241)
                      ..+ |+|+|-.+.|||||+..+.
T Consensus        23 ~~iNi~iiGHVD~GKSTL~~~Ll   45 (245)
T d1r5ba3          23 EHVNIVFIGHVDAGKSTLGGNIL   45 (245)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHH
T ss_pred             CceEEEEEeeCCCCHHHHHHHHH
Confidence            344 8999999999999998883

>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=87.01  E-value=0.16  Score=41.26  Aligned_cols=22  Identities=23%  Similarity=0.324  Sum_probs=18.9

Q ss_pred             eEEEEEEcCCCccHHHHHHHHH
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~  204 (241)
                      .++..|+|..|+||||+.-+|.
T Consensus        25 ~~l~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          25 SNFTSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            3467799999999999999984

>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=86.51  E-value=0.17  Score=41.57  Aligned_cols=24  Identities=17%  Similarity=0.109  Sum_probs=19.3

Q ss_pred             eEEEEEEcCCCccHHHHHHHHHhc
Q 042580          183 LFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       183 ~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      .+-+.|+|..|+|||++++.+..+
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHH
Confidence            345899999999999998765543

>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=85.55  E-value=0.22  Score=37.85  Aligned_cols=20  Identities=20%  Similarity=0.331  Sum_probs=17.9

Q ss_pred             EEEEEcCCCccHHHHHHHHH
Q 042580          185 IVAIVGNSGFDKTNFAGEAY  204 (241)
Q Consensus       185 vI~IvG~gGvGKTTLak~v~  204 (241)
                      -|+|+|-.+.|||||+..+.
T Consensus         8 Ni~iiGHvD~GKsTl~~~ll   27 (239)
T d1f60a3           8 NVVVIGHVDSGKSTTTGHLI   27 (239)
T ss_dssp             EEEEEECTTSCHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            68899999999999998774

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=80.62  E-value=0.35  Score=37.77  Aligned_cols=35  Identities=23%  Similarity=0.122  Sum_probs=23.8

Q ss_pred             HHHHHHhcCCCCeEEEEEEcCCCccHHHHHHHHHhc
Q 042580          171 ELLDLLIVGEPSLFIVAIVGNSGFDKTNFAGEAYNN  206 (241)
Q Consensus       171 ~l~~~L~~~~~~~~vI~IvG~gGvGKTTLak~v~~~  206 (241)
                      +.++.|..= .+=.-++|.|.+|+|||+|+..+-.+
T Consensus        57 raID~l~pi-g~GQr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          57 KAVDSLVPI-GRGQRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             HHHHHHSCC-BTTCBCEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEecccCc-cCCCEEEeecCCCCChHHHHHHHHHh
Confidence            455555431 12345788999999999998877654